Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold13
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: 2744999
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.26
Warning! 506982 characters in sequence are not A, C, G, or T
File 10 of 15
Found at i:1841998 original size:26 final size:26
Alignment explanation
Indices: 1841937--1842000 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
1841927 TTTTTTATTA
*
1841937 TCTCC-CTTTTTATTTCAAAAATATC
1 TCTCCTCTTTTTATTTCAAAAATAAC
*
1841962 TCTCCTCTTTTTGTTTCAAAAATAAC
1 TCTCCTCTTTTTATTTCAAAAATAAC
1841988 ATCT-CT-TTTTTAT
1 -TCTCCTCTTTTTAT
1842001 AAAACAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.32
26 20 0.59
27 3 0.09
ACGTcount: A:0.25, C:0.22, G:0.02, T:0.52
Consensus pattern (26 bp):
TCTCCTCTTTTTATTTCAAAAATAAC
Found at i:1842229 original size:13 final size:13
Alignment explanation
Indices: 1842211--1842239 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1842201 AAAGCATATT
1842211 CAATATATAAACA
1 CAATATATAAACA
1842224 CAATATATAAACA
1 CAATATATAAACA
1842237 CAA
1 CAA
1842240 AATCAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (13 bp):
CAATATATAAACA
Found at i:1844211 original size:9 final size:8
Alignment explanation
Indices: 1844199--1844250 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
1844189 GTATTTTAAA
1844199 TATTATTTT
1 TATT-TTTT
1844208 TATTTTTAT
1 TATTTTT-T
*
1844217 TAATTTTT
1 TATTTTTT
1844225 TATTTTTT
1 TATTTTTT
*
1844233 TATCTTTT
1 TATTTTTT
* *
1844241 GAGTTTTT
1 TATTTTTT
1844249 TA
1 TA
1844251 AATTTACTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
8 24 0.69
9 11 0.31
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (8 bp):
TATTTTTT
Found at i:1844689 original size:23 final size:23
Alignment explanation
Indices: 1844646--1844690 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1844636 TTTTCATGAT
* *
1844646 AAATAAATATTTTAAGCTTTTAC
1 AAATAAATATTTCAAGATTTTAC
1844669 AAATAAAT-TTATCAAGATTTTA
1 AAATAAATATT-TCAAGATTTTA
1844691 AAACAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (23 bp):
AAATAAATATTTCAAGATTTTAC
Found at i:1844804 original size:3 final size:3
Alignment explanation
Indices: 1844796--1844840 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
1844786 ATTTTTTATG
1844796 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1844841 TTTTTGATGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1848425 original size:11 final size:11
Alignment explanation
Indices: 1848396--1848429 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1848386 TTTATGTGGC
1848396 TTTATTTTAT-
1 TTTATTTTATG
1848406 TTTATTTTATG
1 TTTATTTTATG
*
1848417 TTTAATTTATG
1 TTTATTTTATG
1848428 TT
1 TT
1848430 ATGATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (11 bp):
TTTATTTTATG
Found at i:1848841 original size:7 final size:8
Alignment explanation
Indices: 1848825--1848913 Score: 54
Period size: 8 Copynumber: 10.5 Consensus size: 8
1848815 TATTCGATAT
1848825 AAAATAAA
1 AAAATAAA
1848833 AAAATAAAA
1 AAAAT-AAA
*
1848842 AAAATCAA
1 AAAATAAA
*
1848850 AAGATCAAA
1 AAAAT-AAA
1848859 AAAATTAAA
1 AAAA-TAAA
*
1848868 AATCATCAAA
1 AA-AAT-AAA
*
1848878 AAGA-AAA
1 AAAATAAA
* *
1848885 AAATTCAA
1 AAAATAAA
*
1848893 AAAATAAT
1 AAAATAAA
1848901 AAAATAATA
1 AAAATAA-A
1848910 AAAA
1 AAAA
1848914 AATGAAATAG
Statistics
Matches: 61, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
7 5 0.08
8 25 0.41
9 24 0.39
10 7 0.11
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:1848851 original size:17 final size:17
Alignment explanation
Indices: 1848825--1848915 Score: 67
Period size: 18 Copynumber: 5.2 Consensus size: 17
1848815 TATTCGATAT
1848825 AAAATAAAAAAATAAAA
1 AAAATAAAAAAATAAAA
* *
1848842 AAAATCAAAAGATCAAAA
1 AAAATAAAAAAAT-AAAA
* * *
1848860 AAATTAAAAATCATCAAA
1 AAAATAAAAA-AATAAAA
* *
1848878 AAGA-AAAAAATTCAAAA
1 AAAATAAAAAAAT-AAAA
*
1848895 AATAATAAAATAATAAAA
1 AA-AATAAAAAAATAAAA
1848913 AAA
1 AAA
1848916 TGAAATAGCA
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
16 1 0.02
17 22 0.40
18 24 0.44
19 8 0.15
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAAATAAAA
Found at i:1848867 original size:27 final size:25
Alignment explanation
Indices: 1848825--1848916 Score: 78
Period size: 27 Copynumber: 3.5 Consensus size: 25
1848815 TATTCGATAT
*
1848825 AAAATAAAAAAA-TAAAAAAAATCA
1 AAAACAAAAAAATTAAAAAAAATCA
**
1848849 AAAGATCAAAAAAATTAAAAATCATCA
1 AAA-A-CAAAAAAATTAAAAAAAATCA
* *
1848876 AAAAGAAAAAAATTCAAAAAATAATAA
1 AAAACAAAAAAATT-AAAAAA-AATCA
*
1848903 AATAATAAAAAAAT
1 AA-AACAAAAAAAT
1848917 GAAATAGCAC
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
24 3 0.06
25 10 0.19
26 13 0.24
27 18 0.33
28 10 0.19
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.16
Consensus pattern (25 bp):
AAAACAAAAAAATTAAAAAAAATCA
Found at i:1850065 original size:13 final size:13
Alignment explanation
Indices: 1850016--1850062 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
1850006 CAGAAGAACG
1850016 ACAACACCAAGCA
1 ACAACACCAAGCA
*
1850029 ACAACACCGAGCA
1 ACAACACCAAGCA
*
1850042 ACCACA-C-AGCA
1 ACAACACCAAGCA
1850053 ACATACACCA
1 ACA-ACACCA
1850063 GCAGCTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 6 0.21
12 4 0.14
13 18 0.64
ACGTcount: A:0.49, C:0.40, G:0.09, T:0.02
Consensus pattern (13 bp):
ACAACACCAAGCA
Found at i:1852199 original size:79 final size:77
Alignment explanation
Indices: 1851924--1852192 Score: 281
Period size: 79 Copynumber: 3.4 Consensus size: 77
1851914 TCTTCAAAAA
* * * *
1851924 CAAAATACCGATTTTCCACAATTG-GGTATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAA
1 CAAAATA-CAATTTTTCACAATCGAGG-ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA
* *
1851988 CCTCGGTTTTATTT
64 CCCCAGTTTTATTT
* * * * *
1852002 -ATGAAACACCAATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCGAGGAGATACTCCA
1 CA--AAATA-CAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCA
1852066 ACCCCAGTTTTATTT
63 ACCCCAGTTTTATTT
* * * *
1852081 CCAAAATACTGATTTTTCACAATTGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAA
1 -CAAAATAC-AATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA
* *
1852146 CCCCAATTTTGTGTT
64 CCCCAGTTTTAT-TT
*
1852161 CAAAATATCAATTTTTTACAATCGAGGATACT
1 CAAAATA-CAATTTTTCACAATCGAGGATACT
1852193 TTAACCCCAA
Statistics
Matches: 157, Mismatches: 26, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
77 1 0.01
78 1 0.01
79 149 0.95
80 5 0.03
81 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (77 bp):
CAAAATACAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACC
CCAGTTTTATTT
Found at i:1858629 original size:15 final size:16
Alignment explanation
Indices: 1858590--1858635 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
1858580 ATGACAATGT
*
1858590 TTATTTATTTATTTAC
1 TTATATATTTATTTAC
*
1858606 TTATCTATTT-TTTAC
1 TTATATATTTATTTAC
*
1858621 TTGTATATTTATTTA
1 TTATATATTTATTTA
1858636 ATTCAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATATATTTATTTAC
Found at i:1860317 original size:20 final size:21
Alignment explanation
Indices: 1860287--1860346 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
1860277 ATTTTGGAAG
1860287 GAAATTGTATCGATACATTTAA
1 GAAA-TGTATCGATACATTTAA
1860309 -AAATGTATCGATACA--TAA
1 GAAATGTATCGATACATTTAA
*
1860327 GGAATTGTATCGATACATTT
1 -GAAATGTATCGATACATTT
1860347 CTTATTGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 3 0.09
20 26 0.79
21 3 0.09
22 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (21 bp):
GAAATGTATCGATACATTTAA
Found at i:1866507 original size:20 final size:20
Alignment explanation
Indices: 1866476--1866516 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 20
1866466 AGAAAAGCTA
1866476 TATTTTTTTATTTTAT-TTT
1 TATTTTTTTATTTTATATTT
1866495 TATTTTTTATATTTTATATTT
1 TATTTTTT-TATTTTATATTT
1866516 T
1 T
1866517 TTAATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
20 8 0.40
21 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (20 bp):
TATTTTTTTATTTTATATTT
Found at i:1866514 original size:16 final size:15
Alignment explanation
Indices: 1866474--1866519 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
1866464 ACAGAAAAGC
*
1866474 TATATTTTT-TTATT
1 TATATTTTTATTTTT
1866488 T-TATTTTTATTTTT
1 TATATTTTTATTTTT
1866502 TATATTTTATATTTTT
1 TATATTTT-TATTTTT
1866518 TA
1 TA
1866520 ATTAATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 7 0.25
14 6 0.21
15 6 0.21
16 9 0.32
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TATATTTTTATTTTT
Found at i:1866746 original size:28 final size:28
Alignment explanation
Indices: 1866706--1866780 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
1866696 CCCTACAATG
*
1866706 TGCCAACTAGTGTGCGCTTTGACTTAGA
1 TGCCAACTAGTGTGCGCTTTAACTTAGA
* *
1866734 TGCCAACTAGTGTGGGCTTTAACTTAGG
1 TGCCAACTAGTGTGCGCTTTAACTTAGA
* *
1866762 TGCTAGCTAGTGTGCGCTT
1 TGCCAACTAGTGTGCGCTT
1866781 ACTTGTGACA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (28 bp):
TGCCAACTAGTGTGCGCTTTAACTTAGA
Found at i:1866797 original size:24 final size:25
Alignment explanation
Indices: 1866770--1866817 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
1866760 GGTGCTAGCT
1866770 AGTGTGCGCTT-ACTTGTGACAACG
1 AGTGTGCGCTTCACTTGTGACAACG
*
1866794 AGTGTGGGCTTCGACTTGTGACAA
1 AGTGTGCGCTTC-ACTTGTGACAA
1866818 TAAATGTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (25 bp):
AGTGTGCGCTTCACTTGTGACAACG
Found at i:1866829 original size:26 final size:26
Alignment explanation
Indices: 1866781--1866836 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
1866771 GTGTGCGCTT
* * *
1866781 ACTTGTGACAACGAGTGTGGGCTTCG
1 ACTTGTGACAACAAATGTAGGCTTCG
* *
1866807 ACTTGTGACAATAAATGTAGGCTTTG
1 ACTTGTGACAACAAATGTAGGCTTCG
1866833 ACTT
1 ACTT
1866837 ACGTGCCGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (26 bp):
ACTTGTGACAACAAATGTAGGCTTCG
Found at i:1866891 original size:82 final size:82
Alignment explanation
Indices: 1866794--1867010 Score: 202
Period size: 82 Copynumber: 2.6 Consensus size: 82
1866784 TGTGACAACG
* * * * * * **
1866794 AGTGTGGGCTTCGACTTGTGACAATAAATGTAGGCTTTGACTTACGTGCCGGTGAATGTGGGCTT
1 AGTGTGGGCTTCGACTTATGACAACAAATATAGGCTTCGACTTACGTGCCAGCGAACATGGGCTT
1866859 AAACTTGTGTGCCAGCT
66 AAACTTGTGTGCCAGCT
* * * *
1866876 AGTGTGGGCTTCGACTTATGCCAACAAGTATGGGCTTCGACTTACGTGCTAGCGAACATGGGCTT
1 AGTGTGGGCTTCGACTTATGACAACAAATATAGGCTTCGACTTACGTGCCAGCGAACATGGGCTT
* * ***
1866941 AGACTTGTGTGTCAAAG
66 AAACTTGTGTGCCAGCT
* * * * * * *
1866958 AATGTGGGCCTT-GACTTATGCCAACAAGTATGGGCTTTGACCTAGGTGCCAGC
1 AGTGTGGG-CTTCGACTTATGACAACAAATATAGGCTTCGACTTACGTGCCAGC
1867011 TGGAGTAGGC
Statistics
Matches: 112, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
82 109 0.97
83 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (82 bp):
AGTGTGGGCTTCGACTTATGACAACAAATATAGGCTTCGACTTACGTGCCAGCGAACATGGGCTT
AAACTTGTGTGCCAGCT
Found at i:1867026 original size:82 final size:82
Alignment explanation
Indices: 1866878--1867057 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 82
1866868 TGCCAGCTAG
* * * *
1866878 TGTGGGCTTCGACTTATGCCAACAAGTATGGGCTTCGACTTACGTGCTAGCGAACATGGGCTTAG
1 TGTGGGCTTCGACTTATGCCAACAAGTATGGGCTTCGACCTACGTGCCAGCGAACATAGGCCTAG
1866943 ACTTGTGTGTCAAAGAA
66 ACTTGTGTGTCAAAGAA
* * * *
1866960 TGTGGGCCTT-GACTTATGCCAACAAGTATGGGCTTTGACCTAGGTGCCAGCTGGA-GTAGGCCT
1 TGTGGG-CTTCGACTTATGCCAACAAGTATGGGCTTCGACCTACGTGCCAGC-GAACATAGGCCT
* **
1867023 AGACTTTTGTG-CTAGCGAA
64 AGACTTGTGTGTC-AAAGAA
1867042 TGTGGGCTTCGACTTA
1 TGTGGGCTTCGACTTA
1867058 AGTATAGGGA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
81 4 0.05
82 74 0.89
83 5 0.06
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (82 bp):
TGTGGGCTTCGACTTATGCCAACAAGTATGGGCTTCGACCTACGTGCCAGCGAACATAGGCCTAG
ACTTGTGTGTCAAAGAA
Found at i:1867639 original size:2 final size:2
Alignment explanation
Indices: 1867632--1867661 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1867622 TTTGAGTTGG
1867632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1867662 TATCTTAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1872003 original size:21 final size:20
Alignment explanation
Indices: 1871973--1872011 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1871963 CACATTTTTG
