Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8461613
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 85630 characters in sequence are not A, C, G, or T
File 15 of 18
Found at i:6689796 original size:22 final size:22
Alignment explanation
Indices: 6689767--6689814 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6689757 TTTTTTAATT
6689767 AAAA-TTTAAAATCAAAAA-TAA
1 AAAATTTTAAAAT-AAAAATTAA
*
6689788 AAAATTTTAGAATAAAAATTAA
1 AAAATTTTAAAATAAAAATTAA
6689810 AAAAT
1 AAAAT
6689815 CGATGTCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAATTTTAAAATAAAAATTAA
Found at i:6690342 original size:2 final size:2
Alignment explanation
Indices: 6690296--6690326 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6690286 AAACACAAGC
6690296 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6690327 CATGTCCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6690414 original size:28 final size:28
Alignment explanation
Indices: 6690378--6690432 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
6690368 TACAAGATCA
*
6690378 CTTTTCCTTTTAGATTCCAAGGATAAGG
1 CTTTCCCTTTTAGATTCCAAGGATAAGG
6690406 CTTTCCCTTTTAGATTCCAAGGATAAG
1 CTTTCCCTTTTAGATTCCAAGGATAAG
6690433 ATTGTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (28 bp):
CTTTCCCTTTTAGATTCCAAGGATAAGG
Found at i:6692492 original size:31 final size:31
Alignment explanation
Indices: 6692440--6692528 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
6692430 GTATTTTTTA
* ** *
6692440 AATTTTTTTCAATTTTGTCCCT-TAACATCTT
1 AATTTTATTCAATTTAATCCCTATAACAT-AT
* **
6692471 AATTTTGTTCAATTTAATCCCTATAGTATAT
1 AATTTTATTCAATTTAATCCCTATAACATAT
*
6692502 ATTTTTATTCAATTTAATCCCTATAAC
1 AATTTTATTCAATTTAATCCCTATAAC
6692529 GTGACATAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 43 0.91
32 4 0.09
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (31 bp):
AATTTTATTCAATTTAATCCCTATAACATAT
Found at i:6697270 original size:24 final size:23
Alignment explanation
Indices: 6697243--6697288 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
6697233 AAAAATATTT
*
6697243 TTTAAATTTTAATAGTATTAAATA
1 TTTAAATATTAATA-TATTAAATA
*
6697267 TTTAAATATTAATATTTTAAAT
1 TTTAAATATTAATATATTAAAT
6697289 TAACAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTAAATATTAATATATTAAATA
Found at i:6705701 original size:2 final size:2
Alignment explanation
Indices: 6705694--6705724 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6705684 CCAAGTAAAC
6705694 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6705725 AGTGTGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6706459 original size:19 final size:20
Alignment explanation
Indices: 6706421--6706459 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6706411 TGACTTTAAT
*
6706421 TATCAATACATTCCTCAAATG
1 TATCAATAAATT-CTCAAATG
6706442 TATCAATAAATT-TCAAAT
1 TATCAATAAATTCTCAAAT
6706460 AGATTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.36
Consensus pattern (20 bp):
TATCAATAAATTCTCAAATG
Found at i:6709492 original size:73 final size:74
Alignment explanation
Indices: 6709312--6709503 Score: 271
Period size: 73 Copynumber: 2.6 Consensus size: 74
6709302 CGAGATAGAA
* * *
6709312 AAGACTTAATCAACTAAGAAGTATGGTTAGCCAACTAAAAGCTCATGGTCAAAATATTTGATTGA
1 AAGACTTAATCAACTAAGAAGTATGGTTAGCCAGCTAAAAGCTCAGGGTCAAAATATTTAATTGA
6709377 GAGACAAAG
66 GAGACAAAG
* *
6709386 AATACTTAATCAACTAAAAAGTATGGTTAGCCAGCTAAAAGCTCAGGGTCAAAA-ATTTAATTGC
1 AAGACTTAATCAACTAAGAAGTATGGTTAGCCAGCTAAAAGCTCAGGGTCAAAATATTTAATTG-
6709450 A-AGACAAAG
65 AGAGACAAAG
* * * * *
6709459 AAGGCTTAATCGACTAAGAAGAATTGTTAGCCAGTTAAAAGCTCA
1 AAGACTTAATCAACTAAGAAGTATGGTTAGCCAGCTAAAAGCTCA
6709504 CTGTTTGAGA
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
73 54 0.51
74 51 0.49
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (74 bp):
AAGACTTAATCAACTAAGAAGTATGGTTAGCCAGCTAAAAGCTCAGGGTCAAAATATTTAATTGA
GAGACAAAG
Found at i:6721109 original size:73 final size:74
Alignment explanation
Indices: 6720982--6721188 Score: 265
Period size: 73 Copynumber: 2.8 Consensus size: 74
6720972 AAGTAAAGCA
* * * *
6720982 GATTGCGAGACAGAGAAGACTTAATCAACAAAGAAGTATGGATAGCCAGTTAAAAGCTCACGA-T
1 GATTACGAGACAGAGAAGACTTAATCAACTAAGAAGTATGGTTAGCCAGCTAAAAGCTCACGAGT
6721046 CAAAAATTT
66 CAAAAATTT
** * * *
6721055 GATTATTAGACAGAGAAGACTTAATCAATTAAGGAGTATGGTTAGCCAGCTAAAAGCTCA-TAGT
1 GATTACGAGACAGAGAAGACTTAATCAACTAAGAAGTATGGTTAGCCAGCTAAAAGCTCACGAGT
6721119 CAAAAATTT
66 CAAAAATTT
* * * * * *
6721128 GATTGCGAGACAAAGAAGGCTTAATCAACTAAGAAGAATTGTTAGCCAACTAAAAGCTCAC
1 GATTACGAGACAGAGAAGACTTAATCAACTAAGAAGTATGGTTAGCCAGCTAAAAGCTCAC
6721189 TGTCTGAGAA
Statistics
Matches: 113, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
72 1 0.01
73 112 0.99
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.23
Consensus pattern (74 bp):
GATTACGAGACAGAGAAGACTTAATCAACTAAGAAGTATGGTTAGCCAGCTAAAAGCTCACGAGT
CAAAAATTT
Found at i:6723229 original size:6 final size:6
Alignment explanation
Indices: 6723220--6723263 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
6723210 AATGTGTATG
* * * *
6723220 TATACT TATACA TATACA TACATA TACACA TATACA TATACA TA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TA
6723264 ATATATGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:6723276 original size:4 final size:4
Alignment explanation
Indices: 6723267--6723293 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6723257 ATACATAATA
6723267 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
6723294 CATTACTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:6723572 original size:43 final size:43
Alignment explanation
Indices: 6723524--6723635 Score: 179
Period size: 43 Copynumber: 2.6 Consensus size: 43
6723514 CATTATTCAC
*
6723524 TTGGGCCACATGCCTCTTAGCATGTTTAGTATACCTTACTCAT
1 TTGGGCCACATGCCTCTTAGCATGTTAAGTATACCTTACTCAT
** *
6723567 TTGGGCCACATGTTTTTTAGCATGTTAAGTATACCTTACTCAT
1 TTGGGCCACATGCCTCTTAGCATGTTAAGTATACCTTACTCAT
*
6723610 TTGGGCCACATGCCCCTTAGCATGTT
1 TTGGGCCACATGCCTCTTAGCATGTT
6723636 CAATTTATCA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (43 bp):
TTGGGCCACATGCCTCTTAGCATGTTAAGTATACCTTACTCAT
Found at i:6726219 original size:14 final size:14
Alignment explanation
Indices: 6726200--6726226 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6726190 AATAAAGTAA
6726200 AAAATAAAAATAAG
1 AAAATAAAAATAAG
6726214 AAAATAAAAATAA
1 AAAATAAAAATAA
6726227 AATAAAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAATAAAAATAAG
Found at i:6726955 original size:4 final size:4
Alignment explanation
Indices: 6726946--6726995 Score: 57
Period size: 4 Copynumber: 11.8 Consensus size: 4
6726936 TGTTACTTCT
6726946 TTTA TTTA TTTA TTTA TTTA TTTA TGTTTA TGCTTA TTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA --TTTA T--TTA TTTA TTTA TTTA
6726993 TTT
1 TTT
6726996 TGTTTTCGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 3 0.07
4 30 0.73
6 8 0.20
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:6729964 original size:21 final size:21
Alignment explanation
Indices: 6729940--6729982 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6729930 AGGTACATGT
*
6729940 GTTGTCTTAATTAAGACAAGA
1 GTTGTCTTAATTAACACAAGA
* *
6729961 GTTGTTTTAATTTACACAAGA
1 GTTGTCTTAATTAACACAAGA
6729982 G
1 G
6729983 AATATGTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (21 bp):
GTTGTCTTAATTAACACAAGA
Found at i:6736683 original size:24 final size:25
Alignment explanation
Indices: 6736656--6736704 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6736646 TACATGGCAA
* *
6736656 GGCCACGAGTT-TTATATATGGCTG
1 GGCCACAAGTTGTAATATATGGCTG
*
6736680 GGCCACAAGTTGTAATATGTGGCTG
1 GGCCACAAGTTGTAATATATGGCTG
6736705 CGATCGTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (25 bp):
GGCCACAAGTTGTAATATATGGCTG
Found at i:6749746 original size:47 final size:47
Alignment explanation
Indices: 6749693--6750000 Score: 293
Period size: 47 Copynumber: 6.5 Consensus size: 47
6749683 TAGATTAAAC
* *
6749693 ATGAAGAGCTTTTTCAATCATTTTAAGTTGCGTAGCCCTC-TTTAAAG
1 ATGAAGAGCTTTTTCAATCATTTTAAGTTGTGTAG-CCTCATTTAGAG
* * *
6749740 AAGAAGAGATTTTTTAATCATTTTAAGTTGTGTAGCCTCATTTAGAG
1 ATGAAGAGCTTTTTCAATCATTTTAAGTTGTGTAGCCTCATTTAGAG
* * * * * * *
6749787 ACGATGAGCTTTTCCAAATAATTTTAAATTGCGTAACCTCATTTAGAG
1 ATGAAGAGCTTTTTC-AATCATTTTAAGTTGTGTAGCCTCATTTAGAG
* * * * ** *
6749835 ATGACA-AGCTTTTCCAATGAATCTAAGTTAAGTAACCTCATTTAGAG
1 ATGA-AGAGCTTTTTCAATCATTTTAAGTTGTGTAGCCTCATTTAGAG
* *
6749882 A-CAATGAGC-TTTTCTAATCATTTTAAGTTGTGTAGCTTCATTTAGAG
1 ATGAA-GAGCTTTTTC-AATCATTTTAAGTTGTGTAGCCTCATTTAGAG
* ** * *
6749929 ATGAAGAGC-TTTTCTAATCATTTTAAGTTATGTAGCCTGGTTTAAAT
1 ATGAAGAGCTTTTTC-AATCATTTTAAGTTGTGTAGCCTCATTTAGAG
6749976 ATGAAGAGCTTTTTCAATCATTTTA
1 ATGAAGAGCTTTTTCAATCATTTTA
6750001 GGTTACGCAG
Statistics
Matches: 215, Mismatches: 38, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.00
46 9 0.04
47 158 0.73
48 47 0.22
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (47 bp):
ATGAAGAGCTTTTTCAATCATTTTAAGTTGTGTAGCCTCATTTAGAG
Found at i:6749830 original size:48 final size:47
Alignment explanation
Indices: 6749698--6750046 Score: 225
Period size: 47 Copynumber: 7.4 Consensus size: 47
6749688 TAAACATGAA
* * * * * * *
6749698 GAGCTTTTTCAATCATTTTAAGTTGCGTAGCCCTC-TTTAAAGAAGAA
1 GAGCTTTTCCAATAATTTTAAGTTGTGTA-ACCTCATTTAGAGACGAT
* ** * *
6749745 GAGATTTTTTAATCATTTTAAGTTGTGTAGCCTCATTTAGAGACGAT
1 GAGCTTTTCCAATAATTTTAAGTTGTGTAACCTCATTTAGAGACGAT
* * * *
6749792 GAGCTTTTCCAAATAATTTTAAATTGCGTAACCTCATTTAGAGATGAC
1 GAGCTTTTCC-AATAATTTTAAGTTGTGTAACCTCATTTAGAGACGAT
* * ** *
6749840 AAGCTTTTCCAATGAA-TCTAAGTTAAGTAACCTCATTTAGAGACAAT
1 GAGCTTTTCCAAT-AATTTTAAGTTGTGTAACCTCATTTAGAGACGAT
* * * * * *
6749887 GAGCTTTTCTAATCATTTTAAGTTGTGTAGCTTCATTTAGAGATGAA
1 GAGCTTTTCCAATAATTTTAAGTTGTGTAACCTCATTTAGAGACGAT
* * * * ** * * * *
6749934 GAGCTTTTCTAATCATTTTAAGTTATGTAGCCTGGTTTAAATATGAA
1 GAGCTTTTCCAATAATTTTAAGTTGTGTAACCTCATTTAGAGACGAT
* * * ** * * * * *
6749981 GAGCTTTTTCAATCATTTTAGGTTACGCAGCTTTATTTAGAGGCGAT
1 GAGCTTTTCCAATAATTTTAAGTTGTGTAACCTCATTTAGAGACGAT
*
6750028 GAGCTTTTCCAATTATTTT
1 GAGCTTTTCCAATAATTTT
6750047 TAAATTTGCG
Statistics
Matches: 242, Mismatches: 56, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
46 5 0.02
47 195 0.81
48 42 0.17
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (47 bp):
GAGCTTTTCCAATAATTTTAAGTTGTGTAACCTCATTTAGAGACGAT
Found at i:6749985 original size:94 final size:94
Alignment explanation
Indices: 6749687--6750046 Score: 323
Period size: 94 Copynumber: 3.8 Consensus size: 94
6749677 GTAGCCTAGA
* * * *
6749687 TTAAACATGAAGAGCTTTTTCAATCATTTTAAGTTGCGTAGCCCTC-TTTAAAGAAGAAGAGATT
1 TTAAAGATGAAGAGCTTTTTCAATCATTTTAAGTTGCGTAG-CCTCATTTAGAGATGAAGAGCTT
** *
6749751 TTTTAATCATTTTAAGTTGTGTAGCCTCAT
65 TTCCAATCATTTTAAGTTATGTAGCCTCAT
* * * * * * *
6749781 TTAGAGACGATGAGCTTTTCCAAATAATTTTAAATTGCGTAACCTCATTTAGAGATGACA-AGCT
1 TTAAAGATGAAGAGCTTTTTC-AATCATTTTAAGTTGCGTAGCCTCATTTAGAGATGA-AGAGCT
* * * * *
