Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 138 of 325
Found at i:43150053 original size:25 final size:25
Alignment explanation
Indices: 43150010--43150091 Score: 114
Period size: 25 Copynumber: 3.3 Consensus size: 25
43150000 ATTTAATATC
43150010 AAGGGCTTATGCCCCAGTTTATTGAA
1 AAGGGCTT-TGCCCCAGTTTATTGAA
**
43150036 AAGGGCTTTGCCCCAGTTTACCGAA
1 AAGGGCTTTGCCCCAGTTTATTGAA
43150061 AAGGGCTTTGCCCCAG-TTATT-AA
1 AAGGGCTTTGCCCCAGTTTATTGAA
43150084 AAGAGGCT
1 AAG-GGCT
43150092 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.10
24 7 0.14
25 31 0.61
26 8 0.16
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGTTTATTGAA
Found at i:43150282 original size:42 final size:42
Alignment explanation
Indices: 43150223--43150315 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
43150213 GTAGTCTCCC
* ** *
43150223 CAAATGGGCTTGCATACATTCATTGGTATTTCATATGATATT
1 CAAATGGGCTTGCATACATCCATTGACATTACATATGATATT
*
43150265 CAAATGGGCTTGCATACATCCATTGACATTACATGTGATATT
1 CAAATGGGCTTGCATACATCCATTGACATTACATATGATATT
*
43150307 GAAATGGGC
1 CAAATGGGC
43150316 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (42 bp):
CAAATGGGCTTGCATACATCCATTGACATTACATATGATATT
Found at i:43150417 original size:31 final size:31
Alignment explanation
Indices: 43150339--43150417 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
43150329 CATTTACAGT
* *
43150339 AAAGGCTTTGGCCCAGCGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
43150370 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
43150401 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
43150418 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:43152677 original size:27 final size:27
Alignment explanation
Indices: 43152638--43152746 Score: 87
Period size: 27 Copynumber: 4.0 Consensus size: 27
43152628 TTAGAATACT
*
43152638 TTAGTTTACTAAAATTACCAAAATACCC
1 TTAGTTT-GTAAAATTACCAAAATACCC
* **
43152666 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACCAAAATACCC
* **
43152693 -TCGATTTGTAAAATTACTGAAATA-CC
1 TTAG-TTTGTAAAATTACCAAAATACCC
** *
43152719 TTCAACTTGTAAAATTACCAAAGTACCC
1 TT-AGTTTGTAAAATTACCAAAATACCC
43152747 CCGATTTACA
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
26 4 0.06
27 52 0.80
28 9 0.14
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACCAAAATACCC
Found at i:43152772 original size:27 final size:27
Alignment explanation
Indices: 43152750--43152952 Score: 203
Period size: 27 Copynumber: 7.5 Consensus size: 27
43152740 AGTACCCCCG
* *
43152750 ATTTACAGAATTATCGTTTTA-CCTCTG
1 ATTTACAGAATTACCGTTTTACCCTC-A
* * *
43152777 ATTTACATAATTACAGTTTTAACCC-CG
1 ATTTACAGAATTACCGTTTT-ACCCTCA
* *
43152804 ATTTACATAATTGCCGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCA
* *
43152831 ACTTATAGAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCA
* *
43152858 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCA
* * ** *
43152885 ATTTATAAAATTACTATTTTACCCTTA
1 ATTTACAGAATTACCGTTTTACCCTCA
**
43152912 ATTTACAGAATTATTGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCA
*
43152939 ATTTACAAAATTAC
1 ATTTACAGAATTAC
43152953 TAAAATACCC
Statistics
Matches: 147, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.03
27 139 0.95
28 2 0.01
29 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCA
Found at i:43152850 original size:81 final size:80
Alignment explanation
Indices: 43152752--43152952 Score: 235
Period size: 81 Copynumber: 2.5 Consensus size: 80
43152742 TACCCCCGAT
* * *
43152752 TTACAGAATTATCGTTTTA-CCTCTGATTTACATAATTACAGTTTTAACCC-CGATTTACATAAT
1 TTACAGAATTATCGTTTTACCCTC-AATTTACAAAATTACA-TTTT-ACCCTCGATTTACAAAAT
* *
43152815 TGCCGTTTTACCCTCAAC
63 TACCATTTTACCCTCAAC
* * * *
43152833 TTATAGAATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTA
1 TTACAGAATTATCGTTTTACCCTCAATTTACAAAATTA-CATTTTACCCTCGATTTACAAAATTA
* * *
43152898 CTATTTTACCCTTAAT
65 CCATTTTACCCTCAAC
*
43152914 TTACAGAATTATTGTTTTACCCTCAATTTACAAAATTAC
1 TTACAGAATTATCGTTTTACCCTCAATTTACAAAATTAC
43152953 TAAAATACCC
Statistics
Matches: 102, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 5 0.05
81 91 0.89
82 6 0.06
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.41
Consensus pattern (80 bp):
TTACAGAATTATCGTTTTACCCTCAATTTACAAAATTACATTTTACCCTCGATTTACAAAATTAC
CATTTTACCCTCAAC
Found at i:43152962 original size:54 final size:54
Alignment explanation
Indices: 43152850--43152964 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
43152840 ATTACCGTTT
* * * ***
43152850 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTATTT
1 TACCCTTAATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTAAAA
***
43152904 TACCCTTAATTTACAGAATTATTGTTTTACCCTCAATTTACAAAATTACTAAAA
1 TACCCTTAATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTAAAA
43152958 TACCCTT
1 TACCCTT
43152965 GGTTTGTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (54 bp):
TACCCTTAATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTAAAA
Found at i:43152962 original size:81 final size:81
Alignment explanation
Indices: 43152820--43152979 Score: 203
Period size: 81 Copynumber: 2.0 Consensus size: 81
43152810 ATAATTGCCG
* * ***
43152820 TTTTACCCTCAACTTATAGAATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCG
1 TTTTACCCTCAACTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTCG
43152885 ATTTATAAAATTACTA
66 ATTTATAAAATTACTA
* * ** * *
43152901 TTTTACCCTTAATTTACAGAATTATTGTTTTACCCTCAATTTACAAAATTACTAAAATACCCTTG
1 TTTTACCCTCAACTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTCG
* *
43152966 GTTTGTAAAATTAC
66 ATTTATAAAATTAC
43152980 CAAAATACCC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.41
Consensus pattern (81 bp):
TTTTACCCTCAACTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAATACCCTCG
ATTTATAAAATTACTA
Found at i:43152975 original size:27 final size:27
Alignment explanation
Indices: 43152945--43153183 Score: 171
Period size: 27 Copynumber: 8.8 Consensus size: 27
43152935 CTCAATTTAC
43152945 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * *
43152972 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
*
43152999 AAAATTACCAAAATACCAC-TGGTTTGT
1 AAAATTACTAAAATACC-CTTGGTTTGT
* * ***
43153026 GAAATTA-TCGAAATACCCTCAATTTGT
1 AAAATTACT-AAAATACCCTTGGTTTGT
* * * *
43153053 AAAATTGCCAAAATACCCTTGATTTAT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * **
43153080 AAAGTTA-TAGAAATACCCTTGACTTCCT
1 AAAATTACTA-AAATACCCTTG-GTTTGT
** **
43153108 AAAAATTA-TAGAAATACTATTGGTTTAC
1 -AAAATTACTA-AAATACCCTTGGTTTGT
*
43153136 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * *
43153163 AGATTTACTAAAACACCCTTG
1 AAAATTACTAAAATACCCTTG
43153184 TAGGATGAAA
Statistics
Matches: 165, Mismatches: 39, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
26 2 0.01
27 138 0.84
28 7 0.04
29 18 0.11
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGGTTTGT
Found at i:43153244 original size:27 final size:27
Alignment explanation
Indices: 43153201--43153274 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
43153191 AAATGACTAA
*
43153201 AATACCCCTATTA-GGTAAAAAGACCAT
1 AATACCCCT-GTAGGGTAAAAAGACCAT
** *
43153228 AA-AGCCCCTGTAGGGTAAAGTGACCTT
1 AATA-CCCCTGTAGGGTAAAAAGACCAT
*
43153255 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
43153275 TAACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCAT
Found at i:43154089 original size:38 final size:33
Alignment explanation
Indices: 43154024--43154093 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
43154014 GGGCATGGCA
43154024 TTTTGCATACATGACATGTTGCATTGGGTTGGG
1 TTTTGCATACATGACATGTTGCATTGGGTTGGG
43154057 TTTTGCATACATGACATGTTGCATTGGGTTGGG
1 TTTTGCATACATGACATGTTGCATTGGGTTGGG
43154090 TTTT
1 TTTT
43154094 TATATGGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.17, C:0.11, G:0.29, T:0.43
Consensus pattern (33 bp):
TTTTGCATACATGACATGTTGCATTGGGTTGGG
Found at i:43154192 original size:52 final size:51
Alignment explanation
Indices: 43154114--43154249 Score: 206
Period size: 52 Copynumber: 2.7 Consensus size: 51
43154104 GAGGAAGTGC
* *
43154114 AAAAGGGCTTATACCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
43154166 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
43154217 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
43154250 AGGCCTTCAG
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 7 0.09
51 24 0.30
52 34 0.43
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:43154211 original size:25 final size:26
Alignment explanation
Indices: 43154114--43154249 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
43154104 GAGGAAGTGC
*
43154114 AAAAGGGCTTATACCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
43154140 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
43154166 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
43154192 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
43154217 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
43154240 AAAAGAGGCT
1 AAAAG-GGCT
43154250 AGGCCTTCAG
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 30 0.31
26 56 0.57
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:43154474 original size:42 final size:43
Alignment explanation
Indices: 43154382--43154474 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 43
43154372 TAGTCTCCCC
* ** *
43154382 AAATGGG-CTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCCTTGCATACATCCATTGACATTACATATGATATTG
*
43154424 AAAT-GGCCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCCTTGCATACATCCATTGACATTACATATGATATTG
