Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 141 of 313
Found at i:45371746 original size:17 final size:17
Alignment explanation
Indices: 45371703--45371747 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
45371693 CAAAATGTAA
*
45371703 AGTCCAGAAATTTAAAC
1 AGTCCAAAAATTTAAAC
*
45371720 AGTCTAAAAATTTAAAC
1 AGTCCAAAAATTTAAAC
*
45371737 AGTCCCAAAAT
1 AGTCCAAAAAT
45371748 GGCCAAAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.24
Consensus pattern (17 bp):
AGTCCAAAAATTTAAAC
Found at i:45371903 original size:30 final size:30
Alignment explanation
Indices: 45371869--45371929 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
45371859 ACATTCAGAG
45371869 AGTGAGTTTTTGAAACTCAATGTGTAACAT
1 AGTGAGTTTTTGAAACTCAATGTGTAACAT
45371899 AGTGAGTTTTTGAAACTCAATGTGTAACAT
1 AGTGAGTTTTTGAAACTCAATGTGTAACAT
45371929 A
1 A
45371930 TTATTTAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (30 bp):
AGTGAGTTTTTGAAACTCAATGTGTAACAT
Found at i:45374643 original size:4 final size:4
Alignment explanation
Indices: 45374627--45374667 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
45374617 AATGGCATAG
*
45374627 AAAT AATAT AAAT AAAT AAAT AAAT -AA- AAAT AAAT CAAT AA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
45374668 CATGCAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 4 0.12
4 24 0.75
5 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:45374657 original size:18 final size:18
Alignment explanation
Indices: 45374627--45374667 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45374617 AATGGCATAG
*
45374627 AAAT-AATATAAATAAAT
1 AAATAAATAAAAATAAAT
45374644 AAATAAATAAAAATAAAT
1 AAATAAATAAAAATAAAT
*
45374662 CAATAA
1 AAATAA
45374668 CATGCAAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAATAAAAATAAAT
Found at i:45380985 original size:23 final size:22
Alignment explanation
Indices: 45380952--45380995 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
45380942 AAATCAACAA
*
45380952 TATACAAATCAA-TAAATAAAT
1 TATACAAATCAACAAAATAAAT
45380973 TATACACAGATCAACAAAATAAA
1 TATACA-A-ATCAACAAAATAAA
45380996 AACAAATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 5 0.26
24 7 0.37
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.23
Consensus pattern (22 bp):
TATACAAATCAACAAAATAAAT
Found at i:45381220 original size:23 final size:22
Alignment explanation
Indices: 45381175--45381232 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
45381165 AAAGGGTATC
* *
45381175 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
45381196 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCATATCTTCTAAGAT
*
45381219 TACATATCATATCT
1 TACAAATCATATCT
45381233 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:45381243 original size:19 final size:20
Alignment explanation
Indices: 45381188--45381258 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 20
45381178 AAATTAAATC
*
45381188 TCTAAGATTACAAAATCATA
1 TCTAAGATTACAATATCATA
*
45381208 TCTTCTAATATTAC-ATATCATA
1 ---TCTAAGATTACAATATCATA
*
45381230 TCTAAGATTGCATATATCATA
1 TCTAAGATTACA-ATATCATA
45381251 TCTAAGAT
1 TCTAAGAT
45381259 CATATCTAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
19 9 0.21
21 16 0.38
22 7 0.17
23 10 0.24
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (20 bp):
TCTAAGATTACAATATCATA
Found at i:45381278 original size:14 final size:12
Alignment explanation
Indices: 45381245--45381270 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45381235 GATTGCATAT
45381245 ATCATATCTAAG
1 ATCATATCTAAG
45381257 ATCATATCTAAG
1 ATCATATCTAAG
45381269 AT
1 AT
45381271 TGCATATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:45381414 original size:15 final size:13
Alignment explanation
Indices: 45381384--45381413 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
45381374 GGACTTAGAC
45381384 TTTGTTTTATTAT
1 TTTGTTTTATTAT
45381397 TTTGTGTTTATTAT
1 TTTGT-TTTATTAT
45381411 TTT
1 TTT
45381414 TTTGTGAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (13 bp):
TTTGTTTTATTAT
Found at i:45383991 original size:12 final size:13
Alignment explanation
Indices: 45383974--45384002 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
45383964 TTTAGATAAA
45383974 TTAATTCAT-ATT
1 TTAATTCATCATT
45383986 TTAATTCATCATT
1 TTAATTCATCATT
45383999 TTAA
1 TTAA
45384003 ACCTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTCATCATT
Found at i:45389044 original size:39 final size:39
Alignment explanation
Indices: 45389000--45389099 Score: 157
Period size: 39 Copynumber: 2.5 Consensus size: 39
45388990 TGAAAGTTGC
*
45389000 ACCCAGCGCTAGCAGATAAACCGACAAATATAATGATGT
1 ACCCAGCACTAGCAGATAAACCGACAAATATAATGATGT
45389039 ACCCAGCACTAGC-GAATAAACCGACAAATATAATGATGT
1 ACCCAGCACTAGCAG-ATAAACCGACAAATATAATGATGT
*
45389078 ACCTAGCACTAGTCAGATAAAC
1 ACCCAGCACTAG-CAGATAAAC
45389100 TGGCGAAAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
38 1 0.02
39 47 0.84
40 7 0.12
41 1 0.02
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (39 bp):
ACCCAGCACTAGCAGATAAACCGACAAATATAATGATGT
Found at i:45389147 original size:75 final size:75
Alignment explanation
Indices: 45389061--45389332 Score: 303
Period size: 75 Copynumber: 3.6 Consensus size: 75
45389051 CGAATAAACC
* * * * * *
45389061 GACAAATATAATGATGTACCTAGCACTAGTCAGATAAACTGGCGAAAGTTGCGCCCAACGCTAGT
1 GACAAATATAATGATGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTACGACCAGCGCTAGT
*
45389126 CAGATAAAAT
66 CGGATAAAAT
* * * *
45389136 GACAAATATAATGATGTGCCCAGCACTAGTAAAATAAACTGACGAAAGTTACAATCAGCGCTAGT
1 GACAAATATAATGATGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTACGACCAGCGCTAGT
*
45389201 GGGAT-AAAT
66 CGGATAAAAT
* * * * * *
45389210 CAAAAAATATAATAATGTGCCCAGCACTAGTCAGATAAACTGACAAAAGTTACGTCCAGCTCTAG
1 -GACAAATATAATGATGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTACGACCAGCGCTAG
**
45389275 TCGGATAAACC
65 TCGGATAAAAT
** * * *
45389286 GATGAGTATAATGGTATGCCCAGCACTAGTCAGATAAACTGACGAAA
1 GACAAATATAATGATGTGCCCAGCACTAGTCAGATAAACTGACGAAA
45389333 TAATTTGCCC
Statistics
Matches: 162, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
74 4 0.02
75 156 0.96
76 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (75 bp):
GACAAATATAATGATGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTACGACCAGCGCTAGT
CGGATAAAAT
Found at i:45394171 original size:19 final size:20
Alignment explanation
Indices: 45394130--45394170 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
45394120 ATAAAATGAT
*
45394130 TTTTTTAAATTTTAATATTA
1 TTTTTTAAATTTCAATATTA
45394150 TTTTTTAAAGTTTCAAATATT
1 TTTTTTAAA-TTTC-AATATT
45394171 TGTTCACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTTTAAATTTCAATATTA
Found at i:45396972 original size:42 final size:42
Alignment explanation
Indices: 45396920--45397008 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
45396910 CTAATTAAAA
45396920 TGTTA-ATGCAAAATTAAAAAATTGTTAATATTATTAATATT
1 TGTTATATGCAAAATTAAAAAATTGTTAATATTATTAATATT
*
45396961 TGTTATATGCAAAATTAAAATATTGTTAATATTATTAATATT
1 TGTTATATGCAAAATTAAAAAATTGTTAATATTATTAATATT
45397003 TGTTAT
1 TGTTAT
45397009 GTTCAAGTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 5 0.11
42 41 0.89
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (42 bp):
TGTTATATGCAAAATTAAAAAATTGTTAATATTATTAATATT
Found at i:45398215 original size:16 final size:17
Alignment explanation
Indices: 45398194--45398226 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45398184 TATTGGCTAC
45398194 AAATAAA-ATTAAAAAT
1 AAATAAATATTAAAAAT
45398210 AAATAAATTATTAAAAA
1 AAATAAA-TATTAAAAA
45398227 AAAAAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATATTAAAAAT
Found at i:45409655 original size:3 final size:3
Alignment explanation
Indices: 45409647--45409682 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
45409637 AATCTAATAC
45409647 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45409683 ATTTTCCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:45416318 original size:17 final size:17
Alignment explanation
Indices: 45416296--45416330 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45416286 TCTTATGGAT
45416296 CCAGGAACTGGGAAGAG
1 CCAGGAACTGGGAAGAG
*
45416313 CCAGGAACTGGGGAGAG
1 CCAGGAACTGGGAAGAG
45416330 C
1 C
45416331 GGCTAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.20, G:0.43, T:0.06
Consensus pattern (17 bp):
CCAGGAACTGGGAAGAG
Found at i:45418272 original size:23 final size:23
Alignment explanation
Indices: 45418246--45418289 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
45418236 TGGAAGCTTG
*
45418246 ATAAAAAAAGATTGGATTTTTCC
1 ATAAAAAAAGATTGCATTTTTCC
* *
45418269 ATAAAAGATGATTGCATTTTT
1 ATAAAAAAAGATTGCATTTTT
45418290 GCAGAAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (23 bp):
ATAAAAAAAGATTGCATTTTTCC
Found at i:45420034 original size:12 final size:12
Alignment explanation
Indices: 45420019--45420043 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45420009 CTGTGAGAGT
45420019 TTCTGATGATTG
1 TTCTGATGATTG
45420031 TTCTGATGATTG
1 TTCTGATGATTG
45420043 T
1 T
45420044 GATGGAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (12 bp):
TTCTGATGATTG
Found at i:45424500 original size:52 final size:54
Alignment explanation
Indices: 45424394--45424515 Score: 153
Period size: 52 Copynumber: 2.3 Consensus size: 54
45424384 GTTTAATTTT
45424394 TTTAATTTTAATTTAAATATATTTAAATTATCAATGTAATAATATTTTAAAATA
1 TTTAATTTTAATTTAAATATATTTAAATTATCAATGTAATAATATTTTAAAATA
* * * *
45424448 TTTAATTTTAA-TTATAAT-TATTTGAATTCAT-GATG-AATAATTTTTTATAATA
1 TTTAATTTTAATTTA-AATATATTTAAATT-ATCAATGTAATAATATTTTAAAATA
*
45424500 TTCAATTTTAATTTAA
1 TTTAATTTTAATTTAA
45424516 GTTCTTCGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
52 26 0.43
53 18 0.30
54 16 0.27
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.52
Consensus pattern (54 bp):
TTTAATTTTAATTTAAATATATTTAAATTATCAATGTAATAATATTTTAAAATA
Found at i:45428658 original size:3 final size:3
Alignment explanation
Indices: 45428650--45428687 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
45428640 AAAAATTCAT
45428650 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
45428688 TTTTGCAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:45444010 original size:24 final size:24
Alignment explanation
Indices: 45443995--45444046 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
45443985 AATCAAAGTC
45443995 AAATATATTATGCTAATAAATACT
1 AAATATATTATGCTAATAAATACT
* *
45444019 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATACT
45444043 AAAT
1 AAAT
45444047 CTTCTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATACT
Found at i:45447935 original size:24 final size:24
Alignment explanation
Indices: 45447908--45447959 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45447898 AATCAAAGTC
*
45447908 AAATACATTATGCTAATAAATACT
1 AAATACATTATACTAATAAATACT
* *
45447932 AAATATATTATACTCATAAATACT
1 AAATACATTATACTAATAAATACT
45447956 AAAT
1 AAAT
45447960 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATACATTATACTAATAAATACT
Found at i:45464929 original size:95 final size:95
Alignment explanation
Indices: 45464818--45465018 Score: 375
Period size: 95 Copynumber: 2.1 Consensus size: 95
45464808 GTTTTAGCTT
45464818 GATTGATATAAATATTATTATTAATACAATAGAATGTAAGTTCGAGTACGCTAAAACACATTATT
