Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_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: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 30
Found at i:2030776 original size:19 final size:19
Alignment explanation
Indices: 2030696--2030786 Score: 83
Period size: 19 Copynumber: 4.6 Consensus size: 19
2030686 TTTTCTTTTC
2030696 TTTTTCATTTTTTTCATTTCT
1 TTTTTCATTTTTTTCA--TCT
* * * *
2030717 TTTTCCATTTCTTCCATTTT
1 TTTTTCATTTTTTTCA-TCT
*
2030737 TCTTTTCATTTTTTTTATCT
1 T-TTTTCATTTTTTTCATCT
*
2030757 TTTTTCATTTTTTTCCTCT
1 TTTTTCATTTTTTTCATCT
*
2030776 TTTTTCCTTTT
1 TTTTTCATTTT
2030787 CATTTTTCTC
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
19 26 0.46
20 7 0.12
21 24 0.42
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTCATTTTTTTCATCT
Found at i:2030780 original size:60 final size:59
Alignment explanation
Indices: 2030675--2030787 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 59
2030665 GAAACCCCCC
*
2030675 TTTTATTTTCTTTTTCTTTTCTTTTTCATTTTTTTCATTTCTTTTTCCATTTCTTCCAT
1 TTTTATTTTCTTTTTCTTTTCTTTTTCATTTTTTTCATCTCTTTTTCCATTTCTTCCAT
* * *
2030734 TTTTCTTTTCATTTTT-TTTATCTTTTTTCATTTTTTTCCTCT-TTTTTCCTTTTC
1 TTTTATTTTC-TTTTTCTTT-TC-TTTTTCATTTTTTTCATCTCTTTTTCCATTTC
2030788 ATTTTTCTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 12 0.26
60 18 0.38
61 17 0.36
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (59 bp):
TTTTATTTTCTTTTTCTTTTCTTTTTCATTTTTTTCATCTCTTTTTCCATTTCTTCCAT
Found at i:2030787 original size:44 final size:42
Alignment explanation
Indices: 2030691--2030793 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 42
2030681 TTTCTTTTTC
* *
2030691 TTTTCTTTTTCATTTTTTTCATTTCTTTTTCCATTTCTTCCAT
1 TTTTCCTTTTCATTTTTTT-ATATCTTTTTCCATTTCTTCCAT
* * *
2030734 TTTT-CTTTTCATTTTTTT-TATCTTTTTTCATTTTTTTCCTCTT
1 TTTTCCTTTTCATTTTTTTATATCTTTTTCCA-TTTCTT-C-CAT
2030777 TTTTCCTTTTCATTTTT
1 TTTTCCTTTTCATTTTT
2030794 CTCATTTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
40 10 0.20
41 5 0.10
42 14 0.27
43 10 0.20
44 12 0.24
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (42 bp):
TTTTCCTTTTCATTTTTTTATATCTTTTTCCATTTCTTCCAT
Found at i:2040427 original size:45 final size:45
Alignment explanation
Indices: 2040371--2040460 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
2040361 ACATTAAAAC
* ** *
2040371 CCTAATCGCATGATATCTAATTCGTATGCTTATTTGAAAGATAAA
1 CCTAACCGCATGATATCTAATTCACATGCTTATTTGAAAAATAAA
* *
2040416 CCTAACCGCATGATCTCTACTTCACATGCTTATTTGAAAAATAAA
1 CCTAACCGCATGATATCTAATTCACATGCTTATTTGAAAAATAAA
2040461 AATAAATGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (45 bp):
CCTAACCGCATGATATCTAATTCACATGCTTATTTGAAAAATAAA
Found at i:2042584 original size:42 final size:42
Alignment explanation
Indices: 2042519--2042631 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
2042509 AAAATATCGT
* * * * * *
2042519 AATATAGTGTTAATTTAGCGGCGTTTATACCACAAACACCGT
1 AATAGAGTGATAAATTAGCGGCGTTTATACAAAAAACACCGC
* * *
2042561 AATAGATTTG-TAAATTAGTGGCGTTTATACAAAAAACGCCGC
1 AATAGA-GTGATAAATTAGCGGCGTTTATACAAAAAACACCGC
2042603 AATAGAGTGATAAATTAGCGGCGTTTATA
1 AATAGAGTGATAAATTAGCGGCGTTTATA
2042632 TCTAAAACAT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 55 0.93
43 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30
Consensus pattern (42 bp):
AATAGAGTGATAAATTAGCGGCGTTTATACAAAAAACACCGC
Found at i:2042639 original size:42 final size:41
Alignment explanation
Indices: 2042474--2042640 Score: 124
Period size: 42 Copynumber: 4.0 Consensus size: 41
2042464 AATGAACACG
* * * *
2042474 CCGCAATAGAGT-ATACATTTAGAGGCGTTTCA-GCTAAAATA
1 CCGCAATAGAGTGATA-AATTAGCGGCGTTT-ATACTAAAACA
* * * * * *
2042515 TCGTAATATAGTGTTAATTTAGCGGCGTTTATACCACAAACA
1 CCGCAATAGAGTGATAAATTAGCGGCGTTTATACTA-AAACA
* * * * *
2042557 CCGTAATAGATTTG-TAAATTAGTGGCGTTTATACAAAAAACG
1 CCGCAATAGA-GTGATAAATTAGCGGCGTTTATAC-TAAAACA
2042599 CCGCAATAGAGTGATAAATTAGCGGCGTTTATATCTAAAACA
1 CCGCAATAGAGTGATAAATTAGCGGCGTTTATA-CTAAAACA
2042641 TCACAATAAA
Statistics
Matches: 99, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.01
41 26 0.26
42 68 0.69
43 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (41 bp):
CCGCAATAGAGTGATAAATTAGCGGCGTTTATACTAAAACA
Found at i:2046329 original size:18 final size:17
Alignment explanation
Indices: 2046301--2046337 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
2046291 AGTGGTATAG
2046301 TTTGTTTGTTGTCTTAT
1 TTTGTTTGTTGTCTTAT
2046318 TTTGTATTGTTGTCTTAT
1 TTTGT-TTGTTGTCTTAT
2046336 TT
1 TT
2046338 CATTTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.08, C:0.05, G:0.16, T:0.70
Consensus pattern (17 bp):
TTTGTTTGTTGTCTTAT
Found at i:2052206 original size:21 final size:21
Alignment explanation
Indices: 2052182--2052239 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
2052172 ATGAAGCAAG
2052182 GGAAGCAGAGAGAGAAACATC
1 GGAAGCAGAGAGAGAAACATC
** * *
2052203 GGAAGCAGCCAGAGCAGCATC
1 GGAAGCAGAGAGAGAAACATC
* *
2052224 AGAAGCAGAGAAAGAA
1 GGAAGCAGAGAGAGAA
2052240 GTAGCAGCAA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.17, G:0.33, T:0.03
Consensus pattern (21 bp):
GGAAGCAGAGAGAGAAACATC
Found at i:2052659 original size:41 final size:43
Alignment explanation
Indices: 2052602--2052691 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 43
2052592 ATTCTATGTT
* *
2052602 ATTTAGCGGCGTTTGTA-A-AAAAACGCCGCAATATACCATAC
1 ATTTAGCGACATTTGTATACAAAAACGCCGCAATATACCATAC
*
2052643 ATTTAGCGACATTTGTATACTAGAAACGCCGCAATATACCATAC
1 ATTTAGCGACATTTGTATAC-AAAAACGCCGCAATATACCATAC
2052687 ATTTA
1 ATTTA
2052692 TCGGTGTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
41 15 0.35
42 1 0.02
44 27 0.63
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (43 bp):
ATTTAGCGACATTTGTATACAAAAACGCCGCAATATACCATAC
Found at i:2052719 original size:44 final size:44
Alignment explanation
Indices: 2052622--2052720 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
2052612 GTTTGTAAAA
*
2052622 AAACGCCGCAATATACCATACATTTAGCGACATTTGTATACTAG
1 AAACACCGCAATATACCATACATTTAGCGACATTTGTATACTAG
* * *** *
2052666 AAACGCCGCAATATACCATACATTTATCGGTGTTTGTATACTAT
1 AAACACCGCAATATACCATACATTTAGCGACATTTGTATACTAG
*
2052710 AAATACCGCAA
1 AAACACCGCAA
2052721 ATTCTCAACC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (44 bp):
AAACACCGCAATATACCATACATTTAGCGACATTTGTATACTAG
Found at i:2052903 original size:43 final size:41
Alignment explanation
Indices: 2052794--2052906 Score: 102
Period size: 43 Copynumber: 2.7 Consensus size: 41
2052784 CATTTATGGG
* * *
2052794 AAAAACGCCGCAAAATATCAACACCTACTACGGCGTTCGTA
1 AAAAACGCCGCTAAACATCAACACCTACTACAGCGTTCGTA
* * * * *
2052835 AGTAAAACGCCTCTAAATC-TTAACACCTACTGCATCGTTTGTTGA
1 A--AAAACGCCGCTAAA-CATCAACACCTACTACAGCGTTCG-T-A
2052880 AAAAACGCCGCTAAACATCAACACCTA
1 AAAAACGCCGCTAAACATCAACACCTA
2052907 TTGCGGCATT
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
41 1 0.02
42 1 0.02
43 51 0.91
44 1 0.02
45 2 0.04
ACGTcount: A:0.38, C:0.28, G:0.12, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAACATCAACACCTACTACAGCGTTCGTA
Found at i:2056109 original size:15 final size:17
Alignment explanation
Indices: 2056089--2056120 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2056079 TGACTTTGAT
2056089 ATATTTT-AAT-GAAAG
1 ATATTTTCAATAGAAAG
2056104 ATATTTTCAATAGAAAG
1 ATATTTTCAATAGAAAG
2056121 TGGTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
ATATTTTCAATAGAAAG
Found at i:2061420 original size:9 final size:9
Alignment explanation
Indices: 2061391--2061428 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
2061381 AGGGTAATTG
2061391 AAAATTCAAGA
1 AAAATT-AA-A
2061402 AAAATT-AA
1 AAAATTAAA
2061410 AAAATTAAA
1 AAAATTAAA
2061419 AAAATTAAA
1 AAAATTAAA
2061428 A
1 A
2061429 TCAAAGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 7 0.27
9 13 0.50
11 6 0.23
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (9 bp):
AAAATTAAA
Found at i:2061421 original size:17 final size:19
Alignment explanation
Indices: 2061391--2061428 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
2061381 AGGGTAATTG
2061391 AAAATTCAAGAAAAATTAA
1 AAAATTCAAGAAAAATTAA
2061410 AAAATT-AA-AAAAATTAA
1 AAAATTCAAGAAAAATTAA
2061427 AA
1 AA
2061429 TCAAAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 2 0.11
19 6 0.32
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAATTCAAGAAAAATTAA
Found at i:2085314 original size:19 final size:18
Alignment explanation
Indices: 2085278--2085324 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
2085268 AGAGCTTTTT
*
2085278 TTATGTTTTCTTTTCTCC
1 TTATTTTTTCTTTTCTCC
2085296 -TATTTTTTCTCTTTCCTCC
1 TTATTTTTTCT-TTT-CTCC
2085315 TTATTTTTTC
1 TTATTTTTTC
2085325 AGTCTGGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 4 0.16
20 9 0.36
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.68
Consensus pattern (18 bp):
TTATTTTTTCTTTTCTCC
Found at i:2087861 original size:19 final size:20
Alignment explanation
Indices: 2087823--2087880 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
2087813 CGTCGGTCAG
*
2087823 GGGTATCGATACCAAAAGG-T
1 GGGTATCGATATC-AAAGGTT
2087843 GGGTATCGATATCAAAGGTT
1 GGGTATCGATATCAAAGGTT
** *
2087863 TAGTATCGATATAAAAGG
1 GGGTATCGATATCAAAGG
2087881 GCCAGTATCG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (20 bp):
GGGTATCGATATCAAAGGTT
Found at i:2087887 original size:20 final size:20
Alignment explanation
Indices: 2087845--2087890 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2087835 CAAAAGGTGG
* ***
2087845 GTATCGATATCAAAGGTTTA
1 GTATCGATATAAAAGGGCCA
2087865 GTATCGATATAAAAGGGCCA
1 GTATCGATATAAAAGGGCCA
2087885 GTATCG
1 GTATCG
2087891 GTACCCACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (20 bp):
GTATCGATATAAAAGGGCCA
Found at i:2089747 original size:25 final size:25
Alignment explanation
Indices: 2089719--2089767 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
2089709 TAGGCCAATT
2089719 AATAAACGCATGAATCACAAGAAAA
1 AATAAACGCATGAATCACAAGAAAA
2089744 AATAAACGCATGAATCACAAGAAA
1 AATAAACGCATGAATCACAAGAAA
2089768 TACATAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.59, C:0.16, G:0.12, T:0.12
Consensus pattern (25 bp):
AATAAACGCATGAATCACAAGAAAA
Found at i:2092328 original size:37 final size:38
Alignment explanation
Indices: 2092287--2092364 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
2092277 AATAAAATTA
*
2092287 TTTTAA-T-AAAATTAAATGTAAGTGTTTAATGTGTTCT
1 TTTTAAGTCAAAA-TAAATGAAAGTGTTTAATGTGTTCT
**
2092324 TTTTAAGTCTTAATAAATGAAAGTGTTTAATGTGTTCT
1 TTTTAAGTCAAAATAAATGAAAGTGTTTAATGTGTTCT
2092362 TTT
1 TTT
2092365 ATTTTATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 6 0.17
38 28 0.78
39 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (38 bp):
TTTTAAGTCAAAATAAATGAAAGTGTTTAATGTGTTCT
Found at i:2098502 original size:18 final size:18
Alignment explanation
Indices: 2098479--2098519 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
2098469 AGTTTAATGT
2098479 TTAAATTCAGTGAAAAAA
1 TTAAATTCAGTGAAAAAA
2098497 TTAAATTCAGTGAAAAAA
1 TTAAATTCAGTGAAAAAA
2098515 TTAAA
1 TTAAA
2098520 AGTACAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (18 bp):
TTAAATTCAGTGAAAAAA
Found at i:2098530 original size:20 final size:18
Alignment explanation
Indices: 2098479--2098530 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
2098469 AGTTTAATGT
* *
2098479 TTAAATTCAGTGAAAAAA
1 TTAAATACAATGAAAAAA
* *
2098497 TTAAATTCAGTGAAAAAA
1 TTAAATACAATGAAAAAA
2098515 TTAAAAGTACAATGAA
1 TT-AAA-TACAATGAA
