Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold228
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: 4123243
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 13 of 27
Found at i:1825985 original size:126 final size:125
Alignment explanation
Indices: 1825788--1826488 Score: 440
Period size: 126 Copynumber: 5.5 Consensus size: 125
1825778 ATATTCTCTC
* * *
1825788 GGGTCAAAGTCGACAGGTAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAACCGACAGGCAGAC
1 GGGTCAAAGTCGACAGGTAGACTGAGGG-TA-GAAAGTCTCCAGGGTCAAAGCTGACAGGCAGAC
* * ** *
1825853 TAAGGGTTGAAAAGT-TTCCAAGGTCAAAGCCAACAAG-AAGACTGAGGGTTGAAAAGTCTTCA
64 TGAGGGTTAAAAAGTCTT-CAAGGTCAAAGCCAACAAGCAA-ACTGAGGGTAAAAAAGTCTCCA
* * * * **
1825915 GGGTCAAAGCCGACAGGTAGACTGAGGGTTAAAAAGTCTCCAAGGTCAAAGTTGACAGATAGACT
1 GGGTCAAAGTCGACAGGTAGACTGAGGG-TAGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACT
* *
1825980 GAGGGTTAAAAAGTCTTCAAGGTCAAAGCCGACAGGCAAACTGAGGGTAAAAAAGTCTCCA
65 GAGGGTTAAAAAGTCTTCAAGGTCAAAGCCAACAAGCAAACTGAGGGTAAAAAAGTCTCCA
* * **
1826041 GGGTCAAAATCGATAGACAGACTGAGGGTAGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTG
1 GGGTCAAAGTCGACAGGTAGACTGAGGGTAGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTG
* * * * * * * * * * * *
1826106 AAGGATAGGAAAGTC-TCTAGGGTCAAAGCCGACAGGCAGACTAAAAGATAGGAAAA-TCTCTA
66 AGGGTTA-AAAAGTCTTC-AAGGTCAAAGCCAACAAGCAAACT-GAGGGTA-AAAAAGTCTCCA
* * * * * * *
1826168 GGGTCAAAGTCGACAGGCAGACTAAAAGATAGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGAC
1 GGGTCAAAGTCGACAGGTAGACT-GAGGGTA-GAAAGTCTCCAGGGTCAAAGCTGACAGGCAGAC
* * * * ** * * ***** ** *
1826233 TAAGGGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTCAATAGGAAAGTTTCCA
64 TGAGGGTTA-AAAAGTCTTCAAGGTCAAAGCCAACAAGCAAACTGAGGGTAAAAAAGTCTCCA
* * * * * * * *
1826296 GAGTCAAAGCCGACAGGCAGATTAAGGGATAGGAAAGTCTCCAGAGTCAAAGCCGATAGGCAGAC
1 GGGTCAAAGTCGACAGGTAGACTGAGGG-TA-GAAAGTCTCCAGGGTCAAAGCTGACAGGCAGAC
* * * * * * * * * * * **
1826361 TAAGGGATAGGAAAGTCTCCAGGGTCAAAGTCGACAGGTAGACTAAGGGATAGGAAAGTCTCCA
64 TGAGGGTTA-AAAAGTCTTCAAGGTCAAAGCCAACAAGCAAACTGAGGG-TAAAAAAGTCTCCA
* * * * * * * * * *
1826425 AGGTCAAAGCCAATAGGCAGACT-AAGATAGGAAAGTCTTCAAGGTCAAAGCCGACAGGCAGACT
1 GGGTCAAAGTCGACAGGTAGACTGAGGGTA-GAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACT
1826489 TTAGATGTGA
Statistics
Matches: 474, Mismatches: 88, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
125 39 0.08
126 126 0.27
127 101 0.21
128 109 0.23
129 98 0.21
130 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (125 bp):
GGGTCAAAGTCGACAGGTAGACTGAGGGTAGAAAGTCTCCAGGGTCAAAGCTGACAGGCAGACTG
AGGGTTAAAAAGTCTTCAAGGTCAAAGCCAACAAGCAAACTGAGGGTAAAAAAGTCTCCA
Found at i:1826199 original size:86 final size:85
Alignment explanation
Indices: 1825782--1826488 Score: 599
Period size: 84 Copynumber: 8.3 Consensus size: 85
1825772 AGGAAAATAT
* * * *
1825782 TCTCTCGGGTCAAAGTCGACAGGTAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAACCGACAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTC-AAAGCGACAG
* * * *
1825847 GCAGACT-AAGGGTTGAAAAG
65 GCAGACTAAAAGATAGGAAAG
* * * * * * * * * *
1825867 TTTCCAAGGTCAAAGCCAACAAGAAGACTGAGGG-TTGAAAAGTCTTCAGGGTCAAAGCCGACAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAG-CGACAG
* * ** * *
1825931 GTAGACTGAGGGTTA-AAAAG
65 GCAGACTAAAAGATAGGAAAG
* * ** ** * * * * *
1825951 TCTCCAAGGTCAAAGTTGACAGATAGACTGAGGGTTA-AAAAGTCTTCAAGGTCAAAGCCGACAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAG-CGACAG
* * * * **
1826015 GCAAACT-GAGGGTAAAAAAG
65 GCAGACTAAAAGATAGGAAAG
* ** * * *
1826035 TCTCCAGGGTCAAAATCGATAGACAGACTGAGGG-TA-GAAAGTCTCCAGGGTCAAAGCTGACAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGC-GACAG
* *
1826098 GCAGACTGAAGGATAGGAAAG
65 GCAGACTAAAAGATAGGAAAG
** * *
1826119 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAAAGATAGGAAAATCTCTAGGGTCAAAGTCGACAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAG-CGACAG
1826184 GCAGACTAAAAGATAGGAAAG
65 GCAGACTAAAAGATAGGAAAG
* *
1826205 TCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCTGACAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGC-GACAG
***
1826270 GCAGACTTTCA-ATAGGAAAG
65 GCAGACTAAAAGATAGGAAAG
* * * * * *
1826290 TTTCCAGAGTCAAAGCCGACAGGCAGATTAAGGGATAGGAAAGTCTCCAGAGTCAAAGCCGATAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAG-CGACAG
**
1826355 GCAGACTAAGGGATAGGAAAG
65 GCAGACTAAAAGATAGGAAAG
* * * * * *
1826376 TCTCCAGGGTCAAAGTCGACAGGTAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCCAATAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAG-CGACAG
1826441 GCAGACT--AAGATAGGAAAG
65 GCAGACTAAAAGATAGGAAAG
*
1826460 TCT-TCAAGGTCAAAGCCGACAGGCAGACT
1 TCTCT-AGGGTCAAAGCCGACAGGCAGACT
1826489 TTAGATGTGA
Statistics
Matches: 518, Mismatches: 91, Indels: 27
0.81 0.14 0.04
Matches are distributed among these distances:
82 1 0.00
83 37 0.07
84 194 0.37
85 104 0.20
86 181 0.35
87 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.16
Consensus pattern (85 bp):
TCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAGCGACAGG
CAGACTAAAAGATAGGAAAG
Found at i:1826329 original size:171 final size:170
Alignment explanation
Indices: 1825789--1826488 Score: 603
Period size: 171 Copynumber: 4.1 Consensus size: 170
1825779 TATTCTCTCG
* * ** * * *
1825789 GGTCAAAGTCGACAGGTAGACTAAGGGATAGGAAAGTCTCCAGGGTCAAAACCGACAGGCAGACT
1 GGTCAAAGCCGACAGGCAGACTAAAAGATAGGAAAATCTCCAGAGTCAAAGCCGACAGGCAGACT
* * * * * * * * * * * * * * *
1825854 -AAGGGTTGAAAAGTTTCCAAGGTCAAAGCCAACAAGAAGACTGAGGG-TTGAAAAGTCTTCAGG
66 AAAAGATAGGAAAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAG
* * * * * * *
1825917 GTCAAAGCCGACAGGTAGACTGAGGGTTA-AAAAGTCTCCAA
131 GTCAAAGCTGACAGGCAGACTTA-AGATAGGAAAGT-TTCAA
** ** * ** * * *
1825958 GGTCAAAGTTGACAGATAGACTGAGGGTTA--AAAAGTCTTCA-AGGTCAAAGCCGACAGGCAAA
1 GGTCAAAGCCGACAGGCAGACTAAAAGATAGGAAAA-TCTCCAGA-GTCAAAGCCGACAGGCAGA
* * * ** * * * *
1826020 CT-GAGGGTAAAAAAGTCTCCAGGGTCAAAATCGATAGACAGACTGAGGG-TA-GAAAGTCTCCA
64 CTAAAAGATAGGAAAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGATAGGAAAGTCTCCA
* * * *
1826082 GGGTCAAAGCTGACAGGCAGACTGAAGGATAGGAAAGTCTCTAG
129 AGGTCAAAGCTGACAGGCAGACTTAA-GATAGGAAAGTTTC-AA
* * *
1826126 GGTCAAAGCCGACAGGCAGACTAAAAGATAGGAAAATCTCTAGGGTCAAAGTCGACAGGCAGACT
1 GGTCAAAGCCGACAGGCAGACTAAAAGATAGGAAAATCTCCAGAGTCAAAGCCGACAGGCAGACT
* * *
1826191 AAAAGATAGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAG
66 AAAAGATAGGAAAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAG
* *
1826256 GTCAAAGCTGACAGGCAGACTTTCA-ATAGGAAAGTTTCCA
131 GTCAAAGCTGACAGGCAGAC-TTAAGATAGGAAAGTTTCAA
* ** * *
1826296 GAGTCAAAGCCGACAGGCAGATTAAGGGATAGGAAAGTCTCCAGAGTCAAAGCCGATAGGCAGAC
1 G-GTCAAAGCCGACAGGCAGACTAAAAGATAGGAAAATCTCCAGAGTCAAAGCCGACAGGCAGAC
** *
1826361 TAAGGGATAGGAAAGTCTCCAGGGTCAAAGTCGACAGGTAGACTAAGGGATAGGAAAGTCTCCAA
65 TAAAAGATAGGAAAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAA
** *
1826426 GGTCAAAGCCAATAGGCAGAC-TAAGATAGGAAAGTCTTCAA
130 GGTCAAAGCTGACAGGCAGACTTAAGATAGGAAAGT-TTCAA
1826467 GGTCAAAGCCGACAGGCAGACT
1 GGTCAAAGCCGACAGGCAGACT
1826489 TTAGATGTGA
Statistics
Matches: 433, Mismatches: 83, Indels: 29
0.79 0.15 0.05
Matches are distributed among these distances:
167 39 0.09
168 88 0.20
169 51 0.12
170 70 0.16
171 151 0.35
172 32 0.07
173 2 0.00
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (170 bp):
GGTCAAAGCCGACAGGCAGACTAAAAGATAGGAAAATCTCCAGAGTCAAAGCCGACAGGCAGACT
AAAAGATAGGAAAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAG
GTCAAAGCTGACAGGCAGACTTAAGATAGGAAAGTTTCAA
Found at i:1838999 original size:20 final size:21
Alignment explanation
Indices: 1838965--1839004 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1838955 TTTATGCATA
*
1838965 TATTTTTTCACTTTT-ATTTT
1 TATTTTTTAACTTTTGATTTT
*
1838985 TATTTTTTAATTTTTGATTT
1 TATTTTTTAACTTTTGATTT
1839005 CTACTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (21 bp):
TATTTTTTAACTTTTGATTTT
Found at i:1843809 original size:16 final size:16
Alignment explanation
Indices: 1843782--1843816 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1843772 ATAAAATTAC
1843782 TTATTATTTTTTAAATT
1 TTATTATTTTTT-AATT
1843799 TTATT-TTTTTTAATT
1 TTATTATTTTTTAATT
1843814 TTA
1 TTA
1843817 ACTTTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 6 0.33
17 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTATTTTTTAATT
Found at i:1844891 original size:2 final size:2
Alignment explanation
Indices: 1844884--1844913 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1844874 TAAAAGATTC
1844884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1844914 TGCCTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1845627 original size:2 final size:2
Alignment explanation
Indices: 1845620--1845651 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
1845610 TTTCAAAAAT
1845620 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
1845652 TTTACAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1845861 original size:16 final size:16
Alignment explanation
Indices: 1845825--1845869 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1845815 TTTTAATGTA
*
1845825 TATTCTTGAACTTTGAC
1 TATTCATGAA-TTTGAC
*
1845842 TATTCATGAATTTGAG
1 TATTCATGAATTTGAC
*
1845858 TATTTATGAATT
1 TATTCATGAATT
1845870 ATGTAATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (16 bp):
TATTCATGAATTTGAC
Found at i:1847469 original size:2 final size:2
Alignment explanation
Indices: 1847462--1847491 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1847452 AAATATGTAC
*
1847462 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1847492 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1857784 original size:41 final size:41
Alignment explanation
Indices: 1857739--1857825 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
1857729 TATAACAAAA
* *
1857739 AAATTCTTAAACTTTATTATTTTATTTAGATAAATTTCAAT
1 AAATTCTTAAACTTTACTAATTTATTTAGATAAATTTCAAT
1857780 AAATTCTTAAACTTTACTAATTTATTTAGATAAATTTCAAT
1 AAATTCTTAAACTTTACTAATTTATTTAGATAAATTTCAAT
*
1857821 CAATT
1 AAATT
1857826 ATTTATAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.48
Consensus pattern (41 bp):
AAATTCTTAAACTTTACTAATTTATTTAGATAAATTTCAAT
Found at i:1858314 original size:74 final size:74
Alignment explanation
Indices: 1858150--1858298 Score: 237
Period size: 73 Copynumber: 2.0 Consensus size: 74
1858140 TATATAGATT
* * *
1858150 AAATACATAATTTAACTGTATGGGCAATAAAAAAAATTATTTCATATATTTTCAATAAAGCTTTT
1 AAATACGTAATTTAACTGTATGGGCAATAAAAAAAATTATTTCATACATTGTCAATAAAGCTTTT
1858215 AAACTTTGC
66 AAACTTTGC
* * *
1858224 AAATACGTAAGTTAACTGTATGGGCACT-AAAAAAATTATTTCATACGTTGTCAATAAAGCTTTT
1 AAATACGTAATTTAACTGTATGGGCAATAAAAAAAATTATTTCATACATTGTCAATAAAGCTTTT
1858288 AAACTTTGC
66 AAACTTTGC
1858297 AA
1 AA
1858299 GTATGATCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 44 0.64
74 25 0.36
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (74 bp):
AAATACGTAATTTAACTGTATGGGCAATAAAAAAAATTATTTCATACATTGTCAATAAAGCTTTT
AAACTTTGC