6749845 TTTCCAATGAATCTAAGTTAAGTAACCTCAT
64 TTTCCAATCATTTTAAGTTATGTAGCCTCAT
* * * *
6749876 TTAGAGA-CAATGAGC-TTTTCTAATCATTTTAAGTTGTGTAGCTTCATTTAGAGATGAAGAGCT
1 TTAAAGATGAA-GAGCTTTTTC-AATCATTTTAAGTTGCGTAGCCTCATTTAGAGATGAAGAGCT
* **
6749939 TTTCTAATCATTTTAAGTTATGTAGCCTGGT
64 TTTCCAATCATTTTAAGTTATGTAGCCTCAT
* * * * * * ** *
6749970 TTAAATATGAAGAGCTTTTTCAATCATTTTAGGTTACGCAGCTTTATTTAGAGGCGATGAGCTTT
1 TTAAAGATGAAGAGCTTTTTCAATCATTTTAAGTTGCGTAGCCTCATTTAGAGATGAAGAGCTTT
*
6750035 TCCAATTATTTT
66 TCCAATCATTTT
6750047 TAAATTTGCG
Statistics
Matches: 210, Mismatches: 49, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
93 1 0.00
94 138 0.66
95 70 0.33
96 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (94 bp):
TTAAAGATGAAGAGCTTTTTCAATCATTTTAAGTTGCGTAGCCTCATTTAGAGATGAAGAGCTTT
TCCAATCATTTTAAGTTATGTAGCCTCAT
Found at i:6749990 original size:142 final size:143
Alignment explanation
Indices: 6749675--6749995 Score: 334
Period size: 142 Copynumber: 2.3 Consensus size: 143
6749665 TGTTTGTGAC
* * * ** *
6749675 ATGTAGCCTAGATTAAACATGAAGAGCTTTTT-CAATCATTTTAAGTTGCGTAGCCCTCTTTAAA
1 ATGTAGCCTAGTTTAAACATGAAGAGCTTTTTCCAATCAATCTAAGTTAAGTAGACCTCTTTAAA
* *
6749739 GAAGAAGAGATTTTTTAATCATTTTAAGTTGTGTAGCCTCATTTAGAGACGATGAGCTTTTCCAA
66 GAAGAAGAGATTTTCTAATCATTTTAAGTTGTGTAGCCTCATTTAGAGACGAAGAGCTTTTCCAA
6749804 ATAATTTTAAATT
131 ATAATTTTAAATT
** * * * *
6749817 GCGTAACCTCA-TTTAGAGATGACA-AGC-TTTTCCAATGAATCTAAGTTAAGTA-ACCTCATTT
1 ATGTAGCCT-AGTTTAAACATGA-AGAGCTTTTTCCAATCAATCTAAGTTAAGTAGACCTC-TTT
* * * * *
6749878 AGAGACA-ATGAGCTTTTCTAATCATTTTAAGTTGTGTAGCTTCATTTAGAGATGAAGAGCTTTT
63 AAAGA-AGAAGAGATTTTCTAATCATTTTAAGTTGTGTAGCCTCATTTAGAGACGAAGAGCTTTT
* * *
6749942 -CTAATCATTTTAAGTT
127 CCAAATAATTTTAAATT
* *
6749958 ATGTAGCCTGGTTTAAATATGAAGAGCTTTTT-CAATCA
1 ATGTAGCCTAGTTTAAACATGAAGAGCTTTTTCCAATCA
6749996 TTTTAGGTTA
Statistics
Matches: 142, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
140 1 0.01
141 44 0.31
142 94 0.66
143 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (143 bp):
ATGTAGCCTAGTTTAAACATGAAGAGCTTTTTCCAATCAATCTAAGTTAAGTAGACCTCTTTAAA
GAAGAAGAGATTTTCTAATCATTTTAAGTTGTGTAGCCTCATTTAGAGACGAAGAGCTTTTCCAA
ATAATTTTAAATT
Found at i:6771175 original size:200 final size:199
Alignment explanation
Indices: 6770818--6771690 Score: 1120
Period size: 200 Copynumber: 4.4 Consensus size: 199
6770808 TAATATATTT
* * * * *
6770818 ATTAATTTAAGTTTTTAAAAACTAAATAATATGT-CTCATTAAATTAAATTTTATTTGAGCAATT
1 ATTAATTTAA-TTTTTTAAAACTAAATAATAT-TACTTATTTAATTACATTTTATTT-ATCAATT
*
6770882 AAACTATTTAAGTGAGTTAGTAATACATTAACTAATTTAATTATTGATTAAATTAAA-ATTTATT
63 AAACTATTT-A---AGTTAGTAATACATTAACTAATTTAATTATT-TTTAAATTAAATA-TTATT
* * **
6770946 TCTTATTTAATTAATTGTTTACTAATACATTATTTGATGTTACTAATTACACTACTTAATTATTA
122 ACTTATTTAATTAATTGTTTACTAATACATTATTTTATGTTACTAATTACACTACTTAATTAAGA
6771011 TATGAGTACATTA
187 TATGAGTACATTA
* *
6771024 ATTAATTTAATTTTTTCAAACTAAATAATATTACTTATTTAATTACATTTTATTTACTCACTTAA
1 ATTAATTTAATTTTTTAAAACTAAATAATATTACTTATTTAATTACATTTTATTTA-TCAATTAA
* * *
6771089 AATATTTAAGTTATTAATACATTAACTAATTTAATTATTTTTAAATTAAATAGTATTACTTATTT
65 ACTATTTAAGTTAGTAATACATTAACTAATTTAATTATTTTTAAATTAAATATTATTACTTATTT
* * *
6771154 AATTAATTGTTTACTAATACATTATTTTATGTTACTAATTACAGTATTTAGTTAAGATATGAGTA
130 AATTAATTGTTTACTAATACATTATTTTATGTTACTAATTACACTACTTAATTAAGATATGAGTA
6771219 CATTA
195 CATTA
*
6771224 ATTAATTTAATTTTTTAAAACTAAATAATATTACTTATTTAATTATATTTTATTTAATCAATTAA
1 ATTAATTTAATTTTTTAAAACTAAATAATATTACTTATTTAATTACATTTTATTT-ATCAATTAA
* *
6771289 ACTATTTAAGTAAGTTAGTAATACATTAACTGATTTAATTATTTTTAAATTAAATATTATTACAT
65 ACTA-TT---TAAGTTAGTAATACATTAACTAATTTAATTATTTTTAAATTAAATATTATTACTT
* *
6771354 ATTTAATTAACTGTTTACTAATACA-T-TTTTATGTTACTAATTACACTACTTAATTAAAATATG
126 ATTTAATTAATTGTTTACTAATACATTATTTTATGTTACTAATTACACTACTTAATTAAGATATG
*
6771417 AGTACATCA
191 AGTACATTA
* *
6771426 ATGAATTTAATTTTTTAAAACTAAATAATGTTACTTATTTAATTACA---T-TTTAT---TT--A
1 ATTAATTTAATTTTTTAAAACTAAATAATATTACTTATTTAATTACATTTTATTTATCAATTAAA
*
6771482 --A--TAA---AGTAATACATTAACTAATTTAATTATTTTTTAAATTAAATATAATATTATTAGT
66 CTATTTAAGTTAGTAATACATTAACTAATTTAATTA-TTTTTAAA-T---TA-AATATTATTACT
* * *
6771540 TATTTAAGTAATTATTTACTAATACATTATTTTATGTTACGAATTACACTACTTAATTAAGATAT
125 TATTTAATTAATTGTTTACTAATACATTATTTTATGTTACTAATTACACTACTTAATTAAGATAT
6771605 GAGTACATTA
190 GAGTACATTA
* *
6771615 ATTAATTTAATTTTTTAAAATTAAATAATATTACTTGTTTAATTACATTTTATTTAATCAATTAA
1 ATTAATTTAATTTTTTAAAACTAAATAATATTACTTATTTAATTACATTTTATTT-ATCAATTAA
6771680 ACTATTTAAGT
65 ACTATTTAAGT
6771691 AAGGTTTTTT
Statistics
Matches: 587, Mismatches: 48, Indels: 65
0.84 0.07 0.09
Matches are distributed among these distances:
181 24 0.04
182 8 0.01
183 1 0.00
184 3 0.01
186 2 0.00
187 33 0.06
188 1 0.00
189 86 0.15
190 1 0.00
192 2 0.00
193 3 0.01
194 4 0.01
197 4 0.01
198 3 0.01
199 2 0.00
200 148 0.25
201 35 0.06
202 85 0.14
203 4 0.01
204 78 0.13
205 50 0.09
206 10 0.02
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (199 bp):
ATTAATTTAATTTTTTAAAACTAAATAATATTACTTATTTAATTACATTTTATTTATCAATTAAA
CTATTTAAGTTAGTAATACATTAACTAATTTAATTATTTTTAAATTAAATATTATTACTTATTTA
ATTAATTGTTTACTAATACATTATTTTATGTTACTAATTACACTACTTAATTAAGATATGAGTAC
ATTA
Found at i:6771203 original size:21 final size:20
Alignment explanation
Indices: 6771164--6771207 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
6771154 AATTAATTGT
*
6771164 TTACTAATACATTATTTTATG
1 TTACTAATACAGTATTTTA-G
6771185 TTACTAATTACAGTA-TTTAG
1 TTACTAA-TACAGTATTTTAG
6771205 TTA
1 TTA
6771208 AGATATGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (20 bp):
TTACTAATACAGTATTTTAG
Found at i:6771287 original size:93 final size:94
Alignment explanation
Indices: 6771176--6771362 Score: 220
Period size: 93 Copynumber: 2.0 Consensus size: 94
6771166 ACTAATACAT
* * * * *
6771176 TATTTTATGTTACTAATTACAGTATTT-AGTTAAGATA-TGAGTACATTAATTAATTTAATT-TT
1 TATTTTATGTTAATAATTAAACTATTTAAG-TAAGATAGT-AATACATTAACTAATTTAATTATT
*
6771238 TTAAAACTAAATAATATTACTTATTTAATTA
64 TTAAAACTAAATAATATTACATATTTAATTA
* *
6771269 TATTTTAT-TTAATCAATTAAACTATTTAAGTAAGTTAGTAATACATTAACTGATTTAATTATTT
1 TATTTTATGTTAAT-AATTAAACTATTTAAGTAAGATAGTAATACATTAACTAATTTAATTATTT
* * *
6771333 TTAAATTAAATATTATTACATATTTAATTA
65 TAAAACTAAATAATATTACATATTTAATTA
6771363 ACTGTTTACT
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
92 4 0.05
93 43 0.54
94 32 0.41
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (94 bp):
TATTTTATGTTAATAATTAAACTATTTAAGTAAGATAGTAATACATTAACTAATTTAATTATTTT
AAAACTAAATAATATTACATATTTAATTA
Found at i:6771610 original size:189 final size:181
Alignment explanation
Indices: 6771305--6771672 Score: 556
Period size: 189 Copynumber: 2.0 Consensus size: 181
6771295 TAAGTAAGTT
* * *
6771305 AGTAATACATTAACTGATTTAATTATTTTTAAATTAAATATTATTACATATTTAATTAACTGTTT
1 AGTAATACATTAACTAATTTAATTATTTTTAAATTAAATATTATTACATATTTAAGTAACTATTT
*
6771370 ACTAATACATTTTTATGTTACTAATTACACTACTTAATTAAAATATGAGTACATCAATGAATTTA
66 ACTAATACATTTTTATGTTACGAATTACACTACTTAATTAAAATATGAGTACATCAATGAATTTA
*
6771435 ATTTTTTAAAACTAAATAATGTTACTTATTTAATTACATTTTATTTAATAA
131 ATTTTTTAAAACTAAATAATATTACTTATTTAATTACATTTTATTTAATAA
*
6771486 AGTAATACATTAACTAATTTAATTATTTTTTAAATTAAATATAATATTATTAGTTATTTAAGTAA
1 AGTAATACATTAACTAATTTAATTA-TTTTTAAATTAAATAT--TATTA-CA--TATTTAAGTAA
* * *
6771551 TTATTTACTAATACATTATTTTATGTTACGAATTACACTACTTAATTAAGATATGAGTACATTAA
60 CTATTTACTAATACA-T-TTTTATGTTACGAATTACACTACTTAATTAAAATATGAGTACATCAA
* * *
6771616 TTAATTTAATTTTTTAAAATTAAATAATATTACTTGTTTAATTACATTTTATTTAAT
123 TGAATTTAATTTTTTAAAACTAAATAATATTACTTATTTAATTACATTTTATTTAAT
6771673 CAATTAAACT
Statistics
Matches: 167, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
181 24 0.14
182 16 0.10
184 5 0.03
185 1 0.01
187 23 0.14
188 1 0.01
189 97 0.58
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.48
Consensus pattern (181 bp):
AGTAATACATTAACTAATTTAATTATTTTTAAATTAAATATTATTACATATTTAAGTAACTATTT
ACTAATACATTTTTATGTTACGAATTACACTACTTAATTAAAATATGAGTACATCAATGAATTTA
ATTTTTTAAAACTAAATAATATTACTTATTTAATTACATTTTATTTAATAA
Found at i:6772003 original size:21 final size:22
Alignment explanation
Indices: 6771974--6772017 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6771964 AAGTGATTAA
6771974 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
* *
6771995 TTTAGGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
6772017 T
1 T
6772018 ACTTTAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:6777144 original size:14 final size:15
Alignment explanation
Indices: 6777122--6777160 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
6777112 TGACTCACAT
* *
6777122 AATTAATTAACTTAA
1 AATTAATTAAATAAA
6777137 AA-TAATTAAATAAA
1 AATTAATTAAATAAA
6777151 AATTAATTAA
1 AATTAATTAA
6777161 TTTCTATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTAATTAAATAAA
Found at i:6783852 original size:29 final size:29
Alignment explanation
Indices: 6783810--6784027 Score: 262
Period size: 29 Copynumber: 7.5 Consensus size: 29
6783800 AGCTTTAACT
6783810 TGTTTTGTCTTAATTTAGACAAGAAAACA
1 TGTTTTGTCTTAATTTAGACAAGAAAACA
* *
6783839 TGTTATGTCTTAATTTAGACAAAAAAACA
1 TGTTTTGTCTTAATTTAGACAAGAAAACA
*
6783868 TGTTTTGTCTTAATTTAGACAAGAAAGCA
1 TGTTTTGTCTTAATTTAGACAAGAAAACA
*
6783897 TGTTTTGTCTTAATTTAGACAA-AGAAATA
1 TGTTTTGTCTTAATTTAGACAAGA-AAACA
*
6783926 TG-TTTGTCTTAATTTAAGACAAGAAAAATA
1 TGTTTTGTCTTAATTT-AGACAAG-AAAACA
* * *
6783956 TATTTTGTCTTAATCTAGATAAGAAAACA
1 TGTTTTGTCTTAATTTAGACAAGAAAACA
* * * * *
6783985 T-ATTTGTCTCAATTCAGACAAGATAAGA
1 TGTTTTGTCTTAATTTAGACAAGAAAACA
*
6784013 TGTTTTATCTTAATT
1 TGTTTTGTCTTAATT
6784028 AAAGATAAGA
Statistics
Matches: 162, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
28 35 0.22
29 102 0.63
30 12 0.07
31 13 0.08
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (29 bp):
TGTTTTGTCTTAATTTAGACAAGAAAACA
Found at i:6783991 original size:87 final size:87
Alignment explanation
Indices: 6783813--6784037 Score: 267
Period size: 88 Copynumber: 2.6 Consensus size: 87
6783803 TTTAACTTGT
*
6783813 TTTGTCTTAATTTAGACAAGAAAACATGTTATGTCTTAATTT-AGACAA-AAAAACATGTTTTGT
1 TTTGTCTTAATTTAGACAAG-AAACATGTT-TGTCTTAATTTAAGACAAGAAAAACATATTTTGT
* * *
6783876 CTTAATTTAGACAAGAAAGCATGT
64 CTTAATCTAGACAAGAAAACATGA
* *
6783900 TTTGTCTTAATTTAGACAAAGAAATATGTTTGTCTTAATTTAAGACAAGAAAAATATATTTTGTC
1 TTTGTCTTAATTTAGAC-AAGAAACATGTTTGTCTTAATTTAAGACAAGAAAAACATATTTTGTC
*
6783965 TTAATCTAGATAAGAAAACAT-A
65 TTAATCTAGACAAGAAAACATGA
* * * * * *
6783987 TTTGTCTCAATTCAGACAAGATAAGATGTTTTATCTTAATTAAAGATAAGA
1 TTTGTCTTAATTTAGACAAGA-AACATG-TTTGTCTTAATTTAAGACAAGA
6784038 GTTGTCTTAA
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
86 15 0.12
87 51 0.43
88 54 0.45
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.37
Consensus pattern (87 bp):
TTTGTCTTAATTTAGACAAGAAACATGTTTGTCTTAATTTAAGACAAGAAAAACATATTTTGTCT
TAATCTAGACAAGAAAACATGA
Found at i:6786575 original size:15 final size:17
Alignment explanation
Indices: 6786547--6786578 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