1 GATTGATATAAATATTATTATTAATACAATAGAATGTAAGTTCGAGTACGCTAAAACACATTATT
45464883 CTCTTATTTATGGATTGAGAAAAGACGTAG
66 CTCTTATTTATGGATTGAGAAAAGACGTAG
45464913 GATTGATATAAATATTATTATTAATACAATAGAATGTAAGTTCGAGTACGCTAAAACACATTATT
1 GATTGATATAAATATTATTATTAATACAATAGAATGTAAGTTCGAGTACGCTAAAACACATTATT
*
45464978 CTCTTATTTATGGATTGAGAAAAGATGTAG
66 CTCTTATTTATGGATTGAGAAAAGACGTAG
*
45465008 GAGTGAATATA
1 GATTG-ATATA
45465019 TTATCTATCA
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 98 0.95
96 5 0.05
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.35
Consensus pattern (95 bp):
GATTGATATAAATATTATTATTAATACAATAGAATGTAAGTTCGAGTACGCTAAAACACATTATT
CTCTTATTTATGGATTGAGAAAAGACGTAG
Found at i:45504371 original size:124 final size:125
Alignment explanation
Indices: 45504143--45504492 Score: 605
Period size: 124 Copynumber: 2.8 Consensus size: 125
45504133 CCCAAACATG
* * *
45504143 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTTTCAAATAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
45504208 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
*
45504267 CTACTGTTGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
45504332 TAGAAGCGA-TTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
*
45504391 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTGAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
45504456 TAGAAGCGATTTTATACTATTTGATCAGAAATGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
45504493 CTCGAAATTA
Statistics
Matches: 214, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
123 25 0.12
124 164 0.77
125 25 0.12
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:45520381 original size:24 final size:23
Alignment explanation
Indices: 45520337--45520381 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
45520327 GTATTATAAT
*
45520337 TTTAATTTTAAAAATATAATTCA
1 TTTAATTTTAAAAATAAAATTCA
* *
45520360 TTTATTTTTCAAATATAAAATT
1 TTTAATTTT-AAAAATAAAATT
45520382 ATAACTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTAATTTTAAAAATAAAATTCA
Found at i:45526605 original size:17 final size:17
Alignment explanation
Indices: 45526574--45526607 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45526564 CAATGATAAT
**
45526574 TTTTTTTATTTTAAAGA
1 TTTTTTTATAGTAAAGA
45526591 TTTTTTTATAGTAAAGA
1 TTTTTTTATAGTAAAGA
45526608 CTTGGCTGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TTTTTTTATAGTAAAGA
Found at i:45534945 original size:22 final size:19
Alignment explanation
Indices: 45534919--45534963 Score: 54
Period size: 22 Copynumber: 2.2 Consensus size: 19
45534909 TTTATAATAT
45534919 TTTTAAAATATAAATTTTAGAA
1 TTTTAAAA-AT-AATTTT-GAA
*
45534941 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATAATTTTGAA
45534960 TTTT
1 TTTT
45534964 TTTTGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 5 0.23
21 2 0.09
22 8 0.36
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TTTTAAAAATAATTTTGAA
Found at i:45535927 original size:3 final size:3
Alignment explanation
Indices: 45535919--45535958 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
45535909 TATATAACTT
45535919 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
45535959 CAAATATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:45536489 original size:30 final size:30
Alignment explanation
Indices: 45536453--45536571 Score: 105
Period size: 30 Copynumber: 3.8 Consensus size: 30
45536443 GAAAAATCAA
* *
45536453 ATATCAGATCTTCCCAAGCTCCTGAACGAG
1 ATATCAGATCTTCCCAAGATCCTGAATGAG
*
45536483 ATATCAGATCTTCTCAATCTCAAGATCTTGAATGAG
1 ATATCAGATC-T-TC---C-CAAGATCCTGAATGAG
*
45536519 ATATCA-AGTCTTCCCAAGCTCCTGAATGAG
1 ATATCAGA-TCTTCCCAAGATCCTGAATGAG
* * *
45536549 ATATCGGGTCTTCTCAAGATCCT
1 ATATCAGATCTTCCCAAGATCCT
45536572 AAACATTCTT
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
30 42 0.58
31 2 0.03
32 2 0.03
34 2 0.03
35 3 0.04
36 21 0.29
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (30 bp):
ATATCAGATCTTCCCAAGATCCTGAATGAG
Found at i:45538916 original size:130 final size:130
Alignment explanation
Indices: 45538627--45538890 Score: 483
Period size: 130 Copynumber: 2.0 Consensus size: 130
45538617 CGAGTTATGT
*
45538627 CAAGTGCTAGCTAAGACAAAGAAGTTAATTATTTATCATCTTCTTGATAGAATTATTTGTCTTGT
1 CAAGTGCTAGCTAAGACAAAGAAGTTAATTATTTATCATCTTCTTGATAGAATTATTCGTCTTGT
*
45538692 GCTAACTCTTATCGTGTCTACTGCAACAACCGAATAAACATTTTCAGCCATAAAAATTGTGAAGA
66 ACTAACTCTTATCGTGTCTACTGCAACAACCGAATAAACATTTTCAGCCATAAAAATTGTGAAGA
*
45538757 CAAGTGCTAGCTAAGACAAAGAAGTTAATTATTTATCATCTTCTTGATAGAATTGTTCGTCTTGT
1 CAAGTGCTAGCTAAGACAAAGAAGTTAATTATTTATCATCTTCTTGATAGAATTATTCGTCTTGT
* *
45538822 ACTAACTCTTATCGTGTCTACTGCAACAACCGAATAAGCATTTTCAGCCATAAAAGTTGTGAAGA
66 ACTAACTCTTATCGTGTCTACTGCAACAACCGAATAAACATTTTCAGCCATAAAAATTGTGAAGA
45538887 CAAG
1 CAAG
45538891 GCTTCGCAAT
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (130 bp):
CAAGTGCTAGCTAAGACAAAGAAGTTAATTATTTATCATCTTCTTGATAGAATTATTCGTCTTGT
ACTAACTCTTATCGTGTCTACTGCAACAACCGAATAAACATTTTCAGCCATAAAAATTGTGAAGA
Found at i:45539438 original size:21 final size:21
Alignment explanation
Indices: 45539412--45539467 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
45539402 AACAGCGGTG
*
45539412 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
45539433 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
45539454 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
45539468 AATAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:45543446 original size:32 final size:32
Alignment explanation
Indices: 45543397--45543468 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
45543387 CACATACATG
45543397 CCTAAAC-TATAACATTCTTTTTAAATCAATC
1 CCTAAACTTATAACATTCTTTTTAAATCAATC
*
45543428 CCTAAACTTATAATATTCTTTTTAAATCAATC
1 CCTAAACTTATAACATTCTTTTTAAATCAATC
45543460 CCTAAACTT
1 CCTAAACTT
45543469 TAAATCATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 7 0.18
32 32 0.82
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (32 bp):
CCTAAACTTATAACATTCTTTTTAAATCAATC
Found at i:45544414 original size:20 final size:20
Alignment explanation
Indices: 45544377--45544414 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45544367 TTCTTACTTC
*
45544377 CTAAACAAGAGAATATCATA
1 CTAAACAAGAGAAAATCATA
45544397 CTAAA-AAGAGCAAAATCA
1 CTAAACAAGAG-AAAATCA
45544415 ACATTCAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.58, C:0.16, G:0.11, T:0.16
Consensus pattern (20 bp):
CTAAACAAGAGAAAATCATA
Found at i:45548102 original size:17 final size:17
Alignment explanation
Indices: 45548082--45548174 Score: 114
Period size: 17 Copynumber: 5.4 Consensus size: 17
45548072 TATGATATGA
* *
45548082 TATATATTTATGTAAGA
1 TATATATTTATCTAAGT
45548099 TATATATTTATCTAAGT
1 TATATATTTATCTAAGT
* *
45548116 TATATAAGTTATGTAAGT
1 TATAT-ATTTATCTAAGT
* *
45548134 TATATAAGTTATATAAGT
1 TATAT-ATTTATCTAAGT
45548152 TATATATTTATCTAAGT
1 TATATATTTATCTAAGT
45548169 TATATA
1 TATATA
45548175 AGTTATATAT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
17 36 0.53
18 32 0.47
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (17 bp):
TATATATTTATCTAAGT
Found at i:45548123 original size:9 final size:9
Alignment explanation
Indices: 45548062--45548200 Score: 122
Period size: 9 Copynumber: 15.4 Consensus size: 9
45548052 ATTATGTAAA
*
45548062 TTATGTAAG
1 TTATATAAG
*
45548071 TTATGATATG
1 TTAT-ATAAG
* *
45548081 ATATAT-AT
1 TTATATAAG
*
45548089 TTATGTAAG
1 TTATATAAG
* *
45548098 ATATAT-AT
1 TTATATAAG
*
45548106 TTATCTAAG
1 TTATATAAG
45548115 TTATATAAG
1 TTATATAAG
*
45548124 TTATGTAAG
1 TTATATAAG
45548133 TTATATAAG
1 TTATATAAG
45548142 TTATATAAG
1 TTATATAAG
*
45548151 TTATAT-AT
1 TTATATAAG
*
45548159 TTATCTAAG
1 TTATATAAG
45548168 TTATATAAG
1 TTATATAAG
45548177 TTATATATAAG
1 -T-TATATAAG
*
45548188 TTATGTAAG
1 TTATATAAG
45548197 TTAT
1 TTAT
45548201 TATGTAAGTT
Statistics
Matches: 102, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
8 15 0.15
9 71 0.70
10 8 0.08
11 8 0.08
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.47
Consensus pattern (9 bp):
TTATATAAG
Found at i:45548127 original size:53 final size:54
Alignment explanation
Indices: 45548053--45548184 Score: 171
Period size: 53 Copynumber: 2.5 Consensus size: 54
45548043 TATTTAAGTA
* * * * *
45548053 TTATGTAAATTATGTAAGTTATGATATGATATAT-ATTTATGTAAGATATATAT
1 TTATCTAAGTTATATAAGTTATGATATGATATATAAGTTATATAAGATATATAT
* * *
45548106 TTATCTAAGTTATATAAGTTATG-TAAGTTATATAAGTTATATAAGTTATATAT
1 TTATCTAAGTTATATAAGTTATGATATGATATATAAGTTATATAAGATATATAT
45548159 TTATCTAAGTTATATAAGTTAT-ATAT
1 TTATCTAAGTTATATAAGTTATGATAT
45548185 AAGTTATGTA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
52 8 0.12
53 60 0.88
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (54 bp):
TTATCTAAGTTATATAAGTTATGATATGATATATAAGTTATATAAGATATATAT
Found at i:45548132 original size:35 final size:36
Alignment explanation
Indices: 45548053--45548200 Score: 140
Period size: 35 Copynumber: 4.1 Consensus size: 36
45548043 TATTTAAGTA
* * * * * *
45548053 TTATGTAAATTATGTAAGTTATGATATGATATAT-AT
1 TTATGTAAGTTATATAATTTAT-ATAAGTTATATAAG
* *
45548089 TTATGTAAGATATAT-ATTTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAATTTATATAAGTTATATAAG
* *
45548124 TTATGTAAGTTATATAAGTTATATAAGTTATAT-AT
1 TTATGTAAGTTATATAATTTATATAAGTTATATAAG
* *
45548159 TTATCTAAGTTATATAAGTTATATATAAGTTATGTAAG
1 TTATGTAAGTTATATAA-TT-TATATAAGTTATATAAG
45548197 TTAT
1 TTAT
45548201 TATGTAAGTT
Statistics
Matches: 91, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
34 8 0.09
35 37 0.41
36 28 0.31
37 13 0.14
38 5 0.05
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.47
Consensus pattern (36 bp):
TTATGTAAGTTATATAATTTATATAAGTTATATAAG
Found at i:45548205 original size:12 final size:12
Alignment explanation
Indices: 45548188--45548212 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45548178 TATATATAAG
45548188 TTATGTAAGTTA
1 TTATGTAAGTTA
45548200 TTATGTAAGTTA
1 TTATGTAAGTTA
45548212 T
1 T
45548213 GTGTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:45548212 original size:9 final size:9
Alignment explanation
Indices: 45548053--45548226 Score: 97
Period size: 9 Copynumber: 19.2 Consensus size: 9
45548043 TATTTAAGTA
*
45548053 TTATGTAAA
1 TTATGTAAG
45548062 TTATGTAAG
1 TTATGTAAG
*
45548071 TTATGATATG
1 TTATG-TAAG
* * *
45548081 ATATAT-AT
1 TTATGTAAG
45548089 TTATGTAAG
1 TTATGTAAG
* * *
45548098 ATATAT-AT
1 TTATGTAAG
*
45548106 TTATCTAAG
1 TTATGTAAG
*
45548115 TTATATAAG
1 TTATGTAAG
45548124 TTATGTAAG
1 TTATGTAAG
*
45548133 TTATATAAG
1 TTATGTAAG
*
45548142 TTATATAAG
1 TTATGTAAG
* *
45548151 TTATAT-AT
1 TTATGTAAG
*
45548159 TTATCTAAG
1 TTATGTAAG
*
45548168 TTATATAAG
1 TTATGTAAG
*
45548177 TTATATATAAG
1 -T-TATGTAAG
45548188 TTATGTAAG
1 TTATGTAAG
45548197 TTATTATGTAAG
1 ---TTATGTAAG
45548209 TTATGT--G
1 TTATGTAAG
*
45548216 TTGTGTAAG
1 TTATGTAAG
45548225 TT
1 TT
45548227 TATAAATAAA
Statistics
Matches: 130, Mismatches: 24, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
7 6 0.05
8 15 0.12
9 84 0.65
10 8 0.06
11 8 0.06
12 9 0.07
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:45548292 original size:19 final size:19
Alignment explanation
Indices: 45548270--45548309 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45548260 GATATGATTG