Found at i:1860239 original size:2 final size:2
Alignment explanation
Indices: 1860232--1860268 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1860222 GAAATCTAAG
1860232 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1860269 CAATTTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1861373 original size:23 final size:23
Alignment explanation
Indices: 1861334--1861378 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1861324 TTTTATATAT
* *
1861334 TAATTAATATTTTATTACATAAC
1 TAATTAATATATAATTACATAAC
*
1861357 TAATTAATATATAATTATATAA
1 TAATTAATATATAATTACATAA
1861379 ATTTATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATTAATATATAATTACATAAC
Found at i:1862201 original size:40 final size:40
Alignment explanation
Indices: 1862149--1862250 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 40
1862139 TATTAGGTAA
*
1862149 ATATAATAATAAAAATATAATAAATTAATATTT-TA-AAATTT
1 ATATAA-AATAAAAATATAATAAATTAA-ATTTATATAAA-AT
* *
1862190 ATATAAAAT-AAATTATTAATATATTAAATTTATATAAAAT
1 ATATAAAATAAAAATA-TAATAAATTAAATTTATATAAAAT
*
1862230 ATATAATATAATAAATATAAT
1 ATATAAAATAA-AAATATAAT
1862251 TATGACACAT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
39 9 0.18
40 24 0.47
41 14 0.27
42 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (40 bp):
ATATAAAATAAAAATATAATAAATTAAATTTATATAAAAT
Found at i:1862208 original size:24 final size:23
Alignment explanation
Indices: 1862160--1862213 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
1862150 TATAATAATA
*
1862160 AAAATATAATAAATTAATATTTT
1 AAAATATAATAAAATAATATTTT
*
1862183 AAAATTTATATAAAATAA-ATTATT
1 AAAATATA-ATAAAATAATATT-TT
*
1862207 AATATAT
1 AAAATAT
1862214 TAAATTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAATATAATAAAATAATATTTT
Found at i:1862242 original size:32 final size:33
Alignment explanation
Indices: 1862160--1862242 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 33
1862150 TATAATAATA
*
1862160 AAAATATAATAA-ATTAATATTTTAAAATTTATAT
1 AAAATAT-ATAATA-TAATATATTAAAATTTATAT
* *
1862194 AAAATAAATTAT-TAATATATT-AAATTTATAT
1 AAAATATATAATATAATATATTAAAATTTATAT
1862225 AAAATATATAATATAATA
1 AAAATATATAATATAATA
1862243 AATATAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
31 20 0.48
32 13 0.31
33 3 0.07
34 6 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
AAAATATATAATATAATATATTAAAATTTATAT
Found at i:1862247 original size:14 final size:14
Alignment explanation
Indices: 1862148--1862250 Score: 61
Period size: 14 Copynumber: 7.2 Consensus size: 14
1862138 ATATTAGGTA
*
1862148 AATATAAT-AATAAA
1 AATATAATAAAT-AT
1862162 AATATAATAAAT-T
1 AATATAATAAATAT
** *
1862175 AATATTTTAAAATTT
1 AATATAAT-AAATAT
*
1862190 ATATAAAATAAATTATT
1 A-ATATAATAAA-TA-T
*
1862207 AATATATTAAAT-T
1 AATATAATAAATAT
*
1862220 TATATAA-AATATAT
1 AATATAATAA-ATAT
1862234 AATATAATAAATAT
1 AATATAATAAATAT
1862248 AAT
1 AAT
1862251 TATGACACAT
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
12 2 0.03
13 14 0.21
14 26 0.38
15 11 0.16
16 13 0.19
17 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATAATAAATAT
Found at i:1864575 original size:23 final size:23
Alignment explanation
Indices: 1864545--1864592 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1864535 ATTTTAACAA
*
1864545 AATTTATACTAGTTGTTGTCTTT
1 AATTTATACTAGTTCTTGTCTTT
*
1864568 AATTTATATTAGTTCTTGTCTTT
1 AATTTATACTAGTTCTTGTCTTT
1864591 AA
1 AA
1864593 ATCTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.56
Consensus pattern (23 bp):
AATTTATACTAGTTCTTGTCTTT
Found at i:1867474 original size:21 final size:21
Alignment explanation
Indices: 1867435--1867476 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1867425 TCTCTTTTTA
*
1867435 TTATTATTTTATTATTTTATT
1 TTATTATTTTATTAGTTTATT
1867456 TTATT-TTTTATATAGTTTATT
1 TTATTATTTTAT-TAGTTTATT
1867477 CTCACTATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATTATTTTATTAGTTTATT
Found at i:1870994 original size:8 final size:8
Alignment explanation
Indices: 1870981--1871005 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1870971 TTTGGATGAC
1870981 AAAATATT
1 AAAATATT
1870989 AAAATATT
1 AAAATATT
1870997 AAAATATT
1 AAAATATT
1871005 A
1 A
1871006 TTTTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAATATT
Found at i:1871032 original size:22 final size:20
Alignment explanation
Indices: 1871004--1871048 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
1870994 ATTAAAATAT
*
1871004 TATTTTTATATTAATATTTATA
1 TATTTTTA-ATTAA-ATTTAAA
1871026 TATTTTTAATTAAATTTAAA
1 TATTTTTAATTAAATTTAAA
1871046 TAT
1 TAT
1871049 ATAAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTAATTAAATTTAAA
Found at i:1871048 original size:28 final size:26
Alignment explanation
Indices: 1871016--1871073 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
1871006 TTTTTATATT
* *
1871016 AATATTTATATATTTTTAATTAAATTTA
1 AATATATAAATATTTTTAATT-AA-TTA
*
1871044 AATATATAAATATTTTTTATTAATTA
1 AATATATAAATATTTTTAATTAATTA
1871070 AATA
1 AATA
1871074 GTGATTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 7 0.26
27 2 0.07
28 18 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATATATAAATATTTTTAATTAATTA
Found at i:1871049 original size:22 final size:24
Alignment explanation
Indices: 1870991--1871050 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 24
1870981 AAAATATTAA
*
1870991 AATATTAAAATATTATTTTTATATT
1 AATATTTAAATA-TATTTTTATATT
1871016 AATATTT--ATATATTTTTA-ATT
1 AATATTTAAATATATTTTTATATT
1871037 AA-ATTTAAATATAT
1 AATATTTAAATATAT
1871051 AAATATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.12
21 5 0.16
22 14 0.44
23 3 0.09
25 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
AATATTTAAATATATTTTTATATT
Found at i:1871743 original size:16 final size:16
Alignment explanation
Indices: 1871707--1871751 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
1871697 TAATTATATA
*
1871707 TATTCATGAACTTTGAC
1 TATTCAT-AAATTTGAC
*
1871724 TATTCATAAATTTGAG
1 TATTCATAAATTTGAC
1871740 TATTCATAAATT
1 TATTCATAAATT
1871752 ATATACATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (16 bp):
TATTCATAAATTTGAC
Found at i:1871788 original size:72 final size:70
Alignment explanation
Indices: 1871693--1871844 Score: 178
Period size: 72 Copynumber: 2.1 Consensus size: 70
1871683 GATATTTATA
* * * * *
1871693 AATATAATTATATATATTCATGAACTTTGACTATTCATAAATTTGAGTATTCATAAATTATATAC
1 AATATTATTATAAACATTTATGAACTTTGACTATTCATAAATTT-AG-ATTCATAAATCATATAC
1871758 ATACATG
64 ATACATG
* * * * * *
1871765 AATGTTATTATAAACATTTATGAACTTTGATTATTCATGAATTTAGATTCATGAATCATGTATAT
1 AATATTATTATAAACATTTATGAACTTTGACTATTCATAAATTTAGATTCATAAATCATATACAT
*
1871830 ACTTG
66 ACATG
1871835 AATATTATTA
1 AATATTATTA
1871845 AGTATGTTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
70 28 0.42
71 2 0.03
72 37 0.55
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (70 bp):
AATATTATTATAAACATTTATGAACTTTGACTATTCATAAATTTAGATTCATAAATCATATACAT
ACATG
Found at i:1875756 original size:25 final size:25
Alignment explanation
Indices: 1875694--1875763 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
1875684 AATAAAAATT
*
1875694 AGCCACCAATTTTGACAAA-CAACA
1 AGCCACCAATTTTGACAAATAAACA
1875718 AGCCACCAATTTTGACAAATAAACA
1 AGCCACCAATTTTGACAAATAAACA
*
1875743 AGCCTCC-ATATTTGACAAATA
1 AGCCACCAAT-TTTGACAAATA
1875764 CAAAGGAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (25 bp):
AGCCACCAATTTTGACAAATAAACA
Found at i:1875812 original size:27 final size:27
Alignment explanation
Indices: 1875748--1875818 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
1875738 AAACAAGCCT
* *
1875748 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
*
1875776 CCATTTTTGACAAACACAAA-ATAATCA
1 CCATTTTTGACAAACACAAAGA-AACCA
1875803 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
1875819 AATGGGTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:1880143 original size:25 final size:25
Alignment explanation
Indices: 1880081--1880150 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
1880071 AATAAAAATT
* *
1880081 AGCCACCAATTTTGGCAAA-CAACA
1 AGCCACCAATTTTGACAAATAAACA
1880105 AGCCACCAATTTTGACAAATAAACA
1 AGCCACCAATTTTGACAAATAAACA
*
1880130 AGCCTCC-ATATTTGACAAATA
1 AGCCACCAAT-TTTGACAAATA
1880151 CAAAGGAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 20 0.49
25 21 0.51
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (25 bp):
AGCCACCAATTTTGACAAATAAACA
Found at i:1880181 original size:28 final size:27
Alignment explanation
Indices: 1880140--1880205 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
1880130 AGCCTCCATA
*
1880140 TTTGACAAATACAAAGGA-AACCACTATT
1 TTTGACAAACACAAA--ATAACCACTATT
*
1880168 TTTGATAAACACAAAATAACCACTATT
1 TTTGACAAACACAAAATAACCACTATT
1880195 TTTGACAAACA
1 TTTGACAAACA
1880206 ATGGGTGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 20 0.59
28 13 0.38
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (27 bp):
TTTGACAAACACAAAATAACCACTATT
Found at i:1881009 original size:30 final size:30
Alignment explanation
Indices: 1880973--1881034 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
1880963 ATCAGGCTCT
1880973 GTAACTTTTTTCCTTGGAATCTTATTGTAG
1 GTAACTTTTTTCCTTGGAATCTTATTGTAG
1881003 GTAACTTTTTTCCTTGGAATCTTATTGTAG
1 GTAACTTTTTTCCTTGGAATCTTATTGTAG
1881033 GT
1 GT
1881035 TAATAGTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.13, G:0.18, T:0.50
Consensus pattern (30 bp):
GTAACTTTTTTCCTTGGAATCTTATTGTAG
Found at i:1881257 original size:48 final size:48
Alignment explanation
Indices: 1881186--1881281 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
1881176 AGAAGTGCTG
1881186 TTTTCCATATCCTCAGAGTCAATAGAAATGCCTAAGGACTAAATAGGA
1 TTTTCCATATCCTCAGAGTCAATAGAAATGCCTAAGGACTAAATAGGA
*
1881234 TTTTCGATATCCTCAGAGTCAATAGAAATGCCTAAGGACTAAATAGGA
1 TTTTCCATATCCTCAGAGTCAATAGAAATGCCTAAGGACTAAATAGGA
1881282 CAAGTGAGGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (48 bp):
TTTTCCATATCCTCAGAGTCAATAGAAATGCCTAAGGACTAAATAGGA
Found at i:1886416 original size:16 final size:16
Alignment explanation
Indices: 1886392--1886422 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1886382 AGATAAAAAT
*
1886392 TTTTTTTATTATTTTA
1 TTTTGTTATTATTTTA
1886408 TTTTGTTATTATTTT
1 TTTTGTTATTATTTT
1886423 TATGGAAATC
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:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTGTTATTATTTTA
Found at i:1886839 original size:46 final size:46
Alignment explanation
Indices: 1886787--1886880 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
1886777 CAATAAAATC
1886787 AAGCATCACACCTCTATATTTTACTCTAAATTTGGCATTTTCCATT
1 AAGCATCACACCTCTATATTTTACTCTAAATTTGGCATTTTCCATT
1886833 AAGCATCACACCTCTATATTTTACTCTAAATTTGGCATTTTCCATT
1 AAGCATCACACCTCTATATTTTACTCTAAATTTGGCATTTTCCATT
1886879 AA
1 AA
1886881 TCTAATCATC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.40
Consensus pattern (46 bp):
AAGCATCACACCTCTATATTTTACTCTAAATTTGGCATTTTCCATT
Found at i:1887802 original size:24 final size:24
Alignment explanation
Indices: 1887771--1887824 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