1871973 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
1871993 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
1872012 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:1872094 original size:19 final size:19
Alignment explanation
Indices: 1872070--1872164 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
1872060 AAACAGTAAC
1872070 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1872089 TGTATCGAT--AGAA----
1 TGTATCGATACATAAGTGT
1872102 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
1872121 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
1872134 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1872153 TGTAGCGATACA
1 TGTATCGATACA
1872165 ATATATCGCT
Statistics
Matches: 61, Mismatches: 3, Indels: 24
0.69 0.03 0.27
Matches are distributed among these distances:
13 20 0.33
15 5 0.08
17 5 0.08
19 31 0.51
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1872111 original size:32 final size:32
Alignment explanation
Indices: 1872070--1872177 Score: 180
Period size: 32 Copynumber: 3.4 Consensus size: 32
1872060 AAACAGTAAC
*
1872070 TGTATCGATACATAAGTGTTGTATCGATAGAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1872102 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1872134 TGTATCGATACATAAGTGTTGTAGCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
1872166 TATATCGCTACA
1 TGTATCGATACA
1872178 AAGCTACTGC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1872139 original size:13 final size:13
Alignment explanation
Indices: 1872121--1872145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1872111 ACATAAGTGT
1872121 TGTATCGATACAA
1 TGTATCGATACAA
1872134 TGTATCGATACA
1 TGTATCGATACA
1872146 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1872234 original size:13 final size:13
Alignment explanation
Indices: 1872216--1872243 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1872206 CATTATTCAA
1872216 TGTATCGATACAT
1 TGTATCGATACAT
1872229 TGTATCGATACAT
1 TGTATCGATACAT
1872242 TG
1 TG
1872244 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1872241 original size:33 final size:33
Alignment explanation
Indices: 1872196--1872261 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1872186 GCTAAGGAAA
*
1872196 TGTATCGCTACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
1872229 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
1872262 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:1872378 original size:82 final size:82
Alignment explanation
Indices: 1872277--1872432 Score: 276
Period size: 82 Copynumber: 1.9 Consensus size: 82
1872267 AATTTTACCT
1872277 AGATGTATCGATACATTATTCAATGCATCAATACATGCAGGCAAATTTTCATATTTCGGCACATT
1 AGATGTATCGATACATTATTCAATGCATCAATACATGCAGGCAAATTTTCATATTTCGGCACATT
1872342 TTCTTCCTTAAATTCCC
66 TTCTTCCTTAAATTCCC
* * * *
1872359 AGATGTATCGATACATTATTCAATGTATCGATACATGCAGGCAAATTTTCATATTTCGGGAGATT
1 AGATGTATCGATACATTATTCAATGCATCAATACATGCAGGCAAATTTTCATATTTCGGCACATT
1872424 TTCTTCCTT
66 TTCTTCCTT
1872433 TGTCAAACGA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (82 bp):
AGATGTATCGATACATTATTCAATGCATCAATACATGCAGGCAAATTTTCATATTTCGGCACATT
TTCTTCCTTAAATTCCC
Found at i:1875772 original size:13 final size:13
Alignment explanation
Indices: 1875754--1875779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1875744 CATTTTTCTG
1875754 TGTATCGATACAT
1 TGTATCGATACAT
1875767 TGTATCGATACAT
1 TGTATCGATACAT
1875780 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1875776 original size:33 final size:33
Alignment explanation
Indices: 1875734--1875799 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1875724 GCCAAGGGAA
***
1875734 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1875767 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1875800 CTTGAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1878421 original size:43 final size:44
Alignment explanation
Indices: 1878353--1878440 Score: 126
Period size: 43 Copynumber: 2.0 Consensus size: 44
1878343 TTTTTCATAA
* *
1878353 TCGGGGATACTCCAACCTCGGTTTTATTTTC-AAAACACCAATT
1 TCGGGGATACTCCAACCTCGATTTTATTTCCAAAAACACCAATT
*
1878396 TCGGGGATACTCCAACAC-CGATTTTATTTCCAAAAATACCAATT
1 TCGGGGATACTCCAAC-CTCGATTTTATTTCCAAAAACACCAATT
1878440 T
1 T
1878441 TTCACAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 27 0.68
44 13 0.32
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (44 bp):
TCGGGGATACTCCAACCTCGATTTTATTTCCAAAAACACCAATT
Found at i:1884367 original size:55 final size:55
Alignment explanation
Indices: 1884250--1885240 Score: 1113
Period size: 55 Copynumber: 17.4 Consensus size: 55
1884240 TCTTTTAGCC
1884250 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCACTTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCC-AGTCCTCAAAGAGCAGGACG----C-C-TTTTAAAGCCCACACAAGTTGGTGGCAT
*
1884311 CTTCCTAGTCCTCAAAGAGCAGCACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* *
1884366 CTTCCCAGTCCTCAAAGAGCAGGAAGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGACA-
1 CTT-CCAGTCCTCAAAGAGCAGG-A-----CGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1884427 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
*
1884482 CTTCCTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 CTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* *
1884538 TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
*
1884592 CTTCCTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 CTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * *
1884648 TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* ** *
1884702 CTTCCTAATCCTCAAAGAGCAGGATACCTTTTAAAACCCACACAAGTTGGTGGCA-
1 CTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1884757 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CTT-CCAGTCCTCAAAGAGCAGGACG-C--C-T-TTT-AAAGCCCACACAAGTTGGTGGCAT
* * * * * *
1884819 TTTCCAATTCTCAAAGAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCAC
1 CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * *
1884874 CTT-CAGTCCTCAAAGAGCAGGATGTTTTTTCTTTTCAAAGCCCCCACAAGTTGGTGGCAT
1 CTTCCAGTCCTCAAAGAGCAGGACG-----CCTTTT-AAAGCCCACACAAGTTGGTGGCAT
* * * *
1884934 TTTCCAGTCCCCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCAC
1 CTTCCAGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAGTTGGTGGCAT
*
1884994 CTT-CAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCAGTCCTCAAAGAGCAGGACGCC----T-TTT-AAAGCCCACACAAGTTGGTGGCAT
* * * *
1885054 TTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * * *
1885109 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAG-CCACACAAGTTGGTGGCAC
1 CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
** * * *
1885163 CTTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA-
1 CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
** *
1885217 CTTTTTAGTCCTCAATGAGCAGGA
1 C-TTCCAGTCCTCAAAGAGCAGGA
1885241 TACACTTTAT
Statistics
Matches: 823, Mismatches: 67, Indels: 86
0.84 0.07 0.09
Matches are distributed among these distances:
54 77 0.09
55 453 0.55
56 20 0.02
57 3 0.00
58 4 0.00
59 28 0.03
60 77 0.09
61 159 0.19
62 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (55 bp):
CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
Found at i:1885164 original size:28 final size:29
Alignment explanation
Indices: 1885025--1885166 Score: 77
Period size: 28 Copynumber: 5.1 Consensus size: 29
1885015 ATGCCTTTTT
1885025 CTTTCAAAGCCCACACAAGTTGGTGGCA-
1 CTTTCAAAGCCCACACAAGTTGGTGGCAC
* * * * * **
1885053 TTTTCCAA-TCCTCA-AAG-AGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGG-CAC
1885080 CTTTCAAAGCCCACACAAGTTGGTGGCA-
1 CTTTCAAAGCCCACACAAGTTGGTGGCAC
* * * * * **
1885108 TTTTC-CAGTCCTCA-AAG-AGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGG-CAC
1885135 CTTTCAAAG-CCACACAAGTTGGTGGCAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCAC
1885163 CTTT
1 CTTT
1885167 TAGTCCTCAA
Statistics
Matches: 77, Mismatches: 27, Indels: 20
0.62 0.22 0.16
Matches are distributed among these distances:
25 6 0.08
26 10 0.13
27 24 0.31
28 26 0.34
29 8 0.10
30 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (29 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:1885946 original size:21 final size:21
Alignment explanation
Indices: 1885920--1885996 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
1885910 AAATTATCCA
1885920 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1885941 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
1885962 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
1885983 AATGTATCGATACA
1 AATGTATCGATACA
1885997 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1888551 original size:31 final size:28
Alignment explanation
Indices: 1888468--1888540 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
1888458 CTTCACAATC
* * ***
1888468 GGGGACACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
*
1888495 GGGGATACTCTAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
1888523 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1888541 ACTTTATTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 19 0.50
28 19 0.50
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:1888640 original size:43 final size:44
Alignment explanation
Indices: 1888572--1888659 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 44
1888562 TTTTTCATAA
* * *
1888572 TCGGAGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATT
1 TCGGAGATACTCCAACACCGATTTTATTTCCAAAAACACCAATT
* *
1888615 TCGGGGATACTCCAACACCGATTTTATTTCCAAAAATACCAATT
1 TCGGAGATACTCCAACACCGATTTTATTTCCAAAAACACCAATT
1888659 T
1 T
1888660 TTCACAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 27 0.69
44 12 0.31
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (44 bp):
TCGGAGATACTCCAACACCGATTTTATTTCCAAAAACACCAATT
Found at i:1894958 original size:55 final size:56
Alignment explanation
Indices: 1894841--1896529 Score: 1767
Period size: 55 Copynumber: 29.4 Consensus size: 56
1894831 TCTTTTAGCC
1894841 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACG----C-C-TTTTAAAGCCCACACAAGTTGGTGGCAT
1894902 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
*
1894957 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCAT
1895018 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
*
1895073 CTTCCTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * *
1895129 TTTTC-AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * *
1895183 CTTCCTGGTCTTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * * *
1895239 TTTCC-AGTCTTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* **
1895293 CTTCCT-GATCCTCAAAGAGTAGGATACCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAG-TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
*
1895348 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCTAGTCCTCAAAGAGCAGGACG-C--C-T-TTT-AAAGCCCACACAAGTTGGTGGCAT
* * * * *
1895410 TTTCC-AATCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCAC
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * *
1895465 CTT-C-AGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGTCAT
1 CTTCCTAGTCCTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCAT
* * *
1895525 TTTCC-AGTCCCCAAAGAGCAGGACGCCTCTCCTTTTAAAGCCCACACAAGTTGGAGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACG-----CCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * *
1895584 CTTCCTAGTCCTCAAAGAGCATGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* *
1895639 CTTCCCAGTCCTCAAAGAGCATGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCAT
1895700 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
*
1895755 CTTCCTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
*
1895810 CTT-CTCAGTCCTCAAAGAACAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCT-AGTCCTCAAAGAGCAGGACG-C--C-T-TTT-AAAGCCCACACAAGTTGGTGGCAT
* * * * *
1895872 TTTCC-AATCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCAC
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* *
1895927 CTT-C-AGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCTAGTCCTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCAT
* * * * *
1895987 TTTCC-AGTCCCCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCAC
1 CTTCCTAGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAGTTGGTGGCAT
1896047 CTT-C-AGTCCTCAAAGAGCAGGACGCATTCTTCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCTAGTCCTCAAAGAGCAGGACGC---C-T-TTT-AAAGCCCACACAAGTTGGTGGCAT
* * * * * *
1896107 TTTCC-AATCCTTAAAGAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCAC
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* *
1896162 CTT-C-AGTCCTCAAAGAGCAGGATGTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCTAGTCCTCAAAGAGCAGGACG-----CCTTTT-AAAGCCCACACAAGTTGGTGGCAT
* * *
1896222 TTTCC-AGTCCCCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CTTCCTAGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAGTTGGTGGCAT
* *
1896282 CTT-TTAGTCCTCAAAGAGCAAGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCTAGTCCTCAAAGAGCAGGACG-C--C-T-TTT-AAAGCCCACACAAGTTGGTGGCAT
* * * *
1896343 TTTCC-AATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * * *
1896398 TTTCC-AGTCCTCAAAGAGCAGGACACCTTTCAAAG-CCACACAAGTTGGTGGCAC
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * * *
1896452 CTT-TTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA-
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
** *
1896506 CTTTTTAGTCCTCAATGAGCAGGA
1 CTTCCTAGTCCTCAAAGAGCAGGA
1896530 TACACTTTAT
Statistics
Matches: 1432, Mismatches: 118, Indels: 162
0.84 0.07 0.09
Matches are distributed among these distances:
54 120 0.08
55 655 0.46
56 22 0.02
57 8 0.01
58 11 0.01
59 44 0.03
60 214 0.15
61 349 0.24
62 7 0.00
63 1 0.00
66 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (56 bp):
CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAT
Found at i:1895045 original size:116 final size:113
Alignment explanation
Indices: 1894842--1896529 Score: 1808
Period size: 116 Copynumber: 14.7 Consensus size: 113
1894832 CTTTTAGCCC
1894842 TTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 TTCC-AGTCCTCAAAGAGCAGGA--CCTTC-C-TTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1894907 TAGTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCACT
61 TAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCACT
*
1894959 TCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 TTCCAGTCCTCAAAGAGCAGGA--CC-T-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1895024 AGTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCAC-
62 AGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCACT
* **
1895074 TTCCTAGTCCTCAAAGAGCAGGA--TGCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTTCAG
1 TTCC-AGTCCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT-AG
*
1895136 TCCTCAAAGAGCAGGACACCTTTT-AAAGCCCACACAAGTTGGTGGCAC-
64 TCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * *
1895184 TTCCTGGTCTTCAAAGAGCAGGA--TGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC-AG
1 TTCC-AGTCCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAG
* * *
1895246 TCTTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC-
64 TCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * *
1895294 TTCCTGATCCTCAAAGAGTAGGA--TACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
1 TTCCAG-TCCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
*
1895357 CCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATT
65 CCTCAAAGAGCAGGACG-C--C-T-TTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
1895411 TTCCAATCCTCAAAGAGCAGGA--TGCCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-C-AGT
1 TTCCAGTCCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
* * * *
1895472 CCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGTCATT
65 CCTCAAAGAGCAGGACGC-----CTTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
1895526 TTCCAGTCCCCAAAGAGCAGGACGCCTCTCCTTTTAAAGCCCACACAAGTTGGAGGCACTTCCTA
1 TTCCAGTCCTCAAAGAGCAGGA--CCT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTA
* * *
1895591 GTCCTCAAAGAGCATGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACT
63 GTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCACT
* *
1895641 TCCCAGTCCTCAAAGAGCATGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 TTCCAGTCCTCAAAGAGCAGGA--CC-T-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1895706 AGTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCAC-
62 AGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCACT
*
1895756 TTCCTAGTCCTCAAAGAGCAGGA--TGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CTCAG
1 TTCC-AGTCCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT-AG
* *
1895818 TCCTCAAAGAACAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATT
64 TCCTCAAAGAGCAGGACG-C--C-T-TTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
1895873 TTCCAATCCTCAAAGAGCAGGA--TGCCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-C-AGT
1 TTCCAGTCCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
* * *
1895934 CCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
65 CCTCAAAGAGCAGGACGC-----CTTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
1895988 TTCCAGTCCCCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTT-C-
1 TTCCAGTCCTCAAAGAGCAGGA--CC-TTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCT
*
1896051 AGTCCTCAAAGAGCAGGACGCATTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATT
62 AGTCCTCAAAGAGCAGGACGC---C-T-TTTCAAAGCCCACACAAGTTGGTGGCACT
* * * *
1896108 TTCCAATCCTTAAAGAGCAGGA--TGCCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-C-AGT
1 TTCCAGTCCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
* * *
1896169 CCTCAAAGAGCAGGATGTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
65 CCTCAAAGAGCAGGACG-----CCTTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
1896223 TTCCAGTCCCCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TT
1 TTCCAGTCCTCAAAGAGCAGGA--CC-TTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCT
* *
1896287 AGTCCTCAAAGAGCAAGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATT
62 AGTCCTCAAAGAGCAGGACG-C--C-T-TTTCAAAGCCCACACAAGTTGGTGGCACT
* * * *
1896344 TTCCAATCCTCAAAGAGCAGGA-C-ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-AGT
1 TTCCAGTCCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
*
1896406 CCTCAAAGAGCAGGACACC-TTTCAAAG-CCACACAAGTTGGTGGCACCT
65 CCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCA-CT
* * * * * **
1896454 TT-TAGTCCTCAAAGAGTAGGA-C-GCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTC
1 TTCCAGTCCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTC
*
1896516 CTCAATGAGCAGGA
66 CTCAAAGAGCAGGA
1896530 TACACTTTAT
Statistics
Matches: 1399, Mismatches: 107, Indels: 138
0.85 0.07 0.08
Matches are distributed among these distances:
108 2 0.00
109 90 0.06
110 306 0.22
111 4 0.00
112 2 0.00
113 3 0.00
114 4 0.00
115 289 0.21
116 416 0.30
117 27 0.02
118 6 0.00
119 6 0.00
120 160 0.11
121 84 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (113 bp):
TTCCAGTCCTCAAAGAGCAGGACCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTC
CTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:1895139 original size:171 final size:172
Alignment explanation
Indices: 1894841--1896529 Score: 1898
Period size: 171 Copynumber: 9.8 Consensus size: 172
1894831 TCTTTTAGCC
1894841 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
1 CTTCC-AGTCCTCAAAGAGCAGGACG----C-C-TTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
1894905 CCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTC
59 CCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1894970 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
124 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1895018 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
1 CTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGT
* *
1895082 CCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAG
65 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
*
1895147 CAGGA------CACCTTTTAAAGCCCACACAAGTTGGTGGCA-
130 CAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * * **
1895183 CTTCCTGGTCTTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC-AGT
1 CTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGT
* * * * *
1895247 CTTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTGATCCTCAAAGA
65 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG-TCCTCAAAGA
* *
1895311 GTAGGA-----T-ACCTTTTAAAGCCCACACAAGTTGGTGGCA-
129 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
**
1895348 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CTT-CCAGTCCTCAAAGAGCAGGACG-C--C-T-TTT-AAAGCCCACACAAGTTGGTGGCACCTT
* * * **
1895413 CC-AATCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-CAGTCCTC
59 CCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
* * * * *
1895476 AAAGAGTAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGTCAT
124 AAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCAT
* * *
1895525 TTTCCAGTCCCCAAAGAGCAGGACGCCTCTCCTTTTAAAGCCCACACAAGTTGGAGGCA-CTTCC
1 CTTCCAGTCCTCAAAGAGCAGGACG-----CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* * * * *
1895589 TAGTCCTCAAAGAGCATGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAA
61 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
*
1895654 AGAGCATGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
126 AGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
1895700 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
1 CTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGT
* *
1895764 CCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTCAGTCCTCAAAGA
65 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC-CAGTCCTCAAAGA
* * *
1895828 ACAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCAT
129 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * * *
1895872 TTTCCAATCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-C-AGTC
1 CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTC
* * *
1895935 CTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCCCA
66 CTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
* * * *
1896000 AAGAGCAGGATGCCTT-TTCTTTTAAAGCCCACACAAGTTAGTGGCAC
125 AAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
**
1896047 CTT-CAGTCCTCAAAGAGCAGGACGCATTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
1 CTTCCAGTCCTCAAAGAGCAGGACGC---C-T-TTT-AAAGCCCACACAAGTTGGTGGCACCTTC
* * * * **
1896111 C-AATCCTTAAAGAGCAGGATGCCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-CAGTCCTCA
60 CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
* * * *
1896174 AAGAGCAGGATG-TTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAT
125 AAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCAT
* * *
1896222 TTTCCAGTCCCCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-T
1 CTTCCAGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* *
1896286 TAGTCCTCAAAGAGCAAGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAAT
61 TAGTCCTCAAAGAGCAGGACG-C--C-T-TTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGT
*
1896351 CCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCAT
120 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
* * * *
1896398 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAG-CCACACAAGTTGGTGGCACCTT-TTAGTC
1 CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTC
* * * * *
1896461 CTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAATGAG
66 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAG
1896525 CAGGA
130 CAGGA
1896530 TACACTTTAT
Statistics
Matches: 1337, Mismatches: 117, Indels: 129
0.84 0.07 0.08
Matches are distributed among these distances:
164 42 0.03
165 198 0.15
166 8 0.01
167 1 0.00
168 1 0.00
169 2 0.00
170 83 0.06
171 362 0.27
172 11 0.01
173 3 0.00
174 52 0.04
175 201 0.15
176 226 0.17
177 44 0.03
178 6 0.00
179 4 0.00
180 28 0.02
181 44 0.03
182 19 0.01
183 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (172 bp):
CTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTC
CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
AGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAT
Found at i:1896453 original size:28 final size:29
Alignment explanation
Indices: 1896314--1896455 Score: 77
Period size: 28 Copynumber: 5.1 Consensus size: 29
1896304 ACGCCTTCTT