43154466 -AATGGGCCT
1 AAATGGGCCT
43154475 ATGGGCCATA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 5 0.11
42 39 0.89
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (43 bp):
AAATGGGCCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:43154534 original size:31 final size:31
Alignment explanation
Indices: 43154496--43154574 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
43154486 CGTTTACAGT
*
43154496 AAAGGCTTTAGCCCAGTGAAATGACTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGACTTATGA
* *
43154527 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGAAATGACTTATGA
*
43154558 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCAGCCCAGT
43154575 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGAAATGACTTATGA
Found at i:43170166 original size:134 final size:133
Alignment explanation
Indices: 43169781--43170172 Score: 459
Period size: 134 Copynumber: 2.9 Consensus size: 133
43169771 AGGGAATATG
*
43169781 TCAAATAATTCGCTAA-TTATGATCACGACTAGTATTATTAAAGCTTGCTGATTTACGATCATAG
1 TCAAA-AATTCGCTAATTTATGATCACGACTAGTATTATTAAAGCTTGTTGATTTACGATCATAG
43169845 CTTAAGTTCACTAATTTACA-ATCATGAACAGTTCATTTTGAGTTCATTGATTTATGATCACTAA
65 CTTAAGTTCACTAATTTA-AGATCATGAACAGTTCATTTTGAGTTCATTGATTTATGATCACTAA
*
43169909 TTCAT
129 TCCAT
* * * * * *
43169914 TCAAAATGTTCGTTGATTTATGATTATC-ACTGGTATTATTAAAGCTTGTTGATTTACAATCATA
1 TCAAAA-ATTCGCTAATTTATGATCA-CGACTAGTATTATTAAAGCTTGTTGATTTACGATCATA
* * * * * * * *
43169978 GCTTAAGTTCACTAAATTACGATCATGAACAATTCATTTTGATTTTACTGATTTACGATCGC-AA
64 GCTTAAGTTCACTAATTTAAGATCATGAACAGTTCATTTTGAGTTCATTGATTTATGATCACTAA
43170042 CTCCAT
129 -TCCAT
** * * *
43170048 TCAAACAATTCGCTAATTTACAATCACGACTAGTATTATTAAAGCTTGTTGATTTACGGTCACAT
1 TCAAA-AATTCGCTAATTTATGATCACGACTAGTATTATTAAAGCTTGTTGATTTACGATCATAG
* * * * * *
43170113 CTTAAGTTAATTGATTTAAGATCATGAATAGTTCATTTTGAGTTCGTTAATTTATGATCA
65 CTTAAGTTCACTAATTTAAGATCATGAACAGTTCATTTTGAGTTCATTGATTTATGATCA
43170173 TGACTAGTAG
Statistics
Matches: 211, Mismatches: 41, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
132 1 0.00
133 14 0.07
134 194 0.92
135 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (133 bp):
TCAAAAATTCGCTAATTTATGATCACGACTAGTATTATTAAAGCTTGTTGATTTACGATCATAGC
TTAAGTTCACTAATTTAAGATCATGAACAGTTCATTTTGAGTTCATTGATTTATGATCACTAATC
CAT
Found at i:43170172 original size:36 final size:34
Alignment explanation
Indices: 43170126--43170244 Score: 105
Period size: 36 Copynumber: 3.3 Consensus size: 34
43170116 AAGTTAATTG
*
43170126 ATTTAAGATCATGAATAGTTCATTTTGAGTTCGTT
1 ATTTATGATCATGAATAGTT-ATTTTGAGTTCGTT
* ** *
43170161 AATTTATGATCATGACTAG-TAGTATTAAAGTTTGCTT
1 -ATTTATGATCATGAATAGTTA-T-TTTGAGTTCG-TT
* *
43170198 ATTTATGATCATGAACAATTTATTTTGAGTTCGTT
1 ATTTATGATCATGAA-TAGTTATTTTGAGTTCGTT
43170233 GATTTATGATCA
1 -ATTTATGATCA
43170245 CTACTCCATT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
34 1 0.02
35 4 0.06
36 55 0.83
37 4 0.06
38 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.45
Consensus pattern (34 bp):
ATTTATGATCATGAATAGTTATTTTGAGTTCGTT
Found at i:43175262 original size:47 final size:47
Alignment explanation
Indices: 43175178--43175633 Score: 741
Period size: 47 Copynumber: 9.6 Consensus size: 47
43175168 TATTTGAATA
43175178 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43175227 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43175274 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
43175323 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
43175370 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43175417 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
43175466 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
43175513 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
43175560 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
43175607 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
43175634 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 20, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
47 282 0.74
49 101 0.26
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43175290 original size:96 final size:94
Alignment explanation
Indices: 43175178--43175633 Score: 741
Period size: 96 Copynumber: 4.8 Consensus size: 94
43175168 TATTTGAATA
43175178 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
43175243 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
43175274 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
43175339 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
43175370 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
43175435 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
43175466 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
43175531 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * * *
43175560 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
43175625 TGTGATAAG
66 TGTGATAAG
43175634 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
94 145 0.42
96 197 0.58
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:43175353 original size:143 final size:143
Alignment explanation
Indices: 43175178--43175633 Score: 781
Period size: 143 Copynumber: 3.2 Consensus size: 143
43175168 TATTTGAATA
43175178 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
43175243 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
43175308 ATGGCCGATGTGATG
129 ATGGCCGATGTGATG
43175323 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
43175388 TGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
43175453 GGCCGATGTGATG
131 GGCCGATGTGATG
43175466 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
43175531 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
* *
43175594 GGCCAACGTGATG
131 GGCCGATGTGATG
* *
43175607 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
43175634 TCCCGAAGGG
Statistics
Matches: 299, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 54 0.18
143 233 0.78
145 12 0.04
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:43184841 original size:21 final size:21
Alignment explanation
Indices: 43184815--43184856 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
43184805 GCAGAGGGTG
43184815 ATTAAAAACTAAGATTTTAAA
1 ATTAAAAACTAAGATTTTAAA
43184836 ATTAAAAACTAAGATTTTAAA
1 ATTAAAAACTAAGATTTTAAA
43184857 CTAAGTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTAAAAACTAAGATTTTAAA
Found at i:43189050 original size:40 final size:40
Alignment explanation
Indices: 43188990--43189213 Score: 281
Period size: 40 Copynumber: 5.5 Consensus size: 40
43188980 TATTCGGATG
*
43188990 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCT
*
43189030 ATATCCGGGCTAAGTACCGAAGGCATTTGTGCAAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTGCT
* * *
43189073 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCT
* ** *
43189113 ATATCCGGGCTAAGTCCCGACGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTG-CT
* * *
43189153 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCT
*
43189193 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
43189214 ATACTTAGGT
Statistics
Matches: 159, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 13 0.08
40 107 0.67
41 3 0.02
43 36 0.23
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCT
Found at i:43189138 original size:83 final size:80
Alignment explanation
Indices: 43188994--43189213 Score: 282
Period size: 83 Copynumber: 2.7 Consensus size: 80
43188984 CGGATGATAT
* * **
43188994 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTACCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTCA
43189059 TGCAAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* * *
43189077 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTATATCCGGGCTAAGTCCCGACGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
43189142 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * * *
43189157 CCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGGCTAAGTCCCGAAG
43189214 ATACTTAGGT
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 15 0.12
80 46 0.38
83 61 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:43198030 original size:108 final size:108
Alignment explanation
Indices: 43197841--43198055 Score: 430
Period size: 108 Copynumber: 2.0 Consensus size: 108
43197831 GACGACAATC
43197841 CTGAGAAAGCCAAATTTTGGCTTGAAAATATGATTCGGGTATTTGATGAGCTTTCTTGCACACCG
1 CTGAGAAAGCCAAATTTTGGCTTGAAAATATGATTCGGGTATTTGATGAGCTTTCTTGCACACCG
43197906 ACTGAGTGTTTAAAATGTGTCGTATCACTTCTGAGGGACACAG
66 ACTGAGTGTTTAAAATGTGTCGTATCACTTCTGAGGGACACAG
43197949 CTGAGAAAGCCAAATTTTGGCTTGAAAATATGATTCGGGTATTTGATGAGCTTTCTTGCACACCG
1 CTGAGAAAGCCAAATTTTGGCTTGAAAATATGATTCGGGTATTTGATGAGCTTTCTTGCACACCG
43198014 ACTGAGTGTTTAAAATGTGTCGTATCACTTCTGAGGGACACA
66 ACTGAGTGTTTAAAATGTGTCGTATCACTTCTGAGGGACACA
43198056 ACTTATCAGT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (108 bp):
CTGAGAAAGCCAAATTTTGGCTTGAAAATATGATTCGGGTATTTGATGAGCTTTCTTGCACACCG
ACTGAGTGTTTAAAATGTGTCGTATCACTTCTGAGGGACACAG
Found at i:43212356 original size:321 final size:321
Alignment explanation
Indices: 43211818--43212459 Score: 1054
Period size: 321 Copynumber: 2.0 Consensus size: 321
43211808 AATTATATGC
* *
43211818 TAAGTTCAGCAGAAGTGAATTTTGGCTTCGAGAGGTTGGGTTCTTAGGTCATATAGTGCTGGGTG
1 TAAGTTCAGCAGAAGTGAATTTTGGCTTCGAGAGGTCGGGTTCTTAGGTCACATAGTGCTGGGTG
* *
43211883 ATGGCATCCGAGTTGATCCAAATAAGATTTCTGCTATTGTCGAGTGGAAGCCGCTAAATAATGTA