*
45548270 ATAAATTTTTCAA-ATATAT
1 ATAAAGTTTT-AAGATATAT
45548289 ATAAAGTTTTAAGATATAT
1 ATAAAGTTTTAAGATATAT
45548308 AT
1 AT
45548310 GAAAAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (19 bp):
ATAAAGTTTTAAGATATAT
Found at i:45548353 original size:23 final size:21
Alignment explanation
Indices: 45548281--45548354 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 21
45548271 TAAATTTTTC
45548281 AAATATATATAAAG-T-TTTA
1 AAATATATATAAAGATGTTTA
* *
45548300 AGATATATATGAAAAATGTATATA
1 AAATATATAT-AAAGATGT-T-TA
45548324 AATATATATATCAAAGATGTTTGA
1 AA-ATATATAT-AAAGATGTTT-A
45548348 AAATATA
1 AAATATA
45548355 ACTTTTGCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
19 9 0.21
20 3 0.07
21 1 0.02
22 1 0.02
23 7 0.16
24 7 0.16
25 15 0.35
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.36
Consensus pattern (21 bp):
AAATATATATAAAGATGTTTA
Found at i:45549835 original size:16 final size:16
Alignment explanation
Indices: 45549791--45549900 Score: 88
Period size: 19 Copynumber: 6.9 Consensus size: 16
45549781 GATTTTAGTA
45549791 AAGTATATATTCCAGC
1 AAGTATATATTCCAGC
45549807 AAGTGGAATATATTCCAGC
1 AAGT---ATATATTCCAGC
**
45549826 AAGTATATATT-TGGC
1 AAGTATATATTCCAGC
*
45549841 ---CATATATTCCAGC
1 AAGTATATATTCCAGC
45549854 AAG--TATATTCCAGC
1 AAGTATATATTCCAGC
*
45549868 AACTGGAATATATTCCAGC
1 AA---GTATATATTCCAGC
45549887 AAGTATATATTCCA
1 AAGTATATATTCCA
45549901 AAGTTATAAG
Statistics
Matches: 76, Mismatches: 6, Indels: 24
0.72 0.06 0.23
Matches are distributed among these distances:
12 7 0.09
13 2 0.03
14 13 0.17
15 2 0.03
16 22 0.29
17 1 0.01
19 29 0.38
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (16 bp):
AAGTATATATTCCAGC
Found at i:45549860 original size:14 final size:14
Alignment explanation
Indices: 45549815--45549894 Score: 63
Period size: 14 Copynumber: 5.4 Consensus size: 14
45549805 GCAAGTGGAA
45549815 TATATTCCAGCAAG
1 TATATTCCAGCAAG
*** *
45549829 TATATATTTGGCCA-
1 TATAT-TCCAGCAAG
45549843 TATATTCCAGCAAG
1 TATATTCCAGCAAG
45549857 TATATTCCAGCAACTGG
1 TATATTCCAGCAA---G
45549874 AATATATTCCAGCAAG
1 --TATATTCCAGCAAG
45549890 TATAT
1 TATAT
45549895 ATTCCAAAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
13 4 0.08
14 28 0.55
15 4 0.08
16 1 0.02
17 1 0.02
19 13 0.25
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (14 bp):
TATATTCCAGCAAG
Found at i:45550661 original size:148 final size:148
Alignment explanation
Indices: 45550363--45550645 Score: 379
Period size: 148 Copynumber: 1.9 Consensus size: 148
45550353 AAGCTAAAAC
* * * *
45550363 TTGTGGCGCTTAGAGCAAAAACGCCACAAATACCATGGACAAAATGACACTGTTATTAGATAACC
1 TTGTGGCGCTTAGAGCAAAAACGCCACAAATAACATGGACAAAACGACACCGTTATCAGATAACC
* * *
45550428 ATAAACATTTTTAAGGCGTTTTATCAAAAGCGCCACTAATAAAAATAGGAAACGGCATCGTTACC
66 ATAAACATTTTTAAGGCGCTTTACCAAAAGCGCCACTAATAAAAATAGGAAACGGCACCGTTACC
45550493 TCAACCACTAATAAATAT
131 TCAACCACTAATAAATAT
* * *
45550511 TTGTGGCGCTT-GCAGTAAAAACGCCACTAATAACATGGACAAAACGGCACCGTTATCAGATAAC
1 TTGTGGCGCTTAG-AGCAAAAACGCCACAAATAACATGGACAAAACGACACCGTTATCAGATAAC
* * ** ** * * *
45550575 CTTAAATATTTTTGCGGCGCTTTACCTGAAGCGCCACTAATAAAAGTAGGAAACGGCGCCGTTTC
65 CATAAACATTTTTAAGGCGCTTTACCAAAAGCGCCACTAATAAAAATAGGAAACGGCACCGTTAC
45550640 CTCAAC
130 CTCAAC
45550646 TCGTAGTAAA
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
147 1 0.01
148 114 0.99
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (148 bp):
TTGTGGCGCTTAGAGCAAAAACGCCACAAATAACATGGACAAAACGACACCGTTATCAGATAACC
ATAAACATTTTTAAGGCGCTTTACCAAAAGCGCCACTAATAAAAATAGGAAACGGCACCGTTACC
TCAACCACTAATAAATAT
Found at i:45551133 original size:15 final size:15
Alignment explanation
Indices: 45551110--45551166 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
45551100 TTTGGGATTT
*
45551110 AACCTTAAACCCCTA
1 AACCCTAAACCCCTA
**
45551125 AACCCTAAAATCCTA
1 AACCCTAAACCCCTA
* **
45551140 AGCCGCTAAACCTTTA
1 AACC-CTAAACCCCTA
45551156 AACCCTAAACC
1 AACCCTAAACC
45551167 TTAAATCTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 22 0.69
16 10 0.31
ACGTcount: A:0.40, C:0.37, G:0.04, T:0.19
Consensus pattern (15 bp):
AACCCTAAACCCCTA
Found at i:45552265 original size:114 final size:114
Alignment explanation
Indices: 45551985--45552854 Score: 685
Period size: 115 Copynumber: 7.8 Consensus size: 114
45551975 TAACAATTTG
* * * * * **
45551985 CTTTCGCGGCGGTTTCCCGTAAGCGCCACAAATTTTAGTATACATCAAGACCAAAACGCTGCGTT
1 CTTTAGCGGCGTTTTCCTGTAAGCGCCACTAATTCTAACATACATCAAGACCAAAACGCTGCGTT
* * * *
45552050 TTGGTTAAGGTATTTTGCGGCGCTAGCCACAAATCGCCGCTAATACTATG
66 TTGGTTAAGATATTTTGCGGCGC-ATCCACAAAGCGCCGCTAATACTATC
* * * * * *
45552100 CTTTAGCGGTG-TTTCACCGTAAGCGCCAATAATTCAAATATACATCCAGACCAAAACGCTGCGT
1 CTTTAGCGGCGTTTTC-CTGTAAGCGCCACTAATTCTAACATACATCAAGACCAAAACGCTGCGT
* * *
45552164 TTTGGTTTAGATATTTTGCGGTGCATCCAAAAAGCGCCGCTAATACTATC
65 TTTGGTTAAGATATTTTGCGGCGCATCCACAAAGCGCCGCTAATACTATC
* * ** ** * *
45552214 CTTTAGCTGCATTTTCCAATAAGCGCCACTAACGCTAACATACCTCAAGACCAAAACTCTGCGTT
1 CTTTAGCGGCGTTTTCCTGTAAGCGCCACTAATTCTAACATACATCAAGACCAAAACGCTGCGTT
* * **
45552279 TTGGTTAAGATATTTTGCAGCGCTTTTACCAAAGCGCCGCTAATACTATC
66 TTGGTTAAGATATTTTGCGGCGCATCCA-CAAAGCGCCGCTAATACTATC
* * * * ** *
45552329 ATTTAACGGCATTTTACTGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTGTGTT
1 CTTTAGCGGCGTTTTCCTGTAAGCGCCACTAATTCTAACATACATCAAGACCAAAACGCTGCGTT
* * ** *
45552394 TTGGTTAAGATATTTTGCGGCGACAGCCACTACTCGCCGCTAATACTATG
66 TTGGTTAAGATATTTTGCGGCG-CATCCACAAAGCGCCGCTAATACTATC
* * * * * * *
45552444 CTGTAGCGGCGTTTT-CGGTAAACGCCACTAATTCT-AGATA-AGCAAAACCAAAACGATGCGTT
1 CTTTAGCGGCGTTTTCCTGTAAGCGCCACTAATTCTAACATACATCAAGACCAAAACGCTGCGTT
** ** * * * * * *
45552506 TTGGTCCAGATATTTCACGGAGCTTTCAAAAACCGCCGTTAATACTAT-
66 TTGGTTAAGATATTTTGCGGCGCATCCACAAAGCGCCGCTAATACTATC
* ** * * * * *
45552554 CTGTTTGTTGCGTTTTCCTATAAGCGCCACTAATTCTAACATACCTCAAGACC-AAACTCTAC-A
1 CT-TTAGCGGCGTTTTCCTGTAAGCGCCACTAATTCTAACATACATCAAGACCAAAACGCTGCGT
*
45552617 TTTGGTTAAGATATTTT---GCG----------GCGCCGCTAATATTATGC
65 TTTGGTTAAGATATTTTGCGGCGCATCCACAAAGCGCCGCTAATACTAT-C
* ** **
45552655 C-TTAACGGCGTTTTCCCT-TAAGCGCCACTAATTCTAGGATACATCAAGACCAAAACAATGCGT
1 CTTTAGCGGCGTTTT-CCTGTAAGCGCCACTAATTCTAACATACATCAAGACCAAAACGCTGCGT
* *** *
45552718 TTCGGTTAAGATATTTTTGCGGCGCATTTTGCAAAACGCCGCTAATAC-A--
65 TTTGGTTAAGATA-TTTTGCGGCGCA-TCCACAAAGCGCCGCTAATACTATC
* * ** * *
45552767 CTTTAGCGGCGTTTT-CTCATAATCGCCACTAATTCTAGTATACATCAAGACGAAAACGTTGCGT
1 CTTTAGCGGCGTTTTCCT-GTAAGCGCCACTAATTCTAACATACATCAAGACCAAAACGCTGCGT
*
45552831 TTTGGTTAAGAGATTTTGCGGCGC
65 TTTGGTTAAGATATTTTGCGGCGC
45552855 TTTGTGGTAA
Statistics
Matches: 598, Mismatches: 126, Indels: 65
0.76 0.16 0.08
Matches are distributed among these distances:
99 52 0.09
100 9 0.02
101 13 0.02
102 4 0.01
105 3 0.01
109 2 0.00
110 2 0.00
111 29 0.05
112 78 0.13
113 76 0.13
114 119 0.20
115 198 0.33
116 13 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (114 bp):
CTTTAGCGGCGTTTTCCTGTAAGCGCCACTAATTCTAACATACATCAAGACCAAAACGCTGCGTT
TTGGTTAAGATATTTTGCGGCGCATCCACAAAGCGCCGCTAATACTATC
Found at i:45552407 original size:229 final size:223
Alignment explanation
Indices: 45551985--45552851 Score: 747
Period size: 229 Copynumber: 3.9 Consensus size: 223
45551975 TAACAATTTG
* * ** * * *
45551985 CTTTCGCGGCGGTTTCCCGTAAGCGCCACAAATT-TTAGTATACATCAAGACCAAAACGCTGCGT
1 CTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAAG-ATACATCAAGACCAAAACGATGCGT
* *
45552049 TTTGGTTAAGGTATTTTGCGGCGC---TAGCCACAAATCGCCGCTAATACTATGCTTTAGCGGTG
65 TTTGGTTAAGATATTTTGCGGCGCTTTTA-CCA-AAA-CGCCGCTAATACTAT-CTTTAGCGGCG
* ** * * * *
45552111 TTTCACCGTAAGCGCCAATAATTCAAATATACATCCAGACCAAAACGCTGCGTTTTGGTTTAGAT
126 TTTTACTATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGAT
45552176 ATTTTGCGGTGCATCCAAAAAGCGCCGCTAATACTATC
191 ATTTTGCGG-GCA-CC---AAGCGCCGCTAATACTATC
* * ** * * **
45552214 CTTTAGCTGCATTTTCCAATAAGCGCCACTAACGCTAACATACCTCAAGACCAAAACTCTGCGTT
1 CTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAAGATACATCAAGACCAAAACGATGCGTT
* * * *
45552279 TTGGTTAAGATATTTTGCAGCGCTTTTACCAAAGCGCCGCTAATACTATCATTTAACGGCATTTT
66 TTGGTTAAGATATTTTGCGGCGCTTTTACCAAAACGCCGCTAATACTATC-TTTAGCGGCGTTTT
* * *
45552344 ACTGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTGTGTTTTGGTTAAGATATTT
130 ACTATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTT
* *
45552409 TGCGGCGACAGCCACTACTCGCCGCTAATACTATG
195 TGCGG-G-CA-CCA--A-GCGCCGCTAATACTATC
* ** * * *
45552444 CTGTAGCGGCGTTTT-CGGTAAACGCCACTAATTCT-AGATA-AGCAAAACCAAAACGATGCGTT
1 CTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAAGATACATCAAGACCAAAACGATGCGTT
** ** * * * * **
45552506 TTGGTCCAGATATTTCACGGAGC-TTT-CAAAAACCGCCGTTAATACTATCTGTTTGTTGCGTTT
66 TTGGTTAAGATATTTTGCGGCGCTTTTACCAAAA-CGCCGCTAATACTATCT-TTAGCGGCGTTT
* * * * * *
45552569 TCCTATAAGCGCCACTAATTCTAACATACCTCAAGACC-AAACTCTAC-ATTTGGTTAAGATATT
129 TACTATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATT
*
45552632 TTGC--G------GCGCCGCTAATATTATGC
194 TTGCGGGCACCAAGCGCCGCTAATACTAT-C
* ** * *
45552655 C-TTAACGGCGTTTTCCCTTAAGCGCCACTAATTCTAGGATACATCAAGACCAAAACAATGCGTT
1 CTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAAGATACATCAAGACCAAAACGATGCGTT
* *
45552719 TCGGTTAAGATATTTTTGCGGCGCATTTT-GCAAAACGCCGCTAATAC-A-CTTTAGCGGCGTTT
66 TTGGTTAAGATA-TTTTGCGGCGC-TTTTACCAAAACGCCGCTAATACTATCTTTAGCGGCGTTT
* * * * *
45552781 T-CTCATAATCGCCACTAATTCTAGTATACATCAAGACGAAAACGTTGCGTTTTGGTTAAGAGAT
129 TACT-ATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATAT
45552845 TTTGCGG
193 TTTGCGG
45552852 CGCTTTGTGG
Statistics
Matches: 513, Mismatches: 102, Indels: 59
0.76 0.15 0.09
Matches are distributed among these distances:
210 25 0.05
211 20 0.04
212 43 0.08
213 36 0.07
214 27 0.05
215 11 0.02
216 7 0.01
221 1 0.00
224 19 0.04
225 11 0.02
226 58 0.11
227 35 0.07
228 5 0.01
229 175 0.34
230 35 0.07
231 3 0.01
232 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (223 bp):
CTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAAGATACATCAAGACCAAAACGATGCGTT
TTGGTTAAGATATTTTGCGGCGCTTTTACCAAAACGCCGCTAATACTATCTTTAGCGGCGTTTTA
CTATAAGCGCCACTAATTCTAATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTT
GCGGGCACCAAGCGCCGCTAATACTATC
Found at i:45558557 original size:19 final size:20
Alignment explanation
Indices: 45558519--45558563 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
45558509 GTTGGATTTG
45558519 ATTAAATAAATTATTTAAAA
1 ATTAAATAAATTATTTAAAA
45558539 ATTAAATAAATTA-TTAAAA
1 ATTAAATAAATTATTTAAAA
45558558 ATTAAA
1 ATTAAA
45558564 AACCAACCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTAAATAAATTATTTAAAA
Found at i:45574881 original size:13 final size:13
Alignment explanation
Indices: 45574863--45574911 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
45574853 TTTTTCATTA
45574863 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
45574876 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
* * *
45574889 CTGTGGAAAAGTA
1 CTTTTGAAAAGTG
45574902 CTTTTGAAAA
1 CTTTTGAAAA
45574912 TTTTGAGTGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:45575203 original size:14 final size:14
Alignment explanation
Indices: 45575170--45575211 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
45575160 ACTATATTTA
*
45575170 AATATTTAAATA-T