1896314 CTTTCAAAGCCCACACAAGTTGGTGGCA-
1 CTTTCAAAGCCCACACAAGTTGGTGGCAC
* * * * * **
1896342 TTTTCCAA-TCCTCA-AAG-AGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGG-CAC
1896369 CTTTCAAAGCCCACACAAGTTGGTGGCA-
1 CTTTCAAAGCCCACACAAGTTGGTGGCAC
* * * * * **
1896397 TTTTC-CAGTCCTCA-AAG-AGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGG-CAC
1896424 CTTTCAAAG-CCACACAAGTTGGTGGCAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCAC
1896452 CTTT
1 CTTT
1896456 TAGTCCTCAA
Statistics
Matches: 77, Mismatches: 27, Indels: 20
0.62 0.22 0.16
Matches are distributed among these distances:
25 6 0.08
26 10 0.13
27 24 0.31
28 26 0.34
29 8 0.10
30 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (29 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:1897236 original size:21 final size:21
Alignment explanation
Indices: 1897210--1897267 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
1897200 AAATTATCCA
1897210 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
1897231 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
1897252 AATGTATCGATACATT
1 AATGTATCGATACATT
1897268 CTACAAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:1897276 original size:21 final size:21
Alignment explanation
Indices: 1897208--1897286 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 21
1897198 AAAAATTATC
1897208 CAAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGT
**
1897229 GGAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGT
** *
1897250 GGAATGTATCGATACATTCT-A
1 CAAATGTATCGATACATT-TGT
1897271 CAAATGTATCGATACA
1 CAAATGTATCGATACA
1897287 GGGTCCCAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
21 51 0.98
22 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
CAAATGTATCGATACATTTGT
Found at i:1897415 original size:13 final size:13
Alignment explanation
Indices: 1897397--1897422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1897387 CATTTTTCTG
1897397 TGTATCGATACAT
1 TGTATCGATACAT
1897410 TGTATCGATACAT
1 TGTATCGATACAT
1897423 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1897419 original size:33 final size:33
Alignment explanation
Indices: 1897377--1897442 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1897367 GCCAAGGGAA
***
1897377 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1897410 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1897443 CTTGAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1899718 original size:22 final size:22
Alignment explanation
Indices: 1899693--1899756 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
1899683 TTTCTTCACA
*
1899693 ATCGGGGACACTCCAACCCCGT
1 ATCGGGGATACTCCAACCCCGT
1899715 ATC-GGGATACTCC-A-CCCGT
1 ATCGGGGATACTCCAACCCCGT
1899734 ATTCGAGGGATACTCCAACCCCG
1 A-TCG-GGGATACTCCAACCCCG
1899757 ACTTTATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 6 0.17
20 3 0.08
21 9 0.25
22 13 0.36
23 1 0.03
24 4 0.11
ACGTcount: A:0.23, C:0.38, G:0.22, T:0.17
Consensus pattern (22 bp):
ATCGGGGATACTCCAACCCCGT
Found at i:1899856 original size:43 final size:44
Alignment explanation
Indices: 1899788--1899875 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 44
1899778 TTTTTCATAA
*
1899788 TCGGGGATACTCCAACCCCAGTTTTATTTTC-AAAACACCAATT
1 TCGGGGATACTCCAACCCCAGTTTTATTTCCAAAAACACCAATT
* * *
1899831 TCGGGGATACTCCAA-CACTGATTTTATTTCCAAAAATACCAATT
1 TCGGGGATACTCCAACCCCAG-TTTTATTTCCAAAAACACCAATT
1899875 T
1 T
1899876 TTCACAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
42 3 0.08
43 24 0.62
44 12 0.31
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (44 bp):
TCGGGGATACTCCAACCCCAGTTTTATTTCCAAAAACACCAATT
Found at i:1904008 original size:52 final size:51
Alignment explanation
Indices: 1903930--1904057 Score: 211
Period size: 52 Copynumber: 2.5 Consensus size: 51
1903920 TGAAATATGA
1903930 AAATTTGCCTGCATGTATCGATACATTTAATAATATATCGATACATCTGGGC
1 AAATTTG-CTGCATGTATCGATACATTTAATAATATATCGATACATCTGGGC
* * *
1903982 AAATTTGCTTGCATGTATCGATACATTTTATAATGTATCGATACATTTGGGC
1 AAATTTGC-TGCATGTATCGATACATTTAATAATATATCGATACATCTGGGC
1904034 AAATTTGCTGCATGTATCGATACA
1 AAATTTGCTGCATGTATCGATACA
1904058 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 17 0.24
52 55 0.76
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (51 bp):
AAATTTGCTGCATGTATCGATACATTTAATAATATATCGATACATCTGGGC
Found at i:1904168 original size:33 final size:33
Alignment explanation
Indices: 1904131--1904197 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1904121 AGTAGCTTAA
1904131 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1904164 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1904197 A
1 A
1904198 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1904171 original size:13 final size:13
Alignment explanation
Indices: 1904153--1904177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1904143 CAAAAAAATA
1904153 TGTATCGATACAT
1 TGTATCGATACAT
1904166 TGTATCGATACA
1 TGTATCGATACA
1904178 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1905110 original size:31 final size:31
Alignment explanation
Indices: 1905075--1905565 Score: 443
Period size: 31 Copynumber: 15.9 Consensus size: 31
1905065 ATCTCTCTTC
**
1905075 TCAAAGTCCATAACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
1905106 TCAAAGTCCACAACTCAGTGGCATCTCTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
1905136 TCTAAA-TCTACGACTCAGTGGCATCTTTTCT
1 TC-AAAGTCCACGACTCAGTGGCATCTTTTCT
* *
1905167 TCAAAGTCGACGACTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
1905198 TCAAAGTCGACGACTTAGTGGCATCTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
1905229 TCAAAGTCCACAACTCAATGGCATCTCTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* ** * * *
1905259 TCTAAGTTTATGACTAAGTGACATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
1905290 TCAAAGTCCACGACTCAGTGGCATCTCTTTC-
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTCT
1905321 -CAAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
1905351 TCAAAGTCCACAACTCCGTAGCACTTTTCTTTTTCCT
1 TCAAAGTCCACGACTCAGTGGCA----TC-TTTT-CT
** * ** * **
1905388 TTTAAGTCCACAAAACTGTGGCA-CCCTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
1905417 T--AAGTCCATGACTCAGTGGCATCTTGTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTT-TTCT
*
1905446 -CAAAGTCCACGACTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* **
1905476 TTAAAGTCCACGACAAAGTGGCAATCTTTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
1905507 TCAAAGTCCACGACTCAGTGGCAT-TTCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTT-TTCT
* * *
1905537 CCAAAGTCCACGACTCTGTGGCATTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTT
1905566 TCCTTTTAAG
Statistics
Matches: 381, Mismatches: 56, Indels: 47
0.79 0.12 0.10
Matches are distributed among these distances:
27 15 0.04
28 1 0.00
29 13 0.03
30 123 0.32
31 191 0.50
32 13 0.03
35 2 0.01
36 4 0.01
37 19 0.05
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.34
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:1905294 original size:123 final size:122
Alignment explanation
Indices: 1905065--1905366 Score: 444
Period size: 123 Copynumber: 2.5 Consensus size: 122
1905055 AATTCTTCAA
** *
1905065 ATCTCTCTTCTCAAAGTCCATAACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCAT
1 ATCTCT-TTC-CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAATGGCAT
* * * *
1905130 CTCTTTTCTAAATCTACGACTCAGTGGCATCTTTTCTTCAAAGTCGACGACTTAGTGGC
64 CTCTTTTCTAAATCTACGACTAAGTGACATCTTTTCTTCAAAGTCCACGACTCAGTGGC
* * *
1905189 ATCT-TTTCTTCAAAGTCGACGACTTAGTGGCATCTTTTTTTCAAAGTCCACAACTCAATGGCAT
1 ATCTCTTTC--CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAATGGCAT
* * *
1905253 CTCTTTTCTAAGTTTATGACTAAGTGACATCTTTTCTTCAAAGTCCACGACTCAGTGGC
64 CTCTTTTCTAAATCTACGACTAAGTGACATCTTTTCTTCAAAGTCCACGACTCAGTGGC
1905312 ATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTC
1 ATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTC
1905367 CGTAGCACTT
Statistics
Matches: 160, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
122 46 0.29
123 106 0.66
124 8 0.05
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (122 bp):
ATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAATGGCATCT
CTTTTCTAAATCTACGACTAAGTGACATCTTTTCTTCAAAGTCCACGACTCAGTGGC
Found at i:1905453 original size:30 final size:30
Alignment explanation
Indices: 1905418--1905565 Score: 174
Period size: 30 Copynumber: 4.9 Consensus size: 30
1905408 GCACCCTTTT
*
1905418 AAGTCCATGACTCAGTGGCATCTTGTTC-CA
1 AAGTCCACGACTCAGTGGCATCTT-TTCTCA
* *
1905448 AAGTCCACGACTTAGTGGCATCTTTTCTTTA
1 AAGTCCACGACTCAGTGGCATCTTTTC-TCA
**
1905479 AAGTCCACGACAAAGTGGCAATCTTTTCTCA
1 AAGTCCACGACTCAGTGGC-ATCTTTTCTCA
*
1905510 AAGTCCACGACTCAGTGGCAT-TTCTTCCCA
1 AAGTCCACGACTCAGTGGCATCTT-TTCTCA
* *
1905540 AAGTCCACGACTCTGTGGCATTTTTT
1 AAGTCCACGACTCAGTGGCATCTTTT
1905566 TCCTTTTAAG
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.05
30 51 0.50
31 39 0.38
32 8 0.08
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (30 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTCA
Found at i:1905541 original size:92 final size:92
Alignment explanation
Indices: 1905065--1905565 Score: 436
Period size: 92 Copynumber: 5.4 Consensus size: 92
1905055 AATTCTTCAA
** * * *
1905065 ATCTCTCTTCTCAAAGTCCATAACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCAT
1 ATCT-TCTTCTCAAAGTCCACGACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTAAGTGGCAT
*
1905130 CTCTTT-TCTAAA-TCTACGACTCAGTGGC
65 CT-TTTCTC-AAAGTCCACGACTCAGTGGC
* * *
1905158 ATCTT-TTCTTCAAAGTCGACGACTTAGTGGCATCTTTTCTTCAAAGTCGACGACTTAGTGGCAT
1 ATCTTCTTC-TCAAAGTCCACGACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTAAGTGGCAT
* * *
1905222 CTTTTTTTCAAAGTCCACAACTCAATGGC
65 C-TTTTCTCAAAGTCCACGACTCAGTGGC
* * ** * * * *
1905251 ATC-TCTTTTCTAAGTTTATGACTAAGTGACATCTTTTCTTCAAAGTCCACGACTCAGTGGCATC
1 ATCTTCTTCTCAAAGTCCACGACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTAAGTGGCATC
1905315 TCTTTC-CAAAGTCCACGACTCAGTGGC
66 T-TTTCTCAAAGTCCACGACTCAGTGGC
* ** * ** *
1905342 ATCTT-TTCTTCAAAGTCCACAACTCCGTAGCACTTTTCTTTTTCCTTTTAAGTCCAC-A-AAAC
1 ATCTTCTTC-TCAAAGTCCACGACTTAGTGGCA----TC-TTTT-CTTCAAAGTCCACGACTAA-
* * *
1905404 TGTGGCACCCTTT-T--AAGTCCATGACTCAGTGGC
58 -GTGGCATCTTTTCTCAAAGTCCACGACTCAGTGGC
* * *
1905437 ATCTTGTTC-CAAAGTCCACGACTTAGTGGCATCTTTTCTTTAAAGTCCACGACAAAGTGGCAAT
1 ATCTTCTTCTCAAAGTCCACGACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTAAGTGGC-AT
1905501 CTTTTCTCAAAGTCCACGACTCAGTGGC
65 CTTTTCTCAAAGTCCACGACTCAGTGGC
* *
1905529 AT-TTCTTCCCAAAGTCCACGACTCT-GTGGCATTTTTT
1 ATCTTCTTCTCAAAGTCCACGACT-TAGTGGCATCTTTT
1905566 TCCTTTTAAG
Statistics
Matches: 333, Mismatches: 49, Indels: 53
0.77 0.11 0.12
Matches are distributed among these distances:
88 17 0.05
89 10 0.03
90 6 0.02
91 33 0.10
92 168 0.50
93 26 0.08
94 18 0.05
95 23 0.07
96 6 0.02
97 8 0.02
98 18 0.05
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (92 bp):
ATCTTCTTCTCAAAGTCCACGACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTAAGTGGCATC
TTTTCTCAAAGTCCACGACTCAGTGGC
Found at i:1905567 original size:61 final size:62
Alignment explanation
Indices: 1905072--1905567 Score: 455
Period size: 61 Copynumber: 8.0 Consensus size: 62
1905062 CAAATCTCTC
** *
1905072 TTCTCAAAGTCCATAACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAT-TCTT
* * *
1905135 TTCT-AAA-TCTACGACTCAGTGGCATCTTTTCTTCAAAGTCGACGACTTAGTGGCA-TCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTCTT
* * * * *
1905194 TTCTTCAAAGTCGACGACTTAGTGGCATCTTTTTTTCAAAGTCCACAACTCAATGGCATCTCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCAT-TCTT
** * * *
1905258 TTCT--AAGTTTATGACTAAGTGACATCTTTTCTTCAAAGTCCACGACTCAGTGGCA-TCTCT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTCT-T
* * *
1905318 TTC-CAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCCGTAGCACTTTTCTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCA---TTC-T
1905382 T
62 T
** * ** * ** *
1905383 TTCCTTTTAAGTCCACAAAACTGTGGCA-CCCTT-TT--AAGTCCATGACTCAGTGGCA-TCTT
1 TT-C-TCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTCTT
* * ** *
1905442 GTTC-CAAAGTCCACGACTTAGTGGCATCTTTTCTTTAAAGTCCACGACAAAGTGGCAATCTT