66 ATGGCATCCGAGTTAATCCAAATAAGATTTCTGCTATTGTCGAGTGGAAGCCGCCAAATAATGTA
* *
43211948 ACTGAGGTTAGAAGCTTCTTGGACTTAGACGGTTACTACCAACGCTTTGTAAAGGGATTTTCTAT
131 ACTGAGGTTAGAAGCTTCTTGGACTTAGACAGTTACTACCAACGCTTTGTAAAGGGAGTTTCTAT
* *
43212013 GATAGCAACTCCCTTGACGAGGTTGCTACAAAAAGATGTTAAGTTTGACTGGTCGGAAAAATTTC
196 GATAGCAACTCCCTTGACGAGGTTGCTACAAAAAGATGTTAAGTTTGACTGGTCAGAAAAATGTC
* *
43212078 AGCAAAGTTTCGAGAAATTAAGGACATTCCCAACAGAAGCTCTAATTTTAGTGCAACCCGA
261 AGCAAAGTTTCGAGAAATTAAGGACATTCCCAACAGAAGCTCCAATTTCAGTGCAACCCGA
* *
43212139 TAAGTTCAGCCA-AAGTGAATTTTGGCTTTGAGAGGTCGGGTTCTTAGGTCACATGGTG-TCGGG
1 TAAGTTCAG-CAGAAGTGAATTTTGGCTTCGAGAGGTCGGGTTCTTAGGTCACATAGTGCT-GGG
* *
43212202 TGATGGCATTCGAGTTAATCCAAATAAGATTTCTGCTATTGTCGAGTGGAAGCTGCCAAATAATG
64 TGATGGCATCCGAGTTAATCCAAATAAGATTTCTGCTATTGTCGAGTGGAAGCCGCCAAATAATG
*
43212267 TAACTGAGGTTAGAAGCTTCTTGGACTTAGTCAGTTACTACCAACGCTTTGTAAAGGGAGTTTCT
129 TAACTGAGGTTAGAAGCTTCTTGGACTTAGACAGTTACTACCAACGCTTTGTAAAGGGAGTTTCT
* *
43212332 ATGATTGCAACTCCCTTGACGAGGTTGCTGCAAAAAGATGTTAAGTTTGACTGGTCAGAAAAATG
194 ATGATAGCAACTCCCTTGACGAGGTTGCTACAAAAAGATGTTAAGTTTGACTGGTCAGAAAAATG
* * * * *
43212397 TCAGGAGAGTTTCGAGAAATTAAGGACATTGCTAACAGAAGCTCCAGTTTCAGTGCAACCCGA
259 TCAGCAAAGTTTCGAGAAATTAAGGACATTCCCAACAGAAGCTCCAATTTCAGTGCAACCCGA
43212460 GCCGAGAAAA
Statistics
Matches: 297, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
320 1 0.00
321 294 0.99
322 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (321 bp):
TAAGTTCAGCAGAAGTGAATTTTGGCTTCGAGAGGTCGGGTTCTTAGGTCACATAGTGCTGGGTG
ATGGCATCCGAGTTAATCCAAATAAGATTTCTGCTATTGTCGAGTGGAAGCCGCCAAATAATGTA
ACTGAGGTTAGAAGCTTCTTGGACTTAGACAGTTACTACCAACGCTTTGTAAAGGGAGTTTCTAT
GATAGCAACTCCCTTGACGAGGTTGCTACAAAAAGATGTTAAGTTTGACTGGTCAGAAAAATGTC
AGCAAAGTTTCGAGAAATTAAGGACATTCCCAACAGAAGCTCCAATTTCAGTGCAACCCGA
Found at i:43219247 original size:21 final size:23
Alignment explanation
Indices: 43219223--43219264 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
43219213 TGCCAAACTC
43219223 ATCAAATGGAAA-CA-GAATCAA
1 ATCAAATGGAAAGCACGAATCAA
*
43219244 ATCAACTGGAAAGCACGAATC
1 ATCAAATGGAAAGCACGAATC
43219265 TCGAACCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.50, C:0.19, G:0.17, T:0.14
Consensus pattern (23 bp):
ATCAAATGGAAAGCACGAATCAA
Found at i:43221228 original size:39 final size:40
Alignment explanation
Indices: 43221106--43221358 Score: 293
Period size: 39 Copynumber: 6.4 Consensus size: 40
43221096 GCTGTCCGGC
* * * * *
43221106 TAAGTCCCGAAGGC-TT-GTGCTAAGTGAATATATCCGGAT
1 TAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGT
* * * *
43221145 TAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
43221185 TAAGTCCCGAAGGCATTCGTGCG-GTTATTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
43221224 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
* *
43221264 TAAGTCCCGAAGGCAGTCGTGCGAGTTGTT-AATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
* * * * *
43221303 TATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
*
43221342 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
43221359 TGAACGAGGA
Statistics
Matches: 189, Mismatches: 19, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
38 9 0.05
39 98 0.52
40 78 0.41
41 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
Found at i:43221237 original size:79 final size:79
Alignment explanation
Indices: 43221106--43221358 Score: 291
Period size: 79 Copynumber: 3.2 Consensus size: 79
43221096 GCTGTCCGGC
* * * *
43221106 TAAGTCCCGAAGGC-TT-GTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCG
1 TAAGTCCCGAAGGCATTCGTGC-GAGTTATTA-ATCCGGGTTAAG-TCCCGAAGGCCTTTGTGCG
*
43221168 AGATACTAAATCCGGGT
63 AGTTACTAAATCCGGGT
* *
43221185 TAAGTCCCGAAGGCATTCGTGCG-GTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATT-AATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAG
*
43221249 TTATTAAATCCGGGT
65 TTACTAAATCCGGGT
* * * * *
43221264 TAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGT
* *
43221328 TACTAAAACCGGGC
66 TACTAAATCCGGGT
*
43221342 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
43221359 TGAACGAGGA
Statistics
Matches: 149, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 35 0.23
79 102 0.68
80 8 0.05
81 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGT
TACTAAATCCGGGT
Found at i:43221378 original size:118 final size:117
Alignment explanation
Indices: 43221176--43221390 Score: 272
Period size: 118 Copynumber: 1.8 Consensus size: 117
43221166 CGAGATACTA
* * *
43221176 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** * * *
43221241 CGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTT
66 CGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCAGTCGTGCGAGTTGTT
* * *
43221294 AATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCG-GTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
* *
43221358 TTGAACGAG-GAGCTATATCCGGTTAAATCCCGA
65 TCGAACGAGTGA-CTAAATCCGGTTAAATCCCGA
43221391 GGTACGTGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
117 17 0.21
118 65 0.79
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (117 bp):
AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCAGTCGTGCGAGTTGTT
Found at i:43221382 original size:78 final size:79
Alignment explanation
Indices: 43221137--43221390 Score: 212
Period size: 79 Copynumber: 3.2 Consensus size: 79
43221127 AAGTGAATAT
* * * * * * *
43221137 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
43221201 TCGTGCG-GTTA-TTAA
65 TCGAACGAG-GAGCT-A
* * *
43221216 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
43221281 CGTGCGAGTTGTTA
66 CGAACGAGGAGCTA
* * * *
43221295 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
*
43221359 TGAACGAGGAGCTA
66 CGAACGAGGAGCTA
*
43221373 TATCC-GGTTAAATCCCGA
1 -ATCCGGGTTAAGTCCCGA
43221391 GGTACGTGAT
Statistics
Matches: 149, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
78 53 0.36
79 93 0.62
80 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTA
Found at i:43229130 original size:40 final size:40
Alignment explanation
Indices: 43229047--43229309 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
43229037 TTGAATGCTG
* * * * * *
43229047 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
43229087 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
43229127 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
43229167 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
43229207 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
43229247 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
43229286 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43229310 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:43229329 original size:79 final size:80
Alignment explanation
Indices: 43229086--43229344 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
43229076 AAGTGAATAT
* * * * * * *
43229086 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
43229150 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
43229166 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
43229231 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
43229246 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
43229310 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
43229325 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
43229345 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:43240682 original size:17 final size:18
Alignment explanation
Indices: 43240611--43240702 Score: 82
Period size: 18 Copynumber: 5.1 Consensus size: 18
43240601 TTTCAAAAAA
*
43240611 TAATATTTTTTATATAAATT
1 TAATA-TTTTTATA-AATTT
* *
43240631 T-ATATTTTTTATGATTTT
1 TAATA-TTTTTATAAATTT
*
43240649 TAATAATTTTATAAATTT
1 TAATATTTTTATAAATTT
*
43240667 TAACATTTTTAT-AATTT
1 TAATATTTTTATAAATTT
*
43240684 TAATTTTTTTAT-AATTT
1 TAATATTTTTATAAATTT
43240701 TA
1 TA
43240703 TAACTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
17 22 0.36
18 24 0.39
19 14 0.23
20 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (18 bp):
TAATATTTTTATAAATTT
Found at i:43240710 original size:17 final size:17
Alignment explanation
Indices: 43240618--43240712 Score: 70
Period size: 17 Copynumber: 5.4 Consensus size: 17
43240608 AAATAATATT
* *
43240618 TTTTATATAAATTTATAT
1 TTTT-TATAATTTTATAA
*
43240636 TTTTTATGATTTT-TAA
1 TTTTTATAATTTTATAA
43240652 TAATTTTATAAATTTTA-ACA
1 T--TTTTAT-AATTTTATA-A
*
43240672 TTTTTATAATTTTA-ATT
1 TTTTTATAATTTTATA-A
43240689 TTTTTATAATTTTATAA
1 TTTTTATAATTTTATAA
43240706 CTTTTTA
1 -TTTTTA
43240713 AAATATATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.05
17 29 0.46
18 23 0.37
19 6 0.10
20 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (17 bp):
TTTTTATAATTTTATAA
Found at i:43240711 original size:10 final size:9
Alignment explanation
Indices: 43240629--43240712 Score: 68
Period size: 9 Copynumber: 9.4 Consensus size: 9
43240619 TTTATATAAA
*
43240629 TTTATATTT
1 TTTATAATT
*
43240638 TTTATGATT
1 TTTATAATT
43240647 TTTAATAA-T
1 TTT-ATAATT
*
43240656 TTTATAAAT
1 TTTATAATT
43240665 TTTA-ACATT
1 TTTATA-ATT
43240674 TTTATAATT
1 TTTATAATT
* *
43240683 TTAAT-TTT
1 TTTATAATT
43240691 TTTATAA-T
1 TTTATAATT
43240699 TTTATAACTT
1 TTTATAA-TT
43240709 TTTA
1 TTTA
43240713 AAATATATTA
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
8 19 0.32
9 32 0.53
10 9 0.15
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:43240725 original size:43 final size:43
Alignment explanation
Indices: 43240645--43240726 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