6786537 TATAGGGTTT
6786547 TATATATTGTCATCATG
1 TATATATTGTCATCATG
6786564 TATATA-TG-CATCATG
1 TATATATTGTCATCATG
6786579 AGATGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
TATATATTGTCATCATG
Found at i:6791830 original size:29 final size:29
Alignment explanation
Indices: 6791749--6791969 Score: 236
Period size: 29 Copynumber: 7.7 Consensus size: 29
6791739 TGGAAGCTTT
*
6791749 AACAT-TTTTGTCTCAATTTAGACAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
*
6791777 AACAT-TTTTGTCTTAATTTAGATAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
* * * *
6791805 AACATGTTATGCCTTAATTTAAATAAGAA
1 AACATGTTTTGTCTTAATTTAGACAAGAA
*
6791834 AACATATTTTGTCTTAATTTAGACAAGAAA
1 AACATGTTTTGTCTTAATTTAGACAAG-AA
6791864 AACATG-TTTGTCTTAATTTAAGACAAGAAA
1 AACATGTTTTGTCTTAATTT-AGACAAG-AA
*
6791894 AATATGTTTTGTCTT-ATTCTAGACAAGAA
1 AACATGTTTTGTCTTAATT-TAGACAAGAA
* * * * *
6791923 AACAT-ATTTGTCTCAATTCAAACAAGAT
1 AACATGTTTTGTCTTAATTTAGACAAGAA
* *
6791951 AACGTGTTTTATCTTAATT
1 AACATGTTTTGTCTTAATT
6791970 AAAGGTAAGA
Statistics
Matches: 164, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
28 49 0.30
29 74 0.45
30 32 0.20
31 9 0.05
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (29 bp):
AACATGTTTTGTCTTAATTTAGACAAGAA
Found at i:6802342 original size:20 final size:20
Alignment explanation
Indices: 6802301--6802347 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
6802291 TCAGACAGAA
6802301 TGCTCTTAGTCGACTAACAT
1 TGCTCTTAGTCGACTAACAT
*
6802321 TGCTACTTAGTCGATTAA-AT
1 TGCT-CTTAGTCGACTAACAT
6802341 TGTCTCT
1 TG-CTCT
6802348 ATCTTTGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (20 bp):
TGCTCTTAGTCGACTAACAT
Found at i:6802424 original size:73 final size:72
Alignment explanation
Indices: 6802302--6802438 Score: 175
Period size: 73 Copynumber: 1.9 Consensus size: 72
6802292 CAGACAGAAT
*** * *
6802302 GCTCTTAGTCGACTAACATTGCTACTTAGTCGATTAAATTGTCTCTATCTTTGAACCCAGTTTTT
1 GCTCTTAGTCGACTAACAAAACTACTTAGTCGATTAAATCGTCTCTATCTTAGAA-CCAGTTTTT
6802367 AATAGTAG
65 AATAGTAG
* * * * *
6802375 GCTCTTAGTCGACTACCAAAACTTCTTAGTCGATTAAGTCGTTTTTATCTTAGAACCAGTTTTT
1 GCTCTTAGTCGACTAACAAAACTACTTAGTCGATTAAATCGTCTCTATCTTAGAACCAGTTTTT
6802439 GGGCAGTAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
72 9 0.17
73 45 0.83
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (72 bp):
GCTCTTAGTCGACTAACAAAACTACTTAGTCGATTAAATCGTCTCTATCTTAGAACCAGTTTTTA
ATAGTAG
Found at i:6802456 original size:73 final size:73
Alignment explanation
Indices: 6802302--6802462 Score: 162
Period size: 73 Copynumber: 2.2 Consensus size: 73
6802292 CAGACAGAAT
* *** * * *
6802302 GCTCTTAGTCGACTAACATTGCTACTTAGTCGATTAAATTGTCTCTATCTTTGAACCCAGTTTTT
1 GCTCTTAGTCGACTACCAAAACTTCTTAGTCGATTAAATCGTCTCTATCTTAGAACCCAGTTTTT
* *
6802367 AATAGTAG
66 AACAGTAA
* * *
6802375 GCTCTTAGTCGACTACCAAAACTTCTTAGTCGATTAAGTCGTTTTTATCTTAGAA-CCAGTTTTT
1 GCTCTTAGTCGACTACCAAAACTTCTTAGTCGATTAAATCGTCTCTATCTTAGAACCCAGTTTTT
**
6802439 GGGCAGTAA
66 -AACAGTAA
* *
6802448 GCTTTTAGTTGACTA
1 GCTCTTAGTCGACTA
6802463 ACACTATCTC
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
72 9 0.13
73 62 0.87
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (73 bp):
GCTCTTAGTCGACTACCAAAACTTCTTAGTCGATTAAATCGTCTCTATCTTAGAACCCAGTTTTT
AACAGTAA
Found at i:6809545 original size:49 final size:49
Alignment explanation
Indices: 6809492--6809645 Score: 220
Period size: 49 Copynumber: 3.1 Consensus size: 49
6809482 TCCATGGATG
** *
6809492 GAACATACATATCTCACATCATATCATCATCCAGAATCATCCACGAACA
1 GAACATACATATCTCACATCATATCATCATCTGGAACCATCCACGAACA
* * *
6809541 GAACATACATATCTCACATCATATCATCATCTGGAACCATACACGGA-T
1 GAACATACATATCTCACATCATATCATCATCTGGAACCATCCACGAACA
* *
6809589 GAAACATACATATCTCACATCATATCATCATATGGAACCATCCACAAACA
1 G-AACATACATATCTCACATCATATCATCATCTGGAACCATCCACGAACA
6809639 GAACATA
1 GAACATA
6809646 TTGCTCAACA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.01
49 90 0.98
50 1 0.01
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.23
Consensus pattern (49 bp):
GAACATACATATCTCACATCATATCATCATCTGGAACCATCCACGAACA
Found at i:6814165 original size:74 final size:74
Alignment explanation
Indices: 6814073--6814246 Score: 240
Period size: 74 Copynumber: 2.4 Consensus size: 74
6814063 GAGTTAGTCG
* * * *
6814073 ACTAAGAAACATGGTTAGTCAACTTAGAGCTCACTGCCAAAGACTTCAATTACAAGATAAAGAGA
1 ACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTGCCAAAGAATTCAATTACAAGATAAAGAAA
6814138 ACTTAATCA
66 ACTTAATCA
* * * * *
6814147 ACTGAGAAGCATGATTAGTCAACTAAGAGGTCATTGCCAAAGAATTCAATTACAAGATAGAGAAA
1 ACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTGCCAAAGAATTCAATTACAAGATAAAGAAA
*
6814212 ACTTAATCG
66 ACTTAATCA
* *
6814221 ACTAAGAAGTATGGTTAGTTAACTAA
1 ACTAAGAAGCATGGTTAGTCAACTAA
6814247 AAGCACGCTA
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 86 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (74 bp):
ACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTGCCAAAGAATTCAATTACAAGATAAAGAAA
ACTTAATCA
Found at i:6817157 original size:35 final size:35
Alignment explanation
Indices: 6817082--6817266 Score: 259
Period size: 35 Copynumber: 5.3 Consensus size: 35
6817072 TCTCAATCAC
6817082 TTGATTAAAATTGTTTAATTAAGTTA-T--GCCTAA
1 TTGATT-AAATTGTTTAATTAAGTTATTGGGCCTAA
*
6817115 TTCATTAAATTGTTTAATTAAGTTATTGGGCCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
*
6817150 TTGATTAAATTTGTTTAATCAAGTTATTGGGCCTAA
1 TTGATTAAA-TTGTTTAATTAAGTTATTGGGCCTAA
* *
6817186 TTGATTAAATTGTTTAATTAAATTATTGGACCTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
** *
6817221 TTGATTAAATTGTTTAATTAAGTTATTAAGCCCAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
*
6817256 TTAATTAAATT
1 TTGATTAAATT
6817267 AAACAATTAA
Statistics
Matches: 136, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
32 19 0.14
33 6 0.04
35 77 0.57
36 34 0.25
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (35 bp):
TTGATTAAATTGTTTAATTAAGTTATTGGGCCTAA
Found at i:6817205 original size:71 final size:68
Alignment explanation
Indices: 6817082--6817266 Score: 255
Period size: 71 Copynumber: 2.6 Consensus size: 68
6817072 TCTCAATCAC
* * *
6817082 TTGATTAAAATTGTTTAATTAAGTTA-TGCCTAATTCATTAAATTGTTTAATTAAGTTATTGGGC
1 TTGATT-AAATTGTTTAATTAAGTTATTGCCTAATTAATTAAATTGTTTAATTAAATTATTGGAC
6817146 CTAA
65 CTAA
* *
6817150 TTGATTAAATTTGTTTAATCAAGTTATTGGGCCTAATTGATTAAATTGTTTAATTAAATTATTGG
1 TTGATTAAA-TTGTTTAATTAAGTTATT--GCCTAATTAATTAAATTGTTTAATTAAATTATTGG
6817215 ACCTAA
63 ACCTAA
*
6817221 TTGATTAAATTGTTTAATTAAGTTATTAAGCCCAATTAATTAAATT
1 TTGATTAAATTGTTTAATTAAGTTATT--GCCTAATTAATTAAATT
6817267 AAACAATTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
67 3 0.03
68 21 0.20
69 1 0.01
70 32 0.31
71 47 0.45
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (68 bp):
TTGATTAAATTGTTTAATTAAGTTATTGCCTAATTAATTAAATTGTTTAATTAAATTATTGGACC
TAA
Found at i:6821535 original size:71 final size:71
Alignment explanation
Indices: 6821419--6821560 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
6821409 TTTTGTGCAT
6821419 ATAATGTGAAGGTAGTTTTTTGTTCCATTTTGATGATAAGTTCATTCATCTGCTCTGGTCATGAA
1 ATAATGTGAAGGTAGTTTTTTGTTCCATTTTGATGATAAGTTCATTCATCTGCTCTGGTCATGAA
6821484 ATAAAA
66 ATAAAA
6821490 ATAATGTGAAGGTAGTTTTTTGTTCCATTTTGATGATAAGTTCATTCATCTGCTCTGGTCATGAA
1 ATAATGTGAAGGTAGTTTTTTGTTCCATTTTGATGATAAGTTCATTCATCTGCTCTGGTCATGAA
6821555 ATAAAA
66 ATAAAA
6821561 TGACTTATTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (71 bp):
ATAATGTGAAGGTAGTTTTTTGTTCCATTTTGATGATAAGTTCATTCATCTGCTCTGGTCATGAA
ATAAAA
Found at i:6822097 original size:30 final size:28
Alignment explanation
Indices: 6822035--6822099 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
6822025 CTATCCCAAG
* *
6822035 AGCACTTTTCAAATGCTTGGTTTGGGAA
1 AGCACTTTTCAAATGCTTGGTCTGGAAA
6822063 AGCACTTTT-AAACTGCTTGGTCTGATGAAA
1 AGCACTTTTCAAA-TGCTTGGTCTG--GAAA
6822093 AGCACTT
1 AGCACTT
6822100 CCTACTTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 3 0.09
28 19 0.59
30 10 0.31
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (28 bp):
AGCACTTTTCAAATGCTTGGTCTGGAAA
Found at i:6822662 original size:258 final size:257
Alignment explanation
Indices: 6822140--6822819 Score: 990
Period size: 258 Copynumber: 2.6 Consensus size: 257
6822130 TAAAGGCGGC
*
6822140 TTTTGATTGCAAAAGCACTTTCGAACCTCAATGCCAAACTCACCTTTAGAGTGGTGACTCAATGC
1 TTTTGATTGCAAAAGCACTTTCCAACCTCAATGCCAAACTCACCTTTAGAGTGGTGACTCAATGC
** * *
6822205 AAAAACTATGAAAGACCATGATTGTTTCAATATTGTCCACTAGGATTGCACTTTTTGTAGGCTGT
66 AAAAACTACAAAAGACCATGATTGCTTCAATATTGTCCACTAGGATTGTACTTTTTGTAGGCTGT
* *
6822270 AACTGGGTTATGACCTATTTTCATTAACTTGAAAGAAAGTTCTTTCACTGTTGGGCATTTGCTAA
131 AAGTGGGTTATGACCTATTTTCATTAACATGAAAGAAAGTTCTTT-ACTGTTGGGCATTTGCTAA
* * * * * * *
6822335 GTCTTGAGCTGGTCCATTTTTAACACGGATCATGTTGATGTTGAGGTTGCCGTTAAAAGCAGC
195 CTCCTGAGCTAGTCCACTTTTAACACGGATCATGTTGATGTTGAGATAGCCGTTAAAAGCAGA
* *
6822398 TTTTGATTTCAAAAGCACTTTCCAACCTTAATGCCAAACTCACCTTTAGAGTGGTGACTCAATGC
1 TTTTGATTGCAAAAGCACTTTCCAACCTCAATGCCAAACTCACCTTTAGAGTGGTGACTCAATGC
* ** *
6822463 AAAAACTACAAAAGACCATGGTTGCTTCAATATCATCCACTAGGATTGTACTTTTTGTATGCTGT
66 AAAAACTACAAAAGACCATGATTGCTTCAATATTGTCCACTAGGATTGTACTTTTTGTAGGCTGT
* *
6822528 AAGTGGGTTATGACCTGTTTTCATTAACATGTACA-AAAGTTC-TT-CTGTTGGTCTGGCATTTG
131 AAGTGGGTTATGACCTATTTTCATTAACATG-AAAGAAAGTTCTTTACTGTT-G---GGCATTTG
* *
6822590 CTAACTCCTGAGCTAGTCCACTTTTAACATGGATCATGTTGATGTTGAGATAGCTGTTAAAA-CA
191 CTAACTCCTGAGCTAGTCCACTTTTAACACGGATCATGTTGATGTTGAGATAGCCGTTAAAAGCA
6822654 GA
256 GA
* * * *
6822656 TTTTGATTGCAAAACCACTTTCCAACCTCAATGCCGAACTCACCTTTTGGGTGGTGACTCAATGC
1 TTTTGATTGCAAAAGCACTTTCCAACCTCAATGCCAAACTCACCTTTAGAGTGGTGACTCAATGC
* * *
6822721 GAAAACTACAAAAGACCATGATTGCTTCAATATTGTCCTCTAGGATTGTACATTTTGTAGGCTGT
66 AAAAACTACAAAAGACCATGATTGCTTCAATATTGTCCACTAGGATTGTACTTTTTGTAGGCTGT
*
6822786 AAGTGGGTTATGACCTATTTTCATTAACTTGAAA
131 AAGTGGGTTATGACCTATTTTCATTAACATGAAA
6822820 TAAAATTCCT
Statistics
Matches: 377, Mismatches: 40, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
255 5 0.01
256 1 0.00
257 4 0.01
258 303 0.80
259 64 0.17
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (257 bp):
TTTTGATTGCAAAAGCACTTTCCAACCTCAATGCCAAACTCACCTTTAGAGTGGTGACTCAATGC
AAAAACTACAAAAGACCATGATTGCTTCAATATTGTCCACTAGGATTGTACTTTTTGTAGGCTGT
AAGTGGGTTATGACCTATTTTCATTAACATGAAAGAAAGTTCTTTACTGTTGGGCATTTGCTAAC
TCCTGAGCTAGTCCACTTTTAACACGGATCATGTTGATGTTGAGATAGCCGTTAAAAGCAGA
Found at i:6825449 original size:15 final size:15
Alignment explanation
Indices: 6825429--6825516 Score: 117
Period size: 15 Copynumber: 5.9 Consensus size: 15
6825419 TCCCCACACA
6825429 TTTCCCTCCAAAAGT
1 TTTCCCTCCAAAAGT
*
6825444 TTTCCCTCC-AAAGCA
1 TTTCCCTCCAAAAG-T
6825459 TTTCCCTCCAAAAGT
1 TTTCCCTCCAAAAGT
* *
6825474 TTTCCTTCC-AAAGCA
1 TTTCCCTCCAAAAG-T
6825489 TTTCCCTCCAAAAGT
1 TTTCCCTCCAAAAGT
6825504 TTTCCCTCCAAAA
1 TTTCCCTCCAAAA
6825517 CATTTGGGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
14 8 0.13
15 47 0.75
16 8 0.13