1 AATAATTAAATATT
45575183 AATAATTAAATATT
1 AATAATTAAATATT
* *
45575197 TATAATTAGATATT
1 AATAATTAAATATT
45575211 A
1 A
45575212 CCACAATTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
AATAATTAAATATT
Found at i:45575421 original size:16 final size:16
Alignment explanation
Indices: 45575400--45575439 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
45575390 TAATAAAAAT
45575400 ATATATATGAATATAC
1 ATATATATGAATATAC
*
45575416 ATATATATGAATATAT
1 ATATATATGAATATAC
45575432 ATATATAT
1 ATATATAT
45575440 AAGAAAGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (16 bp):
ATATATATGAATATAC
Found at i:45600766 original size:399 final size:400
Alignment explanation
Indices: 45600020--45600805 Score: 1405
Period size: 399 Copynumber: 2.0 Consensus size: 400
45600010 AAAATGTTCA
*
45600020 TATTTATTTTGTAATATCTGGTAATGCTTCATAACCCTGTTCTGGAGACGAATAAGGGTTATGGG
1 TATTTATTCTGTAATATCTGGTAATGCTTCATAACCCTGTTCTGGAGACGAATAAGGGTTATGGG
45600085 TGTTACATGATCCATCTTGGCACTATACCCGCAAGACTTTGTCCAAACAAGAGCCGATGCAATGA
66 TGTTACATGATCCATCTTGGCACTATACCCGCAAGACTTTGTCCAAACAAGAGCCGATGCAATGA
*
45600150 GTTCATGACTGCTACTTCTACCATTTTTAAAAACGAAAGCATTGCGATTTTTCCAAATGAACCAA
131 GTTCATGACTGCTACTTCTACCATTTTTAAAAACGAAAGCATTGCGAATTTTCCAAATGAACCAA
*
45600215 GTCACTATTGAAAAAAGGGTCGACCATTCACCACCTCCCCAATATGAAAGTTGAAAAAAACATTC
196 GTCACCATTGAAAAAAGGGTCGACCATTCACCACCTCCCCAATATGAAAGTTGAAAAAAACATTC
45600280 CAAGCATTCCTAGGTAATAAGGACTTCTACACCAAATGGGCGAAATCACAATCTCTCATAGCATG
261 CAAGCATTCCTAGGTAATAAGGACTTCTACACCAAATGGGCGAAATCACAATCTCTCATAGCATG
* ** *
45600345 GATTGTTGATTCAATTGACTTACCACATTTTTCACAAAAAGGAAAAGAAGACATACCTCTTCTAC
326 GATCGTTGATTCAAACGACTTACCACATTATTCACAAAAAGGAAAAGAAGACATACCTCTTCTAC
45600410 TCCTCATTCG
391 TCCTCATTCG
* *
45600420 TATTTATTCTGTAA-ATTCTGGTAATGCTTCATAACCTTGTTCTGGCGACGAATAAGGGTTATGG
1 TATTTATTCTGTAATA-TCTGGTAATGCTTCATAACCCTGTTCTGGAGACGAATAAGGGTTATGG
* *
45600484 GTGTTACATGATCCATCTTGGCACTATACCCGCAAGACTTTGTCCAAGCAAGAGTCGATGCAATG
65 GTGTTACATGATCCATCTTGGCACTATACCCGCAAGACTTTGTCCAAACAAGAGCCGATGCAATG
* *
45600549 AGTTCATGACTGCTACTTCTAGCATTTTTAAAAATGAAAGCATTGC-AATTTTCCAAATGAACCA
130 AGTTCATGACTGCTACTTCTACCATTTTTAAAAACGAAAGCATTGCGAATTTTCCAAATGAACCA
*
45600613 AGTCACCATTGAAAAAAGGGTCGACCATTCACCACCTCCCTAATATGAAAGTTGAAAAAAACATT
195 AGTCACCATTGAAAAAAGGGTCGACCATTCACCACCTCCCCAATATGAAAGTTGAAAAAAACATT
*
45600678 CCAAGCATTTCTAGGTAATAAGGACTTCTACACCAAATGGGCGAAATCACAATCTCTCATAGCAT
260 CCAAGCATTCCTAGGTAATAAGGACTTCTACACCAAATGGGCGAAATCACAATCTCTCATAGCAT
*
45600743 GGATCGTTGATTCAAACGACTTACTACATTATTCACAAAAAGGAAAAGAAGACATACCTCTTC
325 GGATCGTTGATTCAAACGACTTACCACATTATTCACAAAAAGGAAAAGAAGACATACCTCTTC
45600806 GTGTGCTTTC
Statistics
Matches: 369, Mismatches: 16, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
399 203 0.55
400 166 0.45
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (400 bp):
TATTTATTCTGTAATATCTGGTAATGCTTCATAACCCTGTTCTGGAGACGAATAAGGGTTATGGG
TGTTACATGATCCATCTTGGCACTATACCCGCAAGACTTTGTCCAAACAAGAGCCGATGCAATGA
GTTCATGACTGCTACTTCTACCATTTTTAAAAACGAAAGCATTGCGAATTTTCCAAATGAACCAA
GTCACCATTGAAAAAAGGGTCGACCATTCACCACCTCCCCAATATGAAAGTTGAAAAAAACATTC
CAAGCATTCCTAGGTAATAAGGACTTCTACACCAAATGGGCGAAATCACAATCTCTCATAGCATG
GATCGTTGATTCAAACGACTTACCACATTATTCACAAAAAGGAAAAGAAGACATACCTCTTCTAC
TCCTCATTCG
Found at i:45609277 original size:12 final size:12
Alignment explanation
Indices: 45609260--45609288 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45609250 AGAAAATAAA
45609260 TAAATGAAATAT
1 TAAATGAAATAT
45609272 TAAATGAAATAT
1 TAAATGAAATAT
45609284 TAAAT
1 TAAAT
45609289 AAAACAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
TAAATGAAATAT
Found at i:45611396 original size:132 final size:132
Alignment explanation
Indices: 45611236--45611577 Score: 542
Period size: 132 Copynumber: 2.6 Consensus size: 132
45611226 TAATGCCAAA
* * * * *
45611236 GAGATATGACTGGTGGTTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTCTTT
1 GAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCGCCGTCTTC
* * * *
45611301 GATCTGCTCCACTATTGCTTAGGGAGACAAGATCTACATTTTTCAACCTACTCCACTACTGCTTA
66 GATCTGCTCCACTACTACTTAGGGAGACAAGATCTACATTCTTCAACCTACTCCACTACTGCTCA
*
45611366 GG
131 AG
* *
45611368 GAGATAGGATTGGTGGCTTAAATCTGCTTCGCTACTACCTTGGGAAGATAAGATTCGCCGTCTTC
1 GAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCGCCGTCTTC
* *
45611433 GATCTGCTCCACTACTACTTAGGGAGACAAGATGTACATTCTTCAACCTACTCCACTGCTGCTCA
66 GATCTGCTCCACTACTACTTAGGGAGACAAGATCTACATTCTTCAACCTACTCCACTACTGCTCA
45611498 AG
131 AG
45611500 GAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACCTT-GAGAAGATAAGATTCGCCGTCTT
1 GAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGA-AAGATAAGATTCGCCGTCTT
45611564 CGATCTGCTCCACT
65 CGATCTGCTCCACT
45611578 GTCAGTACAG
Statistics
Matches: 193, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 1 0.01
132 192 0.99
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
GAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCGCCGTCTTC
GATCTGCTCCACTACTACTTAGGGAGACAAGATCTACATTCTTCAACCTACTCCACTACTGCTCA
AG
Found at i:45611487 original size:44 final size:43
Alignment explanation
Indices: 45611307--45611489 Score: 109
Period size: 44 Copynumber: 4.2 Consensus size: 43
45611297 CTTTGATCTG
* * *
45611307 CTCCACTATTGCTTAGGGAGACAAGATCTACATTTTTCAACCTA
1 CTCCACTACTACTTAGGGAGACAAGAT-TACATTCTTCAACCTA
* * * ** * * * *
45611351 CTCCACTACTGCTTAGGGAGATAGGATT-GGTGGCTTAAATCTG
1 CTCCACTACTACTTAGGGAGACAAGATTACAT-TCTTCAACCTA
* * * * ** * * *
45611394 CTTCGCTACTACCTT-GGGAAGATAAGATTCGCCGTCTTCGATCTG
1 CTCCACTACTA-CTTAGGG-AGACAAGATT-ACATTCTTCAACCTA
45611439 CTCCACTACTACTTAGGGAGACAAGATGTACATTCTTCAACCTA
1 CTCCACTACTACTTAGGGAGACAAGAT-TACATTCTTCAACCTA
45611483 CTCCACT
1 CTCCACT
45611490 GCTGCTCAAG
Statistics
Matches: 103, Mismatches: 29, Indels: 14
0.71 0.20 0.10
Matches are distributed among these distances:
42 1 0.01
43 18 0.17
44 63 0.61
45 21 0.20
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (43 bp):
CTCCACTACTACTTAGGGAGACAAGATTACATTCTTCAACCTA
Found at i:45613814 original size:5 final size:5
Alignment explanation
Indices: 45613804--45613861 Score: 64
Period size: 5 Copynumber: 11.0 Consensus size: 5
45613794 TTGGCCTATC
*
45613804 CTTTT CTTTT CTTTTT CTTTTT CCTTTC CTTTT CTTTT -TTTT CCTTTT
1 CTTTT CTTTT C-TTTT C-TTTT -CTTTT CTTTT CTTTT CTTTT -CTTTT
45613852 CTTTT CTTTT
1 CTTTT CTTTT
45613862 TCCATCATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
4 4 0.09
5 25 0.53
6 17 0.36
7 1 0.02
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
CTTTT
Found at i:45613819 original size:6 final size:6
Alignment explanation
Indices: 45613805--45613863 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
45613795 TGGCCTATCC
* * * *
45613805 TTTTC- TTTTCT TTTTCT TTTTCC TTTCCTT TTCTTTT TTTTCC TTTTC-
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T TT-TTCT TTTTCT TTTTCT
45613853 TTTTCT TTTTC
1 TTTTCT TTTTC
45613864 CATCATTTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
5 10 0.23
6 27 0.63
7 5 0.12
8 1 0.02
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:45613819 original size:11 final size:11
Alignment explanation
Indices: 45613802--45613863 Score: 74
Period size: 11 Copynumber: 5.7 Consensus size: 11
45613792 CCTTGGCCTA
45613802 TCCTTTTCTTT
1 TCCTTTTCTTT
*
45613813 TCTTTTTCTTTT
1 TCCTTTTC-TTT
*
45613825 TCCTTTCCTTT
1 TCCTTTTCTTT
45613836 T-CTTTT-TTT
1 TCCTTTTCTTT
45613845 TCCTTTTCTTT
1 TCCTTTTCTTT
*
45613856 TCTTTTTC
1 TCCTTTTC
45613864 CATCATTTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 4 0.09
10 9 0.21
11 21 0.49
12 9 0.21
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TCCTTTTCTTT
Found at i:45613846 original size:37 final size:35
Alignment explanation
Indices: 45613805--45613886 Score: 101
Period size: 37 Copynumber: 2.3 Consensus size: 35
45613795 TGGCCTATCC
* * *
45613805 TTTTCTTTTCTTTTTCTTTTTCCTTTCCTTTTCTTTT
1 TTTTCTTTTC-TTTTCTTTTTCC-ATCATTTTCATTT
45613842 TTTTCCTTTTCTTTTCTTTTTCCATCATTTTCATTT
1 TTTT-CTTTTCTTTTCTTTTTCCATCATTTTCATTT
*
45613878 TTTTGTTTT
1 TTTTCTTTT
45613887 TTTATTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
35 4 0.10
36 14 0.35
37 16 0.40
38 6 0.15
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.76
Consensus pattern (35 bp):
TTTTCTTTTCTTTTCTTTTTCCATCATTTTCATTT
Found at i:45614981 original size:51 final size:52
Alignment explanation
Indices: 45614899--45615001 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 52
45614889 GGCCTATTTT
* *
45614899 TATTTTAAAATTTTTAAAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAAA
1 TATTTTAAAA-TTTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
45614952 TATTTTAAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
45615002 TTAAATAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 38 0.79
53 10 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (52 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
Found at i:45615005 original size:31 final size:31
Alignment explanation
Indices: 45614967--45615042 Score: 134
Period size: 31 Copynumber: 2.4 Consensus size: 31
45614957 TAAAATTAAA
45614967 AAAATTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAGTATTTTAAAAATATTTT
*
45614998 AAAATTAAATAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAGTATTTTAAAAATATTTT
45615029 AAAATTTAAAAAAA
1 AAAA-TTAAAAAAA
45615043 TTAAAAAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
31 34 0.81
32 8 0.19
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (31 bp):
AAAATTAAAAAAAGTATTTTAAAAATATTTT
Found at i:45615022 original size:71 final size:71
Alignment explanation
Indices: 45614941--45615077 Score: 240
Period size: 71 Copynumber: 1.9 Consensus size: 71
45614931 ATTTTAAAAA
* *
45614941 TATTTTAAAAATATTTTAAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 TATTTTAAAAATATTTTAAAATTTAAAAAAATT-AAAAAAGTATGTAAAAAATATTTTAAAATTA
45615005 AATAAAG
65 AATAAAG
45615012 TATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAAAATTAA
1 TATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAAAATTAA
45615077 A
66 A
45615078 AAAATAGTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
71 52 0.83
72 11 0.17
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (71 bp):
TATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAAGTATGTAAAAAATATTTTAAAATTAA
ATAAAG
Found at i:45615050 original size:82 final size:82
Alignment explanation
Indices: 45614899--45615072 Score: 209
Period size: 82 Copynumber: 2.1 Consensus size: 82
45614889 GGCCTATTTT
**
45614899 TATTTT-AAAATTTTTAAAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAAATATTTTAAAAT
1 TATTTTAAAAATTTTT-AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAAATATTAAAAAAT
45614963 TAAAAA-AAT-TAAAAAAA
65 TAAAAAGAATGT-AAAAAA
45614980 GTATTTTAAAAATATTTT-AAAA-TTAAATAAAGTATTTTAAAAATATTTT-AAAAT-TTAAAAA
1 -TATTTTAAAAAT-TTTTAAAAATTTAAA-AAAGTATTTTAAAAATATTTTAAAAATATT-AAAA
*
45615041 AATTAAAAAAGTATGTAAAAAA
62 AATT-AAAAAGAATGTAAAAAA
45615063 TATTTTAAAA
1 TATTTTAAAA
45615073 TTAAAAAAAT
Statistics
Matches: 82, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
80 2 0.02
81 16 0.20
82 46 0.56
83 13 0.16
84 5 0.06
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (82 bp):
TATTTTAAAAATTTTTAAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAAATATTAAAAAATT
AAAAAGAATGTAAAAAA
Found at i:45615072 original size:11 final size:11
Alignment explanation
Indices: 45614899--45615032 Score: 108
Period size: 11 Copynumber: 12.9 Consensus size: 11
45614889 GGCCTATTTT
45614899 TATTTT-AAAA
1 TATTTTAAAAA
45614909 T-TTTTAAAAA
1 TATTTTAAAAA
*
45614919 -ATTTAAAAAA
1 TATTTTAAAAA
45614929 GTATTTTAAAAA
1 -TATTTTAAAAA
45614941 TATTTTAAAAA
1 TATTTTAAAAA
45614952 TATTTT--AAA
1 TATTTTAAAAA
45614961 -A--TTAAAAA
1 TATTTTAAAAA
* **
45614969 AATTAAAAAAA
1 TATTTTAAAAA
45614980 GTATTTTAAAAA
1 -TATTTTAAAAA
*
45614992 TATTTTAAAAT
1 TATTTTAAAAA
** *
45615003 TA-AAT-AAAG
1 TATTTTAAAAA
45615012 TATTTTAAAAA
1 TATTTTAAAAA
45615023 TATTTTAAAA
1 TATTTTAAAA
45615033 TTTAAAAAAA
Statistics
Matches: 98, Mismatches: 14, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
6 2 0.02
8 4 0.04
9 13 0.13
10 15 0.15
11 47 0.48
12 17 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:45615073 original size:40 final size:40
Alignment explanation
Indices: 45614899--45615082 Score: 157
Period size: 40 Copynumber: 4.5 Consensus size: 40
45614889 GGCCTATTTT
* *
45614899 TATTTTAAAATTTTTAAAAAATTTAAAAAAGTATTTTAAAAA
1 TATTTTAAAA--TTTAAAAAAATTAAAAAAGTATTTAAAAAA
** *
45614941 TATTTTAAAAATATT-TTAAAATTAAAAAA--ATTAAAAAAA
1 TATTTT-AAAAT-TTAAAAAAATTAAAAAAGTATTTAAAAAA
**
45614980 GTATTTTAAAAATATT-TTAAAATTAAATAAAGTATTTTAAAAATA
1 -TATTTT-AAAAT-TTAAAAAAATTAAA-AAAGTA-TTTAAAAA-A
*
45615025 T-TT-TAAAATTTAAAAAAATTAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAAGTATTTAAAAAA
45615063 TATTTTAAAA-TTAAAAAAAT
1 TATTTTAAAATTTAAAAAAAT
45615083 AGTTCAGATA
Statistics
Matches: 122, Mismatches: 9, Indels: 25
0.78 0.06 0.16
Matches are distributed among these distances:
38 2 0.02
39 27 0.22
40 39 0.32
41 29 0.24
42 9 0.07
43 7 0.06
44 8 0.07
45 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (40 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAGTATTTAAAAAA
Found at i:45616453 original size:19 final size:20
Alignment explanation
Indices: 45616429--45616475 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
45616419 TAATAGTCTT
* *
45616429 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
45616448 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
45616468 -AATGCAAA
1 TAATGCAAA
45616476 AAGAGACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:45618527 original size:12 final size:12
Alignment explanation
Indices: 45618510--45618538 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45618500 AGAAAATAAA
45618510 TAAATGAAATAT
1 TAAATGAAATAT
45618522 TAAATGAAATAT
1 TAAATGAAATAT
45618534 TAAAT
1 TAAAT
45618539 AAAACAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
TAAATGAAATAT
Found at i:45624857 original size:16 final size:18
Alignment explanation
Indices: 45624820--45624858 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
45624810 TTCTTTTATA
45624820 ATTTTTAATCATTTTGTT
1 ATTTTTAATCATTTTGTT
45624838 -TTTTTAAT-ATTTT-TT
1 ATTTTTAATCATTTTGTT
45624853 ATTTTT
1 ATTTTT
45624859 GTGCAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.10
16 10 0.50
17 8 0.40
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTTTAATCATTTTGTT
Found at i:45625771 original size:31 final size:31
Alignment explanation
Indices: 45625731--45625804 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
45625721 AAAAAGCCTT
* * *
45625731 AATAATTCAGTAACTTAAAT-AAAAGTTTTTG
1 AATAGTTCAGTAACTTAAATGAAAA-CTTTCG
*
45625762 AATAGTTCAGTAATTTAAATGAAAACTTTCG
1 AATAGTTCAGTAACTTAAATGAAAACTTTCG
*
45625793 AATTGTTCAGTA
1 AATAGTTCAGTA
45625805 GTCATTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 33 0.89
32 4 0.11
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (31 bp):
AATAGTTCAGTAACTTAAATGAAAACTTTCG
Found at i:45633025 original size:20 final size:19
Alignment explanation
Indices: 45633006--45633089 Score: 82
Period size: 18 Copynumber: 4.4 Consensus size: 19
45632996 TTAAATTTTA
45633006 ATAAAAATATTAAAAATTT
1 ATAAAAATATTAAAAATTT
* *
45633025 ATTAAAA-ATTAAAAAATT
1 ATAAAAATATTAAAAATTT
**
45633043 ATAAAAATCGT-AAAATATT
1 ATAAAAATATTAAAAAT-TT
* *
45633062 ATAAAAAATTTTAAAATTTT
1 AT-AAAAATATTAAAAATTT
45633082 ATAAAAAT
1 ATAAAAAT
45633090 CATAAAAAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
18 20 0.38
19 17 0.33
20 11 0.21
21 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (19 bp):
ATAAAAATATTAAAAATTT
Found at i:45633047 original size:10 final size:10
Alignment explanation
Indices: 45633016--45633105 Score: 62
Period size: 10 Copynumber: 9.4 Consensus size: 10
45633006 ATAAAAATAT
*
45633016 TAAAAATTTA
1 TAAAAAATTA
*
45633026 TTAAAAA-T-
1 TAAAAAATTA
45633034 TAAAAAATTA
1 TAAAAAATTA
**
45633044 T-AAAAATCG
1 TAAAAAATTA
*
45633053 TAAAATATTA
1 TAAAAAATTA
*
45633063 TAAAAAATTT
1 TAAAAAATTA
**
45633073 TAAAATTTTA
1 TAAAAAATTA
*
45633083 T-AAAAATCA
1 TAAAAAATTA
*
45633092 TAAAAAACTA
1 TAAAAAATTA
45633102 TAAA
1 TAAA
45633106 GTATATCAAA
Statistics
Matches: 58, Mismatches: 18, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
8 6 0.10
9 15 0.26
10 37 0.64
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:45633095 original size:19 final size:18
Alignment explanation
Indices: 45632998--45633096 Score: 74
Period size: 20 Copynumber: 5.2 Consensus size: 18
45632988 TTAAATTATT
45632998 AAATTTTAATAAAAATATTA
1 AAATTTT-ATAAAAATA-TA
*
45633018 AAAATTTATTAAAAAT-TA
1 AAATTTTA-TAAAAATATA
** *
45633036 AAAAATTATAAAAATCGTA
1 AAATTTTATAAAAAT-ATA
* *
45633055 AAATATTATAAAAAATTTTA
1 AAATTTTAT-AAAAA-TATA
45633075 AAATTTTATAAAAATCATA
1 AAATTTTATAAAAAT-ATA
45633094 AAA
1 AAA
45633097 AACTATAAAG
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
17 7 0.10
18 10 0.15
19 21 0.31
20 28 0.42
21 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (18 bp):
AAATTTTATAAAAATATA
Found at i:45633103 original size:19 final size:19
Alignment explanation
Indices: 45633006--45633105 Score: 80
Period size: 19 Copynumber: 5.3 Consensus size: 19
45632996 TTAAATTTTA
*
45633006 ATAAAAAT-ATTAAAAATTT
1 ATAAAAATCA-TAAAAAATT
45633025 ATTAAAAAT--TAAAAAATT
1 A-TAAAAATCATAAAAAATT
* *
45633043 ATAAAAATCGTAAAATATT
1 ATAAAAATCATAAAAAATT
** **
45633062 ATAAAAAATTTTAAAATTTT
1 AT-AAAAATCATAAAAAATT
*
45633082 ATAAAAATCATAAAAAACT
1 ATAAAAATCATAAAAAATT
45633101 ATAAA
1 ATAAA
45633106 GTATATCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
17 7 0.10
18 9 0.13
19 28 0.42
20 23 0.34
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (19 bp):
ATAAAAATCATAAAAAATT
Found at i:45633359 original size:23 final size:23
Alignment explanation
Indices: 45633328--45633375 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
45633318 CTTACTACCT
45633328 TATAAAATTTTTATA-TATATTTA
1 TATAAAATTTTT-TACTATATTTA
* *
45633351 TATATAATTTTTTACTATTTTTA
1 TATAAAATTTTTTACTATATTTA
45633374 TA
1 TA
45633376 AGATTTACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TATAAAATTTTTTACTATATTTA
Found at i:45635427 original size:51 final size:51
Alignment explanation
Indices: 45635351--45635462 Score: 206
Period size: 51 Copynumber: 2.2 Consensus size: 51
45635341 NNNNNNNNNN
45635351 TCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCC
1 TCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCC
*
45635402 TCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTCC
1 TCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCC
*
45635453 CCTCAATTTC
1 TCTCAATTTC
45635463 ATTTTTTAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (51 bp):
TCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCC
Found at i:45635498 original size:30 final size:31
Alignment explanation
Indices: 45635463--45635527 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
45635453 CCTCAATTTC
45635463 ATTTTTT-AAAATAA-TTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
45635492 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
45635523 ATTTT
1 ATTTT
45635528 CAGCAATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 7 0.21
30 7 0.21
31 20 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTTAAAAATAATTTTAAATTTTTTTAT
Found at i:45636565 original size:7 final size:7
Alignment explanation
Indices: 45636553--45636577 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45636543 AGTCGATTGA
45636553 TATTTAG
1 TATTTAG
45636560 TATTTAG
1 TATTTAG
45636567 TATTTAG
1 TATTTAG
45636574 TATT
1 TATT
45636578 ATGTACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:45637665 original size:29 final size:29
Alignment explanation
Indices: 45637623--45637732 Score: 220
Period size: 29 Copynumber: 3.8 Consensus size: 29
45637613 NNNNNNNNNN
45637623 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
45637652 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
45637681 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
45637710 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
45637733 ACTAAGTTAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 81 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.28
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:45637895 original size:116 final size:116
Alignment explanation
Indices: 45637739--45637963 Score: 335
Period size: 116 Copynumber: 1.9 Consensus size: 116
45637729 CTAAACTAAG
*
45637739 TTAACAATGTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTGGTACCAACAAATAA
1 TTAACAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACCAACAAATAA
* ** * *
45637804 -TAATTTTACATAATTTGATACTTTTACTAACCATTAATACAATTTTTTGAC
66 GAAATTAAAC-TAATTTGATAATTTTACTAACAATTAATACAATTTTTTGAC
* * * * *
45637855 TTAATAATTTTACATTCACATAATGTTAGATTTGGTAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAACAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACCAACAAATAA
45637920 GAAATTAAACTAATTTGATAATTTTACTAACAATTAATACAATT
66 GAAATTAAACTAATTTGATAATTTTACTAACAATTAATACAATT
45637964 ATCAATTAAT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 91 0.94
117 6 0.06
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (116 bp):
TTAACAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACCAACAAATAA
GAAATTAAACTAATTTGATAATTTTACTAACAATTAATACAATTTTTTGAC
Found at i:45639960 original size:13 final size:13
Alignment explanation
Indices: 45639942--45639966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45639932 TTTTTTTGAA
45639942 AAAAATACGGGTT
1 AAAAATACGGGTT
45639955 AAAAATACGGGT
1 AAAAATACGGGT
45639967 CGGGTCGGGT
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:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (13 bp):
AAAAATACGGGTT
Found at i:45640166 original size:14 final size:14
Alignment explanation
Indices: 45640161--45640191 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
45640151 GAGAGAAAGG
45640161 AGAAGAAGAAGAGA
1 AGAAGAAGAAGAGA
45640175 AGAAGAAGAAGA-A
1 AGAAGAAGAAGAGA
45640188 AGAA
1 AGAA
45640192 AGAAAAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAAGAGA
Found at i:45640194 original size:14 final size:14
Alignment explanation
Indices: 45640140--45640195 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
45640130 CACACGATAG
*
45640140 AGAAA-AAAAAAGA
1 AGAAAGAAAGAAGA
45640153 GAGAAAGGAGAAGAAGA
1 -AGAAA-GA-AAGAAGA
45640170 AGAGAAG-AAGAAGA
1 AGA-AAGAAAGAAGA
45640184 AGAAAGAAAGAA