43240635 TTTTTTATGA
* * *
43240645 TTTTTAATAATTTTATAAATTTTAACATTTTTATAATTTTAAT
1 TTTTTAATAATTTTATAAATTTTAAAATATATATAATTTTAAT
* *
43240688 TTTTTTATAATTTTATAACTTTTTAAAATATAT-TAATTT
1 TTTTTAATAATTTTATAA-ATTTTAAAATATATATAATTT
43240727 AAAAAAAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
43 23 0.70
44 10 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (43 bp):
TTTTTAATAATTTTATAAATTTTAAAATATATATAATTTTAAT
Found at i:43243361 original size:34 final size:34
Alignment explanation
Indices: 43243323--43243387 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
43243313 TGATGTAACT
43243323 CATCTTTTCCTTACACAAAAAAAAAGAAGAAGAA
1 CATCTTTTCCTTACACAAAAAAAAAGAAGAAGAA
* *
43243357 CATCTTTTCCTTGCACAAAAAAGAAGAAGAA
1 CATCTTTTCCTTACACAAAAAAAAAGAAGAA
43243388 AAGAGCTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (34 bp):
CATCTTTTCCTTACACAAAAAAAAAGAAGAAGAA
Found at i:43243380 original size:31 final size:32
Alignment explanation
Indices: 43243323--43243387 Score: 96
Period size: 31 Copynumber: 2.0 Consensus size: 32
43243313 TGATGTAACT
43243323 CATCTTTTCCTTACACAAAAAAAAAGAAGAAGAA
1 CATCTTTTCCTTACAC--AAAAAAAGAAGAAGAA
*
43243357 CATCTTTTCCTTGCAC-AAAAAAGAAGAAGAA
1 CATCTTTTCCTTACACAAAAAAAGAAGAAGAA
43243388 AAGAGCTGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 15 0.50
34 15 0.50
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (32 bp):
CATCTTTTCCTTACACAAAAAAAGAAGAAGAA
Found at i:43246869 original size:23 final size:25
Alignment explanation
Indices: 43246838--43246902 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
43246828 GACCCTTAAA
*
43246838 AAAAGAAATATATA-AAAG-AGTTT
1 AAAATAAATATATATAAAGAAGTTT
43246861 AAAATAAATAATATATAAAGACAGTTT
1 AAAATAAAT-ATATATAAAGA-AGTTT
43246888 -AAATAAATATATATA
1 AAAATAAATATATATA
43246903 TATAAATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 8 0.22
24 5 0.14
25 11 0.30
26 8 0.22
27 5 0.14
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (25 bp):
AAAATAAATATATATAAAGAAGTTT
Found at i:43246901 original size:27 final size:26
Alignment explanation
Indices: 43246844--43246904 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
43246834 TAAAAAAAGA
*
43246844 AATATATAAAAGAGTTTAAAATAAAT
1 AATATATAAAACAGTTTAAAATAAAT
43246870 AATATATAAAGACAGTTT-AAATAAAT
1 AATATATAAA-ACAGTTTAAAATAAAT
43246896 ATATATATA
1 A-ATATATA
43246905 TAAATATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (26 bp):
AATATATAAAACAGTTTAAAATAAAT
Found at i:43247532 original size:3 final size:3
Alignment explanation
Indices: 43247524--43247555 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
43247514 AACCGTCTAA
43247524 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
43247556 ATATTATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:43250490 original size:103 final size:104
Alignment explanation
Indices: 43250360--43250554 Score: 311
Period size: 103 Copynumber: 1.9 Consensus size: 104
43250350 AAAAGGATAC
* * *
43250360 TTTAGGTTTAATCGAGAAAAATCGAAGCCCTGTAAGTTAGGTCACGATTCCTCGAATTTCCTAAA
1 TTTAGGTTTAATCAAGAAAAATCGAAGCCCCGTAAGTTAGGGCACGATTCCTCGAATTTCCTAAA
* **
43250425 ATGCGTAATATTGCCTTATTTAGAAAGGATACTTGGCTA
66 ACGCAAAATATTGCCTTATTTAGAAAGGATACTTGGCTA
*
43250464 TTTAGGTTTAA-CAAGAAAAATCGAAGCCCCGTAAGTTAGGGCACTATTCCTCGAATTTCCTAAA
1 TTTAGGTTTAATCAAGAAAAATCGAAGCCCCGTAAGTTAGGGCACGATTCCTCGAATTTCCTAAA
*
43250528 ACGCAAAATATTGTCTTATTTAGAAAG
66 ACGCAAAATATTGCCTTATTTAGAAAG
43250555 TTCTCTTTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
103 72 0.87
104 11 0.13
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (104 bp):
TTTAGGTTTAATCAAGAAAAATCGAAGCCCCGTAAGTTAGGGCACGATTCCTCGAATTTCCTAAA
ACGCAAAATATTGCCTTATTTAGAAAGGATACTTGGCTA
Found at i:43250911 original size:16 final size:15
Alignment explanation
Indices: 43250886--43250915 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43250876 TATATAAAGC
43250886 AAATTAAAATAAATA
1 AAATTAAAATAAATA
43250901 AAATGTAAAATAAAT
1 AAAT-TAAAATAAAT
43250916 TTTAAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AAATTAAAATAAATA
Found at i:43251075 original size:21 final size:22
Alignment explanation
Indices: 43251049--43251089 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43251039 AGTATAAAAT
43251049 AAGT-AATATATAA-AAAACCTA
1 AAGTAAATA-ATAATAAAACCTA
43251070 AAGTAAATAATAATAAAACC
1 AAGTAAATAATAATAAAACC
43251090 ATTTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.63, C:0.10, G:0.05, T:0.22
Consensus pattern (22 bp):
AAGTAAATAATAATAAAACCTA
Found at i:43251209 original size:26 final size:25
Alignment explanation
Indices: 43251167--43251229 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
43251157 ATAAAAAAAG
43251167 TTTAAAATAATAATGTAT-AAAGTAA
1 TTTAAAATAATAATGTATGAAA-TAA
* *
43251192 TTTAAAGTATATAGTGTATGAAATAA
1 TTTAAAATA-ATAATGTATGAAATAA
*
43251218 TTTAGAATAATA
1 TTTAAAATAATA
43251230 CATCTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 11 0.34
26 18 0.56
27 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (25 bp):
TTTAAAATAATAATGTATGAAATAA
Found at i:43258783 original size:63 final size:66
Alignment explanation
Indices: 43258714--43258839 Score: 168
Period size: 66 Copynumber: 2.0 Consensus size: 66
43258704 AACAATATAA
* ** * *
43258714 TGGTTTTGCCTTTTAAC-TT-AATGA-GTAAACATTTATCAAAATAACATAGTTTTGTCTTTTAA
1 TGGTTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAACATAGTTTTATCTTTTAA
43258776 C
66 C
* *
43258777 TGGTTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAGCGTAGTTTTATCTTTT
1 TGGTTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAACATAGTTTTATCTTTT
43258840 CTTATTCGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
63 16 0.30
64 2 0.04
65 3 0.06
66 32 0.60
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (66 bp):
TGGTTTTGACTTTTAACTTTAAAAAAGGTAAACATTTATCAAAACAACATAGTTTTATCTTTTAA
C
Found at i:43258784 original size:17 final size:17
Alignment explanation
Indices: 43258762--43258794 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43258752 AAATAACATA
*
43258762 GTTTTGTCTTTTAACTG
1 GTTTTGACTTTTAACTG
43258779 GTTTTGACTTTTAACT
1 GTTTTGACTTTTAACT
43258795 TTAAAAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
GTTTTGACTTTTAACTG
Found at i:43265719 original size:24 final size:25
Alignment explanation
Indices: 43265692--43265752 Score: 81
Period size: 24 Copynumber: 2.4 Consensus size: 25
43265682 TTGAATTTAA
43265692 TTTTTATTTTAT-TCAGATTT-GTAT
1 TTTTTATTTTATGT-AGATTTAGTAT
*
43265716 TTTTTATTTTATGTAGATTTAAGTTT
1 TTTTTATTTTATGTAGATTT-AGTAT
43265742 TTTTTATTTTA
1 TTTTTATTTTA
43265753 AATTTATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
24 18 0.55
25 1 0.03
26 14 0.42
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (25 bp):
TTTTTATTTTATGTAGATTTAGTAT
Found at i:43265999 original size:13 final size:14
Alignment explanation
Indices: 43265981--43266013 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
43265971 TATATTTTTC
43265981 TTTATATAT-AATA
1 TTTATATATAAATA
43265994 TTTATATATCAAATA
1 TTTATATAT-AAATA
43266009 TTTAT
1 TTTAT
43266014 TTTCTTCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATATATAAATA
Found at i:43270500 original size:28 final size:28
Alignment explanation
Indices: 43270410--43270501 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
43270400 AGTGTGAAAA
43270410 AAAAAATAAAAGAAAATTTTAATGTTGAAT
1 AAAAAATAAAA-AAAA-TTTAATGTTGAAT
*** * *
43270440 AAAAAA-AGAAGTTACTTTATTGTTGAAT
1 AAAAAATA-AAAAAAATTTAATGTTGAAT
*
43270468 AAAAAATAAAAAAAAATTAATGTTGAAT
1 AAAAAATAAAAAAAATTTAATGTTGAAT
43270496 AAAAAA
1 AAAAAA
43270502 AGGTAAATTA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
28 38 0.78
29 3 0.06
30 8 0.16
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (28 bp):
AAAAAATAAAAAAAATTTAATGTTGAAT
Found at i:43286501 original size:22 final size:23
Alignment explanation
Indices: 43286476--43286521 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
43286466 CAACCAAATC
43286476 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
43286498 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
43286521 A
1 A
43286522 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:43286527 original size:23 final size:23
Alignment explanation
Indices: 43286483--43286527 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
43286473 ATCAATTCAA
*
43286483 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
43286506 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
43286528 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:43289615 original size:45 final size:44
Alignment explanation
Indices: 43289534--43289677 Score: 137
Period size: 45 Copynumber: 3.2 Consensus size: 44
43289524 CGTAGTTGAA
43289534 ACTATGGCATTAAACCAGAATGAATAAGAGCATAGTTGAAAGAT
1 ACTATGGCATTAAACCAGAATGAATAAGAGCATAGTTGAAAGAT
* * **
43289578 ACTATGGCATTAAATCTG-ATGCGAATAAGATTATAGTTGAAAGAT
1 ACTATGGCATTAAACCAGAAT--GAATAAGAGCATAGTTGAAAGAT
* * * * * * * *
43289623 ACTATAGCAATACATCGACAATGAATAAGACCATAGTTAAAATAT
1 ACTATGGCATTA-AACCAGAATGAATAAGAGCATAGTTGAAAGAT
*
43289668 AGTATGGCAT
1 ACTATGGCAT
43289678 CACTTCGAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
43 2 0.03
44 16 0.21
45 57 0.73
46 1 0.01
47 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (44 bp):
ACTATGGCATTAAACCAGAATGAATAAGAGCATAGTTGAAAGAT
Found at i:43294807 original size:344 final size:344
Alignment explanation
Indices: 43294179--43294842 Score: 949