1887761 CCTATCTCTC
*
1887771 TTTTTA-TT-TTTATTTTTTGAATAT
1 TTTTTATTTCTTTAATTTTT-AAT-T
1887795 TTTTTATTTCTTTAATTTTTAATT
1 TTTTTATTTCTTTAATTTTTAATT
1887819 TTTTTA
1 TTTTTA
1887825 ATATATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 13 0.48
25 5 0.19
26 9 0.33
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTATTTCTTTAATTTTTAATT
Found at i:1887812 original size:16 final size:16
Alignment explanation
Indices: 1887793--1887826 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1887783 TTTTTTGAAT
*
1887793 ATTTTTTATTTCTTTA
1 ATTTTTAATTTCTTTA
*
1887809 ATTTTTAATTTTTTTA
1 ATTTTTAATTTCTTTA
1887825 AT
1 AT
1887827 ATATATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTAATTTCTTTA
Found at i:1888380 original size:42 final size:42
Alignment explanation
Indices: 1888330--1888540 Score: 135
Period size: 42 Copynumber: 5.0 Consensus size: 42
1888320 GTAAACTTAG
* * *
1888330 GGAAATAAAAGCCTCTAAGGTCAAAGCCGACAGGCAGAATGA
1 GGAAATAAAAGCCTCCAAGATCAAAGCCGACAGACAGAATGA
* *
1888372 GGAAATAAAAGTCTCCAAGATCAAAGCCGACAGACAGACTGA
1 GGAAATAAAAGCCTCCAAGATCAAAGCCGACAGACAGAATGA
** * * * * *
1888414 GG-GTTGAAAAGTCTCCAGGGAT-GAAGCCGACAGGCAGACTGA
1 GGAAAT-AAAAGCCTCCA-AGATCAAAGCCGACAGACAGAATGA
** * * ** * *
1888456 GG-GTTGAAAAGTCTCCAGGGA-CAAAGCCGACAGGTAGACTAA
1 GGAAAT-AAAAGCCTCCA-AGATCAAAGCCGACAGACAGAATGA
* * * *
1888498 AGAAA-AAAAGTCTCCAGGATCAAAGCCGACAGACAGACTGA
1 GGAAATAAAAGCCTCCAAGATCAAAGCCGACAGACAGAATGA
1888539 GG
1 GG
1888541 GTTGAAAAGT
Statistics
Matches: 144, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
40 3 0.02
41 31 0.22
42 107 0.74
43 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.12
Consensus pattern (42 bp):
GGAAATAAAAGCCTCCAAGATCAAAGCCGACAGACAGAATGA
Found at i:1888566 original size:42 final size:42
Alignment explanation
Indices: 1888353--1889008 Score: 780
Period size: 42 Copynumber: 15.5 Consensus size: 42
1888343 TCTAAGGTCA
* * ** * * *
1888353 AAGCCGACAGGCAGAATGAGGAAATAAAAGTCTCCA-AGATCA
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGA-CG
* * * *
1888395 AAGCCGACAGACAGACTGAGGGTTGAAAAGTCTCCAGGGATG
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
* * *
1888437 AAGCCGACAGGCAGACTGAGGGTTGAAAAGTCTCCAGGGACA
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
* * * * *
1888479 AAGCCGACAGGTAGACTAA-AGAAAAAAAGTCTCCA-GGATCA
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGA-CG
* * *
1888520 AAGCCGACAGACAGACTGAGGGTTGAAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
* * *
1888562 AAGCCGACAGGCAGACTAAGGGAAGGAAAAAAAAGTCTCCAGGGTCA
1 AAGCCGACAGGCAGACTAAGGGTA-G----AAAAGTCTCCAGGGACG
* *
1888609 AAGCCGACAGGCAGACTGAGGGTTGAAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
* * *
1888651 AAGCCGACAGGTAGACTAAGGGAAGGAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
* *
1888693 AAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
*
1888735 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAGGGACG
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
* * *
1888777 AAGCCGACAGGTAGACTAAGGGAAGGAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
* * * *
1888819 AAGCCGACAGGTAGACTAAGGGTAGAAAAGTCTCCGGGGTCA
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
* * *
1888861 AAGCCGACAGGTAGACTAAGGGAAGGAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
* * * *
1888903 AAGCCGACAGGTAGACTAAGGGTAGAAAAGTATCC-GAGGTCA
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAG-GGACG
*
1888945 AAGCCGACAGGTAGACTAAGGGTAGAAAAGTCTCCAGGGACG
1 AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
1888987 AAGCCGACAGGCAGACTAAGGG
1 AAGCCGACAGGCAGACTAAGGG
1889009 AAAACAAAAA
Statistics
Matches: 534, Mismatches: 69, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
40 3 0.01
41 31 0.06
42 456 0.85
43 7 0.01
46 1 0.00
47 36 0.07
ACGTcount: A:0.37, C:0.20, G:0.32, T:0.11
Consensus pattern (42 bp):
AAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCCAGGGACG
Found at i:1901459 original size:16 final size:16
Alignment explanation
Indices: 1901440--1901470 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1901430 TAGATAAAAT
*
1901440 TTTTTTTATTATTTTA
1 TTTTGTTATTATTTTA
1901456 TTTTGTTATTATTTT
1 TTTTGTTATTATTTT
1901471 TATGGAAATC
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:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTGTTATTATTTTA
Found at i:1901884 original size:46 final size:46
Alignment explanation
Indices: 1901832--1901925 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
1901822 CAATAAAATC
*
1901832 AAGCATCATACCTCTATATTTTACTCTAAATTTGGCATTTTCCATT
1 AAGCATCACACCTCTATATTTTACTCTAAATTTGGCATTTTCCATT
1901878 AAGCATCACACCTCTATATTTTACTCTAAATTTGGCATTTTCCATT
1 AAGCATCACACCTCTATATTTTACTCTAAATTTGGCATTTTCCATT
1901924 AA
1 AA
1901926 TCTAATCATC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.41
Consensus pattern (46 bp):
AAGCATCACACCTCTATATTTTACTCTAAATTTGGCATTTTCCATT
Found at i:1902180 original size:13 final size:13
Alignment explanation
Indices: 1902162--1902189 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1902152 CTTGCTGCTG
1902162 TTTTTTTTTCTCC
1 TTTTTTTTTCTCC
1902175 TTTTTTTTTCTCC
1 TTTTTTTTTCTCC
1902188 TT
1 TT
1902190 GCCATGAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTCTCC
Found at i:1902880 original size:24 final size:25
Alignment explanation
Indices: 1902843--1902899 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
1902833 TTATTTTGAT
*
1902843 TTTTTGAATATTTTTTATTTATTTA-A
1 TTTTT-AATATTTTTTA-ATATTTATA
1902869 TTTTTAAT-TTTTTTAATATTTATA
1 TTTTTAATATTTTTTAATATTTATA
1902893 TTTTTAA
1 TTTTTAA
1902900 AAAATTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.21
24 15 0.52
25 3 0.10
26 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTTAATATTTTTTAATATTTATA
Found at i:1902896 original size:16 final size:16
Alignment explanation
Indices: 1902841--1902897 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
1902831 TTTTATTTTG
*
1902841 ATTTTTTGAATATTTTTT
1 ATTTTTT-AATA-TTTAT
*
1902859 ATTTATTTAATTTTTA-
1 ATTT-TTTAATATTTAT
1902875 ATTTTTTTAATATTTAT
1 A-TTTTTTAATATTTAT
1902892 ATTTTT
1 ATTTTT
1902898 AAAAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
16 16 0.48
17 7 0.21
18 7 0.21
19 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
ATTTTTTAATATTTAT
Found at i:1904655 original size:17 final size:18
Alignment explanation
Indices: 1904635--1904669 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1904625 TTTTTTTACT
*
1904635 TAAAA-TATTTTTAATTA
1 TAAAATTATCTTTAATTA
1904652 TAAAATTATCTTTAATTA
1 TAAAATTATCTTTAATTA
1904670 CTATTAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAAATTATCTTTAATTA
Found at i:1904882 original size:18 final size:18
Alignment explanation
Indices: 1904861--1904907 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
1904851 AAACTTATCT
1904861 TTAATTTA-ATTATATATA
1 TTAATTTATATTA-ATATA
1904879 TTAACTTTGATATTAATATA
1 TTAA-TTT-ATATTAATATA
*
1904899 TTATTTTAT
1 TTAATTTAT
1904908 TTTATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.24
19 6 0.24
20 9 0.36
21 4 0.16
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TTAATTTATATTAATATA
Found at i:1904886 original size:24 final size:23
Alignment explanation
Indices: 1904859--1904903 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
1904849 TTAAACTTAT
1904859 CTTTAAT-TTAATTATATATATTAA
1 CTTTAATATTAA-TATAT-TATTAA
*
1904883 CTTTGATATTAATATATTATT
1 CTTTAATATTAATATATTATT
1904904 TTATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (23 bp):
CTTTAATATTAATATATTATTAA
Found at i:1905187 original size:24 final size:23
Alignment explanation
Indices: 1905145--1905193 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1905135 ACACTAAATT
*
1905145 TTTAAATAAAAATGATTAATTAA
1 TTTAAATAAAAATGATTAATAAA
1905168 TTTAAATAAAAAT-ATTTTAATAAA
1 TTTAAATAAAAATGA--TTAATAAA
1905192 TT
1 TT
1905194 CATTTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 1 0.04
23 13 0.57
24 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TTTAAATAAAAATGATTAATAAA
Found at i:1905294 original size:16 final size:16
Alignment explanation
Indices: 1905269--1905299 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1905259 AGAATATAAC
1905269 TTAATAATAATTTAAT
1 TTAATAATAATTTAAT
*
1905285 TTAATCATAATTTAA
1 TTAATAATAATTTAA
1905300 AATAATACTA
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATAATAATTTAAT
Found at i:1905664 original size:6 final size:7
Alignment explanation
Indices: 1905645--1905673 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1905635 AATATATTAT
1905645 TTAAAAA
1 TTAAAAA
1905652 TTAAAAA
1 TTAAAAA
1905659 TTAAAAA
1 TTAAAAA
1905666 TTAAAAA
1 TTAAAAA
1905673 T
1 T
1905674 AATTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:1905775 original size:13 final size:13
Alignment explanation
Indices: 1905757--1905782 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1905747 GTTTACCAAT
1905757 CTATTTAAAAATA
1 CTATTTAAAAATA
1905770 CTATTTAAAAATA
1 CTATTTAAAAATA
1905783 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
CTATTTAAAAATA
Found at i:1911148 original size:20 final size:20
Alignment explanation
Indices: 1911123--1911198 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
1911113 AAAAAGATAG
*
1911123 AATGTATCAATACATTGAAA
1 AATGTATCGATACATTGAAA
* *
1911143 AATGTATCGATACATTCATA
1 AATGTATCGATACATTGAAA
* *
1911163 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGAAA
1911183 AATGTATCGATACATT
1 AATGTATCGATACATT
1911199 TGGGTAAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:1911933 original size:28 final size:28
Alignment explanation
Indices: 1911756--1912631 Score: 842
Period size: 28 Copynumber: 30.3 Consensus size: 28
1911746 TTTTTTAAAA
* *
1911756 AAAGGGTGCTACTAACTTGTGTGGGCTTTG
1 AAAGGGTGCCACTGAC-T-TGTGGGCTTTG
* *
1911786 AAAAGAGTTGCCACCGACTCGTGTGGGCTTTG
1 -AAAG-GGTGCCACTGACT--TGTGGGCTTTG
* * *
1911818 AAAAGAGTTGCCACCGACTCGTGTGGGCTTTAA
1 -AAAG-GGTGCCACTGACT--TGTGGGCTTT-G
* *
1911851 AAAGAGTTACCACT-AGCTTGTGGGCTTTG
1 AAAG-GGTGCCACTGA-CTTGTGGGCTTTG
* * * *
1911880 AAAAGAGTGTCACTGATTTGTAGGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
1911909 AAAGGGTGCCATTTACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
1911937 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
** * *
1911965 AAAAAAGTGCCATTGACTTGTGCGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * *
1911994 AAAGAGTGCTATTAACTTATGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
1912022 AAAAGAGTGCCACTGA-TATATGGGCTTTG
1 -AAAGGGTGCCACTGACT-TGTGGGCTTTG
* *
1912051 AAAGAGTGCCACTGACTTGTGGGCATTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
1912079 AAAGGGTGCCACTGACTTGTGTGGGCTTTG
1 AAAGGGTGCCACTGAC-T-TGTGGGCTTTG
* *
1912109 AAAAGGTGCCACTGACTTGTGAGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
*
1912137 AAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
**
1912165 AAAGGGTGCCACTGACTCATGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