ACGTcount: A:0.27, C:0.35, G:0.06, T:0.32
Consensus pattern (15 bp):
TTTCCCTCCAAAAGT
Found at i:6825461 original size:30 final size:30
Alignment explanation
Indices: 6825427--6825521 Score: 172
Period size: 30 Copynumber: 3.2 Consensus size: 30
6825417 GTTCCCCACA
6825427 CATTTCCCTCCAAAAGTTTTCCCTCCAAAG
1 CATTTCCCTCCAAAAGTTTTCCCTCCAAAG
*
6825457 CATTTCCCTCCAAAAGTTTTCCTTCCAAAG
1 CATTTCCCTCCAAAAGTTTTCCCTCCAAAG
*
6825487 CATTTCCCTCCAAAAGTTTTCCCTCCAAAA
1 CATTTCCCTCCAAAAGTTTTCCCTCCAAAG
6825517 CATTT
1 CATTT
6825522 GGGAGGAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.27, C:0.35, G:0.05, T:0.33
Consensus pattern (30 bp):
CATTTCCCTCCAAAAGTTTTCCCTCCAAAG
Found at i:6825770 original size:15 final size:15
Alignment explanation
Indices: 6825750--6825820 Score: 97
Period size: 15 Copynumber: 4.7 Consensus size: 15
6825740 GTCGAGTCAT
*
6825750 TCTGCGTGCCACGCA
1 TCTGCGTGCCGCGCA
*
6825765 TCTGCGTGCCGCGTA
1 TCTGCGTGCCGCGCA
* *
6825780 CCTGCGTGCCGTGCA
1 TCTGCGTGCCGCGCA
6825795 TCTGCGTGCCGCGCA
1 TCTGCGTGCCGCGCA
*
6825810 TTTGCGTGCCG
1 TCTGCGTGCCG
6825821 TGCGGGTTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.07, C:0.37, G:0.32, T:0.24
Consensus pattern (15 bp):
TCTGCGTGCCGCGCA
Found at i:6834995 original size:16 final size:16
Alignment explanation
Indices: 6834965--6835011 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
6834955 TTTTGGATTC
*
6834965 AATAAAAATATAAAAA
1 AATAAAAATCTAAAAA
* *
6834981 AATAAAAATCCAAAAG
1 AATAAAAATCTAAAAA
*
6834997 AATCAAAATCTAAAA
1 AATAAAAATCTAAAA
6835012 TTTTCTTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (16 bp):
AATAAAAATCTAAAAA
Found at i:6836040 original size:29 final size:28
Alignment explanation
Indices: 6835997--6836275 Score: 296
Period size: 28 Copynumber: 9.9 Consensus size: 28
6835987 GTGGCTTTAG
6835997 CATGTTTGTCTTAATTTAGACAAGAAAA
1 CATGTTTGTCTTAATTTAGACAAGAAAA
* * *
6836025 CATGTTTGGTCTTAATTTAAAGAAAAAAA
1 CATGTTT-GTCTTAATTTAGACAAGAAAA
* * *
6836054 TATGTTTGTCTTAATTTGGATAAGAAAA
1 CATGTTTGTCTTAATTTAGACAAGAAAA
* *
6836082 TATATTTGTCTTAATTTAGACAAGAAAA
1 CATGTTTGTCTTAATTTAGACAAGAAAA
*
6836110 CATGTTTTGTCTTAATTTTGACAA-AAACA
1 CATG-TTTGTCTTAATTTAGACAAGAAA-A
* *
6836139 CATG--TGTCTTAATTTGGACGAGAAAA
1 CATGTTTGTCTTAATTTAGACAAGAAAA
6836165 CATGTTTGTCTTAATTTAGACAA-AAAA
1 CATGTTTGTCTTAATTTAGACAAGAAAA
* * *
6836192 AATGTTTTATCTTAATTTAGACAAAAAAA
1 CATG-TTTGTCTTAATTTAGACAAGAAAA
* * * * *
6836221 CATGTTTGTCTCAATTTAGGCAGGATAG
1 CATGTTTGTCTTAATTTAGACAAGAAAA
*
6836249 CATGTTTTGTCTTAATTAAAGACAAGA
1 CATG-TTTGTCTTAATT-TAGACAAGA
6836276 GTTTTCTTAA
Statistics
Matches: 209, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
26 20 0.10
27 10 0.05
28 108 0.52
29 65 0.31
30 6 0.03
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (28 bp):
CATGTTTGTCTTAATTTAGACAAGAAAA
Found at i:6836205 original size:111 final size:112
Alignment explanation
Indices: 6835997--6836270 Score: 299
Period size: 111 Copynumber: 2.4 Consensus size: 112
6835987 GTGGCTTTAG
*
6835997 CATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAAAGAAAAAAATATGTTTG
1 CATGTTTGTCTTAATTTAGACAAGAAAACATG-TTGGTCTTAATTTAAAGAAAAAAACATGTTTG
* * * * *
6836062 TCTTAATTTGGATAAGAAAATATATTTGTCTTAATTTAGACAAGAAAA
65 TCTTAATTTAGACAAGAAAAAATATTTATCTTAATTTAGACAAAAAAA
* * * *
6836110 CATGTTTTGTCTTAATTTTGACAA-AAACACATG-T-GTCTTAATTTGGACG-AGAAAACATGTT
1 CATG-TTTGTCTTAATTTAGACAAGAAA-ACATGTTGGTCTTAATTT-AAAGAAAAAAACATGTT
*
6836171 TGTCTTAATTTAGACAA-AAAAAATGTTTTATCTTAATTTAGACAAAAAAA
63 TGTCTTAATTTAGACAAGAAAAAAT-ATTTATCTTAATTTAGACAAAAAAA
* * * * * *
6836221 CATGTTTGTCTCAATTTAGGCAGGATAGCATGTTTTGTCTTAA-TTAAAGA
1 CATGTTTGTCTTAATTTAGACAAGAAAACATG-TTGGTCTTAATTTAAAGA
6836271 CAAGAGTTTT
Statistics
Matches: 133, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
110 25 0.19
111 65 0.49
112 6 0.05
113 14 0.11
114 23 0.17
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (112 bp):
CATGTTTGTCTTAATTTAGACAAGAAAACATGTTGGTCTTAATTTAAAGAAAAAAACATGTTTGT
CTTAATTTAGACAAGAAAAAATATTTATCTTAATTTAGACAAAAAAA
Found at i:6836230 original size:139 final size:140
Alignment explanation
Indices: 6836003--6836265 Score: 368
Period size: 139 Copynumber: 1.9 Consensus size: 140
6835993 TTAGCATGTT
* *
6836003 TGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAAAGAAAAAAATATGTTTGTCTTAA
1 TGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAAACAAAAAAATATGTTTATCTTAA
* * * * *
6836068 TTTGGATAAGAAAATATATTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTTGACA
66 TTTAGACAAAAAAACATATTTGTCTCAATTTAGACAAGAAAACATGTTTTGTCTTAATTTTGACA
6836133 AAAACACATG
131 AAAACACATG
* * *
6836143 TGTCTTAATTTGGACGAGAAAACATGTTT-GTCTTAATTTAGACAAAAAAA-ATGTTTTATCTTA
1 TGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAAACAAAAAAATATG-TTTATCTTA
* * * * *
6836206 ATTTAGACAAAAAAACATGTTTGTCTCAATTTAGGCAGGATAGCATGTTTTGTCTTAATT
65 ATTTAGACAAAAAAACATATTTGTCTCAATTTAGACAAGAAAACATGTTTTGTCTTAATT
6836266 AAAGACAAGA
Statistics
Matches: 107, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
138 3 0.03
139 77 0.72
140 27 0.25
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (140 bp):
TGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAAACAAAAAAATATGTTTATCTTAA
TTTAGACAAAAAAACATATTTGTCTCAATTTAGACAAGAAAACATGTTTTGTCTTAATTTTGACA
AAAACACATG
Found at i:6846483 original size:16 final size:16
Alignment explanation
Indices: 6846459--6846501 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
6846449 ACATAAAATT
*
6846459 AAAATAACTCACT-TA
1 AAAATAACTAACTATA
6846474 AAAATAAACTAACTATA
1 AAAAT-AACTAACTATA
*
6846491 AAAACAACTAA
1 AAAATAACTAA
6846502 AAATAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 13 0.54
17 6 0.25
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAACTAACTATA
Found at i:6862674 original size:31 final size:31
Alignment explanation
Indices: 6862613--6862674 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
6862603 GAACATGTTG
*
6862613 AAAGATTAAACTAAAGTTTATGACTTAAAAA
1 AAAGATTAAACTAAAGTTTATGACTCAAAAA
* *
6862644 AAAGATTAAGCTAGAGTTTATGCAC-CAAAAA
1 AAAGATTAAACTAAAGTTTATG-ACTCAAAAA
6862675 TTTGATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (31 bp):
AAAGATTAAACTAAAGTTTATGACTCAAAAA
Found at i:6866842 original size:21 final size:22
Alignment explanation
Indices: 6866813--6866856 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6866803 ATTAGTTTGA
*
6866813 TTTAAGTTATTTTG-GTTTAAT
1 TTTAAGTTATTTTGTGTTAAAT
*
6866834 TTTATGTTATTTTGTGTTAAAT
1 TTTAAGTTATTTTGTGTTAAAT
6866856 T
1 T
6866857 ACTTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.64
Consensus pattern (22 bp):
TTTAAGTTATTTTGTGTTAAAT
Found at i:6866942 original size:99 final size:99
Alignment explanation
Indices: 6866823--6867023 Score: 314
Period size: 99 Copynumber: 2.0 Consensus size: 99
6866813 TTTAAGTTAT
* * *
6866823 TTTGGTTTAATTTTATGTTATTTTGTGTTAAATTACTTTAAATA-TAGTTATTGCTGATTTCTCT
1 TTTGGTTTAATTTTACGTTATTTTGTGTTAAATTACTTTAAA-AGTAGTTATTGCTAACTTCTCT
*
6866887 TATTACTTTGTAGTAAAGTCAATAAAAAAGGCTTA
65 TATTACTTTGTAGTAAAGTCAATAAAAAAGGCTCA
*
6866922 TTTGGTTTAATTTTACGTTATTTTGTTTTAAATTACTTTAAAAGTAGTTATTGCTAACTTCTCTT
1 TTTGGTTTAATTTTACGTTATTTTGTGTTAAATTACTTTAAAAGTAGTTATTGCTAACTTCTCTT
* * *
6866987 ATTGCTTTGTAGTAAATTCAATGAAAAAGGCTCA
66 ATTACTTTGTAGTAAAGTCAATAAAAAAGGCTCA
6867021 TTT
1 TTT
6867024 AATGAAAATT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 1 0.01
99 92 0.99
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.49
Consensus pattern (99 bp):
TTTGGTTTAATTTTACGTTATTTTGTGTTAAATTACTTTAAAAGTAGTTATTGCTAACTTCTCTT
ATTACTTTGTAGTAAAGTCAATAAAAAAGGCTCA
Found at i:6867724 original size:35 final size:35
Alignment explanation
Indices: 6867685--6867808 Score: 112
Period size: 35 Copynumber: 3.6 Consensus size: 35
6867675 TTACAATGGC
* * *
6867685 TTTTCACAAGCTCAGCCACAACCTTTAACAATGGT
1 TTTTCACAAGCTCAACCAAAACCTTTAACAATAGT
* *
6867720 TTTTCACTAGATCAACCAAAACC--TAA-AATAGT
1 TTTTCACAAGCTCAACCAAAACCTTTAACAATAGT
* * *
6867752 TTTTCGA-AGGCTCAACCATAACCTTTAACAATAAT
1 TTTTC-ACAAGCTCAACCAAAACCTTTAACAATAGT
* * *
6867787 TTTTCACGAGATCAAACAAAAC
1 TTTTCACAAGCTCAACCAAAAC
6867809 TCAAAATCTA
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
32 22 0.32
33 4 0.06
34 4 0.06
35 39 0.57
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (35 bp):
TTTTCACAAGCTCAACCAAAACCTTTAACAATAGT
Found at i:6868346 original size:73 final size:73
Alignment explanation
Indices: 6868223--6868399 Score: 223
Period size: 73 Copynumber: 2.4 Consensus size: 73
6868213 TAGACAGAGT
* * **
6868223 GCTCTTAATTGACTAACATGATTCTTAGTTGATTAAGTTGTCTCCATCTTGTAACT-ATAGTTTC
1 GCTCTTAGTTGACTAACATGCTTCTTAGTCAATTAAGTTGTCTCCATCTTGTAACTGA-AGTTTC
*
6868287 TAGTAGTTAA
65 TAGCAG-TAA
* * **
6868297 -CTCTTAGTTGGCTAGCATGCTTCTTAGTCAATTAAGTTGTCTCTGTCTTGTAACTGAAGTTTCT
1 GCTCTTAGTTGACTAACATGCTTCTTAGTCAATTAAGTTGTCTCCATCTTGTAACTGAAGTTTCT
6868361 AGCAGTAA
66 AGCAGTAA
*
6868369 GCTCTTAGTTGACTAACCATGCTTTTTAGTC
1 GCTCTTAGTTGACTAA-CATGCTTCTTAGTC
6868400 GACTAAGTCT
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
72 3 0.03
73 71 0.81
74 14 0.16
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (73 bp):
GCTCTTAGTTGACTAACATGCTTCTTAGTCAATTAAGTTGTCTCCATCTTGTAACTGAAGTTTCT
AGCAGTAA
Found at i:6869293 original size:21 final size:21
Alignment explanation
Indices: 6869269--6869313 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6869259 CAGTTCCTTT
6869269 TTTTATCTTCTTTTGCTTC-TC
1 TTTTATCTT-TTTTGCTTCTTC
* *
6869290 TTTTGTCTTTTTTTCTTCTTC
1 TTTTATCTTTTTTGCTTCTTC
6869311 TTT
1 TTT
6869314 AAGCTCTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTATCTTTTTTGCTTCTTC
Found at i:6870438 original size:67 final size:67
Alignment explanation
Indices: 6870325--6870454 Score: 188
Period size: 67 Copynumber: 1.9 Consensus size: 67
6870315 TAGAGTGGCT
* * * *
6870325 TTTCATAGGCTCAAGCACAACCTTTAACAATGGTTTTTCACAAGATCAACTAAAACCCAAAATGG
1 TTTCAAAGGCTCAACCACAACCATTAACAATGGTTTTTCACAAGATCAACCAAAACCCAAAATGG
6870390 TA
66 TA
* * * *
6870392 TTTCAAAGGCTCAACCACCACCATTAACTATGGTTTTTCACTAGATCAACCAAAATCCAAAAT
1 TTTCAAAGGCTCAACCACAACCATTAACAATGGTTTTTCACAAGATCAACCAAAACCCAAAAT
6870455 CTAACTTTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (67 bp):
TTTCAAAGGCTCAACCACAACCATTAACAATGGTTTTTCACAAGATCAACCAAAACCCAAAATGG
TA
Found at i:6870978 original size:73 final size:72
Alignment explanation
Indices: 6870859--6870994 Score: 202
Period size: 73 Copynumber: 1.9 Consensus size: 72
6870849 GATAGAGTGC
* *
6870859 TTTTAATTGACTAACATGCCTTTTAGTTGATTAAGTTGTCTCTATCTTGTAACTGTAGTTTCTAG
1 TTTTAATTGACTAACA-GCCTTTTAGTCGATTAAGTTGTCTCTATCTTGTAACTGAAGTTTCTAG
6870924 TAGTAAAA
65 TAGTAAAA
* *
6870932 TTTTAGTTGACTAACA-CACTTCTTAGTCGATTAAGTTGTCTCTATCTTGTAATTGAAGTTTCT
1 TTTTAATTGACTAACAGC-CTT-TTAGTCGATTAAGTTGTCTCTATCTTGTAACTGAAGTTTCT
6870995 GGCAGTGAGC
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
71 1 0.02
72 3 0.05
73 53 0.93
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.46
Consensus pattern (72 bp):