Period size: 344 Copynumber: 1.9 Consensus size: 344
43294169 GTCTTTCCCT
* * * * * *
43294179 ACCTCATTCTTTCCTTCGACAACCCTTCCTGCTTTATCCTGTAAACATTTATTACTATTCAAATG
1 ACCTCATTCTCTCATTCGACAACCCTTCCTGCATTATCCTATAAACATTTAATACCATTCAAATG
43294244 CTTTCTCTATGTTGCAAATCGATAAAAAAAGATATGTTCCTTCCCCGAATTTCAACCAGTCTACT
66 CTTTCTCTATGTTGCAAATCGATAAAAAAAGATATGTTCCTTCCCCGAATTTCAACCAGTCTACT
*
43294309 CTCACACACAACTCCCAATACAACTCCTCTTTGTTCGCCTCAAGATTCATAGCTAACTTCACATC
131 CTCACACACAACTCCCAATACAACTCCTCTTTGTCCGCCTCAAGATTCATAGCTAACTTCACATC
* * * *
43294374 CATTAGCTCCATCAACACATCATCCGTTGGGTACAAAGGGCTTAAGTGATCAAGTTGAGATCGAA
196 CACTAGCTCCATCAACACATCATCCGTTAGGTACAAAAGGCTTAACTGATCAAGTTGAGATCGAA
* * *
43294439 GAGTTTGCATTAGAAGCCTTTTTTCTTGATGAATTCGTTGAAACCACCTGTTTAACCCTTCACTA
261 GAGTTTGCATTAGAAGCCTTTTTTCTTGACGAATCCATTGAAACCACCTGTTTAACCCTTCACTA
43294504 ATAAAATTAAGTCTCTCTG
326 ATAAAATTAAGTCTCTCTG
* *
43294523 ACCTCATTCTCTCATTCGACAACCTTTCCCT-CATTATCCTATGAACATTTAATACCATTC-AAT
1 ACCTCATTCTCTCATTCGACAACCCTT-CCTGCATTATCCTATAAACATTTAATACCATTCAAAT
* * *
43294586 CGCTTTCTCTATGTTGCAAATTGAT-AAAAAAGATGTGTTCCTATCCCCGAATTTCAACCAGTTT
65 -GCTTTCTCTATGTTGCAAATCGATAAAAAAAGATATGTTCCT-TCCCCGAATTTCAACCAGTCT
* * **** * * *
43294650 GCTCTCGCACGTTGCTCCTAATACAACTCCTCTTTGTCCGCCTTAAGATTCATAGCTAACTTTAC
128 ACTCTCACACACAACTCCCAATACAACTCCTCTTTGTCCGCCTCAAGATTCATAGCTAACTTCAC
* * *
43294715 ATCCACTAGCTCCATCAACACATCATCTGTTAGGTACAAAATGCTTAACTGATCAAGTTGAGATT
193 ATCCACTAGCTCCATCAACACATCATCCGTTAGGTACAAAAGGCTTAACTGATCAAGTTGAGATC
* * * *
43294780 GAAGAGTTTGCA-TCGTATGCTTTTTTTCTTGACGAATCCATTGAAACCACTTGTTTAACCCTT
258 GAAGAGTTTGCATTAG-AAGCCTTTTTTCTTGACGAATCCATTGAAACCACCTGTTTAACCCTT
43294843 TATTGACGAA
Statistics
Matches: 281, Mismatches: 35, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
343 21 0.07
344 257 0.91
345 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (344 bp):
ACCTCATTCTCTCATTCGACAACCCTTCCTGCATTATCCTATAAACATTTAATACCATTCAAATG
CTTTCTCTATGTTGCAAATCGATAAAAAAAGATATGTTCCTTCCCCGAATTTCAACCAGTCTACT
CTCACACACAACTCCCAATACAACTCCTCTTTGTCCGCCTCAAGATTCATAGCTAACTTCACATC
CACTAGCTCCATCAACACATCATCCGTTAGGTACAAAAGGCTTAACTGATCAAGTTGAGATCGAA
GAGTTTGCATTAGAAGCCTTTTTTCTTGACGAATCCATTGAAACCACCTGTTTAACCCTTCACTA
ATAAAATTAAGTCTCTCTG
Found at i:43302967 original size:5 final size:5
Alignment explanation
Indices: 43302957--43302983 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
43302947 CTATATCCAA
43302957 AACTG AACTG AACTG AACTG AACTG AA
1 AACTG AACTG AACTG AACTG AACTG AA
43302984 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
AACTG
Found at i:43306027 original size:29 final size:29
Alignment explanation
Indices: 43305994--43306051 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
43305984 AGCTACCTAT
** *
43305994 TGTATGTAGTGCGTTGTTGGAAGGAGATA
1 TGTATGTAGTAAGTTGCTGGAAGGAGATA
43306023 TGTATGTAGTAAGTTGCTGGAAGGAGATA
1 TGTATGTAGTAAGTTGCTGGAAGGAGATA
43306052 GAGTGAAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.36, T:0.33
Consensus pattern (29 bp):
TGTATGTAGTAAGTTGCTGGAAGGAGATA
Found at i:43306357 original size:17 final size:17
Alignment explanation
Indices: 43306335--43306420 Score: 95
Period size: 17 Copynumber: 5.0 Consensus size: 17
43306325 TTTGGGAAGT
*
43306335 AGAAGAACAAGAGAAAA
1 AGAAGAATAAGAGAAAA
43306352 AGAAGAATAAGAGAAAA
1 AGAAGAATAAGAGAAAA
43306369 AGAAGAATAAGAGAAGAA
1 AGAAGAATAAGAGAA-AA
**
43306387 ATGAAGAA-AAGA-AGATG
1 A-GAAGAATAAGAGA-AAA
*
43306404 AGAAGAAAAAGAGAAAA
1 AGAAGAATAAGAGAAAA
43306421 TGGAAGGAGC
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
16 6 0.10
17 38 0.64
18 9 0.15
19 6 0.10
ACGTcount: A:0.69, C:0.01, G:0.26, T:0.05
Consensus pattern (17 bp):
AGAAGAATAAGAGAAAA
Found at i:43306392 original size:8 final size:8
Alignment explanation
Indices: 43306335--43306412 Score: 52
Period size: 8 Copynumber: 9.1 Consensus size: 8
43306325 TTTGGGAAGT
43306335 AGAAGAACA
1 AGAAGAA-A
43306344 AG-AGAAAA
1 AGAAG-AAA
43306352 AGAAGAATA
1 AGAAGAA-A
43306361 AG-AGAAAA
1 AGAAG-AAA
43306369 AGAAGAATAA
1 AGAAG-A-AA
43306379 GAGAAGAAA
1 -AGAAGAAA
*
43306388 TGAAGAAA
1 AGAAGAAA
**
43306396 AGAAGATG
1 AGAAGAAA
43306404 AGAAGAAA
1 AGAAGAAA
43306412 A
1 A
43306413 AGAGAAAATG
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
8 31 0.55
9 17 0.30
10 3 0.05
11 5 0.09
ACGTcount: A:0.68, C:0.01, G:0.26, T:0.05
Consensus pattern (8 bp):
AGAAGAAA
Found at i:43309137 original size:43 final size:43
Alignment explanation
Indices: 43309084--43309220 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 43
43309074 TCTCAGATGT
* *
43309084 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAGACAC
* * * * *
43309127 GGTCTCACATG-AAATCAGATA-CGATGTCGATGTCCCAGACAT
1 GGTCTTACATGTAATTCA-ATATCGATGCCTATGTCCCAGACAC
* * *
43309169 GGTCTTATACGTAAATCTC-A-ATCGAGGCCTATGTCCCAGACAC
1 GGTCTTACATGT-AAT-TCAATATCGATGCCTATGTCCCAGACAC
43309212 GGTCTTACA
1 GGTCTTACA
43309221 CGATGTTTCA
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
42 31 0.42
43 39 0.53
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:43316363 original size:85 final size:85
Alignment explanation
Indices: 43316220--43316382 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 85
43316210 CATAAACAAG
* * *
43316220 TACAATGCGGACGTCTCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACA
1 TACAATGCGGACGTCCCAGACATGGTCTTACATGTAATTCAATATCGAGGCCTCTGTCCCAGACA
*
43316285 GGGTCTTACACGAAATCAGA
66 CGGTCTTACACGAAATCAGA
* * * * *
43316305 TACAATGCTGATGTCCCAGACATGGTCTTATATGTAAATCTC-A-CTCGAGGCCTGTGTCCCAGA
1 TACAATGCGGACGTCCCAGACATGGTCTTACATGT-AAT-TCAATATCGAGGCCTCTGTCCCAGA
43316368 CACGGTCTTACACGA
64 CACGGTCTTACACGA
43316383 TGTCTCAGAC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 61 0.91
86 4 0.06
87 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (85 bp):
TACAATGCGGACGTCCCAGACATGGTCTTACATGTAATTCAATATCGAGGCCTCTGTCCCAGACA
CGGTCTTACACGAAATCAGA
Found at i:43318364 original size:14 final size:15
Alignment explanation
Indices: 43318338--43318371 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
43318328 TAAGTAATGT
43318338 TTAATTATATTAATA
1 TTAATTATATTAATA
*
43318353 TTAATT-TATTAATG
1 TTAATTATATTAATA
43318367 TTAAT
1 TTAAT
43318372 ACAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TTAATTATATTAATA
Found at i:43337344 original size:55 final size:55
Alignment explanation
Indices: 43337221--43337354 Score: 146
Period size: 55 Copynumber: 2.4 Consensus size: 55
43337211 ATGGGCAATC
* * *
43337221 CTGCCAAAAC-AACACGGGCGTGCGACACGCCCGTGTCTATAAGCCATTGTTGAAA
1 CTGCC-AAACTAACACGGGCGTGCGACACGCCCGTGTCTAGAAGCCATGGTCGAAA
* * * *
43337276 CTGCCAAAATAACACGGGCGTTCGACACGCCTC-TGTCTAGAAGCCCTGGTCGATA
1 CTGCCAAACTAACACGGGCGTGCGACACGCC-CGTGTCTAGAAGCCATGGTCGAAA
* * *
43337331 CTGTCAAACTAACACAGGTGTGCG
1 CTGCCAAACTAACACGGGCGTGCG
43337355 CATATATACA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
54 3 0.05
55 61 0.94
56 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (55 bp):
CTGCCAAACTAACACGGGCGTGCGACACGCCCGTGTCTAGAAGCCATGGTCGAAA
Found at i:43337692 original size:19 final size:18
Alignment explanation
Indices: 43337660--43337698 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
43337650 CCTTCCATTT
*
43337660 TTCTCCCCTCTCTCCCCC
1 TTCTCCCCTCTCTCACCC
*
43337678 TTCTTCCCTCTTCTCACCC
1 TTCTCCCCTC-TCTCACCC
43337697 TT
1 TT
43337699 GCGCACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.03, C:0.56, G:0.00, T:0.41
Consensus pattern (18 bp):
TTCTCCCCTCTCTCACCC
Found at i:43339393 original size:16 final size:16
Alignment explanation
Indices: 43339372--43339402 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43339362 ACTACTTTTT
*
43339372 ATTTTATTTTTATTTA
1 ATTTTACTTTTATTTA
43339388 ATTTTACTTTTATTT
1 ATTTTACTTTTATTT
43339403 CATCCTTAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTACTTTTATTTA
Found at i:43342406 original size:32 final size:32
Alignment explanation
Indices: 43342365--43342430 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
43342355 CCAAGTTTAA
43342365 TACATATGACAATTTCCATACACCAAATCATT
1 TACATATGACAATTTCCATACACCAAATCATT
* *
43342397 TACATATGACAGTTTCCATATACCAAATCATT
1 TACATATGACAATTTCCATACACCAAATCATT
43342429 TA
1 TA
43342431 AACCATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (32 bp):
TACATATGACAATTTCCATACACCAAATCATT
Found at i:43344232 original size:16 final size:18
Alignment explanation
Indices: 43344211--43344243 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
43344201 GATATGATAC
43344211 TAAAAT-TAT-TAAAAAT
1 TAAAATATATATAAAAAT
43344227 TAAAATATATATAAAAA
1 TAAAATATATATAAAAA
43344244 AAATTAGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATATATATAAAAAT
Found at i:43344562 original size:19 final size:19
Alignment explanation
Indices: 43344537--43344627 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
43344527 AATCATATCT
43344537 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
43344556 ACTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
43344574 TCTAAGATTG--TATCGTA
1 TCTAAGATTGCATATCATA
43344591 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43344610 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
43344628 TGAAGATTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 35 0.54
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43344774 original size:21 final size:20
Alignment explanation
Indices: 43344745--43344784 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
43344735 CTTGGACTTC