1912193 AAAAGAGTG-CACTGACTGGTGGGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
* * * *
1912221 AAAGGGT-CTTACTAACTCGTGAGCTTTG
1 AAAGGGTGC-CACTGACTTGTGGGCTTTG
* *
1912249 AAAAGAGTGCCACAGACTTGTGGGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
1912278 AAAAGAGTGCCACTGACTTAAGTGAGCTTTG
1 -AAAGGGTGCCACTGACTT--GTGGGCTTTG
* *
1912309 AAAGGGTACCACTGACTTATGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
1912337 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
** *
1912365 AAAATAGTGTCACTGACTTGTGGGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
*
1912394 AAAGGGTGCCACTGACTTACTTGGGCTTTG
1 AAAGGGTGCCACTGACTT--GTGGGCTTTG
* * *
1912424 AAGGGGTGCCATTGACTTGCGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* *
1912452 AAAGAGTGCCACTGACTTGTGAGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
*
1912480 AAAGGGTGCCACTGACTGGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
*
1912508 AAAGGGTGCCACTGACTCGTGGGCTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
1912536 AAAAGCGTGTCACTGACTTGTGAGCTTTG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
** * *
1912565 AAAAAAGTGCCACTGACTTATGGGCTTTA
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1912594 AAAGGGTGCCACTGACTTACGTGGGCTTTG
1 AAAGGGTGCCACTGACTT--GTGGGCTTTG
*
1912624 AAAAGGTG
1 AAAGGGTG
1912632 GCTTTGAAAG
Statistics
Matches: 714, Mismatches: 106, Indels: 51
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.01
28 350 0.49
29 181 0.25
30 97 0.14
31 15 0.02
32 65 0.09
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:1912200 original size:200 final size:198
Alignment explanation
Indices: 1911775--1912788 Score: 1004
Period size: 200 Copynumber: 5.1 Consensus size: 198
1911765 TACTAACTTG
* * *
1911775 TGTGGGCTTTGAAAAGAGTTGCCACCGACTCGT-GTGGGCTTTGAAAAGAGTTGCCACCGACTCG
1 TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TACTGGGCTTTG-AAAGAG-TGCCACTGA-T--
* * * * * *
1911839 TGTGGGCTTTAAAAAGAGTTACCACT-AGCTTGTGGGCTTTGAAAAGAGTGTCACTGA-TTTGTA
58 TGTGGGCTTT-GAAAGAG-TGCCACTGA-CTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGGTG
* * *
1911902 GGCTTTGAAAGGGTGCCATTTACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAA
119 GGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACTGACTTGTGGGCTTTGAA
*
1911967 AAAAGTGCCATTGACT
183 AAAAGTGCCACTGACT
* * * * *
1911983 TGTGCGCTTTG-AAAGAGTGCTATTAACTTA-TGGGCTTTGAAAAGAGTGCCACTGATATATGGG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTACTGGGCTTTG-AAAGAGTGCCACTGAT-TGTGGG
*
1912046 CTTTGAAAGAGTGCCACTGACTTGTGGGCATTGAAAGGGTGCCACTGACTTGTGTGGGCTTTGAA
64 CTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG-GTGGGCTTTGAA
* * **
1912111 AAGGTGCCACTGACTTGTGAGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCC
128 AGGGTGCCACTGACTTGTGGGCTTTGAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAAAGTGCC
1912175 ACTGACT
192 ACTGACT
** ** * * * * *
1912182 CATGGGCTTTGAAAAGAGTG-CACTGAC-TGGTGGGCTTTGAAAGGGT-CTTACTAACTCGTGAG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTACTGGGCTTTGAAAGAGTGC-CACTGA-TTGTGGG
* * * *
1912244 CTTTGAAAAGAGTGCCACAGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTAAGTGAGCTTTG
64 CTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTT-GGTGGGCTTTG
* * *
1912309 AAAGGGTACCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAATAGTG
126 AAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GGTGCCACTGACTTGTGGGCTTTGAAAAAAGTG
*
1912374 TCACTGACT
190 CCACTGACT
* * * * *
1912383 TGTGGGCTTTG-AAAGGGTGCCACTGACTTACTTGGGCTTTGAAGGGGTGCCATTGACTTGCGGG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTAC-TGGGCTTTGAAAGAGTGCCACTGA-TTGTGGG
*
1912447 CTTTGAAAGAGTGCCACTGACTTGTGAGCTTTGAAAGGGTGCCACTGAC-TGGTGGGCTTTGAAA
64 CTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGGTGGGCTTTGAAA
* * *
1912511 GGGTGCCACTGACTCGTGGGCTTTGAAAAGCGTGTCACTGACTTGTGAGCTTTGAAAAAAGTGCC
129 GGGTGCCACTGACTTGTGGGCTTTG-AAAG-GTGCCACTGACTTGTGGGCTTTGAAAAAAGTGCC
1912576 ACTGACT
192 ACTGACT
* *
1912583 TATGGGCTTT-AAAAGGGTGCCACTGACTTACGTGGGCTTTG-AA-A-----A--G---GT-GGC
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTAC-TGGGCTTTGAAAGAGTGCCACTGATTGTGGGC
* * * * *
1912634 TTTGAAAGGGTGCCACTAACTTGTGAGCTTTGAAAAGGTGCCACTAAC-TGGTGGGCTTTGAAAG
65 TTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGGTGGGCTTTGAAAG
* * ** *
1912698 AGTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGGTGTCAC
130 GGTGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAAAGTGCCAC
1912762 TGACT
194 TGACT
* *
1912767 GGTGGGCTTTG-AAAGGGTGCCA
1 TGTGGGCTTTGAAAAGAGTGCCA
1912789 TTATCAGTAA
Statistics
Matches: 694, Mismatches: 89, Indels: 70
0.81 0.10 0.08
Matches are distributed among these distances:
184 34 0.05
185 24 0.03
186 86 0.12
187 1 0.00
191 1 0.00
193 1 0.00
197 1 0.00
198 32 0.05
199 118 0.17
200 235 0.34
201 56 0.08
202 28 0.04
203 36 0.05
204 18 0.03
206 7 0.01
207 6 0.01
208 10 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (198 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACTTACTGGGCTTTGAAAGAGTGCCACTGATTGTGGGCT
TTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGGTGGGCTTTGAAAGG
GTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAAAAGTGCCACTG
ACT
Found at i:1912628 original size:57 final size:56
Alignment explanation
Indices: 1911775--1912626 Score: 825
Period size: 57 Copynumber: 14.8 Consensus size: 56
1911765 TACTAACTTG
* *
1911775 TGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTT-AAAAGAG-TGCCACTGACT--TGTGGGCTTTG-AAAGAG-TGCCACTGACT
* * *
1911837 CGTGTGGGCTTTAAAAAGAGTTACCACT-AGCTTGTGGGCTTTGAAAAGAGTGTCACTGATT
1 --TGTGGGCTTT-AAAAGAG-TGCCACTGA-CTTGTGGGCTTTG-AAAGAGTGCCACTGACT
* * * * * *
1911898 TGTAGGCTTTGAAAGGGTGCCATTTACTTGTGGGCTTTGAAAG-GATGCCACTAACT
1 TGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCACTGACT
* * * * * *
1911954 TGTGGGCTTTGAAAAAAGTGCCATTGACTTGTGCGCTTTGAAAGAGTGCTATTAACT
1 TGTGGGCTTT-AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
* *
1912011 TATGGGCTTTGAAAAGAGTGCCACTGA-TATATGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTT-AAAAGAGTGCCACTGACT-TGTGGGCTTTGAAAGAGTGCCACTGACT
* * *
1912068 TGTGGGCATTGAAAGGGTGCCACTGACTTGTGTGGGCTTTGAAA-AGGTGCCACTGACT
1 TGTGGGCTTTAAAAGAGTGCCACTGAC-T-TGTGGGCTTTGAAAGA-GTGCCACTGACT
* * *
1912126 TGTGAGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
** * * * *
1912182 CATGGGCTTTGAAAAGAGTG-CACTGACTGGTGGGCTTTGAAAGGGT-CTTACTAACT
1 TGTGGGCTTT-AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGC-CACTGACT
* * *
1912238 CGTGAGCTTTGAAAAGAGTGCCACAGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTT-AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACT
* * * * * *
1912296 TAAGTGAGCTTTGAAAGGGTACCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACT
1 T--GTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
* * *
1912354 TGTGGGCTTTGAAAATAGTGTCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTT-AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
* * * * * *
1912411 TACTTGGGCTTTGAAGGGGTGCCATTGACTTGCGGGCTTTGAAAGAGTGCCACTGACT
1 T--GTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
* * * * *
1912469 TGTGAGCTTTGAAAGGGTGCCACTGACTGGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
* * * * *
1912525 CGTGGGCTTTGAAAAGCGTGTCACTGACTTGTGAGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTT-AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACT
* *
1912583 TATGGGCTTTAAAAGGGTGCCACTGACTTACGTGGGCTTTGAAA
1 TGTGGGCTTTAAAAGAGTGCCACTGACTT--GTGGGCTTTGAAA
1912627 AGGTGGCTTT
Statistics
Matches: 666, Mismatches: 98, Indels: 54
0.81 0.12 0.07
Matches are distributed among these distances:
55 2 0.00
56 182 0.27
57 219 0.33
58 151 0.23
59 51 0.08
60 9 0.01
61 8 0.01
62 18 0.03
63 1 0.00
64 25 0.04
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (56 bp):
TGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
Found at i:1912650 original size:44 final size:42
Alignment explanation
Indices: 1912587--1912673 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 42
1912577 CTGACTTATG
* *
1912587 GGCTTTAAAAGGGTGCCACTGACTTACGTGGGCTTTGAAAAGGT
1 GGCTTTAAAAGGGTGCCACTAACTT--GTGAGCTTTGAAAAGGT
*
1912631 GGCTTTGAAAGGGTGCCACTAACTTGTGAGCTTTGAAAAGGT
1 GGCTTTAAAAGGGTGCCACTAACTTGTGAGCTTTGAAAAGGT
1912673 G
1 G
1912674 CCACTAACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 17 0.43
44 23 0.57
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (42 bp):
GGCTTTAAAAGGGTGCCACTAACTTGTGAGCTTTGAAAAGGT
Found at i:1912673 original size:28 final size:28
Alignment explanation
Indices: 1912631--1912788 Score: 194
Period size: 28 Copynumber: 5.6 Consensus size: 28
1912621 TTGAAAAGGT
* * *
1912631 GGCTTTGAAAGGGTGCCACTAACTTGTG
1 GGCTTTGAAAAGGTGCCACTGACTGGTG
* *
1912659 AGCTTTGAAAAGGTGCCACTAACTGGTG
1 GGCTTTGAAAAGGTGCCACTGACTGGTG
*
1912687 GGCTTTG-AAAGAGTGCCACTGACTCGTG
1 GGCTTTGAAAAG-GTGCCACTGACTGGTG
*
1912715 GGCTTTG-AAAGGATGCCACTGACTTGTG
1 GGCTTTGAAAAGG-TGCCACTGACTGGTG
* *
1912743 GGCTTTGAAAGGGTGTCACTGACTGGTG
1 GGCTTTGAAAAGGTGCCACTGACTGGTG
*
1912771 GGCTTTGAAAGGGTGCCA
1 GGCTTTGAAAAGGTGCCA
1912789 TTATCAGTAA
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
27 5 0.04
28 107 0.92
29 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.27
Consensus pattern (28 bp):
GGCTTTGAAAAGGTGCCACTGACTGGTG
Found at i:1912720 original size:56 final size:56
Alignment explanation
Indices: 1912631--1912788 Score: 219
Period size: 56 Copynumber: 2.8 Consensus size: 56
1912621 TTGAAAAGGT
* * *
1912631 GGCTTTGAAAGGGTGCCACTAACTTGTGAGCTTTGAAAAGGTGCCACTAACTGGTG
1 GGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACTGGTG
* * *
1912687 GGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTG-AAAGGATGCCACTGACTTGTG
1 GGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGG-TGCCACTAACTGGTG
* * *
1912743 GGCTTTGAAAGGGTGTCACTGACTGGTGGGCTTTGAAAGGGTGCCA
1 GGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCA
1912789 TTATCAGTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
55 5 0.06
56 81 0.90
57 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.27
Consensus pattern (56 bp):
GGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTAACTGGTG
Found at i:1912772 original size:84 final size:84
Alignment explanation
Indices: 1912631--1912788 Score: 253
Period size: 84 Copynumber: 1.9 Consensus size: 84
1912621 TTGAAAAGGT
*
1912631 GGCTTTGAAAGGGTGCCACTAACTTGTGAGCTTTGAAAAGGTGCCACTAACTGGTGGGCTTTGAA
1 GGCTTTGAAAGGATGCCACTAACTTGTGAGCTTTGAAAAGGTGCCACTAACTGGTGGGCTTTGAA
1912696 AGAGTGCCACTGACTCGTG
66 AGAGTGCCACTGACTCGTG
* * * * *
1912715 GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTGACTGGTGGGCTTTGAA
1 GGCTTTGAAAGGATGCCACTAACTTGTGAGCTTTGAAAAGGTGCCACTAACTGGTGGGCTTTGAA
*
1912780 AGGGTGCCA
66 AGAGTGCCA
1912789 TTATCAGTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.27
Consensus pattern (84 bp):
GGCTTTGAAAGGATGCCACTAACTTGTGAGCTTTGAAAAGGTGCCACTAACTGGTGGGCTTTGAA
AGAGTGCCACTGACTCGTG
Found at i:1913763 original size:2 final size:2
Alignment explanation