1 AGAAAGAAAGAA
45640196 AAAAGGTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
13 3 0.08
14 20 0.56
16 5 0.14
17 8 0.22
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAGAAGA
Found at i:45640194 original size:17 final size:17
Alignment explanation
Indices: 45640149--45640195 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
45640139 GAGAAAAAAA
* *
45640149 AAGAGAGAAAGGAGAAG
1 AAGAAAGAAAGAAGAAG
45640166 AAG-AAGAGAAGAAGAAG
1 AAGAAAGA-AAGAAGAAG
45640183 AAGAAAGAAAGAA
1 AAGAAAGAAAGAA
45640196 AAAAGGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 3 0.12
17 19 0.73
18 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAGAAGAAG
Found at i:45640382 original size:22 final size:21
Alignment explanation
Indices: 45640355--45640686 Score: 239
Period size: 22 Copynumber: 15.0 Consensus size: 21
45640345 TAGATTAGAA
*
45640355 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTGT-AATT
*
45640377 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
45640398 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
45640416 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
45640437 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
45640459 TATAGTTTTGGAT-TAGTAATT
1 TTTTG-TATGAATATTGTAATT
45640480 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
45640499 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGT-AATT
45640521 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
*
45640546 AGTTTTGTATGAATATTGCAATTT
1 --TTTTGTATGAATATTGTAA-TT
45640570 TTTTGTATGAATATTGTAACCTTGT
1 TTTTGTATGAATATTGTAA---T-T
* *
45640595 AATTTTGTATGAATATTATATTT
1 --TTTTGTATGAATATTGTAATT
45640618 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
*
45640643 AATTTTGTATGAATATTGCAATTT
1 --TTTTGTATGAATATTGTAA-TT
45640667 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
45640687 NNNNNNNNNN
Statistics
Matches: 253, Mismatches: 28, Indels: 59
0.74 0.08 0.17
Matches are distributed among these distances:
18 3 0.01
19 30 0.12
20 23 0.09
21 40 0.16
22 80 0.32
23 10 0.04
24 7 0.03
25 9 0.04
26 2 0.01
27 49 0.19
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:45640426 original size:19 final size:19
Alignment explanation
Indices: 45640379--45640435 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
45640369 TTTAAATTTT
* *
45640379 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
45640399 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
45640418 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
45640436 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:45640504 original size:19 final size:19
Alignment explanation
Indices: 45640480--45640540 Score: 86
Period size: 19 Copynumber: 3.1 Consensus size: 19
45640470 ATTAGTAATT
45640480 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
*
45640499 TTTTGTATGAATATTATAAA
1 TTTTGTATGAATATTGT-AA
45640519 TTTTTTGTATGAATATTGTAA
1 --TTTTGTATGAATATTGTAA
45640540 T
1 T
45640541 ATTATAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 17 0.46
20 2 0.05
21 2 0.05
22 16 0.43
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (19 bp):
TTTTGTATGAATATTGTAA
Found at i:45640521 original size:41 final size:40
Alignment explanation
Indices: 45640355--45640637 Score: 189
Period size: 49 Copynumber: 6.5 Consensus size: 40
45640345 TAGATTAGAA
*
45640355 TTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGT-AA--TTTTGTATGAATATTATAATT
* *
45640398 TTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
* * * *
45640437 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATT
1 -TTTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATT
45640480 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATT
**
45640521 TTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCAATTT
1 TTTTGTATGAATATTG------TA-A-TTTTGTATGAATATTATAA-TT
*
45640570 TTTTGTATGAATATTGTAACCTTGTAATTTTGTATGAATATTATATTT
1 TTTTGTATG-A-A---T-A--TTGTAATTTTGTATGAATATTATAATT
45640618 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
45640638 ATTATAATTT
Statistics
Matches: 193, Mismatches: 17, Indels: 63
0.71 0.06 0.23
Matches are distributed among these distances:
39 22 0.11
40 13 0.07
41 40 0.21
42 34 0.18
43 11 0.06
44 3 0.02
46 1 0.01
47 3 0.02
48 14 0.07
49 42 0.22
50 2 0.01
51 3 0.02
54 1 0.01
55 1 0.01
57 3 0.02
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
Found at i:45640542 original size:30 final size:27
Alignment explanation
Indices: 45640521--45640686 Score: 157
Period size: 27 Copynumber: 6.7 Consensus size: 27
45640511 ATTATAAATT
45640521 TTTTGTATGAATATTGTAATATTATAG
1 TTTTGTATGAATATTGTAATATTATAG
*
45640548 TTTTGTATGAATATTG-CA-ATT-T--
1 TTTTGTATGAATATTGTAATATTATAG
** * *
45640570 TTTTGTATGAATATTGTAACCTTGTAA
1 TTTTGTATGAATATTGTAATATTATAG
45640597 TTTTGTATGAATA-T-T-ATATT-T--
1 TTTTGTATGAATATTGTAATATTATAG
*
45640618 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAG
*
45640645 TTTTGTATGAATATTG-CA-ATT-T--
1 TTTTGTATGAATATTGTAATATTATAG
45640667 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
45640687 NNNNNNNNNN
Statistics
Matches: 119, Mismatches: 7, Indels: 29
0.77 0.05 0.19
Matches are distributed among these distances:
21 13 0.11
22 33 0.28
23 4 0.03
24 12 0.10
25 9 0.08
26 3 0.03
27 45 0.38
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTATAG
Found at i:45640542 original size:49 final size:49
Alignment explanation
Indices: 45640489--45640686 Score: 299
Period size: 49 Copynumber: 4.1 Consensus size: 49
45640479 TTTTTGTATG
* * *
45640489 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* *
45640538 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
** * *
45640587 AACCTTGTAATTTTGTATGAATATTA-TATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
*
45640635 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
45640684 AAT
1 AAT
45640687 NNNNNNNNNN
Statistics
Matches: 132, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
48 43 0.33
49 89 0.67
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (49 bp):
AATATTATAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
Found at i:45640652 original size:97 final size:98
Alignment explanation
Indices: 45640493--45640685 Score: 361
Period size: 97 Copynumber: 2.0 Consensus size: 98
45640483 TGTATGAATA
*
45640493 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGA
1 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
45640558 ATATTGCAATTTTTTTGTATGAATATTGTAACC
66 ATATTGCAATTTTTTTGTATGAATATTGTAACC
*
45640591 TTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
1 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
45640655 ATATTGCAATTTTTTTGTATGAATATTGTAA
66 ATATTGCAATTTTTTTGTATGAATATTGTAA
45640686 TNNNNNNNNN
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 70 0.75
98 23 0.25
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (98 bp):
TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGA
ATATTGCAATTTTTTTGTATGAATATTGTAACC
Found at i:45643393 original size:29 final size:29
Alignment explanation
Indices: 45643351--45643484 Score: 224
Period size: 29 Copynumber: 4.8 Consensus size: 29
45643341 TAATAAAAAC
45643351 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
45643380 CCTAATTTAATTAAAAACCCT-A----AA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
45643404 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
45643433 CCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
45643462 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
45643485 NNNNNNNNNN
Statistics
Matches: 99, Mismatches: 1, Indels: 10
0.90 0.01 0.09
Matches are distributed among these distances:
24 23 0.23
25 1 0.01
28 1 0.01
29 74 0.75
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:45643428 original size:53 final size:55
Alignment explanation
Indices: 45643351--45643484 Score: 227
Period size: 53 Copynumber: 2.4 Consensus size: 55
45643341 TAATAAAAAC
45643351 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-A-AA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACAA
45643404 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-C--AA
45643462 CCTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
45643485 NNNNNNNNNN
Statistics
Matches: 76, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
53 50 0.66
54 1 0.01
58 25 0.33
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (55 bp):
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACAA
Found at i:45646895 original size:15 final size:15
Alignment explanation
Indices: 45646854--45646895 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
45646844 GTTAACTCAT
*
45646854 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
45646869 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
45646885 TTAAATTTTAT
1 TTAAATTTTAT
45646896 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:45649838 original size:22 final size:21
Alignment explanation
Indices: 45649824--45649864 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
45649814 TTTTTCTCTT
45649824 TTCCTTCCTTCTTTTCTTCTGC
1 TTCCTTCCTTCTTTT-TTCTGC
*
45649846 TTCCTTCCTTCTTCTTTCT
1 TTCCTTCCTTCTTTTTTCT
45649865 TCCGTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.61
Consensus pattern (21 bp):
TTCCTTCCTTCTTTTTTCTGC
Found at i:45649973 original size:27 final size:27
Alignment explanation
Indices: 45649924--45650026 Score: 145
Period size: 27 Copynumber: 3.8 Consensus size: 27
45649914 AAAATCACAG
* *
45649924 CATTGGCGCCT-TCTAATATGGCACCAC
1 CATTGGCGCCTCCCAAATA-GGCACCAC
*
45649951 CATTGGCGCCTCCCAAATAGGCACCAT
1 CATTGGCGCCTCCCAAATAGGCACCAC
45649978 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
* *
45650005 CATTGGCGCCTTCCAGATAGGC
1 CATTGGCGCCTCCCAAATAGGC
45650027 GCCAATACTA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
27 64 0.93
28 5 0.07
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.20
Consensus pattern (27 bp):
CATTGGCGCCTCCCAAATAGGCACCAC
Found at i:45650920 original size:125 final size:125
Alignment explanation
Indices: 45650543--45650894 Score: 659
Period size: 125 Copynumber: 2.8 Consensus size: 125
45650533 CCCAAACTTG
* * * *
45650543 CTACTGTAGCAAAATTGCGTCCACGATGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCATGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTGG
45650608 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCTTACATGAC
45650668 CTACTGTAGCAAAATCGCGTCCATGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCATGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTGG
45650733 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCTTACATGAC
45650793 CTACTGTAGCAAAATCGCGTCCATGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCATGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
45650858 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
45650895 CTCGAAATAA
Statistics
Matches: 222, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 222 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTCCATGAGGGCGGGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCTTACATGAC
Found at i:45652760 original size:29 final size:31
Alignment explanation
Indices: 45652728--45652786 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
45652718 TTTAGAGCTC
45652728 AAAA-AGGCTAACATATACATATTGCTATAA