1 -TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTCTT
* * *
1905504 TTCTCAAAGTCCACGACTCAGTGGCAT-TTCTTC-CCAAAGTCCACGACTCTGTGGCATTTTT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT-TTCTTCAAAGTCCACGACTCAGTGGCATTCTT
1905565 TTC
1 TTC
1905568 CTTTTAAGTC
Statistics
Matches: 348, Mismatches: 61, Indels: 50
0.76 0.13 0.11
Matches are distributed among these distances:
57 15 0.04
58 3 0.01
59 15 0.04
60 9 0.03
61 177 0.51
62 73 0.21
63 5 0.01
64 23 0.07
65 5 0.01
66 4 0.01
67 3 0.01
68 16 0.05
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (62 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTCTT
Found at i:1905591 original size:33 final size:33
Alignment explanation
Indices: 1905540--1905834 Score: 289
Period size: 33 Copynumber: 9.1 Consensus size: 33
1905530 TTTCTTCCCA
* * *
1905540 AAGTCCACGACTCTGTGGCATTTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
** * * * *
1905573 AAGTCCATGACCCCGTGGCACCTTGTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* ***
1905606 AAGTCCACAACTCCATAAAACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* *
1905640 AAGTCCACAACTCTGTGGCA-C-----CCTTTG
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1905667 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
1905700 AAGTCCACAAGTCCGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
1905733 AAGTTCACAACTCCGTGGCA-CCTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
** *
1905765 AAGTCCATGACTCCGTGGCACCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTT-CCTTTT
* *
1905799 AAGTCCACAACTCTGTGGCATCTTTCTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1905832 AAG
1 AAG
1905835 CCCATAAGTT
Statistics
Matches: 210, Mismatches: 43, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
27 24 0.11
28 1 0.00
32 27 0.13
33 106 0.50
34 52 0.25
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.37
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
Found at i:1905631 original size:127 final size:127
Alignment explanation
Indices: 1905507--1905746 Score: 300
Period size: 127 Copynumber: 1.9 Consensus size: 127
1905497 CAATCTTTTC
* ** * * *
1905507 TCAAAGTCCACGACTCAGTGGCATTTCTTCCCAAAGTCCACGACTCTGTGGCATTTTTTTCCTTT
1 TCAAAGTCCACAACTCAGTGGCA-CCCTT--CAAAGTCCACAACTCCGTGGCATCTTTTTCCTTT
** *
1905572 TAAGTCCATGACCCCGTGGCACCTTGTTCTTTTTAAGTCCACAACTCCATAAAACTCTTTTTCCT
63 TAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCATAAAACTCTTTTTCCT
** * **
1905637 TTTAAGTCCACAACTCTGTGGCACCCTTTGAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAA
1 TCAAAGTCCACAACTCAGTGGCACCCTTCAAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAA
** *
1905702 GTCCACAAGTCCGTGGCACCTTGTTCCTTTTAAGTTCACAACTCC
66 GTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCC
1905747 GTGGCACCTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
127 71 0.76
129 3 0.03
130 19 0.20
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (127 bp):
TCAAAGTCCACAACTCAGTGGCACCCTTCAAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAA
GTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCATAAAACTCTTTTTCCT
Found at i:1905670 original size:27 final size:27
Alignment explanation
Indices: 1905634--1905686 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1905624 AACTCTTTTT
* *
1905634 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTGAAGTCCACAACTCCGTGGCAC
1905661 CCTTTGAAGTCCACAACTCCGTGGCA
1 CCTTTGAAGTCCACAACTCCGTGGCA
1905687 TCTTTTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (27 bp):
CCTTTGAAGTCCACAACTCCGTGGCAC
Found at i:1905743 original size:66 final size:66
Alignment explanation
Indices: 1905540--1905841 Score: 330
Period size: 66 Copynumber: 4.7 Consensus size: 66
1905530 TTTCTTCCCA
* * * * * *
1905540 AAGTCCACGACTCTGTGGCATTTTTTTCCTTTTAAGTCCATGACCCCGTGGCACCTTGTTCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTGTTCCTTT
1905605 T
66 T
* *** * *
1905606 AAGTCCACAACTCCATAAAACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA-C-----CCTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTGTTCCTT
*
1905665 TG
65 TT
* *
1905667 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAAGTCCGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTGTTCCTTT
1905732 T
66 T
* * * * *
1905733 AAGTTCACAACTCCGTGGCA-CCTTTTCTTTTTAAGTCCATGACTCCGTGGCACCTTTTTCCCTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTGTT-CCTT
1905797 TT
65 TT
* * *
1905799 AAGTCCACAACTCTGTGGCATCTTTCTCCTTTTAAGCCCATAA
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCATAA
1905842 GTTAGTGGCA
Statistics
Matches: 193, Mismatches: 34, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
60 31 0.16
61 21 0.11
65 33 0.17
66 63 0.33
67 45 0.23
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.37
Consensus pattern (66 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCTTGTTCCTTT
T
Found at i:1905867 original size:30 final size:29
Alignment explanation
Indices: 1905832--1905932 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 29
1905822 TTCTCCTTTT
*
1905832 AAGCCCATAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCACCC-TTTCAA
* *
1905862 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTTAGTGGCACCCTTTCAA
* *
1905890 AAGCACACAAGTTGGT-GCAACCCTTTCAA
1 AAGCCCACAAGTTAGTGGC-ACCCTTTCAA
1905919 AAGCCACACAAGTT
1 AAGCC-CACAAGTT
1905933 GGTAGCGTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.03
28 21 0.35
29 9 0.15
30 28 0.47
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.20
Consensus pattern (29 bp):
AAGCCCACAAGTTAGTGGCACCCTTTCAA
Found at i:1905898 original size:28 final size:29
Alignment explanation
Indices: 1905851--1905931 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 29
1905841 AGTTAGTGGC
*
1905851 ACCCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCC-TTTCAAAAGCACACAAGTCAGT-GCA
**
1905882 A-CC-TTCAAAAGCACACAAGTTGGTGCA
1 ACCCTTTCAAAAGCACACAAGTCAGTGCA
1905909 ACCCTTTCAAAAGCCACACAAGT
1 ACCCTTTCAAAAG-CACACAAGT
1905932 TGGTAGCGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 4 0.09
28 20 0.45
29 8 0.18
30 11 0.25
31 1 0.02
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.19
Consensus pattern (29 bp):
ACCCTTTCAAAAGCACACAAGTCAGTGCA
Found at i:1906056 original size:49 final size:49
Alignment explanation
Indices: 1905943--1906443 Score: 346
Period size: 49 Copynumber: 10.8 Consensus size: 49
1905933 GGTAGCGTCT
* * * **
1905943 TCTTCTAAGTCCAATATCGCTGG-CTTGAATCAGCATATTGTCACC-TTA
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCA
* * *
1905991 TCTCTAAGACCAATGTCGCTGGCCTTGAATTAGAATATTGGCACCACCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCA
*
1906040 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCA
* * *
1906083 -C---AAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCACCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCA
* * ** *
1906128 TCTTTAAGACCAATGTCGCTAGCTTTGAATCAG--TA----CAATAGCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCA
* * *
1906171 -C---AAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCACCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCA
* *
1906216 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTTG------CA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCA
* * * * **
1906259 -C---AAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCA
* * *
1906304 TCTTTAAGACCAATGTCGTTGGCCATGAATCAGCACATTGGCACCTTAACCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC---ACCA
* ** * * * **
1906356 TCTTTAAGTCCAATGTCGCCAGCCTTAAATCAGCACATTGGCATCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCA
* * * * *
1906405 TCTTTAAGTCCGATATCGTTGGCCTTGAATTAGCATATT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATT
1906444 AGCATCTTTA
Statistics
Matches: 352, Mismatches: 66, Indels: 69
0.72 0.14 0.14
Matches are distributed among these distances:
39 88 0.25
41 2 0.01
42 3 0.01
43 9 0.03
45 9 0.03
46 3 0.01
47 18 0.05
48 22 0.06
49 158 0.45
52 40 0.11
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (49 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCA
Found at i:1906156 original size:88 final size:88
Alignment explanation
Indices: 1906000--1906347 Score: 534
Period size: 88 Copynumber: 4.0 Consensus size: 88
1905990 ATCTCTAAGA
* * * *
1906000 CCAATGTCGCTGGCCTTGAATTAGAATATTGGCACCACCATCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGCTGGCCT
*
1906065 TGAATCAGCACATTGGCACAAGT
66 TGAATCAGCACATTGGCACAAGC
* * * *
1906088 CCAATATTGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGCTAGCTT
1 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGCTGGCCT
* * *
1906153 TGAATCAGTACAATAGCACAAGC
66 TGAATCAGCACATTGGCACAAGC
1906176 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGCTGGCCT
*
1906241 TGAATCAGCACATTTGCACAAGC
66 TGAATCAGCACATTGGCACAAGC
* ** * *
1906264 CCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGACCAATGTCGTTGGCCA
1 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGCTGGCCT
1906329 TGAATCAGCACATTGGCAC
66 TGAATCAGCACATTGGCAC
1906348 CTTAACCATC
Statistics
Matches: 237, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 237 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (88 bp):
CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGCTGGCCT
TGAATCAGCACATTGGCACAAGC
Found at i:1906195 original size:39 final size:39
Alignment explanation
Indices: 1906137--1906287 Score: 113
Period size: 39 Copynumber: 3.6 Consensus size: 39
1906127 ATCTTTAAGA
* *
1906137 CCAATGTCGCTAGCTTTGAATCAGTACAATAGCACAAGC
1 CCAATATCGCTAGCCTTGAATCAGTACAATAGCACAAGC
** * *
1906176 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGA
1 CCAATATCGCTAGCCTTGAATCAG--TA----CAATAGCA-C---AAGC
* * * * *
1906225 CCAATGTCGCTGGCCTTGAATCAGCACATTTGCACAAGC
1 CCAATATCGCTAGCCTTGAATCAGTACAATAGCACAAGC
1906264 CCAATATCGCTAGCCTTGAATCAG
1 CCAATATCGCTAGCCTTGAATCAG
1906288 CATATTGGCA
Statistics
Matches: 86, Mismatches: 16, Indels: 20
0.70 0.13 0.16
Matches are distributed among these distances:
39 47 0.55
41 2 0.02
42 1 0.01
43 4 0.05
45 5 0.06
46 1 0.01
47 1 0.01
49 25 0.29
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (39 bp):
CCAATATCGCTAGCCTTGAATCAGTACAATAGCACAAGC
Found at i:1906449 original size:49 final size:49
Alignment explanation
Indices: 1906264--1906603 Score: 218
Period size: 52 Copynumber: 6.7 Consensus size: 49
1906254 TTGCACAAGC
* *
1906264 CCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGA
1 CCAATATCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * * *
1906313 CCAATGTCGTTGGCCATGAATCAGCACATTGGCACCTTAACCATCTTTAAGT
1 CCAATATCGCTAGCCTTGAATCAGCACATTGGCATCTT---CATCTTTAAGT
* * *
1906365 CCAATGTCGCCAGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATATCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
* * * * * * * *
1906414 CCGATATCGTTGGCCTTGAATTAGCATATTAGCATCTTTAACATTCCTTAA-C
1 CCAATATCGCTAGCCTTGAATCAGCACATTGGCATC-TT--CA-TCTTTAAGT
* ** * * * *
1906466 CCAATGTCATTGGCCTTCAATTAGCACATTGGCATTCTTCTCATCTTCAAGT
1 CCAATATCGCTAGCCTTGAATCAGCACATTGGCA-TC-T-TCATCTTTAAGT
* * * * * * *
1906518 CTAATGTCACT-GACCGTGAATCAGCATATTGACATTCTTTACATCTTTAAGC
1 CCAATATCGCTAG-CCTTGAATCAGCACATTGGCA-TC-TT-CATCTTTAAGT
* *
1906570 CCAATATCACTAGTCC-TGAATCAGCATATTGGCA
1 CCAATATCGCTAG-CCTTGAATCAGCACATTGGCA
1906604 CCTTTATCAC
Statistics
Matches: 232, Mismatches: 46, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
49 70 0.30
50 2 0.01
51 7 0.03
52 139 0.60
53 13 0.06
54 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (49 bp):
CCAATATCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
Found at i:1906470 original size:101 final size:101
Alignment explanation
Indices: 1906260--1906505 Score: 280
Period size: 101 Copynumber: 2.4 Consensus size: 101
1906250 ACATTTGCAC
* * * *
1906260 AAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGACCAATGTCGTTG
1 AAGCCCAATGTCGCTAGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGTTG
* *
1906325 GCCATGAATCAGCACATTGGCACCTTAACCATCTTT
66 GCCATGAATCAGCACATTAGCACCTTAACCATCCTT
* * * *
1906361 AAGTCCAATGTCGCCAGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCGTTG
1 AAGCCCAATGTCGCTAGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGTTG
* * * *
1906426 GCCTTGAATTAGCATATTAGCATCTTTAA-CATTCCTT