TTTTAATTGACTAACAGCCTTTTAGTCGATTAAGTTGTCTCTATCTTGTAACTGAAGTTTCTAGT
AGTAAAA
Found at i:6871011 original size:73 final size:73
Alignment explanation
Indices: 6870865--6871026 Score: 188
Period size: 73 Copynumber: 2.2 Consensus size: 73
6870855 GTGCTTTTAA
* * *
6870865 TTGACTAACATGC-CTT-TTAGTTGATTAAGTTGTCTCTATCTTGTAACTGTAGTTTCTAGTAGT
1 TTGACTAACA--CACTTCTTAGTCGATTAAGTTGTCTCTATCTTGTAACTGAAGTTTCTAGCAGT
*
6870928 AAAATTTTAG
64 AAAATCTTAG
* * *
6870938 TTGACTAACACACTTCTTAGTCGATTAAGTTGTCTCTATCTTGTAATTGAAGTTTCTGGCAGTGA
1 TTGACTAACACACTTCTTAGTCGATTAAGTTGTCTCTATCTTGTAACTGAAGTTTCTAGCAGTAA
**
6871003 GCTCTTAG
66 AATCTTAG
*
6871011 TTAACTAAC-CA-TTCTT
1 TTGACTAACACACTTCTT
6871027 TTTAATCGGC
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
71 6 0.08
72 5 0.06
73 66 0.86
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (73 bp):
TTGACTAACACACTTCTTAGTCGATTAAGTTGTCTCTATCTTGTAACTGAAGTTTCTAGCAGTAA
AATCTTAG
Found at i:6872075 original size:15 final size:15
Alignment explanation
Indices: 6872044--6872087 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
6872034 TTTAGTTTTG
6872044 TTAATTAATTTAGTGTT
1 TTAATTAATTT--TGTT
**
6872061 TTCTTTAATTTTGTT
1 TTAATTAATTTTGTT
6872076 TTAATTAATTTT
1 TTAATTAATTTT
6872088 CTAAAACATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 14 0.61
17 9 0.39
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATTAATTTTGTT
Found at i:6879234 original size:13 final size:13
Alignment explanation
Indices: 6879216--6879240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6879206 ATGAGCCTCA
6879216 CAAAAGTCTTGCC
1 CAAAAGTCTTGCC
6879229 CAAAAGTCTTGC
1 CAAAAGTCTTGC
6879241 TAACAACTAC
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:0.28, G:0.16, T:0.24
Consensus pattern (13 bp):
CAAAAGTCTTGCC
Found at i:6883880 original size:27 final size:28
Alignment explanation
Indices: 6883840--6883892 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
6883830 GTTAAGCACC
6883840 ATTGTCATCAGCTC-GCTCAACTCTCTGA
1 ATTGTCATCAGCTCTG-TCAACTCTCTGA
*
6883868 ATTGT-ATGAGCTCTGTCAACTCTCT
1 ATTGTCATCAGCTCTGTCAACTCTCT
6883893 ATTAAGCACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (28 bp):
ATTGTCATCAGCTCTGTCAACTCTCTGA
Found at i:6884194 original size:22 final size:21
Alignment explanation
Indices: 6884168--6884238 Score: 88
Period size: 22 Copynumber: 3.3 Consensus size: 21
6884158 ATTGTGAACA
6884168 ATTTTTGAACTTGCGTGTAAC
1 ATTTTTGAACTTGCGTGTAAC
**
6884189 ATTTTTGAACAAGGCGTGTAAC
1 ATTTTTGAAC-TTGCGTGTAAC
**
6884211 ACTTTTTGAACTTAAGTGTAAC
1 A-TTTTTGAACTTGCGTGTAAC
6884233 ATTTTT
1 ATTTTT
6884239 AACATGGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
21 15 0.36
22 18 0.43
23 9 0.21
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (21 bp):
ATTTTTGAACTTGCGTGTAAC
Found at i:6884232 original size:44 final size:43
Alignment explanation
Indices: 6884164--6884260 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 43
6884154 ACACATTGTG
**
6884164 AACAATTTTTGAACTTGCGTGTAACATTTTTGAACAAGGCGTGT
1 AACAATTTTTGAACTTAAGTGTAACATTTTT-AACAAGGCGTGT
* * *
6884208 AACACTTTTTGAACTTAAGTGTAACATTTTTAACATGGTGTGT
1 AACAATTTTTGAACTTAAGTGTAACATTTTTAACAAGGCGTGT
*
6884251 ATCATATTTT
1 AACA-ATTTT
6884261 AAACATGACA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 13 0.29
44 32 0.71
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (43 bp):
AACAATTTTTGAACTTAAGTGTAACATTTTTAACAAGGCGTGT
Found at i:6884297 original size:23 final size:23
Alignment explanation
Indices: 6884180--6884300 Score: 88
Period size: 23 Copynumber: 5.4 Consensus size: 23
6884170 TTTTGAACTT
* *
6884180 GCGTGTAACA-TTTTTGAACAAG
1 GCGTGTAACATTTTTTAAACATG
* * *
6884202 GCGTGTAACACTTTTTGAAC-TT
1 GCGTGTAACATTTTTTAAACATG
**
6884224 AAGTGTAACA-TTTTT-AACATG
1 GCGTGTAACATTTTTTAAACATG
* * *
6884245 GTGTGTATCATATTTTAAACATG
1 GCGTGTAACATTTTTTAAACATG
* * * *
6884268 ACATGTAGCATTTTTTAAAAATG
1 GCGTGTAACATTTTTTAAACATG
6884291 GCGTGTAACA
1 GCGTGTAACA
6884301 ACGTGACAGA
Statistics
Matches: 77, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
20 3 0.04
21 13 0.17
22 22 0.29
23 39 0.51
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (23 bp):
GCGTGTAACATTTTTTAAACATG
Found at i:6887118 original size:31 final size:31
Alignment explanation
Indices: 6887083--6887245 Score: 103
Period size: 31 Copynumber: 5.3 Consensus size: 31
6887073 GGCATGACAT
6887083 GCTGAGTGAAAGCAGATTTATGGGGTCACAC
1 GCTGAGTGAAAGCAGATTTATGGGGTCACAC
** * * * *
6887114 GCTGAGTGCTACCAGATATATGGCGTGACAC
1 GCTGAGTGAAAGCAGATTTATGGGGTCACAC
* * *
6887145 GCTGATTGAAATG-AGAGTTATTGGGTCACAC
1 GCTGAGTGAAA-GCAGATTTATGGGGTCACAC
* *** * ** *
6887176 ACTGAGTGGTGGCAGATTTGTGTCGTGACAC
1 GCTGAGTGAAAGCAGATTTATGGGGTCACAC
* * * **
6887207 GCTAACTGAAAGGAGAGCTATGGGGTCACAC
1 GCTGAGTGAAAGCAGATTTATGGGGTCACAC
*
6887238 GTTGAGTG
1 GCTGAGTG
6887246 GTGGCAGATT
Statistics
Matches: 88, Mismatches: 42, Indels: 4
0.66 0.31 0.03
Matches are distributed among these distances:
30 1 0.01
31 87 0.99
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.25
Consensus pattern (31 bp):
GCTGAGTGAAAGCAGATTTATGGGGTCACAC
Found at i:6887174 original size:62 final size:61
Alignment explanation
Indices: 6887077--6887245 Score: 176
Period size: 62 Copynumber: 2.7 Consensus size: 61
6887067 ATTTAGGGCA
* * *
6887077 TGACATGCTGAGTGAAAGCAGATTTATGGGGTCACACGCTGAGTGCTACCAGATATATGGCG
1 TGACACGCTGACTGAAAG-AGAGTTATGGGGTCACACGCTGAGTGCTACCAGATATATGGCG
* * * * ** * * *
6887139 TGACACGCTGATTGAAATGAGAGTTATTGGGTCACACACTGAGTGGTGGCAGATTTGTGTCG
1 TGACACGCTGACTGAAA-GAGAGTTATGGGGTCACACGCTGAGTGCTACCAGATATATGGCG
* * *
6887201 TGACACGCTAACTGAAAGGAGAGCTATGGGGTCACACGTTGAGTG
1 TGACACGCTGACTGAAA-GAGAGTTATGGGGTCACACGCTGAGTG
6887246 GTGGCAGATT
Statistics
Matches: 88, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
62 87 0.99
63 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.25
Consensus pattern (61 bp):
TGACACGCTGACTGAAAGAGAGTTATGGGGTCACACGCTGAGTGCTACCAGATATATGGCG
Found at i:6887246 original size:62 final size:61
Alignment explanation
Indices: 6887101--6887271 Score: 209
Period size: 62 Copynumber: 2.8 Consensus size: 61
6887091 AAAGCAGATT
* ** * * * *
6887101 TATGGGGTCACACGCTGAGTGCTACCAGATATATG-GCGTGACACGCTGATTGAAATGAGAGT
1 TATGGGGTCACACGCTGAGTGGTGGCAGAT-T-TGTGCGTGACACGCTAACTGAAAGGAGAGC
* *
6887163 TATTGGGTCACACACTGAGTGGTGGCAGATTTGTGTCGTGACACGCTAACTGAAAGGAGAGC
1 TATGGGGTCACACGCTGAGTGGTGGCAGATTTGTG-CGTGACACGCTAACTGAAAGGAGAGC
*
6887225 TATGGGGTCACACGTTGAGTGGTGGCAGATTTGTGCAGTGACACGCT
1 TATGGGGTCACACGCTGAGTGGTGGCAGATTTGTGC-GTGACACGCT
6887272 GAGTGCTACC
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
60 2 0.02
61 3 0.03
62 89 0.95
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (61 bp):
TATGGGGTCACACGCTGAGTGGTGGCAGATTTGTGCGTGACACGCTAACTGAAAGGAGAGC
Found at i:6887400 original size:94 final size:93
Alignment explanation
Indices: 6887199--6887486 Score: 326
Period size: 93 Copynumber: 3.1 Consensus size: 93
6887189 AGATTTGTGT
* * *
6887199 CGTGACACGCTAACTGAAAGGAGAGCTATGGGGTCACACGTTGAGTGGTGGCAGATTTGTGCAGT
1 CGTGACACGCTGACTGAAAGGAGAGTTATGGGGTCACACGTTGAGTGGTGGCAGATTTGTGCAGC
* *
6887264 GACACGCTGAGTGCTACCAGATATATGG
66 GACACGCTAAGTGCTACCAAATATATGG
* * ** * *
6887292 CATGACACGATGACTGAAAGGAGAGTTATAAGGTCACACATTGAGTGGTGACAGATTTTGTGCCA
1 CGTGACACGCTGACTGAAAGGAGAGTTATGGGGTCACACGTTGAGTGGTGGCAGA-TTTGTG-CA
*
6887357 -CGACATGCTAAGTGCTACCAAATATATGG
64 GCGACACGCTAAGTGCTACCAAATATATGG
* * * * * **
6887386 CGTGACACGCTGACTGAAAGAAAAGTTATGGGGTCATACGTTGAGTGGTGGCAGAGTTGTACAAT
1 CGTGACACGCTGACTGAAAGGAGAGTTATGGGGTCACACGTTGAGTGGTGGCAGATTTGTGCAGC
* * * * *
6887451 GACACACTGAGTGCCACTAGATATATGG
66 GACACGCTAAGTGCTACCAAATATATGG
*
6887479 CATGACAC
1 CGTGACAC
6887487 ACTAAGGGTT
Statistics
Matches: 161, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
92 2 0.01
93 80 0.50
94 77 0.48
95 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (93 bp):
CGTGACACGCTGACTGAAAGGAGAGTTATGGGGTCACACGTTGAGTGGTGGCAGATTTGTGCAGC
GACACGCTAAGTGCTACCAAATATATGG
Found at i:6891359 original size:31 final size:31
Alignment explanation
Indices: 6891324--6891484 Score: 171
Period size: 31 Copynumber: 5.2 Consensus size: 31
6891314 ATAAATGTTT
* *
6891324 TTACACGCCATGCATATCAAGTAAAATGTTG
1 TTACACGCCATGCATAACAAGTAAAATATTG
* * * *
6891355 TTACACGCAATGCATAACAAGTCAAATACTA
1 TTACACGCCATGCATAACAAGTAAAATATTG
* * * *
6891386 TTACACGCCATGCATACCAAGTCAAATACTA
1 TTACACGCCATGCATAACAAGTAAAATATTG
* *
6891417 TTACACACCATGCATAACAAGTTAAAA-GTTG
1 TTACACGCCATGCATAACAAG-TAAAATATTG
* * *
6891448 TTACACGTCATGCATATCAAATAAAATATTG
1 TTACACGCCATGCATAACAAGTAAAATATTG
6891479 TTACAC
1 TTACAC
6891485 TCCAACGCAA
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
30 5 0.05
31 100 0.92
32 4 0.04
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (31 bp):
TTACACGCCATGCATAACAAGTAAAATATTG
Found at i:6892235 original size:23 final size:23
Alignment explanation
Indices: 6892204--6892308 Score: 88
Period size: 23 Copynumber: 4.6 Consensus size: 23
6892194 CCCTTAACGT
6892204 TGGCATGTCACAAATTTCCTCCA
1 TGGCATGTCACAAATTTCCTCCA
* * *** *
6892227 TGGCGTGTCA-AACTTTAAACCC
1 TGGCATGTCACAAATTTCCTCCA
* *
6892249 TAGCATGTCACAGA-TTCCTTCCA
1 TGGCATGTCACAAATTTCC-TCCA
* * *
6892272 TGGCGTGTCACAGATTCCCTCCA
1 TGGCATGTCACAAATTTCCTCCA
6892295 TGGCATGTCACAAA
1 TGGCATGTCACAAA
6892309 CCTTGAACCT
Statistics
Matches: 60, Mismatches: 19, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
22 17 0.28
23 40 0.67
24 3 0.05
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (23 bp):
TGGCATGTCACAAATTTCCTCCA
Found at i:6892332 original size:47 final size:47
Alignment explanation
Indices: 6892275--6892550 Score: 242
Period size: 47 Copynumber: 5.9 Consensus size: 47
6892265 CCTTCCATGG
* *
6892275 CGTGTCACAGATTCCCTCCATGGCATGTCACAAAC-CTTGAACCTCGA
1 CGTGTCACAAATTCCCTCCATGGCGTGTCACAAACTC-TGAACCTCGA
* * * * * *
6892322 TGTGTCACAGATTCCCTCAATGGTGTG-CTACAAACTTTGAATACT-GA
1 CGTGTCACAAATTCCCTCCATGGCGTGTC-ACAAACTCTGAA-CCTCGA
* * * * *
6892369 CGTGTCACAAATTCCCTCCATGACGTGT--CAAACTCTAAACTTTGG
1 CGTGTCACAAATTCCCTCCATGGCGTGTCACAAACTCTGAACCTCGA
* * *
6892414 CGTGTCATAGATTCCCTCCATGGCGTGTCACAAACTCTGAA-CTCTA
1 CGTGTCACAAATTCCCTCCATGGCGTGTCACAAACTCTGAACCTCGA
* * *
6892460 GCATGTCACAAATTCCCTCCATGGCATGTCACAAACTCTGAACCCTC-C
1 -CGTGTCACAAATTCCCTCCATGGCGTGTCACAAACTCTGAA-CCTCGA
* * * * *
6892508 CTTATCACAAATTCCCTCCATGGTGTGTCACAAATTCTAAACC
1 CGTGTCACAAATTCCCTCCATGGCGTGTCACAAACTCTGAACC
6892551 CTGCCTTGTG
Statistics
Matches: 184, Mismatches: 35, Indels: 21
0.77 0.15 0.09
Matches are distributed among these distances:
44 1 0.01
45 35 0.19
46 4 0.02
47 139 0.76
48 2 0.01
49 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (47 bp):
CGTGTCACAAATTCCCTCCATGGCGTGTCACAAACTCTGAACCTCGA
Found at i:6892490 original size:92 final size:92
Alignment explanation
Indices: 6892277--6892490 Score: 229
Period size: 92 Copynumber: 2.3 Consensus size: 92
6892267 TTCCATGGCG
* * *
6892277 TGTCACAGATTCCCTCCATGGCATGTCACAAACCTTGAACCTCGATGTGTCACAGATTCCCTCAA