2098531 TGAAACAGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 20 0.67
19 3 0.10
20 7 0.23
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.27
Consensus pattern (18 bp):
TTAAATACAATGAAAAAA
Found at i:2099138 original size:22 final size:22
Alignment explanation
Indices: 2099104--2099145 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2099094 ATAATTATTT
2099104 AAAAAATTAAATAAAAAATACC
1 AAAAAATTAAATAAAAAATACC
* *
2099126 AAAATATTTAATAAAAAATA
1 AAAAAATTAAATAAAAAATA
2099146 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAAAATTAAATAAAAAATACC
Found at i:2108205 original size:25 final size:25
Alignment explanation
Indices: 2108173--2108223 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2108163 AATTAGTCCT
2108173 TAATCTTTTTTACATTCTAATTTCA
1 TAATCTTTTTTACATTCTAATTTCA
2108198 TAATCTTTTTTACATTCTAATTTCA
1 TAATCTTTTTTACATTCTAATTTCA
2108223 T
1 T
2108224 CCTTGAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (25 bp):
TAATCTTTTTTACATTCTAATTTCA
Found at i:2109463 original size:18 final size:17
Alignment explanation
Indices: 2109430--2109463 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2109420 ATCAATTGAA
*
2109430 AAAAAATCCATGATAAT
1 AAAAAATCCATAATAAT
2109447 AAAAAATCCATCAATAA
1 AAAAAATCCAT-AATAA
2109464 AATGAATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.15, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAAATCCATAATAAT
Found at i:2111795 original size:72 final size:72
Alignment explanation
Indices: 2111700--2111844 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
2111690 TGATCTTTTG
2111700 ATCAGGGATGGAACGTAGTGATGAACGTTGCTCATCGTGATGAATCAAACCTAG-AAGCTCTAAA
1 ATCAGGGATGGAACGTAGTGATGAACGTTGCTCATCGTGATGAATCAAACCTAGAAAGCTCTAAA
2111764 CTCGATC
66 CTCGATC
2111771 ATCAGGGATGGAAACGTAGTGATGAACGTTGCTCATCGTGATGAATCAAACCTAGAAAGCTCTAA
1 ATCAGGGATGG-AACGTAGTGATGAACGTTGCTCATCGTGATGAATCAAACCTAGAAAGCTCTAA
2111836 ACTCGATC
65 ACTCGATC
2111844 A
1 A
2111845 AAGAGCGAGA
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 11 0.15
72 43 0.60
73 18 0.25
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (72 bp):
ATCAGGGATGGAACGTAGTGATGAACGTTGCTCATCGTGATGAATCAAACCTAGAAAGCTCTAAA
CTCGATC
Found at i:2112636 original size:48 final size:49
Alignment explanation
Indices: 2112537--2112643 Score: 121
Period size: 48 Copynumber: 2.2 Consensus size: 49
2112527 GAAAAATAAA
* * * *
2112537 AAAATAATAATAACCTAAAGATGATGTAGTAATATATCTTAATTCTAAT
1 AAAATAATAATAAACTAAAGATAATATAGTAAAATATCTTAATTCTAAT
* *
2112586 -AAATAATAATAAACTAAAGATAATAT-TTAAAATCAATCTTAATTC-CAT
1 AAAATAATAATAAACTAAAGATAATATAGTAAAAT--ATCTTAATTCTAAT
2112634 AAAATAATAA
1 AAAATAATAA
2112644 ATCTAATCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
47 5 0.10
48 25 0.51
49 19 0.39
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (49 bp):
AAAATAATAATAAACTAAAGATAATATAGTAAAATATCTTAATTCTAAT
Found at i:2113874 original size:110 final size:110
Alignment explanation
Indices: 2113659--2113874 Score: 301
Period size: 110 Copynumber: 2.0 Consensus size: 110
2113649 CAGAAATATT
* *
2113659 TGAGTCATTGGGACATATATCCTTAATGTTTCCAAATCTCACACTAGTAGTATGCTTTTGAAAGA
1 TGAGTCATTAGGACATATATCCTTAATGTTTCCAAATCCCACACTAGTAGTATGCTTTTGAAAGA
* * * **
2113724 TAAGGGTGTAGCTTTGAGATAATGCATACATGTTATTTTTACATC
66 TAAAGGTGTAGCCTCGAGATAATGCATACATACTATTTTTACATC
* * *
2113769 TGAGTCATTAGGACATATATCCTTAATGTTTTCAAATCCCACACTAGTAGTATGTTTTTTGAGAG
1 TGAGTCATTAGGACATATATCCTTAATGTTTCCAAATCCCACACTAGTAGTATG-CTTTTGAAAG
*
2113834 ATAAAGGTGTAGCCTCGAGTTAATGCAT-C-TACTATGTTTTA
65 ATAAAGGTGTAGCCTCGAGATAATGCATACATACTAT-TTTTA
2113875 TTACCCATTC
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
109 4 0.04
110 57 0.61
111 32 0.34
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (110 bp):
TGAGTCATTAGGACATATATCCTTAATGTTTCCAAATCCCACACTAGTAGTATGCTTTTGAAAGA
TAAAGGTGTAGCCTCGAGATAATGCATACATACTATTTTTACATC
Found at i:2116954 original size:52 final size:51
Alignment explanation
Indices: 2116858--2116970 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
2116848 CTAGTAAATA
* * *
2116858 AAAATAATAATAAACTAAAGATAATATTGTGATCCTATCCTAATTTCTAAT
1 AAAATAATAATAAACCAAAGACAATATTGTGAACCTATCCTAATTTCTAAT
* * * *
2116909 AAAATAATAATAAACCAAAGACAATGTTTTTAACTCTATCTTAATTTCTAAT
1 AAAATAATAATAAACCAAAGACAATATTGTGAAC-CTATCCTAATTTCTAAT
2116961 AAAATAATAA
1 AAAATAATAA
2116971 ATCTAATCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 28 0.52
52 26 0.48
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (51 bp):
AAAATAATAATAAACCAAAGACAATATTGTGAACCTATCCTAATTTCTAAT
Found at i:2118155 original size:59 final size:59
Alignment explanation
Indices: 2118065--2118227 Score: 199
Period size: 59 Copynumber: 2.8 Consensus size: 59
2118055 ATGCATCATA
*
2118065 CATCCTTAATA-TATGATTTCATTTTAAATTAGTCCCTAAACTTTTAAA-ATTTCAATTT
1 CATCCTTAA-ACTATGATTTCATTTTAAATTAGTCCCTAAAATTTTAAACATTTCAATTT
* * *
2118123 CATCCTTAAACTATGACTATCATTTTAAATTAGT-CCTCAAAGTTTTAAACATTTCATTTT
1 CATCCTTAAACTATGA-TTTCATTTTAAATTAGTCCCT-AAAATTTTAAACATTTCAATTT
* * *
2118183 CATCC-CAAACTATGATGTTCATTCTAAATTAGTCCCCAAAATTTT
1 CATCCTTAAACTATGAT-TTCATTTTAAATTAGTCCCTAAAATTTT
2118228 TGAATATTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
57 1 0.01
58 18 0.20
59 56 0.62
60 16 0.18
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (59 bp):
CATCCTTAAACTATGATTTCATTTTAAATTAGTCCCTAAAATTTTAAACATTTCAATTT
Found at i:2118484 original size:60 final size:58
Alignment explanation
Indices: 2118381--2118525 Score: 154
Period size: 60 Copynumber: 2.5 Consensus size: 58
2118371 GATGAAATTT
* * * *
2118381 AGGATGAAATTGGAATATATAAAAGTTTATAGACTAATTTAGAATGAGATTCATAGTTTG
1 AGGATAAAATTAGAATATATAAAAGTTTATAGACTAATGTAGAATGAGAGTCATA--TTG
* *
2118441 GGGATAAAATTAGAATATTTAAATA-TTTA-AGAACTAATGTAGAATGAGAGTCATATTG
1 AGGATAAAATTAGAATATATAAA-AGTTTATAG-ACTAATGTAGAATGAGAGTCATATTG
*
2118499 AGGATAAAATT-GAA-ATACTTAAAGTTT
1 AGGATAAAATTAGAATATA-TAAAAGTTT
2118526 TGAGAATTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
56 3 0.04
57 9 0.12
58 13 0.18
59 2 0.03
60 44 0.61
61 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (58 bp):
AGGATAAAATTAGAATATATAAAAGTTTATAGACTAATGTAGAATGAGAGTCATATTG
Found at i:2118545 original size:58 final size:59
Alignment explanation
Indices: 2118413--2118545 Score: 155
Period size: 58 Copynumber: 2.3 Consensus size: 59
2118403 AAGTTTATAG
* * *
2118413 ACTAATTTAGAATGAGATTCATAGTTTGGGGATAAAATTAGAATATTTAAATATTTAAGA
1 ACTAATTTAGAATGAGAGTCATAG-TTGAGGATAAAATTAGAATACTTAAATATTTAAGA
* *
2118473 ACTAATGTAGAATGAGAGTCATA-TTGAGGATAAAATT-GAAATACTTAAAGT-TTTGAGA
1 ACTAATTTAGAATGAGAGTCATAGTTGAGGATAAAATTAG-AATACTTAAA-TATTTAAGA
* *
2118531 ATTAATTTAAAATGA
1 ACTAATTTAGAATGA
2118546 AAATTAGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
57 1 0.02
58 40 0.63
59 1 0.02
60 21 0.33
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (59 bp):
ACTAATTTAGAATGAGAGTCATAGTTGAGGATAAAATTAGAATACTTAAATATTTAAGA
Found at i:2121730 original size:3 final size:3
Alignment explanation
Indices: 2121722--2121771 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
2121712 GGCCCGTTTG
** * *
2121722 TAA TAA TAA TTT TAA TAA TAA TAA AAA AAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2121770 TA
1 TA
2121772 GAAAATGGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2122070 original size:119 final size:120
Alignment explanation
Indices: 2121824--2122072 Score: 344
Period size: 120 Copynumber: 2.1 Consensus size: 120
2121814 GTTGAATAAA
* * * *
2121824 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGACTAT
1 TTCTTCTTTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGAGATGATGCTAACTAT
* * * *
2121889 TTTCTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAAC
66 TCTCCTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
*
2121944 TTCTTCTTTTTCTTCAGATGAGTTCTTCT-ATTATGAACTTT-CTCTGGAAGATTGATGCTAATC
1 TTCTTCTTTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG-AGA-TGATGCTAA-C
* *
2122007 TA-TCTCCTCTGTGATAGAGTTATGCAAAA-GTTGAACAAGCTCTTCTCATTGTGAAC
63 TATTCTCCTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
2122063 TTCTTCTTTT
1 TTCTTCTTTT
2122073 CAGATGAGTT
Statistics
Matches: 115, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
118 5 0.04
119 49 0.43
120 58 0.50
121 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.43
Consensus pattern (120 bp):
TTCTTCTTTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGAGATGATGCTAACTAT
TCTCCTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
Found at i:2122221 original size:108 final size:105
Alignment explanation
Indices: 2122030--2123147 Score: 445
Period size: 112 Copynumber: 10.5 Consensus size: 105
2122020 ATAGAGTTAT
** * *
2122030 GCAAAA-GTTGAACAAGCTCTTCTCATTGTGAA-CTTC-TTCTTTTCAGATGAGTTTTTCATTGA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTCTTTCTTTTCAGATGAGTTTTTCATTGA
* **
2122092 ACTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGA
66 ACTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAA
2122132 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTCTTTCTTCTTCAGATGACGAGTTTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTCTTTCTT-TTCAGAT---GAGTTTT-TC
* * *
2122197 A-TGAAC-TCTACTGG-CATGTTGATCCATCAAATGATGAATTCAA
61 ATTGAACTTCT-CTGGAAAAGCTGATCCATCAAATGATGAATTCAA
* * * ** *
2122240 ACAAAAGGTTGAAAAAATTCTTCTTATTATGAACTTCTTC-TTCCCTTCA-ATGAGTTCTTCTAA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TT-TTCTTTCTTTTCAGATGAGTT-TT-TCA
* * * *** *
2122303 TTAAGAATTTCTCTGGGAAAGTGATGTTGATCTATCTCTTCTG-TAGAATT-AT
62 TT--GAACTTCTCT-GGAAA---A-GCTGATCCA--TCAAATGAT-GAATTCAA
* * *
2122355 GCAAAAGG-CGAAC--A-GCTTCTCATTATGAA-CTTCTTTCCTTTTCAGATGAG---TTC-TT-
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTCTTT-CTTTTCAGATGAGTTTTTCATTG
* * * * *
2122410 --C-TATATGGTAATGTTGATCCAT-AGAATGATGAATTCAA
65 AACTTCTCTGGAAAAGCTGATCCATCA-AATGATGAATTCAA
* * *
2122448 GCAAAAAG-TGAAC-AAGTC-T-T--TTATGAATTCTT-ATTCTTTCTTCAGATGAGTTCTCTT-
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATT-TTCTTTC-TT-TTCAGATGAGTT-T-TTC
* * * ** *
2122505 A-TGAAC-TCGACCTGGTAATGCTGATCCATTGAATCATGAATTCAA
61 ATTGAACTTC--TCTGGAAAAGCTGATCCATCAAATGATGAATTCAA
* * * * *
2122550 GCAAAAAGTTGAACAAGTTCTT-TC-TTATGAA-CTTCTTCCTTCTTCAGATGAG-TTCTC--T-
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTCTTTCTT-TTCAGATGAGTTTTTCATTG
* * * *
2122608 --C-TATATGGAAATGTTGATCCAT-AGAATGATGAATTCAA
65 AACTTCTCTGGAAAAGCTGATCCATCA-AATGATGAATTCAA
* *
2122646 GCAAAAAGTTGAACAAGTT-TTCTCATTATGAACTTCTTC-TTCTTTCTTCAGATGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TT-TTCTTTC-TT-TTCAGATGAGTT-TT-T
* * * * ** *
2122709 CATTATGAAC-TCGACATGGTAATGATGATCCATTGAATCATGAATTC-A
60 CA-T-TGAACTTC-TC-TGGAAAAGCTGATCCATCAAATGATGAATTCAA
* * * * * *
2122757 GCAAAAAGTTGAACAAGTTC-T-TCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTA
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TT-TTCTTTCTTTTCAGATGAGTTTTTCAT-
* * * * * * *
2122820 TGAAC-TCAAACTGGAAATGTTGATCCACCGAGTGATGAATTTAA
63 TGAACTTC--TCTGGAAAAGCTGATCCATCAAATGATGAATTCAA
* * * *
2122864 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TT-TTCTTTCTT-TTCAGATGAGTT-TT-TC
* * * ** *
2122929 ATTATGAAC-TCGACCTGGTAATGCTGATCCATTGAATCATGAATTCAA
61 A-T-TGAACTTC--TCTGGAAAAGCTGATCCATCAAATGATGAATTCAA
* *
2122977 GCAAAA-GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TT-TTCTTTCTT-TTCAGATGAGTT-TT-TC
* * * **
2123041 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