66 GCCATGAATCAGCACATTAGCA-CCTTAACCA-TCCTT
** * * *
1906463 AA-CCCAATGTCATTGGCCTTCAATTAGCACATTGGCATTCTTC
1 AAGCCCAATGTCGCTAGCCTTAAATCAGCACATTGGCA-TCTTC
1906506 TCATCTTCAA
Statistics
Matches: 121, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
101 105 0.87
102 16 0.13
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (101 bp):
AAGCCCAATGTCGCTAGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGTTG
GCCATGAATCAGCACATTAGCACCTTAACCATCCTT
Found at i:1907280 original size:19 final size:21
Alignment explanation
Indices: 1907234--1907288 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
1907224 TTTCAACAAT
1907234 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
1907255 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAACAGTAA
*
1907274 TTGTATCGCTACAAA
1 TTGTATCGATACAAA
1907289 GCTACTACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:1907327 original size:20 final size:21
Alignment explanation
Indices: 1907302--1907357 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
1907292 ACTACCAAGG
1907302 CAATGTATCGATACATT-ATT
1 CAATGTATCGATACATTGATT
1907322 CAATGTATCGATACATTGATT
1 CAATGTATCGATACATTGATT
**
1907343 -TTTGTATCGATACAT
1 CAATGTATCGATACAT
1907358 CTGGGAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (21 bp):
CAATGTATCGATACATTGATT
Found at i:1907391 original size:21 final size:20
Alignment explanation
Indices: 1907367--1907408 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1907357 TCTGGGAATT
1907367 TTATCCAGATGTATCAATACA
1 TTATCCAG-TGTATCAATACA
* *
1907388 TTATTCAGTGTATCGATACA
1 TTATCCAGTGTATCAATACA
1907408 T
1 T
1907409 GTAGGCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (20 bp):
TTATCCAGTGTATCAATACA
Found at i:1912067 original size:17 final size:17
Alignment explanation
Indices: 1912045--1912086 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
1912035 AATGAGGAAT
1912045 GATCCCCTTAACACCGA
1 GATCCCCTTAACACCGA
1912062 GATCCCCTTAACACCGA
1 GATCCCCTTAACACCGA
*
1912079 AATCCCCT
1 GATCCCCT
1912087 CTGCTAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.43, G:0.10, T:0.19
Consensus pattern (17 bp):
GATCCCCTTAACACCGA
Found at i:1912829 original size:19 final size:18
Alignment explanation
Indices: 1912778--1912863 Score: 56
Period size: 19 Copynumber: 4.8 Consensus size: 18
1912768 TTTCAAACAA
*
1912778 TTTGTATCGATACAAACAG
1 TTTGTATCGATACATA-AG
* *
1912797 TAAATGTATTGATACATAAG
1 T--TTGTATCGATACATAAG
1912817 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
1912833 --TGTATTGATACATAAG
1 TTTGTATCGATACATAAG
1912849 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1912864 ATGTATCGCT
Statistics
Matches: 51, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
13 10 0.20
15 2 0.04
17 2 0.04
19 22 0.43
20 3 0.06
21 12 0.24
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1912840 original size:32 final size:32
Alignment explanation
Indices: 1912799--1912869 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1912789 ACAAACAGTA
1912799 AATGTATTGATACATAAGTGTTGTATCGATAC
1 AATGTATTGATACATAAGTGTTGTATCGATAC
*
1912831 AATGTATTGATACATAAGTTTTGTATCGATAC
1 AATGTATTGATACATAAGTGTTGTATCGATAC
1912863 AATGTAT
1 AATGTAT
1912870 CGCTACGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.39
Consensus pattern (32 bp):
AATGTATTGATACATAAGTGTTGTATCGATAC
Found at i:1912914 original size:21 final size:21
Alignment explanation
Indices: 1912888--1912929 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1912878 AGCTACTGCC
*
1912888 AAGGAAATGTTTCGATACATT
1 AAGGAAATGTATCGATACATT
1912909 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1912930 GATCTTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:1912994 original size:20 final size:21
Alignment explanation
Indices: 1912959--1913001 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
1912949 TCTAAAAATT
1912959 TTACCCAGACGTATCGATACA
1 TTACCCAGACGTATCGATACA
*
1912980 TTACCCA-ATGTATCGATACA
1 TTACCCAGACGTATCGATACA
1913000 TT
1 TT
1913002 CAGGCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.30
Consensus pattern (21 bp):
TTACCCAGACGTATCGATACA
Found at i:1915468 original size:51 final size:51
Alignment explanation
Indices: 1915398--1915494 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
1915388 CTAACCCCGG
* * * *
1915398 TTTTATTTCTAAAATACCAA-TTCTCCATAATCGGGGATATTCCAACTTCGA
1 TTTTATTTCCAAAACACCAACTT-TCCACAATCGGGGATACTCCAACTTCGA
*
1915449 TTTTATTTCCAAAACACCAACTTTTCACAATCGGGGATACTCCAAC
1 TTTTATTTCCAAAACACCAACTTTCCACAATCGGGGATACTCCAAC
1915495 CCCGTTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 38 0.95
52 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (51 bp):
TTTTATTTCCAAAACACCAACTTTCCACAATCGGGGATACTCCAACTTCGA
Found at i:1915564 original size:75 final size:77
Alignment explanation
Indices: 1915471--1915657 Score: 245
Period size: 75 Copynumber: 2.4 Consensus size: 77
1915461 AACACCAACT
* * *
1915471 TTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACTCCAACCCCGG-TTTTTTT
1 TTTCTCAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACCCCAACCCCGGCTTTATTT
1915535 CTAAAACATCAAA
66 CTAAAACAT-AAA
* * *
1915548 TTT-TC-ATCGGGGATACTCCAACCTCGTTATTTTCGAGGGGATACCCCAACCCCGGCTTTATTT
1 TTTCTCAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACCCCAACCCCGGCTTTATTT
* **
1915611 CTAAAATATTTA
66 CTAAAACATAAA
1915623 TTTCTCATAATCGGGGATACTCCAACCCCGTTATT
1 TTTCTC--AATCGGGGATACTCCAACCCCGTTATT
1915658 ATCTCCAAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
75 50 0.53
76 17 0.18
77 3 0.03
79 25 0.26
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (77 bp):
TTTCTCAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACCCCAACCCCGGCTTTATTT
CTAAAACATAAA
Found at i:1921709 original size:13 final size:13
Alignment explanation
Indices: 1921691--1921715 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1921681 CATAAAATGT
1921691 TGTATCGATACAA
1 TGTATCGATACAA
1921704 TGTATCGATACA
1 TGTATCGATACA
1921716 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1921713 original size:33 final size:33
Alignment explanation
Indices: 1921671--1921740 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1921661 TTCAACGATT
1921671 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1921704 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1921737 TGTA
1 TGTA
1921741 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1921799 original size:13 final size:13
Alignment explanation
Indices: 1921781--1921805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1921771 ATTACTCACA
1921781 TGTATCGATACAT
1 TGTATCGATACAT
1921794 TGTATCGATACA
1 TGTATCGATACA
1921806 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1921870 original size:52 final size:52
Alignment explanation
Indices: 1921814--1921934 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1921804 CACTGATCTT
*
1921814 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1921866 TGTATCGATACATGCAGGCAAATTTGTCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1921918 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1921935 TAACTTTTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1929218 original size:14 final size:14
Alignment explanation
Indices: 1929199--1929236 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
1929189 CCTAATCTTC
*
1929199 ACAAAAAAAAACAA
1 ACAAAAAAAAAAAA
1929213 ACAAAAAAAAAAAA
1 ACAAAAAAAAAAAA
1929227 ACAAAAAAAA
1 ACAAAAAAAA
1929237 GGGAAAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
ACAAAAAAAAAAAA
Found at i:1929244 original size:18 final size:18
Alignment explanation
Indices: 1929201--1929236 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1929191 TAATCTTCAC
1929201 AAAAAAAAACAAACAAAA
1 AAAAAAAAACAAACAAAA
1929219 AAAAAAAAACAAA-AAAA
1 AAAAAAAAACAAACAAAA
1929236 A
1 A
1929237 GGGAAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACAAACAAAA
Found at i:1930259 original size:31 final size:31
Alignment explanation
Indices: 1930221--1930365 Score: 188
Period size: 31 Copynumber: 4.7 Consensus size: 31
1930211 AATAATAAAA
1930221 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* *
1930252 AAAGTCCACGACTCAGTGGCAATCTCTGCTT
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* *
1930283 AAAGTCCACGACTCAGTGGC-ATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAAT-CTCTTC-TC
*
1930315 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
*
1930345 AAAGTCCACGACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1930366 CTCTTTAAAG
Statistics
Matches: 104, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
30 25 0.24
31 55 0.53
32 24 0.23
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:1930408 original size:34 final size:34
Alignment explanation
Indices: 1930369--1930860 Score: 611
Period size: 34 Copynumber: 14.8 Consensus size: 34
1930359 CGTGGCACTC
*
1930369 TTTAAAGCCCACAACTCCGTGGCACTTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
*
1930403 TTTAAAGCCCACAGCTCCGTGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
*
1930437 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
* *
1930471 TTCAAAGCCCACGACTCCGTGGCA----C-TCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1930500 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
* * *
1930534 TTCAAAGCCCACGACTCCGTGGCA-C--C--C-G
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
*
1930562 TTT-AAGCCCAAAACTCCGTGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
** **
1930595 TCCAAAGCCCACAACTCTATGGCACCTTC-T-TT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1930627 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
* * *
1930661 TTCAAAGCCCACAACTCCGTGGCACTTTTTTC-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
*
1930694 TTTAAAGCCCACAACTTCGTGGCACTCTTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTCTTCTT
* * *
1930730 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
*
1930764 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTCTT-CTT
* *
1930801 TTCAAAGCCCACAACTCCGTGGCACCTTTTTC-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
*
1930834 TTTAAAGCCCACAACTCTGTGGCACCT
1 TTTAAAGCCCACAACTCCGTGGCACCT
1930861 ACGACTTTGT
Statistics
Matches: 399, Mismatches: 39, Indels: 41
0.83 0.08 0.09
Matches are distributed among these distances:
27 18 0.05
28 3 0.01
29 27 0.07
30 2 0.01
31 1 0.00
32 28 0.07
33 55 0.14
34 197 0.49
35 12 0.03
36 30 0.08
37 26 0.07
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
Found at i:1931286 original size:13 final size:13
Alignment explanation
Indices: 1931268--1931293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1931258 TACAGCAAGT
1931268 ATGTATCGATACA
1 ATGTATCGATACA
1931281 ATGTATCGATACA
1 ATGTATCGATACA
1931294 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1931730 original size:12 final size:12
Alignment explanation
Indices: 1931713--1931738 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1931703 TAATTCACAC
1931713 ATATCAAAATTT
1 ATATCAAAATTT
1931725 ATATCAAAATTT
1 ATATCAAAATTT
1931737 AT
1 AT
1931739 TTGCATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATCAAAATTT
Found at i:1932922 original size:13 final size:13
Alignment explanation
Indices: 1932904--1932928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1932894 ACTGAAGCAA
1932904 TGTATCGATACAT
1 TGTATCGATACAT
1932917 TGTATCGATACA
1 TGTATCGATACA
1932929 ATTTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1936079 original size:34 final size:35
Alignment explanation
Indices: 1936041--1936107 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1936031 CCTTACAAGA
1936041 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1936075 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1936108 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1937067 original size:13 final size:13
Alignment explanation
Indices: 1937049--1937074 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1937039 TACAGCAAGT
1937049 ATGTATCGATACA
1 ATGTATCGATACA
1937062 ATGTATCGATACA
1 ATGTATCGATACA
1937075 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1937596 original size:34 final size:35
Alignment explanation
Indices: 1937533--1937599 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1937523 CTAAGTGATT