1 TGTCACAAATTCCCTCCATGGCATGT--CAAACCTTAAACCTCGACGTGTCACAGATTCCCTCAA
* * *
6892342 TGGTGTGCTACAAACTTTGAATACTGACG
64 TGGCGTGCTACAAACTCTGAATACTGACA
* * * * * * *
6892371 TGTCACAAATTCCCTCCATGACGTGTCAAA-CTCTAAACTTTGGCGTGTCATAGATTCCCTCCAT
1 TGTCACAAATTCCCTCCATGGCATGTCAAACCT-TAAACCTCGACGTGTCACAGATTCCCTCAAT
6892435 GGCGTG-TCACAAACTCTGAACT-CT-AGCA
65 GGCGTGCT-ACAAACTCTGAA-TACTGA-CA
6892463 TGTCACAAATTCCCTCCATGGCATGTCA
1 TGTCACAAATTCCCTCCATGGCATGTCA
6892491 CAAACTCTGA
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
91 4 0.04
92 73 0.72
93 1 0.01
94 23 0.23
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (92 bp):
TGTCACAAATTCCCTCCATGGCATGTCAAACCTTAAACCTCGACGTGTCACAGATTCCCTCAATG
GCGTGCTACAAACTCTGAATACTGACA
Found at i:6892537 original size:139 final size:138
Alignment explanation
Indices: 6892272--6892529 Score: 326
Period size: 139 Copynumber: 1.9 Consensus size: 138
6892262 ATTCCTTCCA
* *
6892272 TGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACCTTGAACCTCGATGTGTCACAGATTCC
1 TGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACCTTGAACCTAGA-GTGTCACAAATTCC
* * * *
6892337 CTCAATGGTGTGCTACAAACTTTGAATACTGACGTGTCACAAATTCCCTCCATGACGTGTCAAAC
65 CTCAATGGTGTGCTACAAACTCTGAACACTCACGTATCACAAATTCCCTCCATGACGTGTCAAAC
6892402 TCTAAACTT
130 TCTAAACTT
* *
6892411 TGGCGTGTCATAGATTCCCTCCATGGCGTGTCACAAA-CTCTGAACTCTAGCA-TGTCACAAATT
1 TGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACCT-TGAAC-CTAG-AGTGTCACAAATT
* * * *
6892474 CCCTCCATGGCATGT-C-ACAAACTCTGAACCCTCCCTTATCACAAATTCCCTCCATG
63 CCCTCAATGG--TGTGCTACAAACTCTGAACACTCACGTATCACAAATTCCCTCCATG
6892530 GTGTGTCACA
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
138 2 0.02
139 92 0.90
140 4 0.04
141 4 0.04
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.28
Consensus pattern (138 bp):
TGGCGTGTCACAGATTCCCTCCATGGCATGTCACAAACCTTGAACCTAGAGTGTCACAAATTCCC
TCAATGGTGTGCTACAAACTCTGAACACTCACGTATCACAAATTCCCTCCATGACGTGTCAAACT
CTAAACTT
Found at i:6894319 original size:69 final size:66
Alignment explanation
Indices: 6894183--6894471 Score: 206
Period size: 69 Copynumber: 4.2 Consensus size: 66
6894173 TATCCTTGTG
* ** * * ***
6894183 GTATTCTTACCCCCACACTAAGATCAATAAAAAAGGAAAAAAATGGTTTGATGCCTAACTTAACC
1 GTATTCTTA-CCCCACACTAGGATC-AT-AAAAAGGGTAAAAGTAGTACAATGCCTAACTTAACC
6894248 CTAT
63 CTAT
* * *
6894252 GTTATTCTTATCACCATACTAGGATTCATAAAAAGGGTAAAAGTAGTACAATGCCTAACTTAGCC
1 G-TATTCTTA-CCCCACACTAGGA-TCATAAAAAGGGTAAAAGTAGTACAATGCCTAACTTAACC
6894317 CTAT
63 CTAT
* * * *
6894321 CGTATTCTTACCCTCACACTGGGATC-TATAAAGAGATGAAAAGTTGTACAATATG-C-AACTTA
1 -GTATTCTTACCC-CACACTAGGATCATAAAAAG-GGT-AAAAGTAGTAC-A-ATGCCTAACTTA
*
6894383 ACCCTGT
60 ACCCTAT
* * * * *
6894390 GGCATTCTTACCCCCACACTAGCACTCATAAAAAGGGAAAAAGTGGTACAATGCCCAACTTAACC
1 -GTATTCTTA-CCCCACACTAGGA-TCATAAAAAGGGTAAAAGTAGTACAATGCCTAACTTAACC
* *
6894455 TTGT
63 CTAT
6894459 AGTATTCTTACCC
1 -GTATTCTTACCC
6894472 TCACTCTAAG
Statistics
Matches: 176, Mismatches: 31, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
67 9 0.05
68 11 0.06
69 116 0.66
70 29 0.16
71 11 0.06
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (66 bp):
GTATTCTTACCCCACACTAGGATCATAAAAAGGGTAAAAGTAGTACAATGCCTAACTTAACCCTA
T
Found at i:6897584 original size:29 final size:29
Alignment explanation
Indices: 6897544--6897631 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 29
6897534 ACCTTTCCCA
*
6897544 AAGGATGTATAACCTT-CATTACCTTTTC
1 AAGGAGGTATAACCTTACATTACCTTTTC
*
6897572 AGAGGAGGTATAACCTTTAGTATTACCTTTTC
1 A-AGGAGGTATAACC-TTA-CATTACCTTTTC
* * *
6897604 ATGGAGTTATAACCTTTACACTACCTTT
1 AAGGAGGTATAACC-TTACATTACCTTT
6897632 GGTTTAGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 12 0.24
30 10 0.20
31 15 0.30
32 12 0.24
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (29 bp):
AAGGAGGTATAACCTTACATTACCTTTTC
Found at i:6897618 original size:31 final size:32
Alignment explanation
Indices: 6897561--6897621 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
6897551 TATAACCTTC
6897561 ATTACCTTTTCAGAGGAGGTATAACCTTTAGT
1 ATTACCTTTTCAGAGGAGGTATAACCTTTAGT
* *
6897593 ATTACCTTTTCA-TGGAGTTATAACCTTTA
1 ATTACCTTTTCAGAGGAGGTATAACCTTTA
6897622 CACTACCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (32 bp):
ATTACCTTTTCAGAGGAGGTATAACCTTTAGT
Found at i:6901655 original size:27 final size:29
Alignment explanation
Indices: 6901625--6901684 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
6901615 ATAAAAATTT
*
6901625 ATTTAAATTAAA-ATAA-AAAAAATTAAA
1 ATTTAAATTAAATATAATAAAAAATAAAA
6901652 ATTT-AATTAAATATAATAAAAAATAAAA
1 ATTTAAATTAAATATAATAAAAAATAAAA
6901680 ATTTA
1 ATTTA
6901685 TTTTAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.24
27 8 0.28
28 14 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
ATTTAAATTAAATATAATAAAAAATAAAA
Found at i:6904248 original size:2 final size:2
Alignment explanation
Indices: 6904236--6904271 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
6904226 CATGCCTTGC
* *
6904236 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6904272 AGCATGCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6906123 original size:18 final size:19
Alignment explanation
Indices: 6906088--6906125 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
6906078 GAACTTCAAG
*
6906088 TTTAATATTAACATGAAAT
1 TTTAATATTAACAAGAAAT
*
6906107 TTTAA-ATTAAGAAGAAAT
1 TTTAATATTAACAAGAAAT
6906125 T
1 T
6906126 GAAGATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (19 bp):
TTTAATATTAACAAGAAAT
Found at i:6914001 original size:25 final size:25
Alignment explanation
Indices: 6913964--6914021 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
6913954 CATTCACATA
*
6913964 CAAGATTTTGGCCAAGTTTGCTATG
1 CAAGATTTCGGCCAAGTTTGCTATG
6913989 CAAGATTTCGGCCAAGTTTGCTATG
1 CAAGATTTCGGCCAAGTTTGCTATG
6914014 CAAGATTT
1 CAAGATTT
6914022 TAATAAGGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (25 bp):
CAAGATTTCGGCCAAGTTTGCTATG
Found at i:6916028 original size:17 final size:16
Alignment explanation
Indices: 6916006--6916040 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
6915996 AACAATAACT
*
6916006 AAGCATAAAGTAAATTA
1 AAGCATAAA-TAAAGTA
6916023 AAGCATAAATAAAGTA
1 AAGCATAAATAAAGTA
6916039 AA
1 AA
6916041 ATTAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.63, C:0.06, G:0.11, T:0.20
Consensus pattern (16 bp):
AAGCATAAATAAAGTA
Found at i:6946229 original size:16 final size:16
Alignment explanation
Indices: 6946195--6946228 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6946185 AAATTTAAAG
6946195 TTTGATTGTTTTAGAT
1 TTTGATTGTTTTAGAT
*
6946211 TTTGATT-TTTTCGAT
1 TTTGATTGTTTTAGAT
6946226 TTT
1 TTT
6946229 TTTTGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.68
Consensus pattern (16 bp):
TTTGATTGTTTTAGAT
Found at i:6948485 original size:36 final size:35
Alignment explanation
Indices: 6948422--6948527 Score: 135
Period size: 35 Copynumber: 3.0 Consensus size: 35
6948412 CCAAGCTTTT
* *
6948422 ACAAAGGCTTTT-AATAGGCTC-AGCCACAATCTTGAA
1 ACAATGGCTTTTCAA-AGGCTCGA-CCACAACCTT-AA
* *
6948458 ACAATGGTTTTTCAAAGGCTCGACCACAACCTTCA
1 ACAATGGCTTTTCAAAGGCTCGACCACAACCTTAA
6948493 ACAATGGCTTTTCAAAGGCTCGACCACAACCTTAA
1 ACAATGGCTTTTCAAAGGCTCGACCACAACCTTAA
6948528 TAATGGTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
35 34 0.55
36 25 0.40
37 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (35 bp):
ACAATGGCTTTTCAAAGGCTCGACCACAACCTTAA
Found at i:6949441 original size:26 final size:27
Alignment explanation
Indices: 6949404--6949461 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
6949394 TGGGAATATT
*
6949404 TTGAT-ATCATCAAAATATCATTCAAA
1 TTGATAATCATCAAAATATCATTAAAA
*
6949430 TTGATAAT-ATCATAATATCATTAAAA
1 TTGATAATCATCAAAATATCATTAAAA
6949456 TTGATA
1 TTGATA
6949462 GTCAAAACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (27 bp):
TTGATAATCATCAAAATATCATTAAAA
Found at i:6950767 original size:80 final size:80
Alignment explanation
Indices: 6950658--6950841 Score: 262
Period size: 80 Copynumber: 2.3 Consensus size: 80
6950648 TTGTAACATG
* * * *
6950658 TATGCCATGAGATGTATGTGTTAAGTATATCATGTACATTATGAGG-TCAGCATGTAAGTGATTT
1 TATGCCATGAGATGTATGTTTTAAATATATCATGTACACTATG-GGCTAAGCATGTAAGTGATTT
*
6950722 ATGAGGTTATGAAATA
65 ATGAGGTCATGAAATA
* *
6950738 TATGCCTTGAGATGTGTGTTTTAAATATATCATGTACACTATGGGCTAAGCATGTAAGTGATTTA
1 TATGCCATGAGATGTATGTTTTAAATATATCATGTACACTATGGGCTAAGCATGTAAGTGATTTA
*
6950803 TGAGGTCATGAAATG
66 TGAGGTCATGAAATA
*
6950818 TATGCCATAAGATGTATGTGTTTA
1 TATGCCATGAGATGTATGT-TTTA
6950842 TGAAATGTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
79 2 0.02
80 85 0.93
81 4 0.04
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (80 bp):
TATGCCATGAGATGTATGTTTTAAATATATCATGTACACTATGGGCTAAGCATGTAAGTGATTTA
TGAGGTCATGAAATA
Found at i:6950848 original size:31 final size:31
Alignment explanation
Indices: 6950810--6950869 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
6950800 TTATGAGGTC
*
6950810 ATGAAATGTATGCCATAAGATGTATGTGTTT
1 ATGAAATGTATGCCATAAGATGCATGTGTTT
*
6950841 ATGAAATGTATGCCATGAGATGCATGTGT
1 ATGAAATGTATGCCATAAGATGCATGTGT
6950870 GGAGATAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (31 bp):
ATGAAATGTATGCCATAAGATGCATGTGTTT
Found at i:6952182 original size:14 final size:14
Alignment explanation
Indices: 6952152--6952200 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
6952142 TGATTTTTTC
6952152 TTTTTAGTTAA--A
1 TTTTTAGTTAATTA
*
6952164 TTTTTGGTTAATTA
1 TTTTTAGTTAATTA
6952178 TTTTTAGTTAATTA
1 TTTTTAGTTAATTA
*
6952192 -ATTTAGTTA
1 TTTTTAGTTA
6952201 TTTTATATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.31
13 8 0.25
14 14 0.44
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (14 bp):
TTTTTAGTTAATTA
Found at i:6955186 original size:17 final size:18
Alignment explanation
Indices: 6955164--6955205 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6955154 ATTTTAGTTG
6955164 TTTTTAT-AA-TTAGTTTA
1 TTTTTATCAAGTT-GTTTA
6955181 TTTTTATCAAGTTGTTTA
1 TTTTTATCAAGTTGTTTA
*
6955199 ATTTTAT
1 TTTTTAT
6955206 GTTTATTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 13 0.59
19 2 0.09
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.64
Consensus pattern (18 bp):
TTTTTATCAAGTTGTTTA
Found at i:6961946 original size:29 final size:29
Alignment explanation
Indices: 6961834--6962051 Score: 183
Period size: 29 Copynumber: 7.6 Consensus size: 29
6961824 TTTTGTCTTT
* * *
6961834 AATTAAGATAAAACATGTTATCTTGTCTA
1 AATTAAGACAAAACATATTTTCTTGTCTA
* * * * *
6961863 AATTGAGAC-AAATATGTTTGCTTGTTTA
1 AATTAAGACAAAACATATTTTCTTGTCTA
* * * *
6961891 GATTAAGGCAAAACCTATTTTTATTGTCTTA
1 AATTAAGACAAAACATA-TTTTCTTGTC-TA
* *
6961922 AATGAAGA-GAAACATATTTTCTTGTCTA
1 AATTAAGACAAAACATATTTTCTTGTCTA
* *
6961950 AATTAGGACAAAACATGTTTTCTTGTC-A
1 AATTAAGACAAAACATATTTTCTTGTCTA
* * *
6961978 AATTAAGGC-AAACATGTATTTCTTATCTA
1 AATTAAGACAAAACATAT-TTTCTTGTCTA
*
6962007 AATTAAGACAAAACATATTTTCTTATCTA
1 AATTAAGACAAAACATATTTTCTTGTCTA