*
43344745 TTTTTTTTTGGGGTTTATTA
1 TTTTTTTTTGGGGCTTATTA
*
43344765 TTTTTGTTTTTGGGCTTATT
1 TTTTT-TTTTGGGGCTTATT
43344785 TCTGGGCTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.07, C:0.03, G:0.20, T:0.70
Consensus pattern (20 bp):
TTTTTTTTTGGGGCTTATTA
Found at i:43345041 original size:45 final size:45
Alignment explanation
Indices: 43344977--43345295 Score: 347
Period size: 45 Copynumber: 7.1 Consensus size: 45
43344967 GGAAGCCGAT
* * *
43344977 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
43345022 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACATAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * *
43345067 ATCTGCT-TCTTCAATCTGCTTCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
43345111 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * *
43345156 ATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * ** * * * * *
43345201 ATCTGTCATCTTGGATCTGCT-TCAATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGA-G-ATGCCAA
*
43345246 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
43345293 ATC
1 ATC
43345296 ATCTTGGATC
Statistics
Matches: 226, Mismatches: 41, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
43 4 0.02
44 45 0.20
45 147 0.65
46 1 0.00
47 19 0.08
48 6 0.03
49 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:43345142 original size:89 final size:90
Alignment explanation
Indices: 43344977--43345295 Score: 356
Period size: 89 Copynumber: 3.5 Consensus size: 90
43344967 GGAAGCCGAT
** * *
43344977 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
*
43345042 TCCCCGTCTAATACATAGACGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
* * *
43345067 ATCTGCT-TCTTCAATCTGCTTCCCGTCTAATACAAAGATGCCAAATCTGTTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
*
43345131 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
* * * * * **
43345156 ATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
* ** * * * * *
43345221 T-TCAATGTAA-ACACATGAAGGTCAG
66 TCCCCGTCTAATACAGA-G-ACGCCAA
*
43345246 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 ATCTGCTA--TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
43345296 ATCTTGGATC
Statistics
Matches: 192, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
88 4 0.02
89 85 0.44
90 67 0.35
92 36 0.19
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
TCCCCGTCTAATACAGAGACGCCAA
Found at i:43345364 original size:78 final size:78
Alignment explanation
Indices: 43345235--43345501 Score: 446
Period size: 78 Copynumber: 3.4 Consensus size: 78
43345225 ATGTAAACAC
43345235 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
43345300 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
43345313 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
43345377 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * *
43345391 ATGAAGGTTAGATCTACTGTGTCTTCGATCTGATCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
43345456 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
43345469 ATGAAGGTCAGATCTTCTATGTCTTTGATCTGC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGC
43345502 CCTCTGTCGA
Statistics
Matches: 174, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
77 1 0.01
78 171 0.98
79 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:43348533 original size:16 final size:16
Alignment explanation
Indices: 43348468--43348577 Score: 90
Period size: 16 Copynumber: 7.0 Consensus size: 16
43348458 CAATGATATG
43348468 CAATCTTAGATATGATA
1 CAATCTTAGATA-GATA
43348485 CAATCTTAGATAGAT-
1 CAATCTTAGATAGATA
* *
43348500 -AATCAT-GAT--ATG
1 CAATCTTAGATAGATA
43348512 CAATCTTAGATAGATA
1 CAATCTTAGATAGATA
43348528 CAATCTTAGATATGAT-
1 CAATCTTAGATA-GATA
**
43348544 TGATCTTAGATATGATA
1 CAATCTTAGATA-GATA
43348561 TGCAATCTTAGA-AGATA
1 --CAATCTTAGATAGATA
43348578 TGATTTTGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
11 2 0.03
13 8 0.10
14 8 0.10
16 31 0.40
17 19 0.25
18 1 0.01
19 8 0.10
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (16 bp):
CAATCTTAGATAGATA
Found at i:43361842 original size:25 final size:25
Alignment explanation
Indices: 43361809--43361856 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43361799 TTATAATATG
* *
43361809 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
43361834 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
43361857 GTTTTATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:43361937 original size:11 final size:11
Alignment explanation
Indices: 43361901--43361956 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
43361891 CATGGTATGT
43361901 ATGATATGCAC
1 ATGATATGCAC
* *
43361912 ATGACATG--T
1 ATGATATGCAC
43361921 ATGATATGCAC
1 ATGATATGCAC
*
43361932 ATGATATG--T
1 ATGATATGCAC
43361941 ATGATATGCAC
1 ATGATATGCAC
43361952 ATGAT
1 ATGAT
43361957 GTATTTATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43361956 original size:20 final size:20
Alignment explanation
Indices: 43361890--43361956 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
43361880 ATTTTGATAA
*
43361890 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43361910 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
43361930 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43361950 ACATGAT
1 ACATGAT
43361957 GTATTTATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43369379 original size:8 final size:8
Alignment explanation
Indices: 43369344--43369379 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
43369334 TAAAGCGATA
43369344 AAATGCCG
1 AAATGCCG
*
43369352 AAAAGCCG
1 AAATGCCG
*
43369360 AAATGCCA
1 AAATGCCG
43369368 AAATGCCG
1 AAATGCCG
43369376 AAAT
1 AAAT
43369380 TCTGGCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:43369926 original size:11 final size:11
Alignment explanation
Indices: 43369892--43369948 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
43369882 ACATGGTATG
43369892 TATGATATGCA
1 TATGATATGCA
* *
43369903 CATGACATG--
1 TATGATATGCA
43369912 TATGATATGCA
1 TATGATATGCA
43369923 TATGATATG--
1 TATGATATGCA
*
43369932 TATGACATGCA
1 TATGATATGCA
*
43369943 CATGAT
1 TATGAT
43369949 GTATTTATGA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
TATGATATGCA
Found at i:43369948 original size:20 final size:20
Alignment explanation
Indices: 43369882--43369948 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
43369872 ATTCTGATAA
*
43369882 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43369902 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
43369922 ATATGATATGTATGACATGC
1 ACATGATATGTATGATATGC
43369942 ACATGAT
1 ACATGAT
43369949 GTATTTATGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43370093 original size:23 final size:24
Alignment explanation
Indices: 43369998--43370113 Score: 143
Period size: 23 Copynumber: 5.0 Consensus size: 24
43369988 GAGGAAGTGC
43369998 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
43370022 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
43370045 -AGAGGGCTT-TGCCTCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43370067 AAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
43370090 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43370114 ATGATAAAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.15
23 56 0.69
24 6 0.07
25 7 0.09
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:43370342 original size:31 final size:31
Alignment explanation
Indices: 43370307--43370367 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
43370297 CGTTTACAGT
43370307 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
* **
43370338 AAAGGCTTTGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
43370368 AAATATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:43372882 original size:26 final size:26
Alignment explanation
Indices: 43372853--43372917 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
43372843 CATGATCTAC
43372853 CACATAAGATAGTCCTGGA-AGACTTT
1 CACATAAGATAGT-CTGGATAGACTTT
* *
43372879 CACATAAGATAGTCTTGATGGACTTT
1 CACATAAGATAGTCTGGATAGACTTT
*
43372905 CACATACGATAGT
1 CACATAAGATAGT
43372918 TTTAATGGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 4 0.11
26 31 0.89
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (26 bp):
CACATAAGATAGTCTGGATAGACTTT
Found at i:43372925 original size:26 final size:26
Alignment explanation
Indices: 43372873--43372925 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
43372863 AGTCCTGGAA
*
43372873 GACTTTCACATAAGATAGTCTTGATG
1 GACTTTCACATAAGATAGTCTTAATG
* *
43372899 GACTTTCACATACGATAGTTTTAATG
1 GACTTTCACATAAGATAGTCTTAATG
43372925 G
1 G
43372926 GCTTCCCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (26 bp):
GACTTTCACATAAGATAGTCTTAATG
Found at i:43374905 original size:19 final size:17
Alignment explanation
Indices: 43374855--43374909 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 17
43374845 ATATTTTTAG
*
43374855 AAAAATTAATTTTATGGTT
1 AAAAA-TAATTTT-TGGGT
*
43374874 TAAAATAATTTTTGGGT
1 AAAAATAATTTTTGGGT
43374891 AAAAATAAATATTTTGGGT
1 AAAAAT-AAT-TTTTGGGT
43374910 TAAATTGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 9 0.29
18 10 0.32
19 12 0.39
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
AAAAATAATTTTTGGGT
Found at i:43378656 original size:20 final size:20
Alignment explanation
Indices: 43378631--43378675 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
43378621 TTGGTATCGA
43378631 CACTGTCAAAATTTTCATGC
1 CACTGTCAAAATTTTCATGC
43378651 CACTGTCAAAATTTTCATGC