1 AAAAGAGGCTAACATATACATATTGCTATAA
* *
45652758 AAAAGAGGTTAATATATACATATTGCTAT
1 AAAAGAGGCTAACATATACATATTGCTAT
45652787 CACCCTAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (31 bp):
AAAAGAGGCTAACATATACATATTGCTATAA
Found at i:45663602 original size:800 final size:800
Alignment explanation
Indices: 45662058--45663653 Score: 3165
Period size: 800 Copynumber: 2.0 Consensus size: 800
45662048 TTGTAAGACA
45662058 CACCATTACTGCGAATAATTTCAAACTGAAGCCGAACACTATTTAGATGATTCAACAGTTTGTTT
1 CACCATTACTGCGAATAATTTCAAACTGAAGCCGAACACTATTTAGATGATTCAACAGTTTGTTT
45662123 AGTTCGATGGTTTGTAGGACGAAGATCCAAATACTTATTTGGCTAATTTTTTGAAAGTTTGTGAT
66 AGTTCGATGGTTTGTAGGACGAAGATCCAAATACTTATTTGGCTAATTTTTTGAAAGTTTGTGAT
*
45662188 ACTTTCAAGATAAATGACGTTTCTTACGATGCTATTCGCCTACGATTATTCCCTTTCTCATTGAG
131 ACTTTCAAGATAAATGAAGTTTCTTACGATGCTATTCGCCTACGATTATTCCCTTTCTCATTGAG
45662253 AAACAAATTTAAACAGTGGTTGAACTCCTTATATACGAGGTTCTATCACTACATGAGATCAAATG
196 AAACAAATTTAAACAGTGGTTGAACTCCTTATATACGAGGTTCTATCACTACATGAGATCAAATG
*
45662318 ACCGAGAAATTCCTACTAAAGTACTTTCCACCGACTAAGACAGCTAAGCTGAGGAATGATATATC
261 ACCGAGAAATTCCTACTAAAATACTTTCCACCGACTAAGACAGCTAAGCTGAGGAATGATATATC
45662383 TTCCTTCGTGCAGATTGACTTAGAAACGCTATATGATGCATGTAAGAGGTATAAGGATTTATTGA
326 TTCCTTCGTGCAGATTGACTTAGAAACGCTATATGATGCATGTAAGAGGTATAAGGATTTATTGA
45662448 GAATGTGCCCTCACCATGGGTTACCTCTATGGTTACAAGTTCAAACCTTCTACAACGATTTGAAT
391 GAATGTGCCCTCACCATGGGTTACCTCTATGGTTACAAGTTCAAACCTTCTACAACGATTTGAAT
45662513 CCCTCAACTAGGCAGTTAATCGATGCAGCAGCCGGTGTTACTCTGAACAATAAAACACCTGAAGC
456 CCCTCAACTAGGCAGTTAATCGATGCAGCAGCCGGTGTTACTCTGAACAATAAAACACCTGAAGC
45662578 AGCTTATGAGTTTATAGAGGAGATGTCATTGAATAATTATCAGTGGCAAGTCATGAGGACAAAGT
521 AGCTTATGAGTTTATAGAGGAGATGTCATTGAATAATTATCAGTGGCAAGTCATGAGGACAAAGT
45662643 CGACAAAAGCAGTCGGTGTTTTTAACTTAGATGCGGTCACCATGTTATCGAATCAGGTAGAACTT
586 CGACAAAAGCAGTCGGTGTTTTTAACTTAGATGCGGTCACCATGTTATCGAATCAGGTAGAACTT
45662708 TTAAATAAAAAATTGATGGTTTATGTGTTTCTACGCAGGTACATCCGGTGATGCAATGCGATGCT
651 TTAAATAAAAAATTGATGGTTTATGTGTTTCTACGCAGGTACATCCGGTGATGCAATGCGATGCT
45662773 AATGGAGGTGAAATAAATAATTCAGAATATTTACCCTTCGGTCCTAGCATGGAGAATGAGCAAAT
716 AATGGAGGTGAAATAAATAATTCAGAATATTTACCCTTCGGTCCTAGCATGGAGAATGAGCAAAT
45662838 AAATTATATGGGTAATTTCC
781 AAATTATATGGGTAATTTCC
45662858 CACCATTACTGCGAATAATTTCAAACTGAAGCCGAACACTATTTAGATGATTCAACAGTTTGTTT
1 CACCATTACTGCGAATAATTTCAAACTGAAGCCGAACACTATTTAGATGATTCAACAGTTTGTTT
45662923 AGTTCGATGGTTTGTAGGACGAAGATCCAAATACTTATTTGGCTAATTTTTTGAAAGTTTGTGAT
66 AGTTCGATGGTTTGTAGGACGAAGATCCAAATACTTATTTGGCTAATTTTTTGAAAGTTTGTGAT
45662988 ACTTTCAAGATAAATGAAGTTTCTTACGATGCTATTCGCCTACGATTATTCCCTTTCTCATTGAG
131 ACTTTCAAGATAAATGAAGTTTCTTACGATGCTATTCGCCTACGATTATTCCCTTTCTCATTGAG
45663053 AAACAAATTTAAACAGTGGTTGAACTCCTTATATACGAGGTTCTATCACTACATGAGATCAAATG
196 AAACAAATTTAAACAGTGGTTGAACTCCTTATATACGAGGTTCTATCACTACATGAGATCAAATG
45663118 ACCGAGAAATTCCTACTAAAATACTTTCCACCGACTAAGACAGCTAAGCTGAGGAATGATATATC
261 ACCGAGAAATTCCTACTAAAATACTTTCCACCGACTAAGACAGCTAAGCTGAGGAATGATATATC
45663183 TTCCTTCGTGCAGATTGACTTAGAAACGCTATATGATGCATGTAAGAGGTATAAGGATTTATTGA
326 TTCCTTCGTGCAGATTGACTTAGAAACGCTATATGATGCATGTAAGAGGTATAAGGATTTATTGA
45663248 GAATGTGCCCTCACCATGGGTTACCTCTATGGTTACAAGTTCAAACCTTCTACAACGATTTGAAT
391 GAATGTGCCCTCACCATGGGTTACCTCTATGGTTACAAGTTCAAACCTTCTACAACGATTTGAAT
45663313 CCCTCAACTAGGCAGTTAATCGATGCAGCAGCCGGTGTTACTCTGAACAATAAAACACCTGAAGC
456 CCCTCAACTAGGCAGTTAATCGATGCAGCAGCCGGTGTTACTCTGAACAATAAAACACCTGAAGC
45663378 AGCTTATGAGTTTATAGAGGAGATGTCATTGAATAATTATCAGTGGCAAGTCATGAGGACAAAGT
521 AGCTTATGAGTTTATAGAGGAGATGTCATTGAATAATTATCAGTGGCAAGTCATGAGGACAAAGT
45663443 CGACAAAAGCAGTCGGTGTTTTTAACTTAGATGCGGTCACCATGTTATCGAATCAGGTAGAACTT
586 CGACAAAAGCAGTCGGTGTTTTTAACTTAGATGCGGTCACCATGTTATCGAATCAGGTAGAACTT
45663508 TTAAATAAAAAATTGATGGTTTATGTGTTTCTACGCAGGTACATCCGGTGATGCAATGCGATGCT
651 TTAAATAAAAAATTGATGGTTTATGTGTTTCTACGCAGGTACATCCGGTGATGCAATGCGATGCT
*
45663573 AATGGAGGTGAAATAAATAATTTAGAATATTTACCCTTCGGTCCTAGCATGGAGAATGAGCAAAT
716 AATGGAGGTGAAATAAATAATTCAGAATATTTACCCTTCGGTCCTAGCATGGAGAATGAGCAAAT
45663638 AAATTATATGGGTAAT
781 AAATTATATGGGTAAT
45663654 AATTTTAAAC
Statistics
Matches: 793, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
800 793 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (800 bp):
CACCATTACTGCGAATAATTTCAAACTGAAGCCGAACACTATTTAGATGATTCAACAGTTTGTTT
AGTTCGATGGTTTGTAGGACGAAGATCCAAATACTTATTTGGCTAATTTTTTGAAAGTTTGTGAT
ACTTTCAAGATAAATGAAGTTTCTTACGATGCTATTCGCCTACGATTATTCCCTTTCTCATTGAG
AAACAAATTTAAACAGTGGTTGAACTCCTTATATACGAGGTTCTATCACTACATGAGATCAAATG
ACCGAGAAATTCCTACTAAAATACTTTCCACCGACTAAGACAGCTAAGCTGAGGAATGATATATC
TTCCTTCGTGCAGATTGACTTAGAAACGCTATATGATGCATGTAAGAGGTATAAGGATTTATTGA
GAATGTGCCCTCACCATGGGTTACCTCTATGGTTACAAGTTCAAACCTTCTACAACGATTTGAAT
CCCTCAACTAGGCAGTTAATCGATGCAGCAGCCGGTGTTACTCTGAACAATAAAACACCTGAAGC
AGCTTATGAGTTTATAGAGGAGATGTCATTGAATAATTATCAGTGGCAAGTCATGAGGACAAAGT
CGACAAAAGCAGTCGGTGTTTTTAACTTAGATGCGGTCACCATGTTATCGAATCAGGTAGAACTT
TTAAATAAAAAATTGATGGTTTATGTGTTTCTACGCAGGTACATCCGGTGATGCAATGCGATGCT
AATGGAGGTGAAATAAATAATTCAGAATATTTACCCTTCGGTCCTAGCATGGAGAATGAGCAAAT
AAATTATATGGGTAATTTCC
Found at i:45667746 original size:3 final size:3
Alignment explanation
Indices: 45667738--45667765 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45667728 AAACATAAAC
45667738 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
45667766 ATAAACATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:45667907 original size:21 final size:22
Alignment explanation
Indices: 45667883--45667924 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
45667873 CATATATACG
45667883 AATAA-TAGTATCATAAAAAAT
1 AATAAGTAGTATCATAAAAAAT
*
45667904 AATAATGTATTATCATAAAAA
1 AATAA-GTAGTATCATAAAAA
45667925 TATTCAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
23 13 0.72
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (22 bp):
AATAAGTAGTATCATAAAAAAT
Found at i:45672018 original size:13 final size:13
Alignment explanation
Indices: 45672000--45672027 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45671990 ATAGGTTGAT
45672000 TAAGATTTTGAGA
1 TAAGATTTTGAGA
45672013 TAAGATTTTGAGA
1 TAAGATTTTGAGA
45672026 TA
1 TA
45672028 TGATAAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (13 bp):
TAAGATTTTGAGA
Found at i:45678166 original size:41 final size:41
Alignment explanation
Indices: 45678121--45678256 Score: 119
Period size: 41 Copynumber: 3.1 Consensus size: 41
45678111 ACAATTTCGA
*
45678121 GGAGATATTTGTATCTTCAACCTATTCTGCTGCAACTTCAG
1 GGAGATATTTGTATCTTCAACCTATTCCGCTGCAACTTCAG
* * * *
45678162 GGAGATAAGATTTGTAGCTTGTAACTTTAATCTATTCCACTGCAAGTTCAG
1 GGAGAT---ATTTGTA-----T--CTTCAACCTATTCCGCTGCAACTTCAG
* *
45678213 GGAGATATTCGTATCTTCAACCTATTCCGTTGCAACTTCAG
1 GGAGATATTTGTATCTTCAACCTATTCCGCTGCAACTTCAG
45678254 GGA
1 GGA
45678257 TATAAGATTT
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
41 31 0.42
43 1 0.01
44 7 0.09
48 6 0.08
49 1 0.01
51 28 0.38
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (41 bp):
GGAGATATTTGTATCTTCAACCTATTCCGCTGCAACTTCAG
Found at i:45678205 original size:51 final size:50
Alignment explanation
Indices: 45678150--45678873 Score: 208
Period size: 51 Copynumber: 15.6 Consensus size: 50
45678140 ACCTATTCTG
45678150 CTGCAACTTCAGGGAGATAAGATTTGTAGCTTGTAACTTTAATCTATTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTA-CTTGTAACTTTAATCTATTCCA
* * * * *
45678201 CTGCAAGTTCAGGGAGAT---A--T-T-C--GTATCTTCAACCTATTCCG
1 CTGCAACTTCAGGGAGATAAGATTTGTACTTGTAACTTTAATCTATTCCA
* * *
45678242 TTGCAACTTCAGGGATATAAGATTTGTAGCTTGTAACTTTAGTCTATTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTA-CTTGTAACTTTAATCTATTCCA
** * * * *
45678293 CTATAACTTCAGGGAGATAAGACTTGCTA-TAGTATA-TTTAATTTGA-CCCA
1 CTGCAACTTCAGGGAGATAAGATTTG-TACTTGTA-ACTTTAATCT-ATTCCA
* * * **
45678343 CTGCAACCTCA--GAGGTATAG----G-ACTTGTTACTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATA-AGATTTGTACTTGTAACTTTAATCTATTCCA
* * * *
45678387 CTGCACCTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTTCG
1 CTGCAACTTCAGGGAGATAAGATTTGT-ACTTGTAACTTTAATCTATTCCA
* * * * * **
45678438 TTGGAACTTCAGGGAAATAAGATTTG--C---TATCTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTACTTGTAACTTTAATCTATTCCA
* * * **
45678483 CTGCAACTTCAAGGATATAAGA--T-T--TTGTAGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTACTTGTAACTTTAATCTATTCCA
* * **
45678528 CTGTAACTTCAGGGAGAT-A-A--TGT--TCG---CTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTACTTGTAACTTTAATCTATTCCA
* * * * * ***
45678569 CTGCACCTTTAGGGAGATAAGATTTGTAAATTGTAGCTTTAATCTGTTTTG
1 CTGCAACTTCAGGGAGATAAGATTTGT-ACTTGTAACTTTAATCTATTCCA
* * * * * * * **
45678620 CTACAACTTCAGGAAAATAAGATTCG--C---TATCTTCAATTTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTACTTGTAACTTTAATCTATTCCA
* * *
45678665 CTGCAACTTCAGGGGGATAAGATTTATAGCTT-TAA-TTT--GC---TCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTA-CTTGTAACTTTAATCTATTCCA
* **
45678709 CTGCAACTTCAGGGAGATAAG----GT--TCG---CTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTACTTGTAACTTTAATCTATTCCA
* * * * * * *
45678750 TTGCACCTTCAGAGAGATAAGATTTGTAACTTGTAACTTTAATATGTCCCG
1 CTGCAACTTCAGGGAGATAAGATTTGT-ACTTGTAACTTTAATCTATTCCA
* * * * * * **
45678801 CTGCAACTTCAAGGAAATAAGA-TT-CAC---TATCTTAAATTTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTACTTGTAACTTTAATCTATTCCA
*
45678846 CTGTAACTTCAGGGAGATAAGATTTGTA
1 CTGCAACTTCAGGGAGATAAGATTTGTA
45678874 GCTTCAATCT
Statistics
Matches: 489, Mismatches: 120, Indels: 132
0.66 0.16 0.18
Matches are distributed among these distances:
36 3 0.01
37 1 0.00
38 1 0.00
40 1 0.00
41 82 0.17
42 1 0.00
43 7 0.01
44 51 0.10
45 132 0.27
46 9 0.02
47 2 0.00
48 14 0.03
49 6 0.01
50 25 0.05
51 152 0.31
52 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (50 bp):
CTGCAACTTCAGGGAGATAAGATTTGTACTTGTAACTTTAATCTATTCCA
Found at i:45678247 original size:92 final size:92
Alignment explanation
Indices: 45678088--45678311 Score: 333
Period size: 92 Copynumber: 2.4 Consensus size: 92
45678078 GGTGTAAGAA
* * * * *
45678088 TTGTAATTTTAATCTACTCCACTACAATTTC-GAGGAGATATTTGTATCTTCAACCTATTCTGCT
1 TTGTAACTTTAATCTATTCCACTACAACTTCAG-GGAGATATTCGTATCTTCAACCTATTCCGCT
45678152 GCAACTTCAGGGAGATAAGATTTGTAGC
65 GCAACTTCAGGGAGATAAGATTTGTAGC
* * *
45678180 TTGTAACTTTAATCTATTCCACTGCAAGTTCAGGGAGATATTCGTATCTTCAACCTATTCCGTTG
1 TTGTAACTTTAATCTATTCCACTACAACTTCAGGGAGATATTCGTATCTTCAACCTATTCCGCTG
*
45678245 CAACTTCAGGGATATAAGATTTGTAGC
66 CAACTTCAGGGAGATAAGATTTGTAGC
* *
45678272 TTGTAACTTTAGTCTATTCCACTATAACTTCAGGGAGATA
1 TTGTAACTTTAATCTATTCCACTACAACTTCAGGGAGATA
45678312 AGACTTGCTA
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 118 0.99
93 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (92 bp):
TTGTAACTTTAATCTATTCCACTACAACTTCAGGGAGATATTCGTATCTTCAACCTATTCCGCTG
CAACTTCAGGGAGATAAGATTTGTAGC
Found at i:45678493 original size:45 final size:45
Alignment explanation
Indices: 45678372--45678918 Score: 348
Period size: 45 Copynumber: 12.0 Consensus size: 45
45678362 GGACTTGTTA
* *
45678372 CTTTAATCTGCTCCACTGCACCTTCAGGGAGATAAGATTTGTAACTTGTAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C---TAT
** * ** * *
45678423 CTTTAATCTATTTCGTTGGAACTTCAGGGAAATAAGATTTGCTAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * *
45678468 CTTCAATCTGCTCCACTGCAACTTCAAGGATATAAGATTTTG-TAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGCTAT
* *
45678513 CTTTAATCTGCTCCACTGTAACTTCAGGGAGAT-A-ATGTT-C--G
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTGCTAT
* *
45678554 CTTTAATCTGCTCCACTGCACCTTTAGGGAGATAAGATTTG-TAAATTGT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT--A---T
* *** * * * *
45678603 AGCTTTAATCTGTTTTGCTACAACTTCAGGAAAATAAGATTCGCTAT
1 --CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * * *
45678650 CTTCAATTTGCTCCACTGCAACTTCAGGGGGATAAGATTT-ATAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * *
45678694 CTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAG-GTT-C--G
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * *
45678735 CTTTAATCTGCTCCATTGCACCTTCAGAGAGATAAGATTTGTAACTTGTAA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C---TAT
* * * * **
45678786 CTTTAATATG-TCCCGCTGCAACTTCAAGGAAATAAGATTCACTAT
1 CTTTAATCTGCT-CCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * *
45678831 CTTAAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTTG-TAG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * *
45678875 CTTCAATCTGCTCCACTGCAACTTCAAGGAGGTAAGATTTGCTA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTA
45678919 CGGTGACTTC
Statistics
Matches: 383, Mismatches: 84, Indels: 64
0.72 0.16 0.12
Matches are distributed among these distances:
41 64 0.17
42 6 0.02
43 7 0.02
44 75 0.20
45 125 0.33
46 6 0.02
47 1 0.00
48 2 0.01
50 2 0.01
51 94 0.25
52 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (45 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
Found at i:45678569 original size:41 final size:41
Alignment explanation
Indices: 45678472--45678769 Score: 175
Period size: 41 Copynumber: 6.8 Consensus size: 41
45678462 TGCTATCTTC
* * * *
45678472 AATCTGCTCCACTGCAACTTCAAGGATATAAGATTTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGAT-A-A-TGT-TCGCTTT
*
45678517 AATCTGCTCCACTGTAACTTCAGGGAGATAATGTTCGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAATGTTCGCTTT
* * *
45678558 AATCTGCTCCACTGCACCTTTAGGGAGATAAGATTTGTAAATTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGAT-A-A--TG-----T-TCGCTTT
* *** * * *
45678609 AATCTGTTTTGCTACAACTTCAGGAAAATAA-GATTCGCTATCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAATG-TTCGC--T-TT
* * * *
45678653 CAATTTGCTCCACTGCAACTTCAGGGGGATAAGATTTATAGCTTT
1 -AATCTGCTCCACTGCAACTTCAGGGAGAT-A-ATGT-TCGCTTT
* *
45678698 AATTTGCTCCACTGCAACTTCAGGGAGATAAGGTTCGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAATGTTCGCTTT
* * *
45678739 AATCTGCTCCATTGCACCTTCAGAGAGATAA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA
45678770 GATTTGTAAC
Statistics
Matches: 196, Mismatches: 39, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
41 68 0.35
42 6 0.03
43 4 0.02
44 31 0.16
45 50 0.26
46 3 0.02
47 2 0.01
48 3 0.02
49 1 0.01
50 2 0.01
51 26 0.13
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (41 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAATGTTCGCTTT
Found at i:45678576 original size:182 final size:181
Alignment explanation
Indices: 45678372--45678910 Score: 799
Period size: 181 Copynumber: 3.0 Consensus size: 181
45678362 GGACTTGTTA
*
45678372 CTTTAATCTGCTCCACTGCACCTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTATTTC
1 CTTTAATCTGCTCCACTGCACCTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTTC
* * * * * *
45678437 GTTGGAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAAGGATATA
66 GCTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATTTGCTCCACTGCAACTTCAGGGAGATA
* *
45678502 AGATTTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAATGTTCG
131 AGA-TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTCG
* * *
45678554 CTTTAATCTGCTCCACTGCACCTTTAGGGAGATAAGATTTGTAAATTGTAGCTTTAATCTGTTTT
1 CTTTAATCTGCTCCACTGCACCTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTTC
* * *
45678619 GCTACAACTTCAGGAAAATAAGATTCGCTATCTTCAATTTGCTCCACTGCAACTTCAGGGGGATA
66 GCTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATTTGCTCCACTGCAACTTCAGGGAGATA
* *
45678684 AGATTTATAGCTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGGTTCG
131 AGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTCG
* * * * **
45678735 CTTTAATCTGCTCCATTGCACCTTCAGAGAGATAAGATTTGTAACTTGTAACTTTAATATGTCCC
1 CTTTAATCTGCTCCACTGCACCTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTTC
* * * *
45678800 GCTGCAACTTCAAGGAAATAAGATTCACTATCTTAAATTTGCTCCACTGTAACTTCAGGGAGATA
66 GCTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATTTGCTCCACTGCAACTTCAGGGAGATA
* * *
45678865 AGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGGTAAG
131 AGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
45678911 ATTTGCTACG
Statistics
Matches: 319, Mismatches: 38, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
181 199 0.62
182 120 0.38
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (181 bp):
CTTTAATCTGCTCCACTGCACCTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTTC
GCTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATTTGCTCCACTGCAACTTCAGGGAGATA
AGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTCG
Found at i:45678860 original size:137 final size:138
Alignment explanation
Indices: 45678665--45678915 Score: 337
Period size: 137 Copynumber: 1.8 Consensus size: 138
45678655 ATTTGCTCCA
* ** * *
45678665 CTGCAACTTCAGGGGGATAAGATTTATAGCTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAAGGAAATAAGATTCATAGCTTAAATTTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
45678730 -GT-TCGCTTTAATCTGCTCCATTGCACCTTC-AGAGAGATAAGATTTGTAACTTGTAACTTTAA
66 AGTGTAGCTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTAACTTGTAACTTTAA
45678792 TATGTCCCG
130 TATGTCCCG
* *
45678801 CTGCAACTTCAAGGAAATAAGATTCACTATCTTAAATTTGCTCCACTGTAACTTCAGGGAGATAA
1 CTGCAACTTCAAGGAAATAAGATTCA-TAGCTTAAATTTGCTCCACTGCAACTTCAGGGAGATAA
* *
45678866 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGGTAAGATTTG
65 GA-GTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTG
45678916 CTACGGTGAC
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
136 22 0.23
137 36 0.37
139 1 0.01
140 36 0.37
141 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (138 bp):
CTGCAACTTCAAGGAAATAAGATTCATAGCTTAAATTTGCTCCACTGCAACTTCAGGGAGATAAG
AGTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTGTAACTTTAAT
ATGTCCCG
Found at i:45682641 original size:21 final size:21
Alignment explanation
Indices: 45682599--45682641 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
45682589 TTCAGTATAC
*
45682599 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
45682620 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
45682641 A
1 A
45682642 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:45691750 original size:17 final size:16
Alignment explanation
Indices: 45691718--45691751 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
45691708 TTGGCTATTC
*
45691718 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
45691734 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
45691751 T
1 T
45691752 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:45691799 original size:14 final size:14
Alignment explanation
Indices: 45691740--45691790 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
45691730 CTTTTGTTTC
*
45691740 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
45691753 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
45691768 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
45691782 TTTTATTTC
1 TTTTATTTC
45691791 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:45691959 original size:14 final size:17
Alignment explanation
Indices: 45691940--45691976 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
45691930 ATTTATTTCT
45691940 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
45691954 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
45691971 TAATAT
1 TAATAT
45691977 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:45693075 original size:22 final size:22
Alignment explanation
Indices: 45693050--45693093 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
45693040 CTTTTTATCA
45693050 TAAGCTCGTATCATTTGTTTTT
1 TAAGCTCGTATCATTTGTTTTT
45693072 TAAGCTCGTATCATTTGTTTTT
1 TAAGCTCGTATCATTTGTTTTT
45693094 GGTACATCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.55
Consensus pattern (22 bp):
TAAGCTCGTATCATTTGTTTTT
Found at i:45702059 original size:11 final size:11
Alignment explanation
Indices: 45702043--45702069 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45702033 AATTGTGCAT
45702043 ATTAAATTTAA
1 ATTAAATTTAA
45702054 ATTAAATTTAA
1 ATTAAATTTAA
45702065 ATTAA
1 ATTAA
45702070 CTACGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:45707441 original size:26 final size:25
Alignment explanation
Indices: 45707397--45707472 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 25
45707387 CCTAATCTAT
* *
45707397 TTTTTGATTTA-ATAATATGTTATTA
1 TTTTT-ATTTATATATTATGTAATTA
45707422 TTTATTATTTATATATTATGTAATT-
1 TTT-TTATTTATATATTATGTAATTA
45707447 TGTGTTTATTTATATATTATGTAATT
1 T-T-TTTATTTATATATTATGTAATT
45707473 TGTGTAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 9 0.20
26 35 0.78
27 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (25 bp):
TTTTTATTTATATATTATGTAATTA
Found at i:45707473 original size:26 final size:26
Alignment explanation
Indices: 45707426--45707477 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
45707416 TTATTATTTA
45707426 TTATTTATATATTATGTAATTTGTGT
1 TTATTTATATATTATGTAATTTGTGT
45707452 TTATTTATATATTATGTAATTTGTGT
1 TTATTTATATATTATGTAATTTGTGT
45707478 AATATAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (26 bp):
TTATTTATATATTATGTAATTTGTGT
Found at i:45707610 original size:22 final size:22
Alignment explanation
Indices: 45707583--45707633 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
45707573 TTTTAAATTT
45707583 TAAAAA-AATATGTTTTATATGTA
1 TAAAAATAA-ATGTTTT-TATGTA
*
45707606 TAAAAATAAATGTTTTTTTGTA
1 TAAAAATAAATGTTTTTATGTA
45707628 TAAAAA
1 TAAAAA
45707634 GAGTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.42
23 13 0.50
24 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (22 bp):
TAAAAATAAATGTTTTTATGTA
Found at i:45707959 original size:31 final size:29
Alignment explanation
Indices: 45707886--45707959 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
45707876 GGTTCAGGTT
* *
45707886 ACATTTCAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTA
* * * *
45707915 ACGTTGTAGTCACTTATGTTATTATGATGTA
1 ACATTTTAGTCACTTATGTT-TGA-AATGTA
45707946 ACATTTTAGTCACT
1 ACATTTTAGTCACT
45707960 GAGCCGTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 17 0.49
30 2 0.06
31 16 0.46
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.45
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTA
Found at i:45708846 original size:18 final size:19
Alignment explanation
Indices: 45708811--45708848 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
45708801 TCTCTCTCTC
*
45708811 TCTTTTTTTTTTGCTATTT
1 TCTTTTTTTTTAGCTATTT
45708830 TCTTTTTTTTTAG-TATTT
1 TCTTTTTTTTTAGCTATTT
45708848 T
1 T
45708849 GCTACCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (19 bp):
TCTTTTTTTTTAGCTATTT
Done.