Indices: 1913756--1913782 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1913746 AGATAATGTT
1913756 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1913783 GTATTGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1920760 original size:19 final size:19
Alignment explanation
Indices: 1920722--1920760 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1920712 GAATCTGAAG
* *
1920722 AGTTGAAGTTACACGACTA
1 AGTTAAAGTTACACCACTA
*
1920741 AGTTAAAGTTACACCTCTA
1 AGTTAAAGTTACACCACTA
1920760 A
1 A
1920761 TCTTAAGGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (19 bp):
AGTTAAAGTTACACCACTA
Found at i:1924996 original size:2 final size:2
Alignment explanation
Indices: 1924983--1925031 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
1924973 ATTCTCAATG
* * * * *
1924983 AT AT AA AT AT AT AT AT AT AT AT AT AT CT AA AC AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1925025 AT AT AT A
1 AT AT AT A
1925032 CACACAATTA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:1925270 original size:2 final size:2
Alignment explanation
Indices: 1925263--1925297 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1925253 TGTACTGCAA
1925263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1925298 AAGGATTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1927190 original size:2 final size:2
Alignment explanation
Indices: 1927183--1927214 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1927173 TTAGATTAAA
1927183 AT AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1927215 GTTATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1927198 original size:12 final size:12
Alignment explanation
Indices: 1927177--1927214 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1927167 TCGACATTAG
*
1927177 ATTAAAATATAT
1 ATTAATATATAT
1927189 ATTAATATATAT
1 ATTAATATATAT
1927201 A-TATATATATAT
1 ATTA-ATATATAT
1927213 AT
1 AT
1927215 GTTATTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 2 0.09
12 21 0.91
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTAATATATAT
Found at i:1930656 original size:50 final size:51
Alignment explanation
Indices: 1930559--1930656 Score: 135
Period size: 50 Copynumber: 1.9 Consensus size: 51
1930549 ATAACTTTTA
* * * * *
1930559 TTGTAGCTAATCTTTTGTCTCTTATATTGATAAGATATGCTAATCTCTTTG
1 TTGTAACTAATCTTTCGTCTCTTATATAGATAAGAAAAGCTAATCTCTTTG
*
1930610 TTGTAACTAATCTTTCGTCT-TTATATAGATAAGAAAAGCTAGTCTCT
1 TTGTAACTAATCTTTCGTCTCTTATATAGATAAGAAAAGCTAATCTCT
1930657 GTCTCTTGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
50 23 0.56
51 18 0.44
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (51 bp):
TTGTAACTAATCTTTCGTCTCTTATATAGATAAGAAAAGCTAATCTCTTTG
Found at i:1931120 original size:18 final size:18
Alignment explanation
Indices: 1931097--1931137 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1931087 AACTTAAATT
*
1931097 AAATA-TAATTTAAATTAA
1 AAATATTAATTT-AATAAA
1931115 AAATATTAATTTAATAAA
1 AAATATTAATTTAATAAA
1931133 AAATA
1 AAATA
1931138 AATATTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATATTAATTTAATAAA
Found at i:1931164 original size:20 final size:20
Alignment explanation
Indices: 1931139--1931196 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
1931129 TAAAAAATAA
1931139 ATATTACTTATGATAATCTT
1 ATATTACTTATGATAATCTT
1931159 ATATTACTT-T-AT-A--TT
1 ATATTACTTATGATAATCTT
* *
1931174 ATTTTATTTATGATAATCTT
1 ATATTACTTATGATAATCTT
1931194 ATA
1 ATA
1931197 ATTTAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
15 9 0.30
16 1 0.03
17 3 0.10
18 3 0.10
19 1 0.03
20 13 0.43
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATTACTTATGATAATCTT
Found at i:1932616 original size:167 final size:163
Alignment explanation
Indices: 1932424--1932793 Score: 413
Period size: 167 Copynumber: 2.2 Consensus size: 163
1932414 TTTTCATTGT
* * * * * * **
1932424 TTTAAAATTTTTAAAATTTATCAAATATTATTAATTAATCACCATTTAGGCAGCTTTGAAACTTT
1 TTTATAATTTTTAAAATTCATCAAATATCATTATTTAATC-CCATTAAAGCAGCTTTGAAA-AAT
* * * *
1932489 TCTTTTATTTCATGAGTTTTTCATTTTTTTCTTAAAATTTTCATATTTCCAAAATATGGAGTTTT
64 TCTTTTATTTCATGAATTTTTCA-TTTTTTCTTAAAATTCTCATATTTCCAAAATACGGAATTTT
* * * *
1932554 CTACT-CTGTAATATATTTT-TGAGGGCATTTTTGTT-G
128 CTACTAC-GTAA-ATATTTTCGGAGAG-ACTTTTCTTAG
* * * *
1932590 ATTTATAATTTTTAAAATTGATCAAATATCATCATTTAATTCGCATTAAATCAGCTTTGAAAAAT
1 -TTTATAATTTTTAAAATTCATCAAATATCATTATTTAA-TCCCATTAAAGCAGCTTTGAAAAAT
* * * *
1932655 TCTTTTATTTCATGAATTTTTCATTTTTTCTTGAAATTCTCTTATTTTCGAAATACGGAATTTTC
64 TCTTTTATTTCATGAATTTTTCATTTTTTCTTAAAATTCTCATATTTCCAAAATACGGAATTTTC
1932720 TACTACGTAAATATTTTCGGAGAGACTTTTCTTAG
129 TACTACGTAAATATTTTCGGAGAGACTTTTCTTAG
* *
1932755 TTTATAATTTTTTAAATACATCAAATATCATTATTTAAT
1 TTTATAATTTTTAAAATTCATCAAATATCATTATTTAAT
1932794 TTATAGTAAA
Statistics
Matches: 172, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
163 1 0.01
164 48 0.28
165 48 0.28
166 24 0.14
167 49 0.28
168 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.49
Consensus pattern (163 bp):
TTTATAATTTTTAAAATTCATCAAATATCATTATTTAATCCCATTAAAGCAGCTTTGAAAAATTC
TTTTATTTCATGAATTTTTCATTTTTTCTTAAAATTCTCATATTTCCAAAATACGGAATTTTCTA
CTACGTAAATATTTTCGGAGAGACTTTTCTTAG
Found at i:1932972 original size:166 final size:163
Alignment explanation
Indices: 1932348--1933014 Score: 478
Period size: 166 Copynumber: 4.0 Consensus size: 163
1932338 ATTCCATGAG
* * * * * * *
1932348 TTTTTT-TTTAAATTCCTCTTATTTTCA-AAATAC-GAAGCTTTCTTCTCCATAATTTTTTTGGA
1 TTTTTTCTTGAAATT-CTCTTATTTT-AGAAATACGGAA-TTTTCTACTACATAAATATTTTCGA
* * * * * * * * * *
1932410 AG-GATTTTCATTGTTTTAAAATTTTTAAAATTTATCAAATATTATTAATTAA-TCACCATTTAG
63 AGAGATTTTTATTGGTTTATAATTTTTAAAATTCATCAAATATCATCATTTAATTTA-CATTAAA
* * * * *
1932473 GCAGCTTTGAAACTTTTCTTTTATTTCATGAGTTTTTCA
127 TCAGTTTTGAAA--ATTCATTTATTTCATGAATTTTTCA
* * * * * * * *
1932512 TTTTTTTCTTAAAATTTTCATATTTCCA-AAATATGGAGTTTTCTACT-CTGTAATATATTTTTG
1 -TTTTTTCTTGAAATTCTCTTATTT-TAGAAATACGGAATTTTCTACTAC-ATAA-ATATTTTCG
* * * * **
1932575 -AGGGCATTTTTGTTGATTTATAATTTTTAAAATTGATCAAATATCATCATTTAATTCGCATTAA
62 AAGAG-ATTTTTATTGGTTTATAATTTTTAAAATTCATCAAATATCATCATTTAATTTACATTAA
* *
1932639 ATCAGCTTTGAAAAATTCTTTTATTTCATGAATTTTTCA
126 ATCAGTTTTG-AAAATTCATTTATTTCATGAATTTTTCA
* * *
1932678 TTTTTTCTTGAAATTCTCTTATTTTCGAAATACGGAATTTTCTACTACGTAAATATTTTCGGAGA
1 TTTTTTCTTGAAATTCTCTTATTTTAGAAATACGGAATTTTCTACTACATAAATATTTTCGAAGA
* * * * * * * *
1932743 GACTTTTCTTAGTTTATAATTTTTTAAATACATCAAATATCATTATTTAATTTATAGTAAATCAG
66 GATTTTTATTGGTTTATAATTTTTAAAATTCATCAAATATCATCATTTAATTTACATTAAATCAG
1932808 TTTTGCAAAATTCATTTATTGTCAT-AAGTTTATT-A
131 TTTTG-AAAATTCATTTATT-TCATGAA-TTT-TTCA
* * * * * * *
1932843 TTTTTTGTTTGAAATTCTCTTGTTTTAGAGAA-ACGGAGTTTTCTTCTCCATAATTTTTTTC-AA
1 TTTTTT-CTTGAAATTCTCTTATTTTAGA-AATACGGAATTTTCTACTACATAAATATTTTCGAA
* * *
1932906 GATGATTTTTATTGGTTTAAAATTTTTAAAATTCATCTAATATGC-TCATTAAATTTACATTAAA
64 GA-GATTTTTATTGGTTTATAATTTTTAAAATTCATCAAATAT-CATCATTTAATTTACATTAAA
* * **
1932970 TCAGTTTTGAAAATTTTAAATTATTTCATGAATTTTGAA
127 TCAGTTTTGAAAA--TTCATTTATTTCATGAATTTTTCA
1933009 TTTTTT
1 TTTTTT
1933015 TATATATCGA
Statistics
Matches: 405, Mismatches: 74, Indels: 45
0.77 0.14 0.09
Matches are distributed among these distances:
164 80 0.20
165 98 0.24
166 155 0.38
167 67 0.17
168 5 0.01
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (163 bp):
TTTTTTCTTGAAATTCTCTTATTTTAGAAATACGGAATTTTCTACTACATAAATATTTTCGAAGA
GATTTTTATTGGTTTATAATTTTTAAAATTCATCAAATATCATCATTTAATTTACATTAAATCAG
TTTTGAAAATTCATTTATTTCATGAATTTTTCA
Found at i:1936117 original size:13 final size:13
Alignment explanation
Indices: 1936099--1936124 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1936089 ATACTTCAAA
1936099 GTATCGATACATT
1 GTATCGATACATT
1936112 GTATCGATACATT
1 GTATCGATACATT
1936125 ATGGTTGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1936231 original size:19 final size:19
Alignment explanation
Indices: 1936199--1936259 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
1936189 GCTTTGTATC
*
1936199 GATACATTGCATCGATACAT
1 GATA-ATTGTATCGATACAT
* * *
1936219 GTTTATTGTATCGATAAAT
1 GATAATTGTATCGATACAT
*
1936238 GGATAATTGTATCAATACAT
1 -GATAATTGTATCGATACAT
1936258 GA
1 GA
1936260 AACTGGCAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:1936321 original size:13 final size:13
Alignment explanation
Indices: 1936303--1936333 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1936293 CGATACATAG
*
1936303 TACATTGTATCGA
1 TACATTGTATCAA
1936316 TACATTGTATCAA
1 TACATTGTATCAA
1936329 TACAT
1 TACAT
1936334 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTGTATCAA
Found at i:1936800 original size:23 final size:23
Alignment explanation
Indices: 1936774--1936824 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1936764 CTTTAACTTC
1936774 ATCTAAAT-ATATATCCAACTCTA
1 ATCTAAATGA-ATATCCAACTCTA
**
1936797 ATCTACTTGAATATCCAACTCTA
1 ATCTAAATGAATATCCAACTCTA
1936820 ATCTA
1 ATCTA
1936825 CTTGAAGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (23 bp):
ATCTAAATGAATATCCAACTCTA
Found at i:1936825 original size:23 final size:23
Alignment explanation
Indices: 1936784--1936830 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1936774 ATCTAAATAT
1936784 ATATCCAACTCTAATCTACTTGA
1 ATATCCAACTCTAATCTACTTGA
1936807 ATATCCAACTCTAATCTACTTGA
1 ATATCCAACTCTAATCTACTTGA
1936830 A
1 A
1936831 GTAGACCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATCCAACTCTAATCTACTTGA
Found at i:1941423 original size:37 final size:35
Alignment explanation
Indices: 1941330--1941427 Score: 106
Period size: 37 Copynumber: 2.7 Consensus size: 35
1941320 CTAAAGATCT
**
1941330 AAGAATCCCTAAAATGGATCAAATTCAACAATTTG
1 AAGAATCCCTAATTTGGATCAAATTCAACAATTTG
* * *
1941365 AAGAATCCCTAATTTGAGATCAAATTCCAAGATTTTT
1 AAGAATCCCTAATTTG-GATCAAATT-CAACAATTTG
* *
1941402 AAGAATGCTTAAATTTGGATCAAATT
1 AAGAATCCCT-AATTTGGATCAAATT
1941428 TATTAAATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
35 14 0.26
36 9 0.17
37 24 0.45
38 6 0.11
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (35 bp):
AAGAATCCCTAATTTGGATCAAATTCAACAATTTG
Found at i:1941615 original size:17 final size:17
Alignment explanation
Indices: 1941593--1941626 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1941583 TGATTAAGTC
* *
1941593 ATTCAAAGACCCTTGAA
1 ATTCAAAAACACTTGAA
1941610 ATTCAAAAACACTTGAA
1 ATTCAAAAACACTTGAA
1941627 TTTGAGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (17 bp):
ATTCAAAAACACTTGAA
Found at i:1943332 original size:30 final size:29
Alignment explanation
Indices: 1943298--1943359 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
1943288 ATTTACATGC
1943298 TCATACA-TCTATTT-AGGACCAAATTAAATA
1 TCATACACTC-ATTTAAGG-CC-AATTAAATA
*
1943328 TCATACACTCATTTAAGGCCAATTAATTA
1 TCATACACTCATTTAAGGCCAATTAAATA
1943357 TCA
1 TCA
1943360 CAAGACCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 11 0.38
30 13 0.45
31 5 0.17
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.34
Consensus pattern (29 bp):
TCATACACTCATTTAAGGCCAATTAAATA
Found at i:1943369 original size:29 final size:27