1 CACTGTCAAAATTTTCATGC
43378671 CACTG
1 CACTG
43378676 CTTCGGTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (20 bp):
CACTGTCAAAATTTTCATGC
Found at i:43381488 original size:46 final size:46
Alignment explanation
Indices: 43381435--43381610 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
43381425 TGGTTGAGCA
*
43381435 TCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43381481 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43381526 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
43381574 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43381611 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43381591 original size:93 final size:93
Alignment explanation
Indices: 43381432--43381602 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
43381422 GAATGGTTGA
* * *
43381432 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43381497 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43381525 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43381590 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43381603 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43387934 original size:20 final size:19
Alignment explanation
Indices: 43387909--43387985 Score: 65
Period size: 20 Copynumber: 4.1 Consensus size: 19
43387899 GAATATTAAG
43387909 TCTATTATATATTTATCTAT
1 TCTATTATATATTTAT-TAT
43387929 TCTATTATATA--TA-TAT
1 TCTATTATATATTTATTAT
*
43387945 TCTAATATATATTAGTATTAT
1 TCTATTATATATT--TATTAT
43387966 T-T-TTATATTATTTATCTAT
1 TCTATTATA-TATTTAT-TAT
43387985 T
1 T
43387986 TCTTATCTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
16 13 0.27
18 5 0.10
19 8 0.17
20 18 0.38
21 4 0.08
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (19 bp):
TCTATTATATATTTATTAT
Found at i:43387947 original size:16 final size:16
Alignment explanation
Indices: 43387926--43387956 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43387916 TATATTTATC
*
43387926 TATTCTATTATATATA
1 TATTCTAATATATATA
43387942 TATTCTAATATATAT
1 TATTCTAATATATAT
43387957 TAGTATTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTCTAATATATATA
Found at i:43395204 original size:42 final size:42
Alignment explanation
Indices: 43395134--43395254 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 42
43395124 GAAAAGCTCG
** *
43395134 TACAATGTAAATGTCCCAGACATGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAA
** * * ** *
43395176 TTTAATGCCACTGTCCCAGACAGGGTCTTACACAAAATCAAG
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAA
*
43395218 TACAATGCCAATGTCCCAGACATAGTCTTACACGTAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAA
43395255 ATCATAAGTC
Statistics
Matches: 62, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAA
Found at i:43408907 original size:5 final size:5
Alignment explanation
Indices: 43408897--43408933 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
43408887 GTAGATGATG
43408897 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AG-AAA AGAAA A
43408934 AACTGAATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:43409924 original size:25 final size:27
Alignment explanation
Indices: 43409865--43409925 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
43409855 TTTTCTTTCC
*
43409865 TATCTAATAATAAAAATTTTATAAATA
1 TATCTAATAATAAAAATTTTACAAATA
*
43409892 TATTTAATAATAAAAA-TTT-CAAATA
1 TATCTAATAATAAAAATTTTACAAATA
43409917 TCA-CTAATA
1 T-ATCTAATA
43409926 CAGTAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 11 0.37
26 4 0.13
27 15 0.50
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (27 bp):
TATCTAATAATAAAAATTTTACAAATA
Found at i:43410010 original size:19 final size:18
Alignment explanation
Indices: 43409973--43410016 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
43409963 ATACATACAG
43409973 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
43409990 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
43410009 TACTAATT
1 TAATAATT
43410017 AAAATTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:43412893 original size:85 final size:85
Alignment explanation
Indices: 43412750--43412928 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
43412740 GGCCGGCCAT
43412750 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
43412815 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
43412835 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
43412900 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
43412920 GGGCATGGG
1 GAGCATGGG
43412929 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:43414183 original size:47 final size:47
Alignment explanation
Indices: 43414131--43414921 Score: 1228
Period size: 47 Copynumber: 16.7 Consensus size: 47
43414121 AGTGTATATA
*
43414131 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
43414178 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
43414225 TGAGATAAGGCCGAATGGCCAATGTGATTAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
43414272 TGTGATAAGGCCGAATGGCCAATATGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* ** *
43414319 TGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
43414366 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
43414413 TGTGATAAGGCCGAATGGCCAATATGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
43414460 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATG
43414509 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
43414556 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATG
*
43414605 TGTAATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* ** *
43414652 TGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
*
43414699 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
43414746 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
43414793 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* * *
43414840 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATG
*
43414887 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
43414922 GAAGTGTATA
Statistics
Matches: 683, Mismatches: 52, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
46 3 0.00
47 593 0.87
49 85 0.12
50 2 0.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
Found at i:43414820 original size:22 final size:22
Alignment explanation
Indices: 43414793--43414914 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
43414783 CATGTGTATG
43414793 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
43414815 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
43414840 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
43414862 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
43414887 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
43414909 TGTGAT
1 TGTGAT
43414915 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:43432341 original size:42 final size:42
Alignment explanation
Indices: 43432292--43432400 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
43432282 CAATGTAAAC
* * *
43432292 GTCCCAGACATGGTCTTACATGTAATCAAATTCAATGCCACT
1 GTCCCAGACATGGTCTTACACGTAATCAAATACAATGCCAAT
* ** *
43432334 GTCCCAGACAAGGTCTTACACAAAATCAAGTACAATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATACAATGCCAAT
* *
43432376 GTCCCAGACATAGCCTTACACGTAA
1 GTCCCAGACATGGTCTTACACGTAA
43432401 ATCATAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.23
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATACAATGCCAAT
Found at i:43433881 original size:21 final size:21
Alignment explanation
Indices: 43433848--43433891 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
43433838 GGGATGTTAC
*
43433848 AAAAACGAGTATTAGTGAAAGT
1 AAAAACGAATATTAG-GAAAGT
*
43433870 AAAAAC-AATATTAGGAATGT
1 AAAAACGAATATTAGGAAAGT
43433890 AA
1 AA
43433892 CATCCCGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 7 0.35
22 6 0.30
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.23
Consensus pattern (21 bp):
AAAAACGAATATTAGGAAAGT
Found at i:43434735 original size:30 final size:30
Alignment explanation
Indices: 43434699--43434757 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
43434689 TACGAGCCTT
*
43434699 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAATGTAAATATGCAAAAGTTTA
* * *
43434729 GGGGCAAAAATGTAATTTTGCCAAAGTTT
1 GGGGCAAAAATGTAAATATGCAAAAGTTT
43434758 GGGTCAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.27
Consensus pattern (30 bp):
GGGGCAAAAATGTAAATATGCAAAAGTTTA
Found at i:43444949 original size:27 final size:26
Alignment explanation
Indices: 43444892--43444949 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
43444882 TCAACCTTAA
*
43444892 ACCTAGGGGTATATCAGTAATTTTAC
1 ACCTAGGGGTAAATCAGTAATTTTAC
* * *
43444918 TCCTAGGGGTAAATCTGTAAATTTTTC
1 ACCTAGGGGTAAATCAGT-AATTTTAC
43444945 ACCTA
1 ACCTA
43444950 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (26 bp):
ACCTAGGGGTAAATCAGTAATTTTAC
Found at i:43447296 original size:19 final size:18
Alignment explanation
Indices: 43447259--43447302 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
43447249 ATACATACAG
43447259 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
43447276 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
43447295 TACTAATT
1 TAATAATT
43447303 AAAATTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:43448938 original size:8 final size:8
Alignment explanation
Indices: 43448927--43448959 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
43448917 CTAGATCGGC
43448927 AAAAGCCG
1 AAAAGCCG
43448935 AAAAGCCG
1 AAAAGCCG
*