* *
6962036 AATTAATATAAAACAT
1 AATTAAGACAAAACAT
6962052 GTTAAAGTTG
Statistics
Matches: 150, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
27 8 0.05
28 45 0.30
29 70 0.47
30 20 0.13
31 7 0.05
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (29 bp):
AATTAAGACAAAACATATTTTCTTGTCTA
Found at i:6962007 original size:57 final size:57
Alignment explanation
Indices: 6961834--6962041 Score: 168
Period size: 57 Copynumber: 3.6 Consensus size: 57
6961824 TTTTGTCTTT
* * * * * * * * * * *
6961834 AATTAAGATAAAACATGTTATCTTGTCTAAATTGAGACAAATATGTTTGCTTGTTTA
1 AATTAAGACAAAACATATTTTCTTATCTAAATTAAGGCAAACATATTTTCTTATCTA
* * * * * * *
6961891 GATTAAGGCAAAACCTATTTTTATTGTCTTAAATGAAGAG-AAACATATTTTCTTGTCTA
1 AATTAAGACAAAACATA-TTTTCTTATC-TAAATTAAG-GCAAACATATTTTCTTATCTA
* * * *
6961950 AATTAGGACAAAACATGTTTTCTTGTC-AAATTAAGGCAAACATGTATTTCTTATCTA
1 AATTAAGACAAAACATATTTTCTTATCTAAATTAAGGCAAACATAT-TTTCTTATCTA
6962007 AATTAAGACAAAACATATTTTCTTATCTAAATTAA
1 AATTAAGACAAAACATATTTTCTTATCTAAATTAA
6962042 TATAAAACAT
Statistics
Matches: 119, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
55 1 0.01
56 14 0.12
57 46 0.39
58 24 0.20
59 34 0.29
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (57 bp):
AATTAAGACAAAACATATTTTCTTATCTAAATTAAGGCAAACATATTTTCTTATCTA
Found at i:6967552 original size:20 final size:19
Alignment explanation
Indices: 6967525--6967564 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
6967515 TCATTAATTA
*
6967525 TTTAGTTAATTAATTATTT
1 TTTAGTTAATTAATCATTT
6967544 TTTAGGTTAATTAATCATTT
1 TTTA-GTTAATTAATCATTT
6967564 T
1 T
6967565 CAATAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTAGTTAATTAATCATTT
Found at i:6982813 original size:105 final size:105
Alignment explanation
Indices: 6982606--6982805 Score: 364
Period size: 105 Copynumber: 1.9 Consensus size: 105
6982596 ATGACCAAGC
*
6982606 ATGTGATGTGATTCGACCTCATGCTCAAATATGAAAATAGTCAAGAAATCAAAATATAGAGCAGC
1 ATGTGATGTGATTCGACCTCATGCCCAAATATGAAAATAGTCAAGAAATCAAAATATAGAGCAGC
*
6982671 AGAATAATAAACTAGCATTTAATCAAAGAAACAGTCGAGG
66 AGAATAATAAACTAGCATTAAATCAAAGAAACAGTCGAGG
* *
6982711 ATGTGCTGTGATTCGACCTCATGCCCAAATATGAAAATAGTCAAGAAATCAAAATATAGAGCAGT
1 ATGTGATGTGATTCGACCTCATGCCCAAATATGAAAATAGTCAAGAAATCAAAATATAGAGCAGC
6982776 AGAATAATAAACTAGCATTAAATCAAAGAA
66 AGAATAATAAACTAGCATTAAATCAAAGAA
6982806 TTAGTCGAAT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 91 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (105 bp):
ATGTGATGTGATTCGACCTCATGCCCAAATATGAAAATAGTCAAGAAATCAAAATATAGAGCAGC
AGAATAATAAACTAGCATTAAATCAAAGAAACAGTCGAGG
Found at i:6987270 original size:69 final size:68
Alignment explanation
Indices: 6987166--6987416 Score: 195
Period size: 68 Copynumber: 3.7 Consensus size: 68
6987156 GTCTCATAAG
* * * * *
6987166 GTATATGAAAAATACTTCATATACATAATCTCATGGCATTCATCATGCTTTCTAAATCA-TCTCA
1 GTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTAAATCACT-TCA
*
6987230 TGTA
65 TATA
* ** * * *
6987234 GTATTATGGAATATGCATCATATACATTCTCTCATGGCATTTATCATGCATACTCAATCACTTTA
1 GTA-TATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTAAATCACTTCA
6987299 TATA
65 TATA
* * * * * * * * *
6987303 GTATATGGAATTTACATCATATATACAATCTTATAGTATACATCCTGCATACTTAATCA-TCTCA
1 GTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTAAATCACT-TCA
*
6987367 TA-C
65 TATA
* * * *
6987370 GATATATGGAATTTACATCATGTACTTAATC-CTACGGCATTCATCAT
1 G-TATATGGAATATACATCATATACATAATCTC-ATGGCATTCATCAT
6987417 ACCAAACAAG
Statistics
Matches: 141, Mismatches: 37, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
67 2 0.01
68 84 0.60
69 54 0.38
70 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (68 bp):
GTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTAAATCACTTCAT
ATA
Found at i:6988466 original size:62 final size:62
Alignment explanation
Indices: 6988389--6988542 Score: 229
Period size: 62 Copynumber: 2.5 Consensus size: 62
6988379 GTTTTGGGAA
* * *
6988389 AAATGTATCGATACATTACGAACATTTAT-TGATACATGTTCTTCAAAAACCCATTCTAGGCT
1 AAATGTATCGATACATTAAGAACATGTATCT-ATACATGTTCATCAAAAACCCATTCTAGGCT
* * *
6988451 AAATGTATCAATACATTATGAACATGTATCTATACATGTTCATCAGAAACCCATTCTAGGCT
1 AAATGTATCGATACATTAAGAACATGTATCTATACATGTTCATCAAAAACCCATTCTAGGCT
*
6988513 AAATGTATCGATACATCAAGAACATGTATC
1 AAATGTATCGATACATTAAGAACATGTATC
6988543 GTTACATTTA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
62 82 0.99
63 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (62 bp):
AAATGTATCGATACATTAAGAACATGTATCTATACATGTTCATCAAAAACCCATTCTAGGCT
Found at i:6989574 original size:45 final size:43
Alignment explanation
Indices: 6989454--6989575 Score: 174
Period size: 42 Copynumber: 2.8 Consensus size: 43
6989444 TTGCAATGCC
* * *
6989454 ATGATGCCATCTGTTGAGAATAATCCAGATGATGATTATGTTT
1 ATGATGCCATCTGTTGAGAGTACTCTAGATGATGATTATGTTT
6989497 ATGATGCCATCTGTTGAGAGTACTCTA-ATGATGATTATGTTT
1 ATGATGCCATCTGTTGAGAGTACTCTAGATGATGATTATGTTT
* *
6989539 ATGATGCCATCTGTTGGGGGTTTACTCTAGATGATGA
1 ATGATGCCATCTGTTGAGAG--TACTCTAGATGATGA
6989576 CTTTGGTTCT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
42 33 0.46
43 24 0.34
44 7 0.10
45 7 0.10
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (43 bp):
ATGATGCCATCTGTTGAGAGTACTCTAGATGATGATTATGTTT
Found at i:7001630 original size:73 final size:73
Alignment explanation
Indices: 7001550--7001722 Score: 215
Period size: 73 Copynumber: 2.4 Consensus size: 73
7001540 AACATTGCTA
* *** *
7001550 CTTAGTCGATTAAGTCGTCTCTGTCTCTGAACCTAATTTCCAGCAGTAGGTTGTTAGTCG-ACTA
1 CTTAGTCGATTAAGTCGTCTCTGTCTCTGAACCCAATTTCCAGCAGTAAACTCTTAGT-GAACTA
7001614 ACAAAACTT
65 ACAAAACTT
* * * **
7001623 CTTAGTCGATTAAGTCATTTCTGTCTCTGAACCCAGTTTCTGGCAGTAAACTCTTAGTGAACTAA
1 CTTAGTCGATTAAGTCGTCTCTGTCTCTGAACCCAATTTCCAGCAGTAAACTCTTAGTGAACTAA
7001688 CAAAACTT
66 CAAAACTT
*
7001696 CTTAGTTGATTAAGT-GTTCTCTGTCTC
1 CTTAGTCGATTAAGTCG-TCTCTGTCTC
7001723 CTAGTTTGCT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
72 1 0.01
73 84 0.99
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.36
Consensus pattern (73 bp):
CTTAGTCGATTAAGTCGTCTCTGTCTCTGAACCCAATTTCCAGCAGTAAACTCTTAGTGAACTAA
CAAAACTT
Found at i:7022945 original size:29 final size:28
Alignment explanation
Indices: 7022912--7023075 Score: 159
Period size: 29 Copynumber: 5.7 Consensus size: 28
7022902 AAGATAACTT
*
7022912 TTGTCTATAATTAAGACAAAAATATTTTA
1 TTGTCTA-AATTAAGACAAAAATATTTTC
* * * *
7022941 TTGTCTAAATTGAGATAAATATTTTTTC
1 TTGTCTAAATTAAGACAAAAATATTTTC
* *
7022969 TTGTCTAGATTAAAACAAAAAATATTTGTC
1 TTGTCTAAATTAAGAC-AAAAATATTT-TC
*
7022999 TTGTCTTAAAATAAGA-AAAACATATTTTC
1 TTGTC-TAAATTAAGACAAAA-ATATTTTC
* **
7023028 TTGTCTAAATTAAGACCAAACATGGTTTC
1 TTGTCTAAATTAAGA-CAAAAATATTTTC
*
7023057 TTATCTAAATTAAGACAAA
1 TTGTCTAAATTAAGACAAA
7023076 CATGTTAAAG
Statistics
Matches: 110, Mismatches: 19, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
28 41 0.37
29 46 0.42
30 16 0.15
31 7 0.06
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.39
Consensus pattern (28 bp):
TTGTCTAAATTAAGACAAAAATATTTTC
Found at i:7023003 original size:30 final size:28
Alignment explanation
Indices: 7022912--7023040 Score: 114
Period size: 28 Copynumber: 4.5 Consensus size: 28
7022902 AAGATAACTT
* * *
7022912 TTGTCTATAATTAAGACAAAAATATTTTA
1 TTGTCTA-AATTAAAAAAAAAATATTTTC
* * * * *
7022941 TTGTCTAAATTGAGATAAATATTTTTTC
1 TTGTCTAAATTAAAAAAAAAATATTTTC
*
7022969 TTGTCTAGATTAAAACAAAAAATATTTGTC
1 TTGTCTAAATTAAAA-AAAAAATATTT-TC
* * *
7022999 TTGTCTTAAAATAAGAAAAACATATTTTC
1 TTGTC-TAAATTAAAAAAAAAATATTTTC
7023028 TTGTCTAAATTAA
1 TTGTCTAAATTAA
7023041 GACCAAACAT
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
28 35 0.43
29 22 0.27
30 17 0.21
31 7 0.09
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (28 bp):
TTGTCTAAATTAAAAAAAAAATATTTTC
Found at i:7023034 original size:59 final size:56
Alignment explanation
Indices: 7022912--7023040 Score: 150
Period size: 59 Copynumber: 2.2 Consensus size: 56
7022902 AAGATAACTT
* * * * * *
7022912 TTGTCTATAATTAAGACAAAAATATTTTATTGTCTAAATTGAGATAAATATTTTTTC
1 TTGTCTA-AATTAAAACAAAAATATTTTATTGTCTAAAATAAGAAAAACATATTTTC
* *
7022969 TTGTCTAGATTAAAACAAAAAATATTTGTCTTGTCTTAAAATAAGAAAAACATATTTTC
1 TTGTCTAAATTAAAAC-AAAAATATTT-TATTGTC-TAAAATAAGAAAAACATATTTTC
7023028 TTGTCTAAATTAA
1 TTGTCTAAATTAA
7023041 GACCAAACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
56 7 0.12
57 17 0.28
58 6 0.10
59 30 0.50
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (56 bp):
TTGTCTAAATTAAAACAAAAATATTTTATTGTCTAAAATAAGAAAAACATATTTTC
Found at i:7027298 original size:35 final size:35
Alignment explanation
Indices: 7027255--7027370 Score: 151
Period size: 35 Copynumber: 3.3 Consensus size: 35
7027245 TATCAAGCAC
* *
7027255 TTAATTAAATTGTTTAATTAAGTCATTGGGCTTAA
1 TTAATTAAATTGTTTAATTAAGTTATTGGGCCTAA
*** *
7027290 TTAATTAAATTAAATAATTAAGTTATTGTGCCTAA
1 TTAATTAAATTGTTTAATTAAGTTATTGGGCCTAA
* *
7027325 TTGATTAAATTGTTTAATGAAGTTATTGGGCCTAA
1 TTAATTAAATTGTTTAATTAAGTTATTGGGCCTAA
*
7027360 TTGATTAAATT
1 TTAATTAAATT
7027371 AAACAATTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 69 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (35 bp):
TTAATTAAATTGTTTAATTAAGTTATTGGGCCTAA
Found at i:7027383 original size:35 final size:35
Alignment explanation
Indices: 7027269--7027391 Score: 156
Period size: 35 Copynumber: 3.5 Consensus size: 35
7027259 TTAAATTGTT
* * *
7027269 TAATTAAGTCATTGGGCTTAATTAATTAAATTAAA
1 TAATTAAGTTATTGGGCCTAATTGATTAAATTAAA
* ***
7027304 TAATTAAGTTATTGTGCCTAATTGATTAAATTGTT
1 TAATTAAGTTATTGGGCCTAATTGATTAAATTAAA
*
7027339 TAATGAAGTTATTGGGCCTAATTGATTAAATTAAA
1 TAATTAAGTTATTGGGCCTAATTGATTAAATTAAA
*
7027374 CAATTAAGTTAATTGGGC
1 TAATTAAGTT-ATTGGGC
7027392 TTCTTAAGGA
Statistics
Matches: 73, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 66 0.90
36 7 0.10
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (35 bp):
TAATTAAGTTATTGGGCCTAATTGATTAAATTAAA
Found at i:7032504 original size:34 final size:34
Alignment explanation
Indices: 7032459--7032528 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
7032449 TTTCCAGAAA
*
7032459 TAATCCTTATTGACCATTTTAATAAAGATAATTT
1 TAATCCATATTGACCATTTTAATAAAGATAATTT
7032493 TAATCCATATTGACCATTTTAATAAAGATAATTT
1 TAATCCATATTGACCATTTTAATAAAGATAATTT
7032527 TA
1 TA
7032529 CTAAAATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (34 bp):
TAATCCATATTGACCATTTTAATAAAGATAATTT
Found at i:7041640 original size:14 final size:14
Alignment explanation
Indices: 7041618--7041648 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7041608 GCACCACATC
*
7041618 ATGTTACATTAACA
1 ATGTAACATTAACA
7041632 ATGTAACATTAACA
1 ATGTAACATTAACA
7041646 ATG
1 ATG
7041649 AGACCCAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (14 bp):
ATGTAACATTAACA
Found at i:7053817 original size:26 final size:25
Alignment explanation
Indices: 7053788--7053842 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 25
7053778 AACCATTCCT
7053788 AAGCATTCAACT-TATGAATATATCTA
1 AAGCATTCAACTCT-TG-ATATATCTA