Alignment explanation
Indices: 1943337--1943400 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
1943327 ATCATACACT
1943337 CATTTAAGGCCAATTAATTATCACAAGAC
1 CATTTAA-GCCAATT-ATTATCACAAGAC
* * *
1943366 CATTTATAGTCAATTATTATCACATGCC
1 CATTTA-AGCCAATTATTATCACAAGAC
1943394 CATTTAA
1 CATTTAA
1943401 AACTAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 17 0.55
29 12 0.39
30 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
CATTTAAGCCAATTATTATCACAAGAC
Found at i:1946538 original size:17 final size:17
Alignment explanation
Indices: 1946478--1946546 Score: 67
Period size: 17 Copynumber: 4.3 Consensus size: 17
1946468 AAAATTATCA
* *
1946478 AATTTAAACTCAAAAAT
1 AATTTAAACTTAAAATT
1946495 AATTTAAACTT---ATT
1 AATTTAAACTTAAAATT
*
1946509 CAA-TTAAATTTAAAATT
1 -AATTTAAACTTAAAATT
1946526 AATTTAAACTTAAAA-T
1 AATTTAAACTTAAAATT
1946542 AATTT
1 AATTT
1946547 GAATAAGATA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 9 0.21
15 2 0.05
16 8 0.19
17 24 0.56
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTTAAACTTAAAATT
Found at i:1951880 original size:50 final size:50
Alignment explanation
Indices: 1951562--1951877 Score: 508
Period size: 50 Copynumber: 6.3 Consensus size: 50
1951552 GTTGATTATC
* * * * *
1951562 CTTCATCAACCTTTGATAATAGAGAGAGGTGGTTGTAATTGTTGACGATT
1 CTTCACCAACCTTTGATAATAGAGAGAAGTGGCTATTATTGTTGACGATT
1951612 CTTCACCAACCTTTGATAATAGAGAGAAGTGGCTATTATTGTTGACGATT
1 CTTCACCAACCTTTGATAATAGAGAGAAGTGGCTATTATTGTTGACGATT
1951662 CTTCACCAACCTTTGATAATAGAGAGAAGTGGCTATTATTGTTGACGATT
1 CTTCACCAACCTTTGATAATAGAGAGAAGTGGCTATTATTGTTGACGATT
1951712 CTTCACCAACCTTTGATAATAGAGAGAAGTGGCTATTATTGTTGACGATT
1 CTTCACCAACCTTTGATAATAGAGAGAAGTGGCTATTATTGTTGACGATT
* * * *
1951762 CTTCACCAACTTTTGACAATAGAGAGAGGTGGCCATTATTGTTGACGATT
1 CTTCACCAACCTTTGATAATAGAGAGAAGTGGCTATTATTGTTGACGATT
* * *
1951812 CTTCACCAACCTTTGACAATAGAGAG-AGATGGCCATAATTGTTGACGATT
1 CTTCACCAACCTTTGATAATAGAGAGAAG-TGGCTATTATTGTTGACGATT
1951862 CTTCACCAACCTTTGA
1 CTTCACCAACCTTTGA
1951878 CAAATGTGGC
Statistics
Matches: 253, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
49 1 0.00
50 252 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (50 bp):
CTTCACCAACCTTTGATAATAGAGAGAAGTGGCTATTATTGTTGACGATT
Found at i:1956387 original size:50 final size:50
Alignment explanation
Indices: 1956312--1956493 Score: 276
Period size: 50 Copynumber: 3.6 Consensus size: 50
1956302 AGTTATTGCC
** * *
1956312 ATTGTTGATTATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTA
1 ATTGTTGACGATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
*
1956362 ATTGTTGACGACCCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCACT-
1 ATTGTTGACGATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCA-TA
*
1956412 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
1956462 ATTGTTGACGATTCTTCACCAGCCTTTGACAA
1 ATTGTTGACGATCCTTCACCAACCTTTGACAA
1956494 ATGTGACCAT
Statistics
Matches: 122, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
49 1 0.01
50 120 0.98
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (50 bp):
ATTGTTGACGATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:1956886 original size:14 final size:14
Alignment explanation
Indices: 1956867--1956894 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1956857 TTAATTATAA
1956867 AATATAAAAATATT
1 AATATAAAAATATT
1956881 AATATAAAAATATT
1 AATATAAAAATATT
1956895 TTTTAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAAAATATT
Found at i:1957556 original size:19 final size:20
Alignment explanation
Indices: 1957512--1957555 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1957502 TGACTTAGCA
* *
1957512 TAAAATAGTATTTTTTTAAT
1 TAAAATAATATATTTTTAAT
*
1957532 TAAAATAATATATTTTTATT
1 TAAAATAATATATTTTTAAT
1957552 TAAA
1 TAAA
1957556 TTTAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TAAAATAATATATTTTTAAT
Found at i:1957590 original size:22 final size:21
Alignment explanation
Indices: 1957552--1957604 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
1957542 TATTTTTATT
* *
1957552 TAAAT-TTAATTATAAAATATA
1 TAAATATTAATAAAAAAAT-TA
1957573 TAAATATTAATAAAAAAATTA
1 TAAATATTAATAAAAAAATTA
* *
1957594 TTAATAATAAT
1 TAAATATTAAT
1957605 GACAGTGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATTAATAAAAAAATTA
Found at i:1959275 original size:2 final size:2
Alignment explanation
Indices: 1959268--1959295 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1959258 TTCATTCAAT
1959268 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1959296 CACACAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1962827 original size:6 final size:6
Alignment explanation
Indices: 1962813--1962845 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1962803 CTTAACCTTT
*
1962813 AGCCCA AGCCTA AGCCCA AGCCCA AGCCCA AGC
1 AGCCCA AGCCCA AGCCCA AGCCCA AGCCCA AGC
1962846 TTAGCTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.33, C:0.45, G:0.18, T:0.03
Consensus pattern (6 bp):
AGCCCA
Found at i:1964640 original size:27 final size:26
Alignment explanation
Indices: 1964602--1964677 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 26
1964592 TGATAAGTTT
* *
1964602 AAAAATAGGTTGGAGTATCCCTTCAA
1 AAAAATGGGTTGGAGTATCCCCTCAA
*
1964628 AAAAATGGAGTTGGAGTATCCCCTCAG
1 AAAAATGG-GTTGGAGTATCCCCTCAA
* *
1964655 AAGAATGGGGTTGGAGTACCCCC
1 AAAAAT-GGGTTGGAGTATCCCC
1964678 GATGATGACA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.16
27 34 0.79
28 2 0.05
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (26 bp):
AAAAATGGGTTGGAGTATCCCCTCAA
Found at i:1964724 original size:123 final size:123
Alignment explanation
Indices: 1964518--1964769 Score: 274
Period size: 123 Copynumber: 2.0 Consensus size: 123
1964508 AACAGAGATA
* ** * ** * * *
1964518 GAGTATCCCTTCGAAAGAATGGGGTTAGAGTGTCCCTAATGATGACAATTTGGGCGAGAATAAGT
1 GAGTATCCCCTCGAAAGAATGGGGTTAGAGTACCCCCAATGATGACAATTTAAGCAAAAATAAGG
* * * **
1964583 TTTAAATCTTGATAAGTTTAAAAATAGGTTGGAGTA-TCCCTTCAAAAAAATGGAGTTG
66 TTTAAACCTTGACAAGTTTAAAAAGAGGTTAAAGTATTCCC-TCAAAAAAATGGAGTTG
* * *
1964641 GAGTATCCCCTC-AGAAGAATGGGGTTGGAGTACCCCCGATGATGACAATTTAAGTAAAAATAAG
1 GAGTATCCCCTCGA-AAGAATGGGGTTAGAGTACCCCCAATGATGACAATTTAAGCAAAAATAAG
* * * * *
1964705 GTTTAAACCTTGACGAGTTTAAAACGAGGTTAAAGTATTCCCTCAGAATAATGGGGTTG
65 GTTTAAACCTTGACAAGTTTAAAAAGAGGTTAAAGTATTCCCTCAAAAAAATGGAGTTG
1964764 GAGTAT
1 GAGTAT
1964770 TCTCGATGAA
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
122 1 0.01
123 100 0.95
124 4 0.04
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (123 bp):
GAGTATCCCCTCGAAAGAATGGGGTTAGAGTACCCCCAATGATGACAATTTAAGCAAAAATAAGG
TTTAAACCTTGACAAGTTTAAAAAGAGGTTAAAGTATTCCCTCAAAAAAATGGAGTTG
Found at i:1965114 original size:9 final size:10
Alignment explanation
Indices: 1965091--1965117 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1965081 AAAATATTTC
1965091 AAAAATCTCG
1 AAAAATCTCG
1965101 AAAAATCTCG
1 AAAAATCTCG
1965111 AAAAATC
1 AAAAATC
1965118 ACTTTTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.19, G:0.07, T:0.19
Consensus pattern (10 bp):
AAAAATCTCG
Found at i:1970138 original size:13 final size:13
Alignment explanation
Indices: 1970120--1970171 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1970110 ACCTTCGTAG
1970120 CGATACATTGTAT
1 CGATACATTGTAT
1970133 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
1970152 CGATACATTGTAT
1 CGATACATTGTAT
1970165 CGATACA
1 CGATACA
1970172 AATTGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1971352 original size:49 final size:49
Alignment explanation
Indices: 1971231--1972134 Score: 853
Period size: 49 Copynumber: 18.8 Consensus size: 49
1971221 TAGGCTTATA
* * * **
1971231 CCAATGTGCTGATTCAAGGCTAGCTACATTGGGCTCAAGACGAAAAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA-A-GATGAAGGTG
* * * * * *
1971282 CCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGAAGATG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* * *
1971331 CTAATGTGCTGATTCAAGGCCAGCTACTTTGGACTTAAAGATAAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* * * *
1971380 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG-AGGTG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* *
1971428 CCAATGTGCTGATTCTAGGCCAGCTACATTGGACTTAAAGATAAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* * * * *
1971477 CCAATATGCTGATTAAAGGCCAGCGATATTGGACTT----A--AAGGTA
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* *
1971520 CCAATGTGATGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* * * *
1971569 CCAATATGCTGATTCAAGGCCAACTATATTAGACTT----A--AAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* *
1971612 CCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* *
1971661 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* *
1971704 CCAATGTGCTGATCCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* * *
1971753 GCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
1971796 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA--TG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* * * ** *
1971843 CCAATGTGTTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCG
1 CCAATGTGCTGATTCAAGGCCAGCTACATT-GGACTTAAAGAT---GAAGGTG
* * * *
1971896 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* * * * *
1971945 CCAATGTGCTAAGTCAAGGCCAACGACATTGGACTTAAAGAAGAA--TG
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
* * * ** * *
1971992 CTAATGTGTTGATTCAAGGCCA-ATGACATTGGGTTTTGAAGATGACGAAGGCG
1 CCAATGTGCTGATTCAAGGCCAGCT-ACATT-GGACTT-AA-A-GATGAAGGTG
* * * * *
1972045 CTAATATGCTGATTCAAAGTCAG-TGATATTGGACTTAAAGATGAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTG
* * *
1972094 CCAATGTGGTGAGTCAAGGCCAGCGACATTGGACTTAAAGA
1 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1972135 AGAATTTCAA
Statistics
Matches: 692, Mismatches: 121, Indels: 82
0.77 0.14 0.09
Matches are distributed among these distances:
43 149 0.22
45 4 0.01
47 58 0.08
48 56 0.08
49 316 0.46
50 3 0.00
51 41 0.06
52 14 0.02
53 51 0.07
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
Found at i:1971588 original size:92 final size:92
Alignment explanation
Indices: 1971095--1972134 Score: 1048
Period size: 92 Copynumber: 11.0 Consensus size: 92
1971085 TGAGAAAAGT
* * ** *
1971095 GATAAAGATGCCAATATGCTGATTCACGGCCAATGATATTAGG-CTT----GTGCTAATGTGCTG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGGTGCCAATGTGCTG
*
1971155 ATTCAAGGCCAG-TGACATTGGTCTTAAA
65 ATTCAAGGCCAGCT-ACATTGGACTTAAA
* *
1971183 GAT-GAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG-CTT--A--TACCAATGTGCTG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGGTGCCAATGTGCTG
* * *
1971242 ATTCAAGGCTAGCTACATTGGGCTCAAGA
65 ATTCAAGGCCAGCTACATTGGACTTAA-A
* * *
1971271 CGAAAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGAAGATGCTAAT
1 -GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA---G--G-TGCCAAT
*
1971336 GTGCTGATTCAAGGCCAGCTACTTTGGACTTAAA
59 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1971370 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAGGTGCCAATGT
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA----AGGTGCCAATGT
*
1971435 GCTGATTCTAGGCCAGCTACATTGGACTTAAA
61 GCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * *
1971467 GATAAAGGTGCCAATATGCTGATTAAAGGCCAGCGATATTGGACTTAAAGGTACCAATGTGATGA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
1971532 TTCAAGGCCAGCTACATTGGACTTAAA
66 TTCAAGGCCAGCTACATTGGACTTAAA
* * * *
1971559 GATAAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTAGACTTAAAGGTGCCAATGTACTGA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
1971624 TTCAAGGCCAGCTACATTGGACTTAAA
66 TTCAAGGCCAGCTACATTGGACTTAAA
* * *
1971651 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
*
1971716 TCCAAGGCCAGCTACATTGGACTTAAA
66 TTCAAGGCCAGCTACATTGGACTTAAA
* * * *
1971743 GATGAAGATGGCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
1971808 TTCAAGGCCAGCTACATTGGACTTAAA
66 TTCAAGGCCAGCTACATTGGACTTAAA
* * * * * * * * *
1971835 GATGAA--TGCCAATGTGTTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCGCC
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GG------A-CTTA--AAGGTGCC
* * *
1971898 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
56 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
* * * * * *
1971935 GATAAAGGTGCCAATGTGCTAAGTCAAGGCCAACGACATTGGACTTAAAGAAGAATGCTAATGTG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG--G--TGCCAATGTG
* * ** *
1972000 TTGATTCAAGGCCA-ATGACATTGGGTTTTGAA
62 CTGATTCAAGGCCAGCT-ACATT-GGACTTAAA
* * * * *
1972032 GATGACGAAGGCGCTAATATGCTGATTCAAAGTCAGTGATATTGGACTTAAAGATGAAGGTGCCA
1 GAT-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCA
* * *
1972097 ATGTGGTGAGTCAAGGCCAGCGACATTGGACTTAAA
57 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1972133 GA
1 GA
1972135 AGAATTTCAA
Statistics
Matches: 813, Mismatches: 90, Indels: 85
0.82 0.09 0.09
Matches are distributed among these distances:
87 70 0.09
88 5 0.01
89 4 0.00
90 63 0.08
91 2 0.00
92 312 0.38
94 3 0.00
95 1 0.00
96 26 0.03
97 93 0.11
98 48 0.06
99 3 0.00
100 113 0.14
101 10 0.01
102 54 0.07
103 1 0.00
104 2 0.00
106 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (92 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGA
TTCAAGGCCAGCTACATTGGACTTAAA
Found at i:1971692 original size:184 final size:184
Alignment explanation
Indices: 1971099--1972348 Score: 1158
Period size: 184 Copynumber: 6.7 Consensus size: 184
1971089 AAAAGTGATA
* ** * *
1971099 AAGATGCCAATATGCTGATTCACGGCCAATGATATTAGG-CTT----GTGCTAATGTGCTGATTC
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGGTACCAATGTGCTGATTC
* *
1971159 AAGGCCAG-TGACATTGGTCTTAAAGAT-GAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
65 AAGGCCAGCT-ACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
* * * * **
1971222 AGG-CTT--A--TACCAATGTGCTGATTCAAGGCTAGCTACATTGGGCTCAAGACGAAA
129 -GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA-A-GATG
* * *
1971276 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGAAGATGCTAATGTGCT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT----A--CCAATGTGCT
*
1971341 GATTCAAGGCCAGCTACTTTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
60 GATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
* *
1971406 TATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCTAGGCCAGCTACATTGGACTTAAAGATA
125 TATTGGACTT-AA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * *
1971471 AAGGTGCCAATATGCTGATTAAAGGCCAGCGATATTGGACTTAAAGGTACCAATGTGATGATTCA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTACCAATGTGCTGATTCA
* * *
1971536 AGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTAG
66 AGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
*
1971601 ACTTAAAGGTGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
131 ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * *
1971655 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATCCA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTACCAATGTGCTGATTCA
* * * *
1971720 AGGCCAGCTACATTGGACTTAAAGATGAAGATGGCAATATGCTGATTCAAGGCCAGCTATATTGG
66 AGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1971785 ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
131 ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * * * * ** * *
1971839 -A-ATGCCAATGTGTTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCGCCAATA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTT-AA-A-G--GTA----CCAATG
* * * * *
1971902 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTAAGTCAAGGCCA
56 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
* * * * * ** *
1971967 ACGACATTGGACTTAAAGAAGAATGCTAATGTGTTGATTCAAGGCCA-ATGACATTGGGTTTTGA
121 GCGATATTGGACTTAAAG--G--TGCCAATGTGCTGATTCAAGGCCAGCT-ACATT-GGACTTAA
1972031 AGATG
180 AGATG
* * * * * *
1972036 ACGAAGGCGCTAATATGCTGATTCAAAGTCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGT
1 AAG-ATGC-C-AATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTACCAATGT
* * * * *
1972101 GGTGAGTCAAGGCCAGCGACATTGGACTTAAAG---AA---G---A-A---T--TTCAAAGCCAA
57 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAG
* ** * * ** *
1972151 CGACATTGGGTTTAAAGGTTCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGACG
122 CGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * * *
1972214 AAGATGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAGGTACTAAGGTGCTGATTCA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTACCAATGTGCTGATTCA
* ** * *
1972279 AGGCCAGCAACATTGGTTTTAAAGATGAAA-ATGCTAATATGCTGATTCAAGGCCAGCGATATTG
66 AGGCCAGCTACATTGGACTTAAAGAT-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
1972343 GACTTA
130 GACTTA
1972349 GAAAGGTTGC
Statistics
Matches: 895, Mismatches: 113, Indels: 123
0.79 0.10 0.11
Matches are distributed among these distances:
169 38 0.04
171 1 0.00
173 2 0.00
175 32 0.04
176 3 0.00
177 39 0.04
178 14 0.02
179 27 0.03
181 3 0.00
182 29 0.03
183 29 0.03
184 239 0.27
185 2 0.00
186 1 0.00
187 40 0.04
188 42 0.05
189 80 0.09
191 1 0.00
192 77 0.09
194 1 0.00
195 53 0.06
196 28 0.03
197 45 0.05
198 36 0.04
200 3 0.00
201 5 0.01
202 21 0.02
204 2 0.00
205 1 0.00
206 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (184 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTACCAATGTGCTGATTCA
AGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:1972021 original size:149 final size:148
Alignment explanation
Indices: 1971337--1972139 Score: 760
Period size: 149 Copynumber: 5.6 Consensus size: 148
1971327 GATGCTAATG
* * *
1971337 TGCTGATTCAAGGCCAGCTACT-TTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGA-TATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCC
* ** * * * * **
1971401 AGCGATATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCTAGGCCAGCTACATT-GGACTTA
65 AGCGACATTGGACTTAAAGAAGA-ATGCCAATGTGTTGATTCAAGGCCA-ATACATTGGGTTTTA
*
1971465 AAGAT-A--AAGGTGCCAATA
128 AAGATGACGAAGGCGCCAATA
* * * *
1971483 TGCTGATTAAAGGCCAGCGATATTGGAC-T-----TAAAGGTACCAATGTGATGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCA
* * * * *
1971542 GCTACATTGGACTTAAAGATA-AAGGTGCCAATATGCTGATTCAAGGCC-A-AC--T--ATATT-
66 GCGACATTGGACTTAAAGA-AGAA--TGCCAATGTGTTGATTCAAGGCCAATACATTGGGTTTTA
* * *
1971599 -AGACTTA--AAGGTGCCAATG
128 AAGA-TGACGAAGGCGCCAATA
* * * * * * *
1971618 TACTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCA
* * * * * **
1971683 GCTATATTGGACTTAAAG--G--TGCCAATGTGCTGATCCAAGGCCAGCTACATT-GGACTTAAA
66 GCGACATTGGACTTAAAGAAGAATGCCAATGTGTTGATTCAAGGCCA-ATACATTGGGTTTTAAA
* *
1971743 GATGAAG-ATG-G-CAATA
130 GATGACGAAGGCGCCAATA
* *
1971759 TGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCA
* * *
1971818 GCTACATTGGACTTAAAGATGAATGCCAATGTGTTGATTCAAGGCCAACAACATTGGGTTTTAAA
66 GCGACATTGGACTTAAAGAAGAATGCCAATGTGTTGATTCAAGGCCAA-TACATTGGGTTTTAAA
1971883 GATGACGAAGGCGCCAATA
130 GATGACGAAGGCGCCAATA
*
1971902 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTAAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCA
* * *
1971967 ACGACATTGGACTTAAAGAAGAATGCTAATGTGTTGATTCAAGGCCAATGACATTGGGTTTTGAA
66 GCGACATTGGACTTAAAGAAGAATGCCAATGTGTTGATTCAAGGCCAAT-ACATTGGGTTTTAAA
*
1972032 GATGACGAAGGCGCTAATA
130 GATGACGAAGGCGCCAATA
* * * * *
1972051 TGCTGATTCAAAGTCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGGTGAGTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCA
1972116 GCGACATTGGACTTAAAGAAGAAT
66 GCGACATTGGACTTAAAGAAGAAT
1972140 TTCAAAGCCA
Statistics
Matches: 551, Mismatches: 67, Indels: 75
0.80 0.10 0.11
Matches are distributed among these distances:
133 3 0.01
134 1 0.00
135 103 0.19
136 2 0.00
137 1 0.00
138 4 0.01
139 27 0.05
140 59 0.11
141 97 0.18
142 4 0.01
143 37 0.07
144 1 0.00
145 2 0.00
146 24 0.04
149 186 0.34
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (148 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCA
GCGACATTGGACTTAAAGAAGAATGCCAATGTGTTGATTCAAGGCCAATACATTGGGTTTTAAAG
ATGACGAAGGCGCCAATA
Found at i:1972201 original size:43 final size:43
Alignment explanation
Indices: 1972140--1972302 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
1972130 AAAGAAGAAT
* * * *
1972140 TTCAAAGCCAACGACATTGGGTTTAAAGGTTCCAATGTGCTGA
1 TTCAAGGCCAGCGACATTGGTTTTAAAGGTACCAATGTGCTGA
* * *
1972183 TTCAAGGCCAGCGACATTGGTTTTAAAGACGAAGATGCCAATATGTTGA
1 TTCAAGGCCAGCGACATTGGTTTT-AA-A-G--G-TACCAATGTGCTGA
* * ** * *
1972232 TTCAAGGCCAGTGATATTGGACTTAAAGGTACTAAGGTGCTGA
1 TTCAAGGCCAGCGACATTGGTTTTAAAGGTACCAATGTGCTGA
*
1972275 TTCAAGGCCAGCAACATTGGTTTTAAAG
1 TTCAAGGCCAGCGACATTGGTTTTAAAG
1972303 ATGAAAATGC
Statistics
Matches: 94, Mismatches: 20, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
43 53 0.56
44 3 0.03
45 1 0.01
46 2 0.02
47 1 0.01
48 3 0.03
49 31 0.33
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (43 bp):
TTCAAGGCCAGCGACATTGGTTTTAAAGGTACCAATGTGCTGA
Found at i:1972251 original size:49 final size:48
Alignment explanation
Indices: 1972171--1972343 Score: 167
Period size: 49 Copynumber: 3.7 Consensus size: 48
1972161 TTTAAAGGTT
*
1972171 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGACGAAGATG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGA-GAAGATG
* * * ** *
1972220 CCAATATGTTGATTCAAGGCCAGTGATATTGGACTT-AA-AG--G-TA
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGAGAAGATG
* ** * *
1972263 CTAAGGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGATGAAAATG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGA-GAAGATG
* *
1972312 CTAATATGCTGATTCAAGGCCAGCGATATTGG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGG
1972344 ACTTAGAAAG
Statistics
Matches: 96, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
43 28 0.29
44 3 0.03
45 1 0.01
46 2 0.02
47 1 0.01
48 2 0.02
49 59 0.61
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (48 bp):
CCAATATGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGAGAAGATG
Found at i:1972297 original size:92 final size:92
Alignment explanation
Indices: 1972162--1972348 Score: 293
Period size: 92 Copynumber: 2.0 Consensus size: 92
1972152 GACATTGGGT