61 A-T-TGAAC-TTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAA
* * *
2123089 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TT-TTCTTTCTT-TTCAGATGAGTT
2123148 CTCTCATTAT
Statistics
Matches: 810, Mismatches: 118, Indels: 165
0.74 0.11 0.15
Matches are distributed among these distances:
91 8 0.01
92 12 0.01
93 26 0.03
94 10 0.01
95 3 0.00
96 49 0.06
97 8 0.01
98 8 0.01
99 5 0.01
100 18 0.02
101 3 0.00
102 45 0.06
103 31 0.04
104 26 0.03
105 16 0.02
106 49 0.06
107 29 0.04
108 70 0.09
109 62 0.08
110 43 0.05
111 42 0.05
112 124 0.15
113 93 0.11
114 12 0.01
115 9 0.01
116 9 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (105 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTTCTTTCTTTTCAGATGAGTTTTTCATTGA
ACTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAA
Found at i:2122818 original size:112 final size:112
Alignment explanation
Indices: 2122612--2123193 Score: 740
Period size: 112 Copynumber: 5.2 Consensus size: 112
2122602 TTCTCTCTAT
* *
2122612 ATGGAAATGTTGATCCATAGAATGATGAATTCAAGCAAAAAGTTGAACAAGTT-TTCTCATTATG
1 ATGGAAATGCTGATCCATTGAATGATGAATTC-AGCAAAAAGTTGAACAAGTTCTTCTCATTATG
*
2122676 AACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
65 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
* * *
2122724 ATGGTAATGATGATCCATTGAATCATGAATTCAGCAAAAAGTTGAACAAGTTC-T-TCATTATGA
1 ATGGAAATGCTGATCCATTGAATGATGAATTCAGCAAAAAGTTGAACAAGTTCTTCTCATTATGA
*
2122787 ACTTCTTCTTCC-TCTTCAGATGAGTTC-T-TC-TTATGAACTC-AA
66 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
* ** * *
2122829 ACTGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTAT
1 A-TGGAAATGCTGATCCATTGAATGATGAA-TTCAGCAAAAAGTTGAACAAGTTCTTCTCATTAT
*
2122894 GAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTCGAC
64 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
* * * *
2122943 CTGGTAATGCTGATCCATTGAATCATGAATTCAAGC-AAAAGTTGAACAAATTCTTCTCATTATG
1 ATGGAAATGCTGATCCATTGAATGATGAATTC-AGCAAAAAGTTGAACAAGTTCTTCTCATTATG
* ***
2123007 AACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTTTTC
65 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCGAC
* * * *
2123056 -TGGAAAAGCTGATCCA-TCAAGTGATGGATTTGAGCAAAAAGTTGAACAAGTTCTTCTCATTAT
1 ATGGAAATGCTGATCCATTGAA-TGAT-GAATTCAGCAAAAAGTTGAACAAGTTCTTCTCATTAT
*
2123119 GAACTTCTTCTTCCTTCTTCAGATGAGTTC-TCTCATTATGAACTCTTAC
64 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-GAC
* * *
2123168 -TGGAAATGTTGTTCCATTAAATGATG
1 ATGGAAATGCTGATCCATTGAATGATG
2123194 GATTTTAATC
Statistics
Matches: 410, Mismatches: 43, Indels: 35
0.84 0.09 0.07
Matches are distributed among these distances:
105 2 0.00
106 32 0.08
107 25 0.06
108 2 0.00
109 36 0.09
110 34 0.08
111 27 0.07
112 152 0.37
113 99 0.24
114 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (112 bp):
ATGGAAATGCTGATCCATTGAATGATGAATTCAGCAAAAAGTTGAACAAGTTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC
Found at i:2122991 original size:219 final size:220
Alignment explanation
Indices: 2122032--2123163 Score: 1053
Period size: 219 Copynumber: 5.3 Consensus size: 220
2122022 AGAGTTATGC
* *
2122032 AAAAGTTGAACAAGCTCTTCTCATTGTGAA---CTTCTT-CTT-TTCAGATGAGTT-TT-TCA-T
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * ** * *
2122089 -TGAACTTC--TCTGGAAAAGCTGATCCA-TCAAGTGATGAATTTGAGCAAAAGGTTGAACAAAT
66 ATGAAC-TCGACCTGGTAATGCTGATCCATTGAA-TCATGAATTCAAGCAAAAAGTTGAACAAGT
* * *
2122150 TCTTCTCATTATGAA-TT-TTCTTTCTTCTTCAGATGACGAGTT-TTCTCATGAACTCTACTGG-
129 TCTT-TCATTATGAACTTCTTC-TTCCTCTTCAGAT---GAGTTCTTCTTATGAACTATACTGGA
* *
2122211 CATGTTGATCCATCA-AATGATGAATTCAAACA
189 AATGTTGATCCAT-AGAATGATGAATTCAAGCA
* * * * *
2122243 AAAGGTTGAAAAAATTCTTCTTATTATGAACTTCTTCTTCC--CTTCA-ATGAGTTCTTCTAATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ***** * * * ** * * **
2122305 AAGAATTTCTCTGGGAAAGTGATGTTGATCTATCT-CTTCTGTAGAATT-ATGC-AAAAGGCGAA
66 ATGAA---CTC-GACCTGGTAATGCTGATCCAT-TGAATC-AT-GAATTCAAGCAAAAAGTTGAA
*
2122367 C-AG--CTTCTCATTATGAACTTC-T-TTCCTTTTCAGATGAG---TTC-T-T---CTATA-TGG
124 CAAGTTCTT-TCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATGAACTATACTGG
*
2122418 TAATGTTGATCCATAGAATGATGAATTCAAGCA
188 AAATGTTGATCCATAGAATGATGAATTCAAGCA
* *
2122451 AAAAG-TGAACAAG-TC-T-T--TTATGAA-TTCTTATTCTTTCTTCAGATGAG---TTCTC-TT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
2122505 ATGAACTCGACCTGGTAATGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGTTC
66 ATGAACTCGACCTGGTAATGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGTTC
*
2122570 TTTC-TTATGAACTTCTTC--CTTCTTCAGATGAGTTC-TC---T---CTATA-TGGAAATGTTG
131 TTTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATGAACTATACTGGAAATGTTG
2122624 ATCCATAGAATGATGAATTCAAGCA
196 ATCCATAGAATGATGAATTCAAGCA
*
2122649 AAAAGTTGAACAAGTT-TTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
2122713 ATGAACTCGACATGGTAATGATGATCCATTGAATCATGAATTC-AGCAAAAAGTTGAACAAGTTC
66 ATGAACTCGACCTGGTAATGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGTTC
*
2122777 -TTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATGAACTCAAACTGGAAATGTT
131 TTTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATGAACT-ATACTGGAAATGTT
** * *
2122841 GATCCACCGAGTGATGAATTTAAGCA
195 GATCCATAGAATGATGAATTCAAGCA
*
2122867 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
2122932 ATGAACTCGACCTGGTAATGCTGATCCATTGAATCATGAATTCAAGC-AAAAGTTGAACAAATTC
66 ATGAACTCGACCTGGTAATGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGTTC
* * *
2122996 TTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAA
131 TT-TCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTC-T-TC-TTATGAAC-TATACTGGAA
* * * * **
2123061 AAGCTGATCCATCA-AGTGATGGATTTGAGCA
190 ATGTTGATCCAT-AGAATGATGAATTCAAGCA
2123092 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTC-TCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
2123156 ATGAACTC
66 ATGAACTC
2123164 TTACTGGAAA
Statistics
Matches: 769, Mismatches: 82, Indels: 127
0.79 0.08 0.13
Matches are distributed among these distances:
194 5 0.01
195 5 0.01
196 24 0.03
197 28 0.04
198 49 0.06
199 13 0.02
200 8 0.01
201 13 0.02
202 7 0.01
203 12 0.02
204 28 0.04
205 1 0.00
206 5 0.01
207 50 0.07
208 79 0.10
209 16 0.02
210 2 0.00
211 25 0.03
213 11 0.01
214 12 0.02
215 6 0.01
216 3 0.00
217 5 0.01
218 59 0.08
219 119 0.15
220 8 0.01
221 22 0.03
222 32 0.04
223 4 0.01
224 23 0.03
225 94 0.12
226 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (220 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGTAATGCTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAACAAGTTC
TTTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATGAACTATACTGGAAATGTTG
ATCCATAGAATGATGAATTCAAGCA
Found at i:2124074 original size:114 final size:114
Alignment explanation
Indices: 2123874--2124325 Score: 706
Period size: 114 Copynumber: 4.0 Consensus size: 114
2123864 GATCATGCAG
* * * * * * * * * *
2123874 TTCATCTTTCAATTCCAATGATGGGTTCTGTGGTTCCTACCGAACCAGATCAGATGACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAAATCAGATAACTCAAAGA
* * * * *
2123939 AAACTTCCACAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAT
66 ACACTTCCAGAAGATGCTATTGGGTCTTCGTATTCCTACTATGAGCAAA
*
2123988 TTCATCTTTCAAATCTAATGATTGATTTTGGGGTTCATACCAAATCAAATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAAATCAGATAACTCAAAGA
* *
2124053 ACACTTCCAGAATATGGTATTGGGTCTTCGTATTCCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCGTATTCCTACTATGAGCAAA
* *
2124102 TTCATCTTTCAAATCTAATGATTGATTTTGGGGTTCATACCAAATCAAATCATATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAAATCAGATAACTCAAAGA
2124167 ACACTTCCAGAAGATGCTATTGGGTCTTCGTATTCCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCGTATTCCTACTATGAGCAAA
*
2124216 TTCATCTTTTAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAAATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAAATCAGATAACTCAAAGA
*
2124281 ACACTTCCAGAAGATGCTATTGGGTTTTCGTATTCCTACTATGAG
66 ACACTTCCAGAAGATGCTATTGGGTCTTCGTATTCCTACTATGAG
2124326 AAAGTAGCAC
Statistics
Matches: 313, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 313 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAAATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCGTATTCCTACTATGAGCAAA
Found at i:2125026 original size:7 final size:7
Alignment explanation
Indices: 2125014--2125091 Score: 70
Period size: 7 Copynumber: 10.4 Consensus size: 7
2125004 TCTTGACCCC
2125014 CTTTTTT
1 CTTTTTT
2125021 CTTTTTT
1 CTTTTTT
2125028 CTTTTTTTTT
1 C---TTTTTT
2125038 CTTTTTT
1 CTTTTTT
2125045 CTTTTTT
1 CTTTTTT
2125052 -TTTTCTT
1 CTTTT-TT
2125059 CTTTTCTTT
1 C-TTT-TTT
2125068 CTTCTTTT
1 CTT-TTTT
*
2125076 -TTTGTT
1 CTTTTTT
2125082 CTTTTTT
1 CTTTTTT
2125089 CTT
1 CTT
2125092 CAAGCATAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
6 7 0.12
7 33 0.55
8 5 0.08
9 7 0.12
10 8 0.13
ACGTcount: A:0.00, C:0.15, G:0.01, T:0.83
Consensus pattern (7 bp):
CTTTTTT
Found at i:2125042 original size:23 final size:23
Alignment explanation
Indices: 2125016--2125087 Score: 87
Period size: 21 Copynumber: 3.2 Consensus size: 23
2125006 TTGACCCCCT
2125016 TTTTTCTTTTTTCTTTTTTTTTC
1 TTTTTCTTTTTTCTTTTTTTTTC
* *
2125039 TTTTT-TCTTTT-TTTTTTCTTC
1 TTTTTCTTTTTTCTTTTTTTTTC
*
2125060 -TTTTCTTTCTTCTTTTTTTGTTC
1 TTTTTCTTTTTTCTTTTTTT-TTC
2125083 TTTTT
1 TTTTT
2125088 TCTTCAAGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.10
21 13 0.32
22 11 0.28
23 8 0.20
24 4 0.10
ACGTcount: A:0.00, C:0.14, G:0.01, T:0.85
Consensus pattern (23 bp):
TTTTTCTTTTTTCTTTTTTTTTC
Found at i:2125043 original size:11 final size:11
Alignment explanation
Indices: 2125017--2125088 Score: 76
Period size: 11 Copynumber: 6.5 Consensus size: 11
2125007 TGACCCCCTT
2125017 TTTTCTTTTTTC
1 TTTT-TTTTTTC
2125029 -TTTTTTTTTC
1 TTTTTTTTTTC
*
2125039 TTTTTTCTTT-
1 TTTTTTTTTTC
*
2125049 TTTTTTTCTTC
1 TTTTTTTTTTC
*
2125060 TTTTCTTTCTTC
1 TTTT-TTTTTTC
*
2125072 TTTTTTTGTTC
1 TTTTTTTTTTC
2125083 TTTTTT
1 TTTTTT
2125089 CTTCAAGCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
10 15 0.28
11 27 0.51
12 11 0.21
ACGTcount: A:0.00, C:0.14, G:0.01, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:2125044 original size:26 final size:25
Alignment explanation
Indices: 2125015--2125088 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 25
2125005 CTTGACCCCC
*
2125015 TTTTTTCTTTTTTCTTTTTTTTTCT
1 TTTTTTTTTTTTTCTTTTTTTTTCT
*
2125040 TTTTTCTTTTTTTT-TTCTTCTTTTCT
1 TTTTT-TTTTTTTTCTT-TTTTTTTCT
2125066 TTCTTCTTTTTTTGTTCTTTTTT
1 TT-TT-TTTTTTT-TTCTTTTTT
2125089 CTTCAAGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
25 7 0.17
26 17 0.43
27 8 0.20
28 6 0.15
29 2 0.05
ACGTcount: A:0.00, C:0.14, G:0.01, T:0.85
Consensus pattern (25 bp):
TTTTTTTTTTTTTCTTTTTTTTTCT
Found at i:2132411 original size:15 final size:15
Alignment explanation
Indices: 2132391--2132421 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2132381 AATGAAATTA
2132391 ATAATGAATGTATGC
1 ATAATGAATGTATGC
*
2132406 ATAATGTATGTATGC
1 ATAATGAATGTATGC
2132421 A
1 A
2132422 AAAAGGTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (15 bp):
ATAATGAATGTATGC
Found at i:2135730 original size:18 final size:18
Alignment explanation
Indices: 2135707--2135743 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2135697 ACATGAAAAT
*
2135707 AAAATAAAATATATATAA
1 AAAATAAAATACATATAA
*
2135725 AAAATAATATACATATAA
1 AAAATAAAATACATATAA
2135743 A
1 A
2135744 TATTATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATAAAATACATATAA
Found at i:2135746 original size:26 final size:30
Alignment explanation
Indices: 2135712--2135782 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 30
2135702 AAAATAAAAT
2135712 AAAATATATAT-AAAA-AATAA-TATACATA
1 AAAATAT-TATGAAAATAATAAGTATACATA
* *
2135740 TAAATATTATGAAAATAATAAGTATATATA
1 AAAATATTATGAAAATAATAAGTATACATA
2135770 AAAAT-TT-TGAAAA
1 AAAATATTATGAAAA
2135783 GAAAGAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 3 0.08
28 16 0.43
29 7 0.19
30 11 0.30
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (30 bp):
AAAATATTATGAAAATAATAAGTATACATA
Found at i:2137975 original size:3 final size:3
Alignment explanation
Indices: 2137967--2138034 Score: 86
Period size: 3 Copynumber: 22.7 Consensus size: 3
2137957 GGCCCGTTTG
**
2137967 TAA TAA TAA TTT TAA TAA TAA TAAA TAA -AA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA-A TAA
2138013 -AA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
2138035 GAAAATGGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
2 4 0.07
3 47 0.82
4 6 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2138800 original size:103 final size:102
Alignment explanation
Indices: 2138656--2138861 Score: 367
Period size: 102 Copynumber: 2.0 Consensus size: 102
2138646 GGGGAGGGGG
* *
2138656 AGGGACCTTATTGAAAATGAACTAAAAGTTCGATGGCTGTATTGCTAGTTTCAAAATTAGGTGAT
1 AGGGACCTTACTGAAAATGAACTAAAAGTTCGATGACTGTATTGCTAGTTTC-AAATTAGGTGAT
*
2138721 CAAAATGCAAGCGTCCTATAAGTTCAAAGACTATTTAT
65 CAAAATGCAAACGTCCTATAAGTTCAAAGACTATTTAT
*
2138759 AGGGACCTTACTGAAAATGAACTAAAAGTTCGATGATTGTATTGCTAGTTTCAAATTAGGTGATC
1 AGGGACCTTACTGAAAATGAACTAAAAGTTCGATGACTGTATTGCTAGTTTCAAATTAGGTGATC
2138824 AAAATGCAAACGTCCTATAAGTTCAAAGACTATTTAT
66 AAAATGCAAACGTCCTATAAGTTCAAAGACTATTTAT
2138861 A
1 A
2138862 TACTTTACCT
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
102 50 0.51
103 49 0.49
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (102 bp):
AGGGACCTTACTGAAAATGAACTAAAAGTTCGATGACTGTATTGCTAGTTTCAAATTAGGTGATC
AAAATGCAAACGTCCTATAAGTTCAAAGACTATTTAT
Found at i:2140967 original size:15 final size:16
Alignment explanation
Indices: 2140940--2140970 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2140930 GCTTTTAAAA
2140940 TTAAAATATATATATT
1 TTAAAATATATATATT
2140956 TTAAAA-ATATATATT
1 TTAAAATATATATATT
2140971 ATATCTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAATATATATATT
Found at i:2152275 original size:16 final size:16
Alignment explanation
Indices: 2152218--2152276 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
2152208 CAATACATAA
*
2152218 ATATTAATATTATTAAT
1 ATATT-ATATTTTTAAT
*
2152235 A-ATT-TATTTTTAAA
1 ATATTATATTTTTAAT
* * *
2152249 AAAATAAATTTTTAAT
1 ATATTATATTTTTAAT
2152265 ATATTATATTTT
1 ATATTATATTTT
2152277 CGAGCTGCTC
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
14 9 0.28
15 2 0.06
16 20 0.62
17 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATTATATTTTTAAT
Found at i:2152682 original size:2 final size:2
Alignment explanation
Indices: 2152675--2152701 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2152665 TTGAATCCTT
2152675 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 T
2152702 TTCTTCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2178895 original size:5 final size:5
Alignment explanation
Indices: 2178875--2178926 Score: 59
Period size: 5 Copynumber: 10.4 Consensus size: 5
2178865 TAGTAATATC
** * * *
2178875 TTTAT TTTAT AATAT TTTAT TTTAT TCTAT TTTAT GTTAT TTTGT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
2178925 TT
1 TT
2178927 AAATCTAAGT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:2178895 original size:15 final size:15
Alignment explanation
Indices: 2178868--2178914 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
2178858 TAAATGGTAG
2178868 TAATATCTTTATTTTA
1 TAATAT-TTTATTTTA
2178884 TAATATTTTATTTTA
1 TAATATTTTATTTTA
** *
2178899 TTCTATTTTATGTTA
1 TAATATTTTATTTTA
2178914 T
1 T
2178915 TTTGTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 22 0.79
16 6 0.21
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (15 bp):
TAATATTTTATTTTA
Found at i:2179428 original size:10 final size:10
Alignment explanation
Indices: 2179413--2179442 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2179403 TGGCTTCTCC
2179413 AATTCAAAAT
1 AATTCAAAAT
*
2179423 AATTCAAATT
1 AATTCAAAAT
2179433 AATTCAAAAT
1 AATTCAAAAT
2179443 CCCAATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (10 bp):
AATTCAAAAT
Found at i:2184265 original size:15 final size:16
Alignment explanation
Indices: 2184247--2184310 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 16
2184237 AATTATCTTT
* *
2184247 AAAAAAATAAA-AAGA
1 AAAAAAAGAAAGAAAA
2184262 AAAAAAAGAAA-AAAA
1 AAAAAAAGAAAGAAAA
*
2184277 AGAAAAAGAAA-AAAGA
1 AAAAAAAGAAAGAAA-A
*
2184293 AATAAAAG-AAGAAAA
1 AAAAAAAGAAAGAAAA
2184308 AAA
1 AAA
2184311 TGAGATGAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
15 31 0.76
16 10 0.24
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAAAAAGAAAGAAAA
Found at i:2184267 original size:9 final size:9
Alignment explanation
Indices: 2184255--2184310 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
2184245 TTAAAAAAAT
2184255 AAAAAGAAA
1 AAAAAGAAA
2184264 AAAAAGAAA
1 AAAAAGAAA
2184273 AAAAAGAAA
1 AAAAAGAAA
*
2184282 AAGAA-AAA
1 AAAAAGAAA
* *
2184290 AGAAA-TAA
1 AAAAAGAAA
*
2184298 AAGAAGAAA
1 AAAAAGAAA
2184307 AAAA
1 AAAA
2184311 TGAGATGAGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
8 11 0.29
9 27 0.71
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:2184273 original size:22 final size:21
Alignment explanation
Indices: 2184248--2184310 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
2184238 ATTATCTTTA
2184248 AAAAAATAAAAAGAAAAAAAAG
1 AAAAAA-AAAAAGAAAAAAAAG
2184270 AAAAAAAAGAAA-AAGAAAAAAG
1 AAAAAAAA-AAAGAA-AAAAAAG
* *
2184292 AAATAAAAGAAGAAAAAAA
1 AAAAAAAAAAAGAAAAAAA
2184311 TGAGATGAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 11 0.31
22 25 0.69
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAAAGAAAAAAAAG
Found at i:2184299 original size:25 final size:25
Alignment explanation
Indices: 2184246--2184308 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
2184236 AAATTATCTT
*
2184246 TAAAAAAATAAAAAGAAAAAAAAGA
1 TAAAAAAAGAAAAAGAAAAAAAAGA
2184271 -AAAAAAAGAAAAAGAAAAAAGAA-A
1 TAAAAAAAGAAAAAGAAAAAA-AAGA
*
2184295 TAAAAGAAGAAAAA
1 TAAAAAAAGAAAAA
2184309 AATGAGATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 20 0.59
25 14 0.41
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (25 bp):
TAAAAAAAGAAAAAGAAAAAAAAGA
Found at i:2185715 original size:65 final size:64
Alignment explanation
Indices: 2185517--2185673 Score: 237
Period size: 65 Copynumber: 2.4 Consensus size: 64
2185507 CACTTAGTAT
** *
2185517 ATCGATGCATAAAACACATTCGATGTTTT--TAAAATAGCCTGAGTGCATCGATGTATGGCTTGT
1 ATCGATGCATAAAATGCATTCGATGTTTTCATAAAA-A-CCTGAGTGCATCGATGCATGG-TTGT
2185580 GC
63 GC
2185582 ATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGCATGGTATGTGC
1 ATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGCATGGT-TGTGC
2185647 ATCGATGCATAAAATGCATTCGATGTT
1 ATCGATGCATAAAATGCATTCGATGTT
2185674 CAATTTATTC
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
64 1 0.01
65 79 0.92
66 1 0.01
67 5 0.06
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (64 bp):
ATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGCATGGTTGTGC
Found at i:2187927 original size:43 final size:45
Alignment explanation
Indices: 2187850--2187972 Score: 132
Period size: 44 Copynumber: 2.8 Consensus size: 45
2187840 AAAACCTGAC
** * *
2187850 GGATGCATCGATGCA-TGGCCTTGTGTATCGATGCACATTC-AAG
1 GGATGCATCGATGCACTTTCATAGTGTATCGATGCACATTCAAAG
*
2187893 GCGA-GCATCGGTGCA-TCTTCAT-GATGTATC-ATGCACATTCAAAG
1 G-GATGCATCGATGCACT-TTCATAG-TGTATCGATGCACATTCAAAG
2187937 GGATGCATCGATGCACTTTCATAGTGTATCGATGCA
1 GGATGCATCGATGCACTTTCATAGTGTATCGATGCA
2187973 TTATGCACAA
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
43 25 0.37
44 35 0.52
45 7 0.10
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (45 bp):
GGATGCATCGATGCACTTTCATAGTGTATCGATGCACATTCAAAG
Found at i:2191710 original size:22 final size:21
Alignment explanation
Indices: 2191668--2191707 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2191658 AAGACTATTT
2191668 TCATTTTTTAATTTTGAAATA
1 TCATTTTTTAATTTTGAAATA
2191689 TCATTTTTGT-ATTTTGAAA
1 TCATTTTT-TAATTTTGAAA
2191708 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TCATTTTTTAATTTTGAAATA
Found at i:2193826 original size:65 final size:64
Alignment explanation
Indices: 2193628--2193784 Score: 219
Period size: 65 Copynumber: 2.4 Consensus size: 64
2193618 CACTTAGTGT
** *
2193628 ATCGATGCATAAAACACATTCGATGTTTT--TAAAATAGCTTGAGTGCATCGATGTATGGCTTGT
1 ATCGATGCATAAAATGCATTCGATGTTTTCATAAAA-A-CCTGAGTGCATCGATGTATGG-TTGT
2193691 GC
63 GC
* *
2193693 ATCAATGCATAAAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGCATGGTATGTGC
1 ATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGTATGGT-TGTGC
2193758 ATCGATGCATAAAATGCATTCGATGTT
1 ATCGATGCATAAAATGCATTCGATGTT
2193785 CAATTTATTC
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
64 1 0.01
65 76 0.92
66 1 0.01
67 5 0.06
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (64 bp):
ATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGTATGGTTGTGC
Found at i:2195156 original size:107 final size:107
Alignment explanation
Indices: 2194956--2195223 Score: 319
Period size: 107 Copynumber: 2.5 Consensus size: 107
2194946 CTTTAAATTA
* * * ** * * *
2194956 ACCATATTATCTCTGGATTGACCTGAA-TTGCTCAACGAGAAGG-A-A-CAACATCATATGAAAG
1 ACCATATTATCTCTGGATT-AACTCAACTTCCTCAACGAGAAGGAATAGCGTCATCTTTTGAAAA
** *
2195017 CGGCCAAAACTCTTCAACATGGATGAGCAGTGTCATCTTCAAC
65 CAACCAAAACTCTTCAACATAGATGAGCAGTGTCATCTTCAAC
* *
2195060 ACCATGTTATCTCTGGATTAACTCAACTTCCTTAACGAGAAGGAATAGCGTCATCTTTTGAAAAC
1 ACCATATTATCTCTGGATTAACTCAACTTCCTCAACGAGAAGGAATAGCGTCATCTTTTGAAAAC
* * *
2195125 AACCAAATCTCTTCAATATAGATGAGTAGTGTCATCTTCAAC
66 AACCAAAACTCTTCAACATAGATGAGCAGTGTCATCTTCAAC
* ** *
2195167 ACCATATTATCTCTGGATTGACTTGACTTCCTCAACGAGAAGGAATAGTGTCATCTT
1 ACCATATTATCTCTGGATTAACTCAACTTCCTCAACGAGAAGGAATAGCGTCATCTT
2195224 CAAAAACGTC
Statistics
Matches: 138, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
103 5 0.04
104 32 0.23
105 1 0.01
106 1 0.01
107 99 0.72
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (107 bp):
ACCATATTATCTCTGGATTAACTCAACTTCCTCAACGAGAAGGAATAGCGTCATCTTTTGAAAAC
AACCAAAACTCTTCAACATAGATGAGCAGTGTCATCTTCAAC
Found at i:2195414 original size:3 final size:3
Alignment explanation
Indices: 2195401--2195454 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
2195391 CCGGGTTTTA
* *
2195401 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT AAT AAT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
2195446 TTT ATT ATT
1 ATT ATT ATT
2195455 TTTTATACAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2195455 original size:9 final size:9
Alignment explanation
Indices: 2195396--2195457 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
2195386 TTTTCCCGGG
*
2195396 TTTTAATTA
1 TTTTTATTA
2195405 TTTATTATTA
1 TTT-TTATTA
*
2195415 TTATTATTA
1 TTTTTATTA
*
2195424 TTATTATTA
1 TTTTTATTA
* *
2195433 TATTAATAATA
1 T-TT-TTATTA
2195444 TTTTTATTA
1 TTTTTATTA
2195453 TTTTT
1 TTTTT
2195458 TATACACCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
9 28 0.65
10 10 0.23
11 5 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTATTA
Found at i:2197500 original size:5 final size:5
Alignment explanation
Indices: 2197490--2197552 Score: 72
Period size: 5 Copynumber: 12.6 Consensus size: 5
2197480 GTAGTAATAT
** * * *
2197490 TTTTA TTTTA TAATA TTTTA TTTTA TTCTA TTTTA TGTTA TTTTA TATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
2197540 TTTTG TTTTA TTT
1 TTTTA TTTTA TTT
2197553 AAATCTATGT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:2197510 original size:15 final size:15
Alignment explanation
Indices: 2197484--2197530 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
2197474 TAAATGGTAG
2197484 TAATATTTTTATTTTA
1 TAATA-TTTTATTTTA
2197500 TAATATTTTATTTTA
1 TAATATTTTATTTTA
** *
2197515 TTCTATTTTATGTTA
1 TAATATTTTATTTTA
2197530 T
1 T
2197531 TTTATATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 23 0.82
16 5 0.18
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (15 bp):
TAATATTTTATTTTA
Found at i:2199308 original size:18 final size:17
Alignment explanation
Indices: 2199280--2199322 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
2199270 TTAATGAATT
*
2199280 TTAAGATTTTATATTCGA
1 TTAA-ATTTTACATTCGA
2199298 TTCAAATTTTACATTCGA
1 TT-AAATTTTACATTCGA
2199316 TTAAATT
1 TTAAATT
2199323 ATTCGAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 16 0.70
19 2 0.09
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (17 bp):
TTAAATTTTACATTCGA
Found at i:2209213 original size:20 final size:21
Alignment explanation
Indices: 2209155--2209265 Score: 88
Period size: 20 Copynumber: 5.5 Consensus size: 21
2209145 ATAACCAACG
*
2209155 AATTCGCAACACG-ATTT-CA
1 AATTCACAACACGAATTTCCA
* **
2209174 AATTCGCAACAC-AAACTCCA
1 AATTCACAACACGAATTTCCA
* *
2209194 ATTTCACAACAC-AGTTTCCA
1 AATTCACAACACGAATTTCCA
* * **
2209214 AATTCGCAACGCGAATTT-GG
1 AATTCACAACACGAATTTCCA
2209234 AATTCACAACACGAATTTCTCA
1 AATTCACAACACGAATTTC-CA
2209256 AATTCACAAC
1 AATTCACAAC
2209266 TCAGTTTTCA
Statistics
Matches: 70, Mismatches: 17, Indels: 7
0.74 0.18 0.07
Matches are distributed among these distances:
19 14 0.20
20 42 0.60
21 4 0.06
22 10 0.14
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (21 bp):
AATTCACAACACGAATTTCCA
Found at i:2209376 original size:22 final size:22
Alignment explanation
Indices: 2209345--2209398 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2209335 AAAAAATCCA
*
2209345 CAACTTGAATTCGCCAATTTCG
1 CAACTCGAATTCGCCAATTTCG
2209367 CAACTCGAATTCGCCAATTTCG
1 CAACTCGAATTCGCCAATTTCG
2209389 CAACTC-AATT
1 CAACTCGAATT
2209399 ACCGATATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (22 bp):
CAACTCGAATTCGCCAATTTCG
Found at i:2209566 original size:12 final size:12
Alignment explanation
Indices: 2209543--2209573 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
2209533 TTATATTGGT
2209543 AATTGAGTTGCGA
1 AATTG-GTTGCGA
2209556 AATTGGTTGCGA
1 AATTGGTTGCGA
2209568 AATTGG
1 AATTGG
2209574 AGAATTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (12 bp):
AATTGGTTGCGA
Found at i:2209603 original size:20 final size:21
Alignment explanation
Indices: 2209561--2209612 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
2209551 TGCGAAATTG
2209561 GTTGCGAAATTGGAGAATTCGT
1 GTTGCGAAATTGGAG-ATTCGT
2209583 GTTGCGAAATTGGAG-TTCGT
1 GTTGCGAAATTGGAGATTCGT
2209603 GTTGC-AAATT
1 GTTGCGAAATT
2209613 CGTTGGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.17
20 10 0.33
22 15 0.50
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.35
Consensus pattern (21 bp):
GTTGCGAAATTGGAGATTCGT
Found at i:2210165 original size:30 final size:30
Alignment explanation
Indices: 2210096--2210165 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
2210086 AAGTTTAAAT
* * *
2210096 TAAAATTTTCAAAAATTTTGAAGGGTTTAAT
1 TAAAATTTTCAAAAATATT-AAGGGTCTAAG
* *
2210127 TTATATTTTCCAAAAATATT-AGGGTCTAAG
1 TAAAATTTT-CAAAAATATTAAGGGTCTAAG
2210157 TAAAATTTT
1 TAAAATTTT
2210166 TGAAATTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
30 15 0.48
31 7 0.23
32 9 0.29
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (30 bp):
TAAAATTTTCAAAAATATTAAGGGTCTAAG
Found at i:2214236 original size:25 final size:25
Alignment explanation
Indices: 2214208--2214267 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
2214198 TTAAAATTCA
2214208 ATTAATGAAAAATCACCAAAATACC
1 ATTAATGAAAAATCACCAAAATACC
2214233 ATTAATGAAAAATCACCAAAATACC
1 ATTAATGAAAAATCACCAAAATACC
2214258 ATTAATGAAA
1 ATTAATGAAA
2214268 CTTGATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.22
Consensus pattern (25 bp):
ATTAATGAAAAATCACCAAAATACC
Found at i:2218239 original size:3 final size:3
Alignment explanation
Indices: 2218218--2218275 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
2218208 AGTTTACTTT
* * *
2218218 TTA TT- TTA TTA TT- TAA TTA TTA TTA TTA -TA ATA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2218263 TTA TATA TTA TTA
1 TTA T-TA TTA TTA
2218276 ATAAATAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
2 5 0.11
3 38 0.83
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2218245 original size:17 final size:17
Alignment explanation
Indices: 2218218--2218275 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 17
2218208 AGTTTACTTT
2218218 TTATT-TTATTATTTAA
1 TTATTATTATTATTTAA
2218234 TTATTATTATTA--TAA
1 TTATTATTATTATTTAA
*
2218249 -TATTATTATTATTGTTA
1 TTATTATTATTATT-TAA
2218266 TATATTATTA
1 T-TATTATTA
2218276 ATAAATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 11 0.31
15 3 0.09
16 5 0.14
17 8 0.23
19 8 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTATTATTATTTAA
Found at i:2219690 original size:15 final size:15
Alignment explanation
Indices: 2219670--2219740 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
2219660 ATCCTATAGT
2219670 TTTTAATATTATTAC
1 TTTTAATATTATTAC
* *
2219685 TTTTAAT-TTCTTTC
1 TTTTAATATTATTAC
2219699 ATTTTAATTATTATTA-
1 -TTTTAA-TATTATTAC
*
2219715 TTTTATTTTATTATTAC
1 TTTTA--ATATTATTAC
*
2219732 TTTTGATAT
1 TTTTAATAT
2219741 ATGTTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
14 5 0.12
15 21 0.49
16 9 0.21
17 8 0.19
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (15 bp):
TTTTAATATTATTAC
Found at i:2220657 original size:21 final size:20
Alignment explanation
Indices: 2220633--2220691 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
2220623 ATTTTCATAA
2220633 TATTTATATGTATATTATTTT
1 TATTTATAT-TATATTATTTT
*
2220654 TATTAATATT-T-TTA-TTT
1 TATTTATATTATATTATTTT
*
2220671 TATTTAAATTTCATATTATTT
1 TATTTATA-TT-ATATTATTT
2220692 GTTTGTCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
17 9 0.30
18 5 0.17
19 1 0.03
20 2 0.07
21 11 0.37
22 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTTATATTATATTATTTT
Found at i:2227484 original size:114 final size:114
Alignment explanation
Indices: 2227284--2227731 Score: 797
Period size: 114 Copynumber: 3.9 Consensus size: 114
2227274 CACGTTCTCG
2227284 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
* * *
2227349 GGTATGAGCCCCAAAACCAATCATTGGATTTGAAAGATAAATTTGCTTA
66 GGTAGGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTTA
*
2227398 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
* * *
2227463 GGTATGAGCCCCAAAACCAATCATTGGATTTGAAAGGTGAATTTGCTTA
66 GGTAGGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTTA
2227512 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
* *
2227577 GGTAGGAACCCCAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTTA
2227626 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
* *
2227691 GGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
2227732 CTGCATGACC
Statistics
Matches: 324, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 324 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
GGTAGGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTTA
Found at i:2230327 original size:22 final size:22
Alignment explanation
Indices: 2230301--2230352 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
2230291 TACACTCTTC
2230301 AAAGATGATAGATTCTCTTTTT
1 AAAGATGATAGATTCTCTTTTT
2230323 AAAGATGATAGATTCTCTTTTT
1 AAAGATGATAGATTCTCTTTTT
2230345 AAAGATGA
1 AAAGATGA
2230353 AAGCTTTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (22 bp):
AAAGATGATAGATTCTCTTTTT
Found at i:2231128 original size:76 final size:76
Alignment explanation
Indices: 2231029--2231541 Score: 924
Period size: 76 Copynumber: 6.8 Consensus size: 76
2231019 CTATTTCCTA
*
2231029 CATCTGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2231094 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2231105 CATCTGTAAGTCCTGCATTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2231170 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
2231181 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAACCTTAGGGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2231246 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
2231257 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2231322 AGCCTTAGGGT
66 AGCCTTAGGGT
2231333 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2231398 AGCCTTAGGGT
66 AGCCTTAGGGT
2231409 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2231473 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2231484 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG--TTTTGATGTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
2231542 GTTATTTGAA
Statistics
Matches: 424, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
73 8 0.02
74 1 0.00
75 64 0.15
76 351 0.83
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:2231724 original size:31 final size:31
Alignment explanation
Indices: 2231686--2231791 Score: 203
Period size: 31 Copynumber: 3.4 Consensus size: 31
2231676 CTACAGTGTA
2231686 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
2231717 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
2231748 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
2231779 TGATGTTTTCAAA
1 TGATGTTTCCAAA
2231792 GCCTTAGGGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.37
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:2231874 original size:76 final size:76
Alignment explanation
Indices: 2231748--2232135 Score: 641
Period size: 76 Copynumber: 5.1 Consensus size: 76
2231738 GGGAGCTTTT
2231748 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
2231813 CCTACAGTGCA
66 CCTACAGTGCA
* *
2231824 TGATGTTTCCAAAAAGTCTTCGGGAGCTTTTTGATGTTTTCGAAGCCTTAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
*
2231889 CCTGCAGTGCA
66 CCTACAGTGCA
*
2231900 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
*
2231965 CCTGCAGTGCA
66 CCTACAGTGCA
2231976 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
*
2232041 CCTACAGTACA
66 CCTACAGTGCA
* ** * * * * *
2232052 TGATGTCTCCAAAAAGCCTTCGGGAGCTTTTTGATAATTTCAAAACATTCGAGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
*
2232117 CCTTCAGTGCA
66 CCTACAGTGCA
2232128 TGATGTTT
1 TGATGTTT
2232136 TCAACATTTC
Statistics
Matches: 292, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 292 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
CCTACAGTGCA
Found at i:2232280 original size:13 final size:15
Alignment explanation
Indices: 2232259--2232306 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
2232249 TACTTTTATT
2232259 TTATTATTTAAT-TA
1 TTATTATTTAATATA
2232273 TT-TTATTTAATATA
1 TTATTATTTAATATA
2232287 TTATTATTGT--TATA
1 TTATTATT-TAATATA
2232301 TTATTA
1 TTATTA
2232307 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.29