43448943 AAATGCCG
1 AAAAGCCG
43448951 AAAAGCCG
1 AAAAGCCG
43448959 A
1 A
43448960 CATTTCGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.24, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:43449545 original size:22 final size:22
Alignment explanation
Indices: 43449517--43449558 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43449507 TCCCCACAGG
43449517 AAGTGTAGGGATGGACGGAGGC
1 AAGTGTAGGGATGGACGGAGGC
* *
43449539 AAGTGTAGGGTTGGATGGAG
1 AAGTGTAGGGATGGACGGAG
43449559 TTATCATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.50, T:0.19
Consensus pattern (22 bp):
AAGTGTAGGGATGGACGGAGGC
Found at i:43449635 original size:20 final size:21
Alignment explanation
Indices: 43449592--43449637 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
43449582 ACTGTTTTGT
43449592 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
43449612 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
43449631 TATGGGC
1 TATGGGC
43449638 AAGGCCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:43457456 original size:24 final size:25
Alignment explanation
Indices: 43457411--43457458 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
43457401 ACACAAACGC
* *
43457411 AGCTCTTCGTGAGCATCTTGATATA
1 AGCTCTTCATGAGCATCCTGATATA
*
43457436 AGCTCTT-ATGAGCTTCCTGATAT
1 AGCTCTTCATGAGCATCCTGATAT
43457459 GGCTCGCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (25 bp):
AGCTCTTCATGAGCATCCTGATATA
Found at i:43459491 original size:41 final size:41
Alignment explanation
Indices: 43459438--43459587 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
43459428 CGCTGACTTA
* *
43459438 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * *** *
43459479 GAAGGCCCTTCGAAACTTGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
43459519 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
43459560 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
43459588 TAAACCCCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:43463414 original size:21 final size:21
Alignment explanation
Indices: 43463390--43463459 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
43463380 AAATCTGAAC
43463390 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * **
43463411 TCA-TGATATATGTGACGTCCGAAC
1 TCATTGA-GT-TGTG--GTCTGAGT
43463435 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
43463456 TCAT
1 TCAT
43463460 GATATATATG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 3 0.08
21 13 0.36
22 4 0.11
23 4 0.11
24 9 0.25
25 3 0.08
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:43463450 original size:45 final size:45
Alignment explanation
Indices: 43463386--43463471 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
43463376 TATGAAATCT
*
43463386 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACGTCC
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATATGACGTCC
43463431 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATATGAC
1 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATATGAC
43463472 ACATGTTTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (45 bp):
GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATATGACGTCC
Found at i:43466405 original size:28 final size:27
Alignment explanation
Indices: 43466350--43466461 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
43466340 AGCATGGCTG
* *
43466350 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
43466376 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
43466404 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* ** *
43466431 CCATATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
43466458 CCAG
1 CCAG
43466462 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 18 0.25
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:43466442 original size:54 final size:54
Alignment explanation
Indices: 43466350--43466461 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
43466340 AGCATGGCTG
* *
43466350 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * * *
43466404 CCAGAACAGAAATATGTGGCAGAGCCACCATAT-TAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
43466458 CCAG
1 CCAG
43466462 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:43471020 original size:27 final size:27
Alignment explanation
Indices: 43470982--43471034 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
43470972 AAACGATCAA
*
43470982 CTACAACCCAAATTGCATTTTTCTTTT
1 CTACAACCCAAATTGCATCTTTCTTTT
43471009 CTACAACCCAAATTGCATCTTTCTTT
1 CTACAACCCAAATTGCATCTTTCTTT
43471035 CTCGGAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.42
Consensus pattern (27 bp):
CTACAACCCAAATTGCATCTTTCTTTT
Found at i:43485076 original size:15 final size:15
Alignment explanation
Indices: 43485056--43485084 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43485046 CATTAAATGC
43485056 TTGCTCTGTTTTATT
1 TTGCTCTGTTTTATT
43485071 TTGCTCTGTTTTAT
1 TTGCTCTGTTTTAT
43485085 AGTACTCAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.14, T:0.66
Consensus pattern (15 bp):
TTGCTCTGTTTTATT
Found at i:43486730 original size:24 final size:24
Alignment explanation
Indices: 43486694--43486740 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
43486684 ATCTTCTCGA
*
43486694 TTTGGTCTATTTTGTCCCCTTTTT
1 TTTGGTCTATTTTGGCCCCTTTTT
*
43486718 TTTGGTCGT-TTTTGGCTCCTTTT
1 TTTGGTC-TATTTTGGCCCCTTTT
43486741 GGTGCTCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.02, C:0.19, G:0.17, T:0.62
Consensus pattern (24 bp):
TTTGGTCTATTTTGGCCCCTTTTT
Found at i:43488624 original size:14 final size:13
Alignment explanation
Indices: 43488607--43488668 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 13
43488597 AATTGAAATG
43488607 AAAATAGTAATAAA
1 AAAATAG-AATAAA
*
43488621 AAAATAAAAATAAA
1 AAAAT-AGAATAAA
43488635 TAAAATA-AATAAA
1 -AAAATAGAATAAA
43488648 AAAATAAGAATAAA
1 AAAAT-AGAATAAA
*
43488662 AAGATAG
1 AAAATAG
43488669 GAGGATTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
12 5 0.12
13 9 0.21
14 22 0.52
15 6 0.14
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (13 bp):
AAAATAGAATAAA
Found at i:43488651 original size:27 final size:28
Alignment explanation
Indices: 43488583--43488661 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
43488573 ATGTCTTTCA
* *
43488583 AAATAAAATAATAAAATTGAAATGAAAAT
1 AAATAAAAAAATAAAAAT-AAATGAAAAT
43488612 AGTAATAAAAAAATAAAAATAAAT-AAAAT
1 A--AATAAAAAAATAAAAATAAATGAAAAT
*
43488641 AAATAAAAAAATAAGAATAAA
1 AAATAAAAAAATAAAAATAAA
43488662 AAGATAGGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 19 0.42
29 7 0.16
30 4 0.09
31 15 0.33
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (28 bp):
AAATAAAAAAATAAAAATAAATGAAAAT
Found at i:43488665 original size:9 final size:8
Alignment explanation
Indices: 43488615--43488654 Score: 53
Period size: 9 Copynumber: 4.6 Consensus size: 8
43488605 TGAAAATAGT
43488615 AATAAAAA
1 AATAAAAA
43488623 AATAAAAATA
1 AAT-AAAA-A
43488633 AATAAAATA
1 AATAAAA-A
43488642 AATAAAAA
1 AATAAAAA
43488650 AATAA
1 AATAA
43488655 GAATAAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 9 0.30
9 17 0.57
10 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AATAAAAA
Found at i:43494060 original size:13 final size:13
Alignment explanation
Indices: 43494038--43494070 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
43494028 AAGGGTTTGT
43494038 TTAT-TAAACTAA
1 TTATCTAAACTAA
43494050 TTATCTAAACTAA
1 TTATCTAAACTAA
*
43494063 TTAACTAA
1 TTATCTAA
43494071 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:43505170 original size:50 final size:49
Alignment explanation
Indices: 43505052--43505181 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 49
43505042 CTAGTATGCA
* * ** *
43505052 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
* *
43505101 TATTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
* *
43505151 TAGTAGCCTCCAGTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
43505182 TCGAAGTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
49 30 0.43
50 40 0.57
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:43506650 original size:52 final size:48
Alignment explanation
Indices: 43506588--43506780 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
43506578 GAAATGTGAT
* * *
43506588 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
43506640 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
43506687 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
43506733 ATCCGTATAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
43506781 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.22
47 53 0.43
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:43511154 original size:30 final size:29
Alignment explanation
Indices: 43511098--43511155 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
43511088 TCCAGAAAAA
* **
43511098 CCAAGATAGAGAAATCTGAAACAAAGAAG
1 CCAAGATAAAGAAATCCAAAACAAAGAAG
*
43511127 CCAAGAATAAAGAAATCCAAAATAAAGAA
1 CCAAG-ATAAAGAAATCCAAAACAAAGAA
43511156 ATCCATGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (29 bp):
CCAAGATAAAGAAATCCAAAACAAAGAAG
Found at i:43511156 original size:15 final size:16
Alignment explanation
Indices: 43511127--43511160 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
43511117 AACAAAGAAG
43511127 CCAAGAATAAAGAAAT
1 CCAAGAATAAAGAAAT
43511143 CCAA-AATAAAGAAAT
1 CCAAGAATAAAGAAAT
43511158 CCA
1 CCA
43511161 TGATACGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
CCAAGAATAAAGAAAT
Done.