1937533 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1937569 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1937600 TCTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1937937 original size:35 final size:36
Alignment explanation
Indices: 1937850--1937960 Score: 151
Period size: 33 Copynumber: 3.2 Consensus size: 36
1937840 TGAGCTCACA
1937850 TTCCCTTTTCAAAGCCCACAACTCCGTGGCACT-TTT
1 TTCCCTTTT-AAAGCCCACAACTCCGTGGCACTCTTT
*
1937886 TT--CTTTTAAAACCCACAACTCCGTGGCACTCTTT
1 TTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
*
1937920 TTCCCTTTT-AAGTCCACAACTCCGTGGCA-TCTTT
1 TTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
*
1937954 TTTCCTT
1 TTCCCTT
1937961 CCCAAAGCCC
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
33 22 0.32
34 21 0.31
35 18 0.26
36 7 0.10
ACGTcount: A:0.19, C:0.33, G:0.10, T:0.38
Consensus pattern (36 bp):
TTCCCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
Found at i:1937994 original size:32 final size:31
Alignment explanation
Indices: 1937957--1938054 Score: 160
Period size: 32 Copynumber: 3.1 Consensus size: 31
1937947 CATCTTTTTT
1937957 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
*
1937988 CTCTTCCTAAAGCCCACACAAGTCGGTGGCAA
1 C-CTTCCCAAAGCCCACACAAGTCGGTGGCAA
1938020 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTC--CCAAAGCCCACACAAGTCGGTGGCAA
1938053 CC
1 CC
1938055 CCTCTAAGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.08
32 30 0.48
33 27 0.44
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (31 bp):
CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
Found at i:1938038 original size:33 final size:32
Alignment explanation
Indices: 1937962--1938054 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
1937952 TTTTTCCTTC
1937962 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
1937993 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
1938027 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
1938055 CCTCTAAGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:1938177 original size:49 final size:49
Alignment explanation
Indices: 1938059--1938525 Score: 571
Period size: 49 Copynumber: 9.7 Consensus size: 49
1938049 GCAACCCCTC
* *
1938059 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * *
1938111 TAAGTCCAATGTTGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1938160 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1938209 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1938258 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1938307 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1938350 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1938399 TAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1938442 TAAGTCCAATATAGCTGGTCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
1938494 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
1938526 GTTGACATCC
Statistics
Matches: 360, Mismatches: 40, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
43 76 0.21
45 2 0.01
47 1 0.00
49 211 0.59
50 3 0.01
52 67 0.19
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1938231 original size:98 final size:98
Alignment explanation
Indices: 1938059--1938591 Score: 721
Period size: 98 Copynumber: 5.4 Consensus size: 98
1938049 GCAACCCCTC
* * * *
1938059 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
1938124 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
63 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1938160 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1938225 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
1938258 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1938323 GGCCTTGACTCAGCACATTGGCA----C--CTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
*
1938350 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCTAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
1938415 GGCCTTGAATCAGCACATTGGCA----C--CTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
1938442 TAAGTCCAATATAGCTGGTCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATGTA
* * *
1938507 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
63 GCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCATCTT
* * * *
1938549 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1938592 TATCACTTTT
Statistics
Matches: 397, Mismatches: 20, Indels: 26
0.90 0.05 0.06
Matches are distributed among these distances:
92 128 0.32
94 6 0.02
95 41 0.10
98 142 0.36
99 3 0.01
101 37 0.09
105 6 0.02
107 34 0.09
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (98 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:1938375 original size:92 final size:92
Alignment explanation
Indices: 1938255--1938525 Score: 461
Period size: 92 Copynumber: 2.9 Consensus size: 92
1938245 GCACCTTCAT
1938255 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
1938320 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
1938347 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCTAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1938412 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
1938439 CTTTAAGTCCAATATAGCTGGTCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
1938504 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
1938526 GTTGACATCC
Statistics
Matches: 169, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
92 128 0.76
94 5 0.03
95 36 0.21
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1938568 original size:55 final size:55
Alignment explanation
Indices: 1938439--1938822 Score: 255
Period size: 67 Copynumber: 6.7 Consensus size: 55
1938429 ACATTGGCAC
* * *
1938439 CTTTAAGTCCAATATAGCTGGTCTTGAATCAGCATATTGGCA--CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
1938491 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
1938546 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
* *
1938610 CATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
1 C---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
** * **
1938662 CTTTAAGTTTAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * * *
1938717 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--TC-TC
1938782 AT
54 AT
*
1938784 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
1938823 GCACCTTCAT
Statistics
Matches: 254, Mismatches: 45, Indels: 52
0.72 0.13 0.15
Matches are distributed among these distances:
49 35 0.14
50 1 0.00
52 41 0.16
54 8 0.03
55 63 0.25
56 2 0.01
57 2 0.01
58 2 0.01
59 1 0.00
61 8 0.03
62 6 0.02
63 5 0.02
64 7 0.03
66 4 0.02
67 69 0.27
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:1938729 original size:171 final size:171
Alignment explanation
Indices: 1938439--1938833 Score: 682
Period size: 171 Copynumber: 2.3 Consensus size: 171
1938429 ACATTGGCAC
* *
1938439 CTTTAAGTCCAATATAGCTGGTCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
1938504 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
1938569 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* * *
1938613 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTTAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
1938678 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
*
1938743 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
1938784 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1938834 ATCTCTAAAA
Statistics
Matches: 211, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
171 169 0.80
172 5 0.02
174 37 0.18
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
Found at i:1939473 original size:13 final size:13
Alignment explanation
Indices: 1939455--1939479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1939445 CATAAAATGT
1939455 TGTATCGATACAA
1 TGTATCGATACAA
1939468 TGTATCGATACA
1 TGTATCGATACA
1939480 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1939477 original size:33 final size:33
Alignment explanation
Indices: 1939435--1939504 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1939425 TTCAACGATT
1939435 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1939468 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1939501 TGTA
1 TGTA
1939505 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1939563 original size:13 final size:13
Alignment explanation
Indices: 1939545--1939569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1939535 ATTACTCACA
1939545 TGTATCGATACAT
1 TGTATCGATACAT
1939558 TGTATCGATACA
1 TGTATCGATACA
1939570 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1939634 original size:52 final size:52
Alignment explanation
Indices: 1939578--1939698 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1939568 CACTGATCTT
*
1939578 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1939630 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1939682 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1939699 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1943620 original size:14 final size:14
Alignment explanation
Indices: 1943601--1943630 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1943591 ATTTCCAAAG
1943601 AGTTTTGCAGATAT
1 AGTTTTGCAGATAT
1943615 AGTTTTGCAGATAT
1 AGTTTTGCAGATAT
1943629 AG
1 AG
1943631 CAGAGGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (14 bp):
AGTTTTGCAGATAT
Found at i:2112653 original size:11 final size:10
Alignment explanation
Indices: 2112637--2112684 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 10
2112627 ATGGTCAGCT
*
2112637 AAAAAACGAG
1 AAAAAAAGAG
2112647 AAAAAAAGAG
1 AAAAAAAGAG
2112657 AAAGAAAAGAGAG
1 -AA-AAAA-AGAG
2112670 AAAAATAAGAG
1 AAAAA-AAGAG
2112681 AAAA
1 AAAA
2112685 TAGGTAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.27
11 13 0.39
12 7 0.21
13 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:2113019 original size:23 final size:23
Alignment explanation
Indices: 2112993--2113067 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
2112983 TTCAATTTGG
2112993 ATTTTGATGTGATTTATGTTTAA
1 ATTTTGATGTGATTTATGTTTAA
* **
2113016 ATTTTTGGAATGT--TTTCA-ATTTGG
1 A-TTTT-G-ATGTGATTT-ATGTTTAA
2113040 ATTTTGATGTGATTTATGTTTAA
1 ATTTTGATGTGATTTATGTTTAA
2113063 ATTTT
1 ATTTT
2113068 TGAATTATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
21 4 0.10
22 2 0.05
23 16 0.41
24 11 0.28
25 2 0.05
26 4 0.10
ACGTcount: A:0.24, C:0.01, G:0.17, T:0.57
Consensus pattern (23 bp):
ATTTTGATGTGATTTATGTTTAA
Found at i:2113022 original size:24 final size:24
Alignment explanation
Indices: 2112994--2113070 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
2112984 TCAATTTGGA
2112994 TTTTGATGTGATTTATGTTTAAAT
1 TTTTGATGTGATTTATGTTTAAAT
* **
2113018 TTTTGGAATGT--TTTCA-ATTTGGA-
1 TTTT-G-ATGTGATTT-ATGTTTAAAT
2113041 TTTTGATGTGATTTATGTTTAAAT
1 TTTTGATGTGATTTATGTTTAAAT
2113065 TTTTGA
1 TTTTGA
2113071 ATTATTTCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 4 0.10
22 2 0.05
23 11 0.28
24 17 0.43
25 2 0.05
26 4 0.10
ACGTcount: A:0.23, C:0.01, G:0.18, T:0.57
Consensus pattern (24 bp):
TTTTGATGTGATTTATGTTTAAAT
Found at i:2113023 original size:47 final size:47
Alignment explanation
Indices: 2112969--2113069 Score: 202
Period size: 47 Copynumber: 2.1 Consensus size: 47
2112959 ATATTGAATG
2112969 ATTTTTGGAATGTTTTCAATTTGGATTTTGATGTGATTTATGTTTAA
1 ATTTTTGGAATGTTTTCAATTTGGATTTTGATGTGATTTATGTTTAA
2113016 ATTTTTGGAATGTTTTCAATTTGGATTTTGATGTGATTTATGTTTAA
1 ATTTTTGGAATGTTTTCAATTTGGATTTTGATGTGATTTATGTTTAA
2113063 ATTTTTG
1 ATTTTTG
2113070 AATTATTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.56
Consensus pattern (47 bp):
ATTTTTGGAATGTTTTCAATTTGGATTTTGATGTGATTTATGTTTAA
Found at i:2119708 original size:13 final size:13
Alignment explanation
Indices: 2119690--2119716 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2119680 ACATTATGCT
2119690 TTGTATCGATACA
1 TTGTATCGATACA
2119703 TTGTATCGATACA
1 TTGTATCGATACA
2119716 T
1 T
2119717 GGATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2125227 original size:13 final size:13
Alignment explanation
Indices: 2125209--2125248 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2125199 ACAATATTCC
2125209 TTGTATCGATACA
1 TTGTATCGATACA
2125222 TTGTATCGATACA