7053814 AAGCATTCAACTCGTTGATATATCTA
1 AAGCATTCAACTC-TTGATATATCTA
7053840 AAG
1 AAG
7053843 TAAGCATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 24 0.89
27 2 0.07
28 1 0.04
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (25 bp):
AAGCATTCAACTCTTGATATATCTA
Found at i:7059037 original size:25 final size:25
Alignment explanation
Indices: 7058979--7059038 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
7058969 GTGGTTGCAA
*
7058979 CCACGTATATCAACTTATGGCCTAG
1 CCACGTATATCAACCTATGGCCTAG
** * * *
7059004 CTGCATATATCAACCTATGTCCTTG
1 CCACGTATATCAACCTATGGCCTAG
7059029 CCACGTATAT
1 CCACGTATAT
7059039 ATCATAGACC
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (25 bp):
CCACGTATATCAACCTATGGCCTAG
Found at i:7062423 original size:33 final size:34
Alignment explanation
Indices: 7062379--7062450 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
7062369 TTATAATAAC
* * *
7062379 AAAATTTTAATATAAGAAAAACT-CTTTTTCTTA
1 AAAAATTTAATACAAGAAAAACTCCTTTTCCTTA
*
7062412 AAAAATTTAATACAAGAAAAGCTCCTTTTCCTTA
1 AAAAATTTAATACAAGAAAAACTCCTTTTCCTTA
7062446 AAAAA
1 AAAAA
7062451 AATTAAAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 20 0.59
34 14 0.41
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (34 bp):
AAAAATTTAATACAAGAAAAACTCCTTTTCCTTA
Found at i:7063458 original size:30 final size:28
Alignment explanation
Indices: 7063422--7063518 Score: 97
Period size: 28 Copynumber: 3.3 Consensus size: 28
7063412 TCTTGACTTT
*
7063422 AATTAAGATAAAAATATTTTATTTTATCTA
1 AATTAAGA-AAAAATATTTT-TCTTATCTA
* *
7063452 AATTAAG-ACAAATATGTTTTCTTCTCTA
1 AATTAAGAAAAAATAT-TTTTCTTATCTA
*
7063480 AATTAAGAAAAAAAATATTTTTCTTGTCTTA
1 AATTAAG--AAAAAATATTTTTCTTATC-TA
7063511 AATTAAGA
1 AATTAAGA
7063519 CACACATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
28 21 0.37
29 4 0.07
30 16 0.28
31 16 0.28
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (28 bp):
AATTAAGAAAAAATATTTTTCTTATCTA
Found at i:7063479 original size:28 final size:28
Alignment explanation
Indices: 7063448--7063577 Score: 117
Period size: 29 Copynumber: 4.7 Consensus size: 28
7063438 TTTTATTTTA
* *
7063448 TCTAAATTAAGACAAATATGTTTTCTTC
1 TCTAAATTAAGACAAACATGTTTTCTTG
* * *
7063476 TCTAAATTAAGAAAAAAAATATTTTTCTTG
1 TCTAAATTAAG-ACAAACAT-GTTTTCTTG
* *
7063506 TCTTAAATTAAGACACACATATTTTCTTG
1 TC-TAAATTAAGACAAACATGTTTTCTTG
7063535 --T---TTAAGACCAAACATGTTTTCTTG
1 TCTAAATTAAGA-CAAACATGTTTTCTTG
*
7063559 TCTTAATTAAGACAAACAT
1 TCTAAATTAAGACAAACAT
7063578 ATTAAAGTTG
Statistics
Matches: 83, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
23 6 0.07
24 14 0.17
26 2 0.02
28 18 0.22
29 20 0.24
30 14 0.17
31 9 0.11
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (28 bp):
TCTAAATTAAGACAAACATGTTTTCTTG
Found at i:7063531 original size:59 final size:58
Alignment explanation
Indices: 7063422--7063533 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 58
7063412 TCTTGACTTT
* * * *
7063422 AATTAAGATAAAAATATTTTATTTTATCTAAATTAAGACAAATATGTTTTCTTCTCTA
1 AATTAAGAAAAAAATATTTTATCTTATCTAAATTAAGACAAACATATTTTCTTCTCTA
* *
7063480 AATTAAGAAAAAAAATATTTT-TCTTGTCTTAAATTAAGACACACATATTTTCTT
1 AATTAAG-AAAAAAATATTTTATCTTATC-TAAATTAAGACAAACATATTTTCTT
7063534 GTTTAAGACC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 12 0.26
59 34 0.74
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (58 bp):
AATTAAGAAAAAAATATTTTATCTTATCTAAATTAAGACAAACATATTTTCTTCTCTA
Found at i:7063539 original size:23 final size:25
Alignment explanation
Indices: 7063513--7063564 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
7063503 TTGTCTTAAA
*
7063513 TTAAGA-CACACATATTTTCTTGT-
1 TTAAGACCAAACATATTTTCTTGTC
*
7063536 TTAAGACCAAACATGTTTTCTTGTC
1 TTAAGACCAAACATATTTTCTTGTC
7063561 TTAA
1 TTAA
7063565 TTAAGACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.24
24 15 0.60
25 4 0.16
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (25 bp):
TTAAGACCAAACATATTTTCTTGTC
Found at i:7075294 original size:29 final size:29
Alignment explanation
Indices: 7075252--7075307 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
7075242 GTAAAAGTTC
* *
7075252 GAATGATGTTGTGCATATGCTTGGCACAT
1 GAATGATATAGTGCATATGCTTGGCACAT
*
7075281 GAATGATATAGTGCATATGTTTGGCAC
1 GAATGATATAGTGCATATGCTTGGCAC
7075308 TAAATTGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (29 bp):
GAATGATATAGTGCATATGCTTGGCACAT
Found at i:7079721 original size:11 final size:11
Alignment explanation
Indices: 7079705--7079729 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7079695 TTCGTATTCG
7079705 ATAAAATAATA
1 ATAAAATAATA
7079716 ATAAAATAATA
1 ATAAAATAATA
7079727 ATA
1 ATA
7079730 TCTTATTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:7091326 original size:46 final size:47
Alignment explanation
Indices: 7091275--7091367 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
7091265 AATACCTTAA
7091275 GTAAATGGAGAGT-AAAAAAAAGTAAAGAGAACATTTACTTAAATGG
1 GTAAATGGAGAGTAAAAAAAAAGTAAAGAGAACATTTACTTAAATGG
*
7091321 GTAAATGGAGAGTAAAAAAAAAGTAATGAGAACATTTACTTAAATGG
1 GTAAATGGAGAGTAAAAAAAAAGTAAAGAGAACATTTACTTAAATGG
7091368 TATTCAATGT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 13 0.29
47 32 0.71
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.23
Consensus pattern (47 bp):
GTAAATGGAGAGTAAAAAAAAAGTAAAGAGAACATTTACTTAAATGG
Found at i:7096123 original size:34 final size:35
Alignment explanation
Indices: 7095996--7096199 Score: 183
Period size: 34 Copynumber: 5.9 Consensus size: 35
7095986 TCTCAAGCAC
* * *
7095996 TTGATTAAAATTGTTTAATCAAG---TTGTGCCTAA
1 TTGATT-AAATTGTTTAATTAAGTTATTGGGCTTAA
* *
7096029 TTCATTAAATTGTTTAATTTAAGTTATTGGGCCTAA
1 TTGATTAAATTGTTTAA-TTAAGTTATTGGGCTTAA
*
7096065 -T-ATTAAATTTGTTT-ATCAAGTTATTGGGCTTAA
1 TTGATTAAA-TTGTTTAATTAAGTTATTGGGCTTAA
* * *
7096098 TTGATCAAATTGTTTAA-TAATTTATTAGGCTTAA
1 TTGATTAAATTGTTTAATTAAGTTATTGGGCTTAA
* *
7096132 TTAATTATAATTATTTAATTAAGTTATTGGGCTTAA
1 TTGATTA-AATTGTTTAATTAAGTTATTGGGCTTAA
**
7096168 TTGATTAAA-T-TAAAATTAAGTTAATTGGGCTT
1 TTGATTAAATTGTTTAATTAAGTT-ATTGGGCTT
7096200 CTTAGGACTT
Statistics
Matches: 143, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
32 11 0.08
33 35 0.24
34 43 0.30
35 24 0.17
36 30 0.21
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.47
Consensus pattern (35 bp):
TTGATTAAATTGTTTAATTAAGTTATTGGGCTTAA
Found at i:7099113 original size:76 final size:77
Alignment explanation
Indices: 7099032--7099194 Score: 242
Period size: 77 Copynumber: 2.1 Consensus size: 77
7099022 TATGTCATCT
*
7099032 ATTTTAATTTTGGGTGATTCATAAA-AATATGAAATTATTTCCTACTTTAAAGTG-AATTCCTAA
1 ATTTTAATTTTGGGTGATTCATAAAGAATAGGAAATTATTTCCTACTTTAAA-TGAAATTCCTAA
*
7099095 AATTAAGGATAGA-
65 AATTAAAGATA-AC
* * *
7099108 ATTTTAATTTTGGGTGATTCATAAAGAGTAGGAAATTGTTTCCTACTTTAAATGAAATTCCTAAT
1 ATTTTAATTTTGGGTGATTCATAAAGAATAGGAAATTATTTCCTACTTTAAATGAAATTCCTAAA
7099173 ATTAAAGATAAC
66 ATTAAAGATAAC
7099185 ATTTTAATTT
1 ATTTTAATTT
7099195 GAAAAATTCA
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
76 28 0.35
77 51 0.65
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (77 bp):
ATTTTAATTTTGGGTGATTCATAAAGAATAGGAAATTATTTCCTACTTTAAATGAAATTCCTAAA
ATTAAAGATAAC
Found at i:7099204 original size:76 final size:76
Alignment explanation
Indices: 7099048--7099214 Score: 196
Period size: 77 Copynumber: 2.2 Consensus size: 76
7099038 ATTTTGGGTG
* *
7099048 ATTCATAAAAATATGAAATTATTTCCTACTTTAAAGTGAATTCCTAAAATTAAGGATAGAATTTT
1 ATTCATAAAAATAGGAAATTATTTCCTACTTTAAAGTGAATTCCTAAAATTAAAGATAGAATTTT
****
7099113 AATTTTGGGTG
66 AATTTTGAAAA
* * *
7099124 ATTCATAAAGAGTAGGAAATTGTTTCCTACTTTAAA-TGAAATTCCTAATATTAAAGATA-ACAT
1 ATTCATAAA-AATAGGAAATTATTTCCTACTTTAAAGTG-AATTCCTAAAATTAAAGATAGA-AT
7099187 TTTAA-TTTGAAAA
63 TTTAATTTTGAAAA
7099200 ATTCATAAGAAATAG
1 ATTCATAA-AAATAG
7099215 TTTCCTACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
76 28 0.36
77 49 0.64
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (76 bp):
ATTCATAAAAATAGGAAATTATTTCCTACTTTAAAGTGAATTCCTAAAATTAAAGATAGAATTTT
AATTTTGAAAA
Found at i:7104190 original size:14 final size:14
Alignment explanation
Indices: 7104171--7104198 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7104161 TTTGATTATG
7104171 ATTTATATTTATTA
1 ATTTATATTTATTA
7104185 ATTTATATTTATTA
1 ATTTATATTTATTA
7104199 CCAACATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTATATTTATTA
Found at i:7114466 original size:43 final size:42
Alignment explanation
Indices: 7114386--7114466 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
7114376 CCACCTACCA
*
7114386 TGCTTTGATGCCATTTGTTGAGATTACTCCAAATGATGACTT
1 TGCTTTGATGCCATTTGTTGAGACTACTCCAAATGATGACTT
* *
7114428 TGCTTTGATGCCATTCAT-TTGAGACTACTCTAAGTGATG
1 TGCTTTGATGCCATT--TGTTGAGACTACTCCAAATGATG
7114467 CTGCCTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 15 0.44
43 18 0.53
44 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (42 bp):
TGCTTTGATGCCATTTGTTGAGACTACTCCAAATGATGACTT
Found at i:7120016 original size:74 final size:74
Alignment explanation
Indices: 7119887--7120034 Score: 253
Period size: 74 Copynumber: 2.0 Consensus size: 74
7119877 ATGAAGTTGG
7119887 TCAATCTAGAAATAGAAAAGACTTAGTCGACCAAGAAGCATGGTTAGTCGACTAAGTGCTCATTG
1 TCAATCTAGAAATAGAAAAGACTTAGTCGACCAAGAAGCATGGTTAGTCGACTAAGTGCTCATTG
7119952 CTAGAAACT
66 CTAGAAACT
* *
7119961 TCAAT-TAGAAAATAGACAAGTCTTAGTCGACCAAGAAGCATGGTTAGTCGACTAAGTGCTCATT
1 TCAATCTAG-AAATAGAAAAGACTTAGTCGACCAAGAAGCATGGTTAGTCGACTAAGTGCTCATT
*
7120025 GCTAGGAACT
65 GCTAGAAACT
7120035 AGGCGCAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 3 0.04
74 67 0.96
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (74 bp):
TCAATCTAGAAATAGAAAAGACTTAGTCGACCAAGAAGCATGGTTAGTCGACTAAGTGCTCATTG
CTAGAAACT
Found at i:7120050 original size:74 final size:73
Alignment explanation
Indices: 7119896--7120081 Score: 223
Period size: 74 Copynumber: 2.5 Consensus size: 73
7119886 GTCAATCTAG
7119896 AAATAGAAAAGACTTAGTCGACCAAGAAGCATGGTTAGTCGACTAAGTGCTCATTGCTAGAAACT
1 AAATAG-AAAGACTTAGTCGACCAAGAAGCATGGTTAGTCGACTAAGTGCTCATTGCTAGAAACT
* **
7119961 TCAATTAGA
65 ACAAGCAGA
* *
7119970 AAATAGACAAGTCTTAGTCGACCAAGAAGCATGGTTAGTCGACTAAGTGCTCATTGCTAGGAACT
1 AAATAGA-AAGACTTAGTCGACCAAGAAGCATGGTTAGTCGACTAAGTGCTCATTGCTAGAAACT
***
7120035 AGGCGCA-A
65 ACAAGCAGA
* * *
7120043 AAGATAGAAAGGACTTAGTTGACTAAGAAGTAT-GTTAGT
1 AA-ATAGAAA-GACTTAGTCGACCAAGAAGCATGGTTAGT
7120082 TACTAAAAGC
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
73 12 0.12
74 85 0.88
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (73 bp):
AAATAGAAAGACTTAGTCGACCAAGAAGCATGGTTAGTCGACTAAGTGCTCATTGCTAGAAACTA
CAAGCAGA
Found at i:7139076 original size:21 final size:21
Alignment explanation
Indices: 7139038--7139077 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7139028 TTAAAATTAA
**
7139038 TTTTCAAATTTTCATTTGCTT
1 TTTTCAAATCATCATTTGCTT
*
7139059 TTTTCAAATCATCTTTTGC
1 TTTTCAAATCATCATTTGC
7139078 ATTCATCAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTCAAATCATCATTTGCTT
Done.