14 16 0.52
15 5 0.16
16 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTATTTAATATA
Found at i:2232305 original size:17 final size:16
Alignment explanation
Indices: 2232255--2232306 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 16
2232245 AGTTTACTTT
2232255 TATT-TTATTATTT-A
1 TATTATTATTATTTAA
2232269 -ATTATT-TTATTTAA
1 TATTATTATTATTTAA
*
2232283 TA-TATTATTATTGTTA
1 TATTATTATTATT-TAA
2232299 TATTATTA
1 TATTATTA
2232307 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 9 0.29
14 7 0.23
15 6 0.19
16 4 0.13
17 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTATTATTATTTAA
Found at i:2233194 original size:30 final size:30
Alignment explanation
Indices: 2233066--2233192 Score: 200
Period size: 30 Copynumber: 4.2 Consensus size: 30
2233056 TCCGAAGGAC
2233066 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2233096 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2233126 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *** * *
2233156 CTATCCATAGGTCCCGAAGAACCTAGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2233186 CTATCCA
1 CTATCCA
2233193 TATGTTCCTT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 91 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2233207 original size:30 final size:30
Alignment explanation
Indices: 2233151--2233245 Score: 102
Period size: 30 Copynumber: 3.1 Consensus size: 30
2233141 AAAGATCCTC
* *
2233151 GGTAACTATCCATAGGTCCCGAAGAACCTA
1 GGTAACTATCCATATGTCCCGAAGAACATA
* **
2233181 GGTAACTATCCATATGTTCCTTAGAACATA
1 GGTAACTATCCATATGTCCCGAAGAACATA
* *
2233211 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTATCCATATGTCCCGAAGA-ACATA
2233242 GGTA
1 GGTA
2233246 GTTCTTTGAC
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 30 0.57
31 23 0.43
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (30 bp):
GGTAACTATCCATATGTCCCGAAGAACATA
Found at i:2237804 original size:30 final size:30
Alignment explanation
Indices: 2237733--2237822 Score: 173
Period size: 30 Copynumber: 3.0 Consensus size: 30
2237723 GTTCCGAATG
2237733 ACTATCCAGAGGTCATAAAGATCCTCGGTA
1 ACTATCCAGAGGTCATAAAGATCCTCGGTA
2237763 ACTAT-CAGAGGTCATAAAGATCCTCGGTA
1 ACTATCCAGAGGTCATAAAGATCCTCGGTA
2237792 ACTATCCAGAGGTCATAAAGATCCTCGGTA
1 ACTATCCAGAGGTCATAAAGATCCTCGGTA
2237822 A
1 A
2237823 ACCATAGGTC
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 29 0.49
30 30 0.51
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (30 bp):
ACTATCCAGAGGTCATAAAGATCCTCGGTA
Found at i:2237839 original size:27 final size:28
Alignment explanation
Indices: 2237738--2237833 Score: 140
Period size: 29 Copynumber: 3.4 Consensus size: 28
2237728 GAATGACTAT
2237738 CCAGAGGTCATAAAGATCCTCGGTAACTA
1 CCAGAGGTCATAAAGATCCTCGGTAAC-A
*
2237767 TCAGAGGTCATAAAGATCCTCGGTAACTA
1 CCAGAGGTCATAAAGATCCTCGGTAAC-A
2237796 TCCAGAGGTCATAAAGATCCTCGGTAA-A
1 -CCAGAGGTCATAAAGATCCTCGGTAACA
*
2237824 CCATAGGTCA
1 CCAGAGGTCA
2237834 CGAAGAACCT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
27 9 0.14
28 1 0.02
29 28 0.44
30 25 0.40
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (28 bp):
CCAGAGGTCATAAAGATCCTCGGTAACA
Found at i:2240621 original size:250 final size:247
Alignment explanation
Indices: 2240127--2240627 Score: 957
Period size: 252 Copynumber: 2.0 Consensus size: 247
2240117 AAACATTCAA
2240127 AATACCCGAAGGATTTCTCTAGATCTGCTCCGATCAAGAGTTTTTAGGGCAAACCAAGGCCAGAT
1 AATACCCGAAGGATTTCTCTAGATCTGCTCCGATCAAGAGTTTTTAGGGCAAACCAAGGCCAGAT
2240192 TCGGCCTTGGGAGGTTCTGGCCTTTATTTTGGGGTCTTTAGTAAAATCTGACCACCGTATATGGT
66 TCGGCCTTGGGAGGTTCTGGCCTTTATTTTGGGGTCTTTAGTAAAATCTGACCACCGTATATGGT
2240257 AGCCGGCGGCGGTGGTTACCACCGGAGCACGGTGGTCAGCATCTGAATTTCCCTCAGGCGAGGGA
131 AGCCGGCGGCGGTGGTTACCACCGGAGCACGGTGGTCAGCATCTGAATTTCCCTCAGGCGAGGGA
2240322 AGCCGGAGAGAAACGAGAGAGATGATATATCTCTCTCCAGAAGAGAGAGAAG
196 AGCCGGAGAGAAACGAGAGAGATGATATATCTCTCTCCAGAAGAGAGAGAAG
2240374 AATACCCGAAGGTATTTCTCTAGATCTGCTCCGATCAAGAGTTTTTTAGGGCAAACCAAGGCCAG
1 AATACCCGAAGG-ATTTCTCTAGATCTGCTCCGATCAAGAG-TTTTTAGGGCAAACCAAGGCCAG
2240439 ATTCGGCCTTGGGAGGTTCTGGCCTTTATTTTGGGGTCTTTATGTAAAATCTGACCACCGTATAT
64 ATTCGGCCTTGGGAGGTTCTGGCCTTTATTTTGGGGTCTTTA-GTAAAATCTGACCACCGTATAT
2240504 GGTAGCCGGCGGCGGTGGTTACCACCGGAGCACGGTGGTCAGCATCTCTGAATTTCCCTCAGGCG
128 GGTAGCCGGCGGCGGTGGTTACCACCGGAGCACGGTGGTCAGCA--TCTGAATTTCCCTCAGGCG
2240569 AGGGAAGCCGGAGAGAAACGAGAGAGATGATATATCTCTCTCCAGAAGAGAGAGAAG
191 AGGGAAGCCGGAGAGAAACGAGAGAGATGATATATCTCTCTCCAGAAGAGAGAGAAG
2240626 AA
1 AA
2240628 GAAAAGACTC
Statistics
Matches: 249, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
247 12 0.05
248 28 0.11
249 65 0.26
250 66 0.27
252 78 0.31
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (247 bp):
AATACCCGAAGGATTTCTCTAGATCTGCTCCGATCAAGAGTTTTTAGGGCAAACCAAGGCCAGAT
TCGGCCTTGGGAGGTTCTGGCCTTTATTTTGGGGTCTTTAGTAAAATCTGACCACCGTATATGGT
AGCCGGCGGCGGTGGTTACCACCGGAGCACGGTGGTCAGCATCTGAATTTCCCTCAGGCGAGGGA
AGCCGGAGAGAAACGAGAGAGATGATATATCTCTCTCCAGAAGAGAGAGAAG
Found at i:2240642 original size:31 final size:30
Alignment explanation
Indices: 2240604--2240664 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 30
2240594 GATGATATAT
2240604 CTCTCTCCAGAAGAGAGAGAAGAAGAAAAGA
1 CTCTCTCCAGAAGAGAGAGAAGAA-AAAAGA
2240635 CTCTCTCCAGAAGAGAGAGAAGAAAAAAGA
1 CTCTCTCCAGAAGAGAGAGAAGAAAAAAGA
2240665 GAGAATGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.49, C:0.16, G:0.25, T:0.10
Consensus pattern (30 bp):
CTCTCTCCAGAAGAGAGAGAAGAAAAAAGA
Found at i:2258823 original size:2 final size:2
Alignment explanation
Indices: 2258816--2258840 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2258806 TGTATGCATA
2258816 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
2258841 AATCACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2259351 original size:12 final size:13
Alignment explanation
Indices: 2259334--2259387 Score: 60
Period size: 12 Copynumber: 4.4 Consensus size: 13
2259324 CGTAATTTTA
2259334 ATTTAT-TTAAAT
1 ATTTATATTAAAT
2259346 ATTTATATTAAA-
1 ATTTATATTAAAT
* *
2259358 ATTTATTTTTAAT
1 ATTTATATTAAAT
*
2259371 ATTTTTATTAAAT
1 ATTTATATTAAAT
2259384 -TTTA
1 ATTTA
2259388 ATAAAAAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 19 0.56
13 15 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTATATTAAAT
Found at i:2259360 original size:24 final size:25
Alignment explanation
Indices: 2259333--2259387 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
2259323 ACGTAATTTT
2259333 AATTTA-TTTAAATATTTATATTAA
1 AATTTATTTTAAATATTTATATTAA
* *
2259357 AATTTATTTTTAATATTTTTATTAA
1 AATTTATTTTAAATATTTATATTAA
*
2259382 ATTTTA
1 AATTTA
2259388 ATAAAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
AATTTATTTTAAATATTTATATTAA
Found at i:2266957 original size:78 final size:79
Alignment explanation
Indices: 2266848--2266995 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 79
2266838 GACTCCTTTC
*
2266848 ATTTTGACTACTAATTTAAAAAGTTAATCAATCA-AGTCACCAAACTA-TTTAAATACATTCAAT
1 ATTTTGACCACTAATTTAAAAAGTTAATCAATCAGA-TCACCAAACTATTTTAAATACATTCAAT
2266911 CAAGACCCCTTTTTT
65 CAAGACCCCTTTTTT
* * * ** * *
2266926 ATTTTGACCAGTAATTTTAAAATTTTGTCAATCAGATCACCAAATTATTTTAAATACATTTAATC
1 ATTTTGACCACTAATTTAAAAAGTTAATCAATCAGATCACCAAACTATTTTAAATACATTCAATC
2266991 AAGAC
66 AAGAC
2266996 ACTCGTTAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 38 0.63
79 22 0.37
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (79 bp):
ATTTTGACCACTAATTTAAAAAGTTAATCAATCAGATCACCAAACTATTTTAAATACATTCAATC
AAGACCCCTTTTTT
Found at i:2267597 original size:20 final size:19
Alignment explanation
Indices: 2267534--2267662 Score: 61
Period size: 20 Copynumber: 6.6 Consensus size: 19
2267524 ATGTTAGATT
*
2267534 ATAAACATAAAAATAAATAT
1 ATAAA-ATAAAAATAAATAA
* * *
2267554 GTAAAAAGAAAAAT-ATTAA
1 AT-AAAATAAAAATAAATAA
2267573 TATAATAATAAAAATAAATAA
1 -ATAA-AATAAAAATAAATAA
* * *
2267594 ATAAAATAGATAA-AATTGA
1 ATAAAATA-AAAATAAATAA
*
2267613 GTGAAAAT-AAAATAAAT-A
1 AT-AAAATAAAAATAAATAA
*
2267631 ATGAAAT-AAAATAAATGAAA
1 ATAAAATAAAAATAAAT--AA
*
2267651 AAAAAATAAAAA
1 ATAAAATAAAAA
2267663 CAGGGTTAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
17 13 0.16
18 5 0.06
19 17 0.21
20 35 0.43
21 11 0.14
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.22
Consensus pattern (19 bp):
ATAAAATAAAAATAAATAA
Found at i:2267609 original size:22 final size:22
Alignment explanation
Indices: 2267543--2267609 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
2267533 TATAAACATA
**
2267543 AAAATAAATATGTAAAA-AGA-
1 AAAATAAATAAATAAAATAGAT
* *
2267563 AAAAT--ATTAATATAATA-AT
1 AAAATAAATAAATAAAATAGAT
2267582 AAAAATAAATAAATAAAATAGAT
1 -AAAATAAATAAATAAAATAGAT
2267605 AAAAT
1 AAAAT
2267610 TGAGTGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 7 0.20
19 1 0.03
20 10 0.29
22 15 0.43
23 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (22 bp):
AAAATAAATAAATAAAATAGAT
Found at i:2270277 original size:40 final size:40
Alignment explanation
Indices: 2270222--2270343 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
2270212 TGCAGGTTCA
*
2270222 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2270262 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2270302 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2270342 TA
1 TA
2270344 GCACTACGGT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:2273307 original size:19 final size:19
Alignment explanation
Indices: 2273262--2273299 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2273252 TATATATTAT
2273262 AAGAAGAAAAAAAACAGAAG
1 AAGAA-AAAAAAAACAGAAG
*
2273282 AAGAAAAAAAAAATAGAA
1 AAGAAAAAAAAAACAGAA
2273300 AATGAAAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.03
Consensus pattern (19 bp):
AAGAAAAAAAAAACAGAAG
Found at i:2273320 original size:19 final size:18
Alignment explanation
Indices: 2273298--2273354 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 18
2273288 AAAAAAATAG
2273298 AAAATGAAAACGAAGAAAA
1 AAAATGAAAACG-AGAAAA
*
2273317 AAAATGAAAACGAGAAAG
1 AAAATGAAAACGAGAAAA
*
2273335 AAAA-GAAAATGAGAAAA
1 AAAATGAAAACGAGAAAA
2273352 AAA
1 AAA
2273355 TGAGAGATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
17 14 0.40
18 9 0.26
19 12 0.34
ACGTcount: A:0.74, C:0.04, G:0.18, T:0.05
Consensus pattern (18 bp):
AAAATGAAAACGAGAAAA
Found at i:2273343 original size:25 final size:24
Alignment explanation
Indices: 2273272--2273351 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
2273262 AAGAAGAAAA
2273272 AAAACAGAAGAAGAAAAAAAAAATAG
1 AAAAC-GAA-AAGAAAAAAAAAATAG
*
2273298 AAAATGAAAACGAAGAAAAAAAAT-G
1 AAAACGAAAA-GAA-AAAAAAAATAG
*
2273323 AAAACGAGAAAG-AAAAGAAAATGAG
1 AAAACGA-AAAGAAAAAAAAAAT-AG
2273348 AAAA
1 AAAA
2273352 AAATGAGAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 8 0.17
24 3 0.07
25 19 0.41
26 16 0.35
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.05
Consensus pattern (24 bp):
AAAACGAAAAGAAAAAAAAAATAG
Found at i:2277052 original size:40 final size:40
Alignment explanation
Indices: 2276997--2277118 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
2276987 TGCAGGTTCA
*
2276997 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2277037 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2277077 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2277117 TA
1 TA
2277119 GCACTACGGT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:2278795 original size:3 final size:3
Alignment explanation
Indices: 2278773--2278822 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