1 TTGTATCGATACA
* * *
2125235 CTATATCAATACA
1 TTGTATCGATACA
2125248 T
1 T
2125249 GGGTTACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2125412 original size:20 final size:21
Alignment explanation
Indices: 2125376--2125415 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2125366 TTACAAATTT
*
2125376 CTTCATTTTTACTTCAAAATA
1 CTTCATTTTTACATCAAAATA
2125397 CTTCATTTTT-CATCAAAAT
1 CTTCATTTTTACATCAAAAT
2125416 CACCAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (21 bp):
CTTCATTTTTACATCAAAATA
Found at i:2127383 original size:13 final size:13
Alignment explanation
Indices: 2127365--2127391 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2127355 TGAAATTTAT
2127365 ACGATGGGGAGTA
1 ACGATGGGGAGTA
2127378 ACGATGGGGAGTA
1 ACGATGGGGAGTA
2127391 A
1 A
2127392 AGTCAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.44, T:0.15
Consensus pattern (13 bp):
ACGATGGGGAGTA
Found at i:2127773 original size:33 final size:33
Alignment explanation
Indices: 2127728--2127825 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
2127718 ACACACCCAG
* *
2127728 ATGTATCGATACATTATGTTTTGTATCGATACA
1 ATGTATCAATACATTATGCTTTGTATCGATACA
2127761 ATGTATCAATACATTATGCTTTGTATCGATACA
1 ATGTATCAATACATTATGCTTTGTATCGATACA
*
2127794 ATGTATCAATACATGT-T-CATTGTATCGATACA
1 ATGTATCAATACAT-TATGCTTTGTATCGATACA
2127826 TGGACAATTG
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
32 14 0.23
33 46 0.75
34 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (33 bp):
ATGTATCAATACATTATGCTTTGTATCGATACA
Found at i:2127837 original size:20 final size:20
Alignment explanation
Indices: 2127791--2127843 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
2127781 TTGTATCGAT
* *
2127791 ACAA-TGTATCAATACATGT
1 ACAATTGTATCGATACATGG
*
2127810 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
2127829 ACAATTGTATCGATA
1 ACAATTGTATCGATA
2127844 TATGAAACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 1 0.04
19 15 0.54
20 12 0.43
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:2127930 original size:20 final size:20
Alignment explanation
Indices: 2127876--2127930 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2127866 CTACCATTGT
** *
2127876 TTGTATCAATACATGGTACA
1 TTGTATCAATACATTATAAA
*
2127896 TTGTATCGATACATTATAAA
1 TTGTATCAATACATTATAAA
2127916 TTGTATCAATACATT
1 TTGTATCAATACATT
2127931 GGTTTTAACG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
TTGTATCAATACATTATAAA
Found at i:2130241 original size:48 final size:47
Alignment explanation
Indices: 2130171--2130363 Score: 183
Period size: 48 Copynumber: 4.0 Consensus size: 47
2130161 CTATATCTGA
2130171 TCAAACTCTTTTCACTCTTGTTCAATTATATTAGCGTTAGGACCTGG
1 TCAAACTCTTTTCACTCTTGTTCAATTATATTAGCGTTAGGACCTGG
* *
2130218 TCAAACTCTTTTTCACTCTTGTTCAATTATATTAGCATTAGG-CTTGG
1 TCAAACTC-TTTTCACTCTTGTTCAATTATATTAGCGTTAGGACCTGG
* ** * * * **
2130265 TCAAACTCTCTCTTTCACTCTCGTTTGATTGACTGTATTGGTGTTATGACCTAA
1 TCAAA--CTCT-TTTCACTCTTGTTCAATT-A---TATTAGCGTTAGGACCTGG
**
2130319 TCAAACTCTTTTCA-TCATTGTTTGATTATATTAGCGTTAGGACCT
1 TCAAACTCTTTTCACTC-TTGTTCAATTATATTAGCGTTAGGACCT
2130364 AATTAAACTT
Statistics
Matches: 120, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
47 31 0.26
48 33 0.28
49 18 0.15
50 4 0.03
51 14 0.12
52 4 0.03
53 9 0.08
54 7 0.06
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (47 bp):
TCAAACTCTTTTCACTCTTGTTCAATTATATTAGCGTTAGGACCTGG
Found at i:2130372 original size:47 final size:47
Alignment explanation
Indices: 2130170--2130390 Score: 180
Period size: 47 Copynumber: 4.6 Consensus size: 47
2130160 ACTATATCTG
** *
2130170 ATCAAACTCTTTTCACTCTTGTTCAATTATATTAGCGTTAGGACCTG
1 ATCAAACTCTTTTCACTCTTGTTTGATTATATTAGCGTTAGGACCTA
* ** * * *
2130217 GTCAAACTCTTTTTCACTCTTGTTCAATTATATTAGCATTAGG-CTTG
1 ATCAAACTC-TTTTCACTCTTGTTTGATTATATTAGCGTTAGGACCTA
* * * * *
2130264 GTCAAACTCTCTCTTTCACTCTCGTTTGATTGACTGTATTGGTGTTATGACCTA
1 ATCAAA--CTCT-TTTCACTCTTGTTTGATT-A---TATTAGCGTTAGGACCTA
2130318 ATCAAACTCTTTTCA-TCATTGTTTGATTATATTAGCGTTAGGACCTA
1 ATCAAACTCTTTTCACTC-TTGTTTGATTATATTAGCGTTAGGACCTA
*
2130365 ATTAAACT-TTTCTCAC-CATTGTTTGA
1 ATCAAACTCTTT-TCACTC-TTGTTTGA
2130391 CTTTATTGAC
Statistics
Matches: 144, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
46 3 0.02
47 52 0.36
48 33 0.23
49 18 0.12
50 4 0.03
51 14 0.10
52 4 0.03
53 9 0.06
54 7 0.05
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (47 bp):
ATCAAACTCTTTTCACTCTTGTTTGATTATATTAGCGTTAGGACCTA
Found at i:2130765 original size:126 final size:125
Alignment explanation
Indices: 2130490--2131049 Score: 393
Period size: 126 Copynumber: 4.5 Consensus size: 125
2130480 ATCGGTTAAA
* * * ** * * * *
2130490 TTTTTTAT-CTTTGTTTACCCA-TCGACTTTAACCCAAGAGACTTCTTTACCCTTTGTTTGCCTG
1 TTTTTTATCCTTTGTCT-GCCAGTCGGCTTTAACCTTAGAGACTTCTTTACCTTTTGTCTACCCG
* * ** *
2130553 TCAGCTTTGACCAGATGATTTCTTTATCCTTTTTATGCCTATCGGCTTTGACTTAGGAGAC
65 TCAGCTTTGACCAGATGACTTCTTTATCCTTTATATGCCTATCAACTTTGACCTAGGAGAC
* ***
2130614 TTTTTTATCCTTTGTTTGTTTGTCGGCTTTAA-CTTGAGAGACTTCTTTACCTTTTGTCTACCCG
1 TTTTTTATCCTTTGTCTGCCAGTCGGCTTTAACCTT-AGAGACTTCTTTACCTTTTGTCTACCCG
* * *
2130678 T-GGACTTTGACTCAGGA-GACTTCTTTATCCTTTATATGCTTTTCAACTTTGACCCTA-GAGAC
65 TCAG-CTTTGAC-CA-GATGACTTCTTTATCCTTTATATGCCTATCAACTTTGA-CCTAGGAGAC
* * * **
2130740 TTTTTTATCTTTTGTCTGCCAGTCGGCTTTAACCTTAGAGACTGCTTTACCTTTTTTCTACTAGT
1 TTTTTTATCCTTTGTCTGCCAGTCGGCTTTAACCTTAGAGACTTCTTTACCTTTTGTCTACCCGT
* ** * * * ** *** * *
2130805 CAGCTTTGACCTTGAAAACTTTTTTA-CCTTTGTCTGCCCGTTGGCTTTGACTTGGGAGAC
66 CAGCTTTGACC-AGATGACTTCTTTATCCTTTATATGCCTATCAACTTTGACCTAGGAGAC
* * * *** *
2130865 TTTTTTA-CCTTTGTCTACCCGTCGACTTTAACCGGGGAGACTTCTTTACCCTTTGTCTACCCGT
1 TTTTTTATCCTTTGTCTGCCAGTCGGCTTTAACCTTAGAGACTTCTTTACCTTTTGTCTACCCGT
* * * * * * * * *
2130929 C-GGTTCTAATCTAGGTGATTTCTTTATCCTTTGTATGCCTGTCAGCTTTGACTTAGGAGAC
66 CAGCTT-TGA-CCAGATGACTTCTTTATCCTTTATATGCCTATCAACTTTGACCTAGGAGAC
* * ** * * *
2130990 TTCTTTATCCTTTGTCTGCTTA-TCAACTTTGACCTTGGGAGACTTCTTTATCTTTTGTCT
1 TTTTTTATCCTTTGTCTGC-CAGTCGGCTTTAACCTT-AGAGACTTCTTTACCTTTTGTCT
2131050 GCCCATCGAT
Statistics
Matches: 340, Mismatches: 78, Indels: 33
0.75 0.17 0.07
Matches are distributed among these distances:
123 3 0.01
124 68 0.20
125 116 0.34
126 123 0.36
127 30 0.09
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (125 bp):
TTTTTTATCCTTTGTCTGCCAGTCGGCTTTAACCTTAGAGACTTCTTTACCTTTTGTCTACCCGT
CAGCTTTGACCAGATGACTTCTTTATCCTTTATATGCCTATCAACTTTGACCTAGGAGAC
Found at i:2131047 original size:43 final size:42
Alignment explanation
Indices: 2130526--2131073 Score: 215
Period size: 42 Copynumber: 13.1 Consensus size: 42
2130516 TTTAACCCAA
* * * * *
2130526 GAGACTTCTTTACCCTTTGTTTGCCTGTCAGCTTTGAC-CA-
1 GAGACTTCTTTATCCTTTGTCTGCCTATCAACTTTGACTTAG
* * * **
2130566 GATGATTTCTTTATCCTTTTTATGCCTATCGGCTTTGACTTAG
1 GA-GACTTCTTTATCCTTTGTCTGCCTATCAACTTTGACTTAG
* * ** * ** *
2130609 GAGACTTTTTTATCCTTTGTTTGTTTGTCGGCTTTAACTT-G
1 GAGACTTCTTTATCCTTTGTCTGCCTATCAACTTTGACTTAG
* ** ** *
2130650 AGAGACTTCTTTA-CCTTTTGTCTACCCGTGGACTTTGACTCAG
1 -GAGACTTCTTTATCC-TTTGTCTGCCTATCAACTTTGACTTAG
* * * * *
2130693 GAGACTTCTTTATCCTTTATATGCTTTTCAACTTTGACCCTA-
1 GAGACTTCTTTATCCTTTGTCTGCCTATCAACTTTGA-CTTAG
* * ** *
2130735 GAGACTTTTTTATCTTTTGTCTGCC-AGTCGGCTTTAACCTTA-
1 GAGACTTCTTTATCCTTTGTCTGCCTA-TCAACTTTGA-CTTAG
* * * *
2130777 GAGACTGCTTTA-CCTTTTTTCT-ACTAGTCAGCTTTGACCTT-G
1 GAGACTTCTTTATCC-TTTGTCTGCCTA-TCAACTTTGA-CTTAG
* * * ** *** *
2130819 AAAACTTTTTTA-CCTTTGTCTGCCCGTTGGCTTTGACTTGG
1 GAGACTTCTTTATCCTTTGTCTGCCTATCAACTTTGACTTAG
* * ** * * ***
2130860 GAGACTTTTTTA-CCTTTGTCTACCCGTCGACTTTAACCGGG
1 GAGACTTCTTTATCCTTTGTCTGCCTATCAACTTTGACTTAG
* * ** ** *
2130901 GAGACTTCTTTACCCTTTGTCTACCCGTC-GGTTCT-AATCTAG
1 GAGACTTCTTTATCCTTTGTCTGCCTATCAACTT-TGACT-TAG
* * * * *
2130943 GTGATTTCTTTATCCTTTGTATGCCTGTCAGCTTTGACTTAG
1 GAGACTTCTTTATCCTTTGTCTGCCTATCAACTTTGACTTAG
* *
2130985 GAGACTTCTTTATCCTTTGTCTGCTTATCAACTTTGACCTTGG
1 GAGACTTCTTTATCCTTTGTCTGCCTATCAACTTTGA-CTTAG
* * * * *
2131028 GAGACTTCTTTATCTTTTGTCTGCCCATCGATTTTGACCTAG
1 GAGACTTCTTTATCCTTTGTCTGCCTATCAACTTTGACTTAG
2131070 GAGA
1 GAGA
2131074 TTTTGTTACC
Statistics
Matches: 389, Mismatches: 99, Indels: 38
0.74 0.19 0.07
Matches are distributed among these distances:
40 5 0.01
41 97 0.25
42 239 0.61
43 48 0.12
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (42 bp):
GAGACTTCTTTATCCTTTGTCTGCCTATCAACTTTGACTTAG
Found at i:2132825 original size:22 final size:21
Alignment explanation
Indices: 2132788--2132828 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
2132778 ATATTTTAAG
2132788 AAAATAAAAAATAAATAAAAT
1 AAAATAAAAAATAAATAAAAT
2132809 AAAATAAAATAATAAATAAA
1 AAAATAAAA-AATAAATAAA
2132829 CACATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAATAAAAAATAAATAAAAT
Found at i:2138160 original size:437 final size:437
Alignment explanation
Indices: 2137284--2138160 Score: 1346
Period size: 437 Copynumber: 2.0 Consensus size: 437
2137274 ACTCTTCGAA
* * *
2137284 TCCTTCATTCTTTGTATGCTGGGGTGACCGGGCTCCTACACGTCTCTAACTCTATTTTAATGGTA
1 TCCTTCATTCTTTGTATGCTGAGGTGACCGGGCTCCCACACCTCTCTAACTCTATTTTAATGGTA
* * *
2137349 TGTTTCCATGCTTGAGTCACTTTCCTAACCTTCATCATGTGATCACCCTCTCTATATTCAAATCC
66 TATTTCCATGCTTGAGTCACTTTCCTAACCTTCATCATGTGATCACCCACTCTATAGTCAAATCC
* *
2137414 AACTGATCTAACCCATATGTTGGGAGAATGAATTGTTTTGATCCATATTGCCTTTGAACCAATAA
131 AACTGATCTAACCCATATGTTGGGAGAACGAATTGTTTTGATCCATATTACCTTTGAACCAATAA
* *
2137479 TGGAGCGTAGCTGACACCCCCCCCCAAATGCCTAGTAAGGTAGTCTACTCTTTTTACCACATTTG
196 TGGAGCGTAGCTGACA-CCCCCCCCAAATGCCTAGTAAGGTACTCTACTCTCTTTACCACATTTG
* * * *
2137544 TACAACACTAGATCATATGACAACCAAGGGGTTACCTAAGTTTAGTCTTCACTTTGTAAATTTTG
260 TACAACACTAGATCATATGACAACCAAAGGGTTACCCAAGTTTAATCTTCACTTTGTAAATTTTA
2137609 AAGCTTTGCAACCCACAATACTTCGGTAAGATCATTAGGCCACTCTCTTTTTGCAAACTCAATAA
325 AAGCTTTGCAACCCACAATACTTCGGTAAGATCATTAGGCCACTCTCTTTTTGCAAACTCAATAA
* *
2137674 TAGGCACAAAAGGGTCTATATAAGTCTTGAGCAACCTGTTCTTTTTTT
390 TAGGCACAAAAGGGTCTATACAAGTCTTGAGCAACCTATTCTTTTTTT
* * **
2137722 TCCTTCATTCTTTGTATGCT-AGGTGACCTGGTTCCCACACCTCTCTAACTCTATTTTTTTGGTA
1 TCCTTCATTCTTTGTATGCTGAGGTGACCGGGCTCCCACACCTCTCTAACTCTATTTTAATGGTA
*
2137786 TATTTCCATGCTTGAGTCACTTTCCTAACCTTGATCATGTGATCACCCACTCTATAGTCAAATCC
66 TATTTCCATGCTTGAGTCACTTTCCTAACCTTCATCATGTGATCACCCACTCTATAGTCAAATCC
* * * *
2137851 AATTGATCTAACCCATTTGTTGGGGGAACGAATTGTTTTTATCCATATTACCTTTGAACCAATAA
131 AACTGATCTAACCCATATGTTGGGAGAACGAATTGTTTTGATCCATATTACCTTTGAACCAATAA
* ** * **
2137916 TGGAGCGTAGCTGACA-CTCCCTTAAATGCCTAGTAGGGGTACTCTACTCTCTTTACCGTATTTG
196 TGGAGCGTAGCTGACACCCCCCCCAAATGCCTAGTA-AGGTACTCTACTCTCTTTACCACATTTG
* *
2137980 TACAGCACTAGATCATATGACAACTAAAGGGTTACCCAAG-TTACATCTTCACTTTGTAAATTTT
260 TACAACACTAGATCATATGACAACCAAAGGGTTACCCAAGTTTA-ATCTTCACTTTGTAAATTTT
* * * *
2138044 AAAGCTTTGCAACCCACTATTCTTTGGTAAGATCATTGGGCCACTCTCTTTTTGCAAACTCAATA
324 AAAGCTTTGCAACCCACAATACTTCGGTAAGATCATTAGGCCACTCTCTTTTTGCAAACTCAATA
* *
2138109 ATAGGCAGAAAAGGGTCTATACAAGTCTTGAGTAACCTATTCTTCTTTTT
389 ATAGGCACAAAAGGGTCTATACAAGTCTTGAGCAACCTATTCTT-TTTTT
2138159 TC
1 TC
2138161 AAAAGTGACT
Statistics
Matches: 397, Mismatches: 39, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
435 19 0.05
436 178 0.45
437 180 0.45
438 20 0.05
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (437 bp):
TCCTTCATTCTTTGTATGCTGAGGTGACCGGGCTCCCACACCTCTCTAACTCTATTTTAATGGTA
TATTTCCATGCTTGAGTCACTTTCCTAACCTTCATCATGTGATCACCCACTCTATAGTCAAATCC
AACTGATCTAACCCATATGTTGGGAGAACGAATTGTTTTGATCCATATTACCTTTGAACCAATAA
TGGAGCGTAGCTGACACCCCCCCCAAATGCCTAGTAAGGTACTCTACTCTCTTTACCACATTTGT
ACAACACTAGATCATATGACAACCAAAGGGTTACCCAAGTTTAATCTTCACTTTGTAAATTTTAA
AGCTTTGCAACCCACAATACTTCGGTAAGATCATTAGGCCACTCTCTTTTTGCAAACTCAATAAT
AGGCACAAAAGGGTCTATACAAGTCTTGAGCAACCTATTCTTTTTTT
Found at i:2141526 original size:19 final size:20
Alignment explanation
Indices: 2141484--2141526 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2141474 AAATCTTATC
* *
2141484 AAAAATTGCTTGAAAAATAG
1 AAAAATGGCATGAAAAATAG
2141504 AAAAATGGCATGAAAAATA-
1 AAAAATGGCATGAAAAATAG
2141523 AAAA
1 AAAA
2141527 GAAAAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.63, C:0.05, G:0.14, T:0.19
Consensus pattern (20 bp):
AAAAATGGCATGAAAAATAG
Done.