2278763 AAATTAACAA
2278773 AAT AA- AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2278817 AAT AAT
1 AAT AAT
2278823 CAAAAGATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2278853 original size:34 final size:34
Alignment explanation
Indices: 2278815--2278884 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
2278805 AATAATAATA
* *
2278815 ATAATAATCAAAAGATTTT-AAAACCATATATTAT
1 ATAATAATAAAAAG-TTTTCAAAACCATATATCAT
** *
2278849 ATAATTTTAAAAAGTTTTCAAAACTATATATCAT
1 ATAATAATAAAAAGTTTTCAAAACCATATATCAT
2278883 AT
1 AT
2278885 TGTTTTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (34 bp):
ATAATAATAAAAAGTTTTCAAAACCATATATCAT
Found at i:2278921 original size:71 final size:73
Alignment explanation
Indices: 2278834--2279049 Score: 206
Period size: 71 Copynumber: 2.9 Consensus size: 73
2278824 AAAAGATTTT
* * * *
2278834 AAAACCATATATTATATAATTTT-AAAAAGTTTTCAAAACTATATATCATAT-TGTTTTCAAAAT
1 AAAACTATATAATATATAATTTTAAAAAAGTTTTAAAAACTATATAT-ATATATGTTTTCAAAAG
*
2278897 GTTTTTT-T
65 GTTTTTTAA
* * * *
2278905 TAAATTATATAATATAT-ATTTTCAAAATGTTTTAAAAACTATATATTATATATATGTTTTCAAA
1 AAAACTATATAATATATAATTTTAAAAAAGTTTTAAAAAC--TATA-TATATATATGTTTTC-AA
2278969 AAGGTTTTTTAA
62 AAGGTTTTTTAA
* *
2278981 AAAACTATATAATATACATGTTTTCAAAAAAAATGTTTTAAAAACTATATAATATATATGTTTTC
1 AAAACTATATAATATATA-ATTTT---AAAAAA-GTTTTAAAAACTATAT-ATATATATGTTTTC
2279046 AAAA
60 AAAA
2279050 ACTATATATA
Statistics
Matches: 117, Mismatches: 14, Indels: 20
0.77 0.09 0.13
Matches are distributed among these distances:
70 5 0.04
71 27 0.23
73 8 0.07
74 10 0.09
75 11 0.09
76 14 0.12
78 4 0.03
79 5 0.04
80 18 0.15
81 4 0.03
82 11 0.09
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (73 bp):
AAAACTATATAATATATAATTTTAAAAAAGTTTTAAAAACTATATATATATATGTTTTCAAAAGG
TTTTTTAA
Found at i:2279002 original size:40 final size:39
Alignment explanation
Indices: 2278857--2279050 Score: 181
Period size: 40 Copynumber: 5.1 Consensus size: 39
2278847 ATATAATTTT
*
2278857 AAAAA-GTTTTCAAAACTATAT-ATCATAT-TGTTTTC-A
1 AAAAATGTTTTAAAAACTATATAAT-ATATATGTTTTCAA
** * ** *
2278893 AAATGTTTTTTTTAAATTATATAATATATA--TTTTC--
1 AAAAATGTTTTAAAAACTATATAATATATATGTTTTCAA
2278928 -AAAATGTTTTAAAAACTATATATTATATATATGTTTTCAA
1 AAAAATGTTTTAAAAACTATATA--ATATATATGTTTTCAA
** * *
2278968 AAAGGTTTTTTAAAAAACTATATAATATACATGTTTTCAAA
1 AAAAATGTTTT-AAAAACTATATAATATATATGTTTTC-AA
2279009 AAAAATGTTTTAAAAACTATATAATATATATGTTTTCAA
1 AAAAATGTTTTAAAAACTATATAATATATATGTTTTCAA
2279048 AAA
1 AAA
2279051 CTATATATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
34 16 0.13
36 15 0.12
37 16 0.13
38 7 0.06
39 5 0.04
40 38 0.30
41 17 0.13
42 12 0.10
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (39 bp):
AAAAATGTTTTAAAAACTATATAATATATATGTTTTCAA
Found at i:2279056 original size:26 final size:24
Alignment explanation
Indices: 2279013--2279062 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
2279003 TTCAAAAAAA
2279013 ATGTTTTAAAAACTATATAATATAT
1 ATGTTTTAAAAACTATAT-ATATAT
2279038 ATGTTTTCAAAAACTATATATATAT
1 ATGTTTT-AAAAACTATATATATAT
2279063 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (24 bp):
ATGTTTTAAAAACTATATATATAT
Found at i:2279057 original size:2 final size:2
Alignment explanation
Indices: 2279052--2279097 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
2279042 TTTCAAAAAC
2279052 TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2279093 TA TA T
1 TA TA T
2279098 TTAAAATGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2279153 original size:38 final size:38
Alignment explanation
Indices: 2279079--2279161 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 38
2279069 TATATATATA
*
2279079 TATATATATATATATATATTTAAAATGCTTTCAAAAAC
1 TATATATATACATATATATTTAAAATGCTTTCAAAAAC
* *
2279117 TATATA-ATACATATAT-TTTAGAAATGTTTTCAAAAAA
1 TATATATATACATATATATTTA-AAATGCTTTCAAAAAC
2279154 T-TATATAT
1 TATATATAT
2279162 TATATTTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
36 8 0.20
37 26 0.65
38 6 0.15
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (38 bp):
TATATATATACATATATATTTAAAATGCTTTCAAAAAC
Found at i:2279779 original size:85 final size:85
Alignment explanation
Indices: 2279658--2280141 Score: 594
Period size: 85 Copynumber: 5.7 Consensus size: 85
2279648 TCTCGATTTA
* * * * * **
2279658 AGTTATGCTGTAAATTTGACATGCCCTTGAGCTGAATGGAATCGAACCCAAATATCTTTATTGAC
1 AGTTATGCTATAAATTTGATATGCCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTTATTGAC
*
2279723 AGATAACCCTTCTCACCTTG
66 AGATAACCCTTCTCGCCTTG
* * *
2279743 AGTTATGCTATAAATTTGATATGCCTTTGAGATGAATGGAATCGAACTCGAAGGTTTTTACTGAC
1 AGTTATGCTATAAATTTGATATGCCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTTATTGAC
*
2279808 AGATAACCCTTCTCACCTTG
66 AGATAACCCTTCTCGCCTTG
* * ** * **
2279828 AGTTATGCTGTAAATTTGATAGGCCTTTGAGCTGAATATAATCAAACTCGAAGGTCTTGGTTGAC
1 AGTTATGCTATAAATTTGATATGCCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTTATTGAC
*
2279893 AGATAGCCCTTCTCGCCTTG
66 AGATAACCCTTCTCGCCTTG
** * *
2279913 AACTATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCATTATTGAC
1 AGTTATGCTATAAATTTGATATGCCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTTATTGAC
* *
2279978 AAATAACCCTTCTCGCATTG
66 AGATAACCCTTCTCGCCTTG
* * * *
2279998 AGTTATGCTATAAATGTGATATGTCC-TTGAGTTGAATGGAATCAAACTCGAAGGT-TTTGGTTG
1 AGTTATGCTATAAATTTGATATG-CCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTT-ATTG
* *
2280061 ACATATGACCCTTCTCGCCTTG
64 ACAGATAACCCTTCTCGCCTTG
* * * * * *
2280083 AGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTT
1 AGTTATGCTATAAATTTGATATGCCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTT
2280142 GCTAACAGAG
Statistics
Matches: 341, Mismatches: 54, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
84 4 0.01
85 332 0.97
86 5 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (85 bp):
AGTTATGCTATAAATTTGATATGCCTTTGAGCTGAATGGAATCGAACTCGAAGGTCTTTATTGAC
AGATAACCCTTCTCGCCTTG
Found at i:2280084 original size:255 final size:255
Alignment explanation
Indices: 2279661--2280140 Score: 692
Period size: 255 Copynumber: 1.9 Consensus size: 255
2279651 CGATTTAAGT
* * * *
2279661 TATGCTGTAAATTTGACATGCCCTTGAGCTGAATGGAATCGAACCCAAATATCTTTATTGACAGA
1 TATGCTATAAATTTGACATGCCCTTGAGCTGAATGGAATCGAACCCAAAGATCATTATTGACAAA
* * *
2279726 TAACCCTTCTCACCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGATGAATGGAATCGAACT
66 TAACCCTTCTCACATTGAGTTATGCTATAAATGTGATATGCCTTTGAGATGAATGGAATCAAACT
* *
2279791 CGAAGGTTTTTACTGACAGATAACCCTTCTCACCTTGAGTTATGCTGTAAATTTGATAGGCCTTT
131 CGAAGGTTTTGACTGACAGATAACCCTTCTCACCTTGAGCTATGCTGTAAATTTGATAGGCCTTT
*
2279856 GAGCTGAATATAATCAAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAAC
196 GAGCTGAATATAATCAAACTCAAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAAC
* * * * * *
2279916 TATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCATTATTGACAAA
1 TATGCTATAAATTTGACATGCCCTTGAGCTGAATGGAATCGAACCCAAAGATCATTATTGACAAA
* *
2279981 TAACCCTTCTCGCATTGAGTTATGCTATAAATGTGATATGTCC-TTGAGTTGAATGGAATCAAAC
66 TAACCCTTCTCACATTGAGTTATGCTATAAATGTGATATG-CCTTTGAGATGAATGGAATCAAAC
** * * * * *
2280045 TCGAAGGTTTTGGTTGACATATGACCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATGCCTT
130 TCGAAGGTTTTGACTGACAGATAACCCTTCTCACCTTGAGCTATGCTGTAAATTTGATAGGCCTT
* * *
2280110 TGAGCTGAGTGTAATCGAACTCAAAGGTCTT
195 TGAGCTGAATATAATCAAACTCAAAGGTCTT
2280141 TGCTAACAGA
Statistics
Matches: 196, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
255 194 0.99
256 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (255 bp):
TATGCTATAAATTTGACATGCCCTTGAGCTGAATGGAATCGAACCCAAAGATCATTATTGACAAA
TAACCCTTCTCACATTGAGTTATGCTATAAATGTGATATGCCTTTGAGATGAATGGAATCAAACT
CGAAGGTTTTGACTGACAGATAACCCTTCTCACCTTGAGCTATGCTGTAAATTTGATAGGCCTTT
GAGCTGAATATAATCAAACTCAAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAAC
Found at i:2280213 original size:141 final size:141
Alignment explanation
Indices: 2280037--2280291 Score: 395
Period size: 141 Copynumber: 1.8 Consensus size: 141
2280027 AGTTGAATGG
* * * * *
2280037 AATCAAACTCGAAGGTTTTGGTTGACATATGACCCTTCTCGCCTTGAGCTATGTTGTAAATTTGA
1 AATCAAACTCAAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGA
2280102 TATG-CCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGCTAACAGAGATTTAATATGCCTT
66 TATGTCC-TTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGCTAACAGAGATTTAATATGCCTT
2280166 TGAGCTAAGTGT
130 TGAGCTAAGTGT
* *
2280178 AATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGA
1 AATCAAACTCAAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGA
* * * *
2280243 TATGTCCTTGAGTTGAGTGTAATCGAACTCGAAGGTTTTTGCTGACAGA
66 TATGTCCTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGCTAACAGA
2280292 TAGCCCTTAT
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
141 100 0.98
142 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (141 bp):
AATCAAACTCAAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGA
TATGTCCTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGCTAACAGAGATTTAATATGCCTTT
GAGCTAAGTGT
Found at i:2280248 original size:226 final size:226
Alignment explanation
Indices: 2279926--2280366 Score: 663
Period size: 226 Copynumber: 2.0 Consensus size: 226
2279916 TATGCTATAA
* *
2279926 ATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCATTATTGACAAATAACCCTTCT
1 ATTTAATATGCCTTTGAGCTGAATGTAATCGAACTCAAAGGTCATTATTGACAAATAACCCTTCT
2279991 CGCATTGAGTTATGCTATAAATGTGATATGTCCTTGAGTTGAATGGAATCAAACTCGAAGGTTTT
66 CGCATTGAGTTATGCTATAAATGTGATATGTCCTTGAGTTGAATGGAATCAAACTCGAAGGTTTT
* * *
2280056 GGTTGACATAT-GACCCTTCTCGCCTTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAGT
131 GGCTGACAGATAG-CCCTTATCGCCTTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAGT
2280120 GTAATCGAACTCAAAGGTCTTTGCTAACAGAG
195 GTAATCGAACTCAAAGGTCTTTGCTAACAGAG
* *
2280152 ATTTAATATGCCTTTGAGCT-AAGTGTAATCGAACTCAAAGGTC-TTGGTTGACAGATAACCCTT
1 ATTTAATATGCCTTTGAGCTGAA-TGTAATCGAACTCAAAGGTCATT-ATTGACAAATAACCCTT
* * * * * *
2280215 CTCGCCTTGAGTTATGCTGTAAATTTGATATGTCCTTGAGTTGAGTGTAATCGAACTCGAAGGTT
64 CTCGCATTGAGTTATGCTATAAATGTGATATGTCCTTGAGTTGAATGGAATCAAACTCGAAGGTT
* * * *
2280280 TTTGCTGACAGATAGCCCTTATCGCCTTGAGCTATGTTGTAGATTTGATATGTCTTTGAGTTGAG
129 TTGGCTGACAGATAGCCCTTATCGCCTTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAG
* *
2280345 TGTAATCGAACTCGAATGTCTT
194 TGTAATCGAACTCAAAGGTCTT
2280367 GGTTGATAGA
Statistics
Matches: 193, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
225 4 0.02
226 188 0.97
227 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (226 bp):
ATTTAATATGCCTTTGAGCTGAATGTAATCGAACTCAAAGGTCATTATTGACAAATAACCCTTCT
CGCATTGAGTTATGCTATAAATGTGATATGTCCTTGAGTTGAATGGAATCAAACTCGAAGGTTTT
GGCTGACAGATAGCCCTTATCGCCTTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAGTG
TAATCGAACTCAAAGGTCTTTGCTAACAGAG
Found at i:2280305 original size:85 final size:85
Alignment explanation
Indices: 2280173--2280487 Score: 461
Period size: 85 Copynumber: 3.7 Consensus size: 85
2280163 CTTTGAGCTA
* *
2280173 AGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAA
1 AGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAA
2280238 TTTGATATGTCCTTGAGTTG
66 TTTGATATGTCCTTGAGTTG
* * * * * * *
2280258 AGTGTAATCGAACTCGAAGGTTTTTGCTGACAGATAGCCCTTATCGCCTTGAGCTATGTTGTAGA
1 AGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAA
*
2280323 TTTGATATGTCTTTGAGTTG
66 TTTGATATGTCCTTGAGTTG
* * *
2280343 AGTGTAATCGAACTCGAATGTCTTGGTTGATAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAA
1 AGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAA
* *
2280408 TTTAATATG-CCTTTGAGCTG
66 TTTGATATGTCC-TTGAGTTG
* *
2280428 AGTATAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCT
1 AGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCT
2280488 ATCAATAGTT
Statistics
Matches: 201, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
84 1 0.00
85 200 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (85 bp):
AGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAA
TTTGATATGTCCTTGAGTTG
Found at i:2280380 original size:170 final size:170
Alignment explanation
Indices: 2280150--2280485 Score: 530
Period size: 170 Copynumber: 2.0 Consensus size: 170
2280140 TTGCTAACAG
2280150 AGATTTAATATGCCTTTGAGCTAAGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTT
1 AGATTTAATATGCCTTTGAGCTAAGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTT
* * *
2280215 CTCGCCTTGAGTTATGCTGTAAATTTGATATGTCC-TTGAGTTGAGTGTAATCGAACTCGAAGGT
66 CTCGCCTTGAGTTATGCTGTAAATTTAATATG-CCTTTGAGCTGAGTATAATCGAACTCGAAGGT
* *
2280279 TTTTGCTGACAGATAGCCCTTATCGCCTTGAGCTATGTTGT
130 CTTGGCTGACAGATAGCCCTTATCGCCTTGAGCTATGTTGT
* * * * * * *
2280320 AGATTTGATATGTCTTTGAGTTGAGTGTAATCGAACTCGAATGTCTTGGTTGATAGATAACCCTT
1 AGATTTAATATGCCTTTGAGCTAAGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTT
2280385 CTCGCCTTGAGTTATGCTGTAAATTTAATATGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTC
66 CTCGCCTTGAGTTATGCTGTAAATTTAATATGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTC
* *
2280450 TTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
131 TTGGCTGACAGATAGCCCTTATCGCCTTGAGCTATG
2280486 CTATCAATAG
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
169 2 0.01
170 149 0.99
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (170 bp):
AGATTTAATATGCCTTTGAGCTAAGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTT
CTCGCCTTGAGTTATGCTGTAAATTTAATATGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTC
TTGGCTGACAGATAGCCCTTATCGCCTTGAGCTATGTTGT
Found at i:2280418 original size:311 final size:311
Alignment explanation
Indices: 2279841--2280451 Score: 848
Period size: 311 Copynumber: 2.0 Consensus size: 311
2279831 TATGCTGTAA
* * *
2279841 ATTTGATAGGCCTTTGAGCTGAATATAATCAAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCT
1 ATTTAATAGGCCTTTGAGCTGAATATAATCAAACTCAAAGGTCTTGGTTGACAGATAACCCTTCT
2279906 CGCCTTGAACTATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCAT
66 CGCCTTGAACTATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCAT
* * *
2279971 TATTGACAAATAACCCTTCTCGCATTGAGTTATGCTATAAATGTGATATGTCCTTGAGTTGAATG
131 TACTGACAAATAACCCTTATCGCATTGAGCTATGCTATAAATGTGATATGTCCTTGAGTTGAATG
* * * * *
2280036 GAATCAAACTCGAAGGTTTTGGTTGACATATGACCCTTCTCGCCTTGAGCTATGTTGTAAATTTG
196 GAATCAAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTA
*
2280101 ATATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGCTAACAGAG
261 ATATGCCTTTGAGCTGAGTATAATCGAACTCAAAGGTCTTTGCTAACAGAG
* * *
2280152 ATTTAATATGCCTTTGAGCT-AAGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTTC
1 ATTTAATAGGCCTTTGAGCTGAA-TATAATCAAACTCAAAGGTCTTGGTTGACAGATAACCCTTC
** * * * *
2280216 TCGCCTTGAGTTATGCTGTAAATTTGATATGTCC-TTGAGTTGAGTGTAATCGAACTCGAAGGTT
65 TCGCCTTGAACTATGCTATAAATTTGATATG-CCTTTGAGCTGAATGTAATCGAACTCGAAGGTC
* * * * * * * * * * *
2280280 TTTGCTGACAGATAGCCCTTATCGCCTTGAGCTATGTTGTAGATTTGATATGTCTTTGAGTTGAG
129 ATTACTGACAAATAACCCTTATCGCATTGAGCTATGCTATAAATGTGATATGTCCTTGAGTTGAA
* * * * *
2280345 TGTAATCGAACTCGAATGTCTTGGTTGATAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATT
194 TGGAATCAAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATT
*
2280410 TAATATGCCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTT
259 TAATATGCCTTTGAGCTGAGTATAATCGAACTCAAAGGTCTT
2280452 GGTTGACAGA
Statistics
Matches: 260, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
310 2 0.01
311 256 0.98
312 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (311 bp):
ATTTAATAGGCCTTTGAGCTGAATATAATCAAACTCAAAGGTCTTGGTTGACAGATAACCCTTCT
CGCCTTGAACTATGCTATAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCAT
TACTGACAAATAACCCTTATCGCATTGAGCTATGCTATAAATGTGATATGTCCTTGAGTTGAATG
GAATCAAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTA
ATATGCCTTTGAGCTGAGTATAATCGAACTCAAAGGTCTTTGCTAACAGAG
Found at i:2280444 original size:396 final size:396
Alignment explanation
Indices: 2279756--2280485 Score: 1020
Period size: 396 Copynumber: 1.8 Consensus size: 396
2279746 TATGCTATAA
* * * *
2279756 ATTTGATATGCCTTTGAGATGAATGGAATCGAACTCGAAGGTTTTTACTGACAGATAACCCTTCT
1 ATTTAATATGCCTTTGAGATGAATGGAATCGAACTCAAAGGTCTTGACTGACAGATAACCCTTCT
2279821 CACCTTGAGTTATGCTGTAAATTTGATAGGCCTTTGAGCTGAATATAATCAAACTCGAAGGTCTT
66 CACCTTGAGTTATGCTGTAAATTTGATAGGCCTTTGAGCTGAATATAATCAAACTCGAAGGTCTT
* *
2279886 GGTTGACAGATAGCCCTTCTCGCCTTGAACTATGCTATAAATTTGATATGCCTTTGAGCTGAATG
131 GGCTGACAGATAGCCCTTATCGCCTTGAACTATGCTATAAATTTGATATGCCTTTGAGCTGAATG
*
2279951 TAATCGAACTCGAAGGTCATTATTGACAAATAACCCTTCTCGCATTGAGTTATGCTATAAATGTG
196 TAATCGAACTCGAAGGTCATTATTGACAAATAACCCTTCTCGCATTGAGTTATGCTATAAATGTA
* * * *
2280016 ATATGTCCTTGAGTTGAATGGAATCAAACTCGAAGGTTTTGGTTGACATAT-GACCCTTCTCGCC
261 ATATGTCCTTGAGCTGAATAGAATCAAACTCGAAGGTCTTGGTTGACAGATAG-CCCTTCTCGCC
2280080 TTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGCT
325 TTGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGCT
2280145 AACAGAG
390 AACAGAG
* * **
2280152 ATTTAATATGCCTTTGAGCT-AAGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTTC
1 ATTTAATATGCCTTTGAGATGAA-TGGAATCGAACTCAAAGGTCTTGACTGACAGATAACCCTTC
* * * * * * *
2280216 TCGCCTTGAGTTATGCTGTAAATTTGATATGTCC-TTGAGTTGAGTGTAATCGAACTCGAAGGTT
65 TCACCTTGAGTTATGCTGTAAATTTGATA-GGCCTTTGAGCTGAATATAATCAAACTCGAAGGTC
* * * * * * * *
2280280 TTTGCTGACAGATAGCCCTTATCGCCTTGAGCTATGTTGTAGATTTGATATGTCTTTGAGTTGAG
129 TTGGCTGACAGATAGCCCTTATCGCCTTGAACTATGCTATAAATTTGATATGCCTTTGAGCTGAA
* * * * * *
2280345 TGTAATCGAACTCGAATGTC-TTGGTTGATAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
194 TGTAATCGAACTCGAAGGTCATT-ATTGACAAATAACCCTTCTCGCATTGAGTTATGCTATAAAT
* * * *
2280409 TTAATATG-CCTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTC
258 GTAATATGTCC-TTGAGCTGAATAGAATCAAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTC
2280473 GCCTTGAGCTATG
322 GCCTTGAGCTATG
2280486 CTATCAATAG
Statistics
Matches: 289, Mismatches: 40, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
395 6 0.02
396 279 0.97
397 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (396 bp):
ATTTAATATGCCTTTGAGATGAATGGAATCGAACTCAAAGGTCTTGACTGACAGATAACCCTTCT
CACCTTGAGTTATGCTGTAAATTTGATAGGCCTTTGAGCTGAATATAATCAAACTCGAAGGTCTT
GGCTGACAGATAGCCCTTATCGCCTTGAACTATGCTATAAATTTGATATGCCTTTGAGCTGAATG
TAATCGAACTCGAAGGTCATTATTGACAAATAACCCTTCTCGCATTGAGTTATGCTATAAATGTA
ATATGTCCTTGAGCTGAATAGAATCAAACTCGAAGGTCTTGGTTGACAGATAGCCCTTCTCGCCT
TGAGCTATGTTGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGCTA
ACAGAG
Found at i:2280790 original size:86 final size:86
Alignment explanation
Indices: 2280558--2280780 Score: 340
Period size: 86 Copynumber: 2.6 Consensus size: 86
2280548 CTTCAATGGA
* * *
2280558 TCCCCTTAACGGGTATGAACCAAGTGAGATGATCTTTGGATGACTCCCCTTCACGAGAAAGCCAT
1 TCCCCTTAGCGGGTCTGAACCAAGTGAGATGATCTTTGGATGACTCCTCTTCACGAGAAAGCCAT
*
2280623 GTGGTATATTTCTCGGGTGGT
66 GTGGTATATTTCTCGGGTGAT
** * * *
2280644 TCCCCTTAGCGGGTCTGAACCAAAAGATATGATTTTTGGATGACTCCTCTTCACGGGAAAGCCAT
1 TCCCCTTAGCGGGTCTGAACCAAGTGAGATGATCTTTGGATGACTCCTCTTCACGAGAAAGCCAT
2280709 GTGGTATATTTCTCGGGTGAT
66 GTGGTATATTTCTCGGGTGAT
*
2280730 TCCCCTTAGCGAGTCTGAACCAAGTGAGATGATCTTT-GAGTGACTCCTCTT
1 TCCCCTTAGCGGGTCTGAACCAAGTGAGATGATCTTTGGA-TGACTCCTCTT
2280781 TGTGAGAAAG
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
85 2 0.02
86 120 0.98
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (86 bp):
TCCCCTTAGCGGGTCTGAACCAAGTGAGATGATCTTTGGATGACTCCTCTTCACGAGAAAGCCAT
GTGGTATATTTCTCGGGTGAT
Found at i:2282041 original size:84 final size:85
Alignment explanation
Indices: 2281936--2282156 Score: 232
Period size: 94 Copynumber: 2.5 Consensus size: 85
2281926 GGCTAGCTGG
* *
2281936 ATCCATAAAG-TCGAGGTGTTTAACCAATTGCTCTAGAGGGACAGC-TA-AATATTATAATCACC
1 ATCCATAAAGCT-GGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTTATAATATTATAATCACC
*
2281998 TTTATCAGGCTAGATGAATCTT
65 TTTATCAGGATAGATGAA-CTT
*
2282020 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAAATCAAGCTTTATTGTATATTA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGG----A-C-AGC-TTA-T-AATATTA
* * *
2282085 TAATTACCTTTATCAGGATAGCTTAACTT
57 TAATCACCTTTATCAGGATAGATGAACTT
* * *
2282114 TTCCATAAAGCCGGGACGTTTAACCAATTGCTCTAGAGGGACA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACA
2282157 TATCAGGCTT
Statistics
Matches: 115, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
84 36 0.31
85 1 0.01
88 2 0.02
89 2 0.02
90 4 0.03
92 2 0.02
94 40 0.35
95 28 0.24
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (85 bp):
ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTTATAATATTATAATCACCT
TTATCAGGATAGATGAACTT
Found at i:2282146 original size:94 final size:95
Alignment explanation
Indices: 2281984--2282183 Score: 303
Period size: 94 Copynumber: 2.1 Consensus size: 95
2281974 GGACAGCTAA
* * *
2281984 ATATTATAATCACCTTTATCAGGCTAGATGAATCTTATCCATAAAGCTGGGGCGTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGATAGATGAATCTTATCCATAAAGCCGGGACGTTTAACCAATT
2282049 GCTCTAGAGGGACAAATCAAGCTTTATTGT
66 GCTCTAGAGGGACAAATCAAGCTTTATTGT
* * * *
2282079 ATATTATAATTACCTTTATCAGGATAGCTTAA-CTTTTCCATAAAGCCGGGACGTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGATAGATGAATCTTATCCATAAAGCCGGGACGTTTAACCAATT
* *
2282143 GCTCTAGAGGGACATATCAGGCTTTATTGT
66 GCTCTAGAGGGACAAATCAAGCTTTATTGT
2282173 ATATGTATAAT
1 ATAT-TATAAT
2282184 GTTATAATAT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 61 0.64
95 34 0.36
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (95 bp):
ATATTATAATCACCTTTATCAGGATAGATGAATCTTATCCATAAAGCCGGGACGTTTAACCAATT
GCTCTAGAGGGACAAATCAAGCTTTATTGT
Found at i:2285868 original size:42 final size:40
Alignment explanation
Indices: 2285778--2285908 Score: 109
Period size: 42 Copynumber: 3.1 Consensus size: 40
2285768 CAAGTATCCC
* * **
2285778 TAAAAAGTAAAAAATGTTAGATTATAAAAATAAAAATAAGTATG
1 TAAAAAG-AAAAAAT-TTA-A-TATAATAATAAAAATAAATAAA
2285822 TAAAAAGAAAAAAATATTAATATAATAATAAAAATAAATAAA
1 TAAAAAG-AAAAAAT-TTAATATAATAATAAAAATAAATAAA
* * * * *
2285864 TAAAATTGATAAAATTGAGTGAAAATAATAAAAATAAATAAA
1 TAAAA-AGAAAAAATTTAAT-ATAATAATAAAAATAAATAAA
2285906 TAA
1 TAA
2285909 TGAAATAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.04
42 52 0.70
43 2 0.03
44 17 0.23
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (40 bp):
TAAAAAGAAAAAATTTAATATAATAATAAAAATAAATAAA
Found at i:2285964 original size:17 final size:17
Alignment explanation
Indices: 2285885--2285966 Score: 58
Period size: 17 Copynumber: 4.8 Consensus size: 17
2285875 AAATTGAGTG
*
2285885 AAAATAATAAAAATAAA
1 AAAATGATAAAAATAAA
* * *
2285902 TAAATAAT-GAAATAAA
1 AAAATGATAAAAATAAA
* *
2285918 ATAAATGAAAAAAACAAA
1 A-AAATGATAAAAATAAA
* * *
2285936 AACATGCTTAAATATAAA
1 AAAATG-ATAAAAATAAA
2285954 AAAATGATAAAAA
1 AAAATGATAAAAA
2285967 GATAAATATT
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
16 7 0.15
17 21 0.45
18 19 0.40
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.20
Consensus pattern (17 bp):
AAAATGATAAAAATAAA
Done.