* * * *
1972162 TTAAAGGTTCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGACGAAGATGCCAATAT
1 TTAAAGGTACCAAGGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGACGAAAATGCCAATAT
* *
1972227 GTTGATTCAAGGCCAGTGATATTGGAC
66 GCTGATTCAAGGCCAGCGATATTGGAC
* * *
1972254 TTAAAGGTACTAAGGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGATGAAAATGCTAATAT
1 TTAAAGGTACCAAGGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGACGAAAATGCCAATAT
1972319 GCTGATTCAAGGCCAGCGATATTGGAC
66 GCTGATTCAAGGCCAGCGATATTGGAC
1972346 TTA
1 TTA
1972349 GAAAGGTTGC
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (92 bp):
TTAAAGGTACCAAGGTGCTGATTCAAGGCCAGCAACATTGGTTTTAAAGACGAAAATGCCAATAT
GCTGATTCAAGGCCAGCGATATTGGAC
Found at i:1972390 original size:33 final size:33
Alignment explanation
Indices: 1972348--1972414 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
1972338 TATTGGACTT
*
1972348 AGAAAGGTTGCTACCGACTTGTGTGGGCTTTAG
1 AGAAAGGTTGCAACCGACTTGTGTGGGCTTTAG
*
1972381 AGAATGGTTGCAACCGACTTGTGTGGGCTTTAG
1 AGAAAGGTTGCAACCGACTTGTGTGGGCTTTAG
1972414 A
1 A
1972415 AGGGGGTGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.30
Consensus pattern (33 bp):
AGAAAGGTTGCAACCGACTTGTGTGGGCTTTAG
Found at i:1972518 original size:27 final size:26
Alignment explanation
Indices: 1972481--1972533 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
1972471 TTTTAAAAAG
*
1972481 AAAAAGGTGCCACGGAGTTGTGGACT
1 AAAAAGGTGCCACAGAGTTGTGGACT
*
1972507 AAAAAGGGTGCCTCAGAGTTGTGGACT
1 AAAAA-GGTGCCACAGAGTTGTGGACT
1972534 TTGGAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.30, C:0.15, G:0.34, T:0.21
Consensus pattern (26 bp):
AAAAAGGTGCCACAGAGTTGTGGACT
Found at i:1972599 original size:31 final size:31
Alignment explanation
Indices: 1972527--1972630 Score: 120
Period size: 31 Copynumber: 3.3 Consensus size: 31
1972517 CCTCAGAGTT
* * *
1972527 GTGGACTTTGGAAAGAAAAAGGTGCCACGAAGTT
1 GTGGACTTT-G-AAGAAAAAGATGCCAC-TAGTC
*
1972561 GTGGACTTTGAAGAAAAAAATGCCACTAGTC
1 GTGGACTTTGAAGAAAAAGATGCCACTAGTC
*
1972592 GTGGACTTTGAAG-AAAAGATGCCACTGACTC
1 GTGGACTTTGAAGAAAAAGATGCCACT-AGTC
1972623 GTGGACTT
1 GTGGACTT
1972631 AGAAAAGAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
30 12 0.19
31 27 0.43
32 14 0.22
33 1 0.02
34 9 0.14
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (31 bp):
GTGGACTTTGAAGAAAAAGATGCCACTAGTC
Found at i:1972635 original size:28 final size:29
Alignment explanation
Indices: 1972561--1972638 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 29
1972551 CCACGAAGTT
* *
1972561 GTGGACTTTGAAGAAAAAAATGCCACTAGTC
1 GTGGACTTT-AAG-AAAAGATGCCACTACTC
1972592 GTGGACTTTGAAGAAAAGATGCCACTGACTC
1 GTGGACTTT-AAGAAAAGATGCCACT-ACTC
1972623 GTGGAC-TT-AGAAAAGA
1 GTGGACTTTAAGAAAAGA
1972639 GAGATTTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
28 8 0.18
30 14 0.32
31 22 0.50
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (29 bp):
GTGGACTTTAAGAAAAGATGCCACTACTC
Found at i:1973892 original size:27 final size:28
Alignment explanation
Indices: 1973841--1973908 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
1973831 TGCTCTCTTC
* *
1973841 TTTTTTTTTGTG-TGTATTTTTTTGT-T
1 TTTTTTTTTGTGTTGTATGTTGTTGTGT
1973867 TTTGTTTTTTGTGTTGT-TGTTGTTGTGT
1 TTT-TTTTTTGTGTTGTATGTTGTTGTGT
1973895 TTTTTTTTTGTGTT
1 TTTTTTTTTGTGTT
1973909 TGCACTTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
26 3 0.08
27 27 0.73
28 7 0.19
ACGTcount: A:0.01, C:0.00, G:0.21, T:0.78
Consensus pattern (28 bp):
TTTTTTTTTGTGTTGTATGTTGTTGTGT
Found at i:1977418 original size:19 final size:19
Alignment explanation
Indices: 1977394--1977456 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
1977384 TAGCCAAACT
1977394 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
1977413 TGTATCGAT--AC--A--A
1 TGTATCGATACACAAAGTA
1977426 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
1977445 TGTATCGATACA
1 TGTATCGATACA
1977457 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 3 0.08
17 3 0.08
19 22 0.58
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACAAAGTA
Found at i:1977430 original size:13 final size:13
Alignment explanation
Indices: 1977412--1977469 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
1977402 TACACAAAGT
1977412 ATGTATCGATACA
1 ATGTATCGATACA
1977425 ATGTATCGATACACAAA
1 ATGTATCGAT--AC--A
1977442 GTATGTATCGATACA
1 --ATGTATCGATACA
1977457 ATGTATCGATACA
1 ATGTATCGATACA
1977470 CAAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 3 0.08
17 3 0.08
19 10 0.26
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1977435 original size:32 final size:32
Alignment explanation
Indices: 1977394--1977473 Score: 160
Period size: 32 Copynumber: 2.5 Consensus size: 32
1977384 TAGCCAAACT
1977394 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
1977426 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
1977458 TGTATCGATACACAAA
1 TGTATCGATACACAAA
1977474 AAATTGTATC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:1979427 original size:20 final size:20
Alignment explanation
Indices: 1979399--1979473 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1979389 TCATACCCTG
1979399 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1979419 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1979439 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1979459 ATGTATCGATACATT
1 ATGTATCGATACATT
1979474 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1979466 original size:40 final size:39
Alignment explanation
Indices: 1979399--1979476 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1979389 TCATACCCTG
* *
1979399 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1979439 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1979477 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1987696 original size:27 final size:27
Alignment explanation
Indices: 1987597--1988090 Score: 763
Period size: 27 Copynumber: 18.0 Consensus size: 27
1987587 TGGCATTTCT
*
1987597 TTTTGAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
1987625 TTTTAAAGTCCACAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
1987653 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
1987681 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
** *
1987708 TTCAAAGTCCACAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1987735 TTTTAAAGTCCACAGCTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
1987763 TTTTAAGTCCACAACTCTGTGGCACCA
1 TTTTAAGTCCACAACTCCGTGGCACCC
**
1987790 TTCAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
1987817 TTTTAAGTCCACAACTCCGTAGCGCTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1987844 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
1987872 TCTTTAAGTCCACAACTCCGTGGCACCC
1 T-TTTAAGTCCACAACTCCGTGGCACCC
1987900 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1987927 TTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
1987955 TTTTAAGTCCACAACTCCGTGGCATCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
*
1987983 TTTTAAGACCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1988010 TTTTAAGTCCACAACTTCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1988037 TTTTAAGTCCACAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
1988064 TTTTAAATCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
1988091 ATTTCAAAGC
Statistics
Matches: 429, Mismatches: 33, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
27 246 0.57
28 180 0.42
29 3 0.01
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:1987731 original size:82 final size:81
Alignment explanation
Indices: 1987597--1988090 Score: 754
Period size: 82 Copynumber: 6.0 Consensus size: 81
1987587 TGGCATTTCT
* *
1987597 TTTTGAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 TTTT-AAGTCCACAACTCCGTGGCA-CCCTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
1987662 CCACAACTCCGTGGCACCC
63 CCACAACTCCGTGGCACCC
* *
1987681 TTTTAAGTCCACAACTCCGTGGCACCCTTCAAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCC
*
1987746 ACAGCTCCGTGGCACCC
65 ACAACTCCGTGGCACCC
* * *
1987763 TTTTAAGTCCACAACTCTGTGGCACCATTCAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
* * *
1987828 CAACTCCGTAGCGCTC
66 CAACTCCGTGGCACCC
*
1987844 TTTTAAAGTCCACAACTCCGTGGCACCCTCTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 TTTT-AAGTCCACAACTCCGTGGCACCCT-TTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1987909 CACAACTCCGTGGCACCC
64 CACAACTCCGTGGCACCC
* *
1987927 TTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 TTTTAAGTCCACAACTCCGTGGCA-CCCTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
1987992 CACAACTCCGTGGCACCC
64 CACAACTCCGTGGCACCC
* * * *
1988010 TTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAACCTTTTAAATCCA
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1988075 CAACTCCGTGGCACCC
66 CAACTCCGTGGCACCC
1988091 ATTTCAAAGC
Statistics
Matches: 382, Mismatches: 24, Indels: 11
0.92 0.06 0.03
Matches are distributed among these distances:
81 50 0.13
82 200 0.52
83 128 0.34
84 4 0.01
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (81 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
CAACTCCGTGGCACCC
Found at i:1987927 original size:110 final size:109
Alignment explanation
Indices: 1987597--1988090 Score: 780
Period size: 110 Copynumber: 4.5 Consensus size: 109
1987587 TGGCATTTCT
*
1987597 TTTTGAAGTCCACAACTCCGTGGCA-TCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAG
1 TTTT-AAGTCCACAACTCCGTGGCACT-CTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAG
1987661 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
63 TCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
** *
1987708 TTCAAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAGCTCCGTGGCACCCTTTTAAGTCC
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * **
1987773 ACAACTCTGTGGCACCATTCAAAGTCCACAACTCCGTGGCACCC
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* *
1987817 TTTTAAGTCCACAACTCCGTAGCGCTCTTTTAAAGTCCACAACTCCGTGGCACCCTCTTTAAGTC
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCT-TTTAAGTC
1987882 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
* *
1987927 TTTTAAGTCCACAACTCCGTGGCATCCCTTTT-AAGTCCACAACTCCGTGGCATCCCTTTTAAGA
1 TTTTAAGTCCACAACTCCGTGGCA-CTCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
*
1987991 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCC
64 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
1988037 TTTTAAGTCCACAACTCCGTGGCAAC-CTTTTAAA-TCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGC-ACTCTTTTAAAGTCCACAACTCCGTGGCACCC
1988091 ATTTCAAAGC
Statistics
Matches: 355, Mismatches: 22, Indels: 15
0.91 0.06 0.04
Matches are distributed among these distances:
108 3 0.01
109 119 0.34
110 219 0.62
111 14 0.04
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (109 bp):
TTTTAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:1988128 original size:32 final size:32
Alignment explanation
Indices: 1988073--1989582 Score: 2600
Period size: 32 Copynumber: 47.3 Consensus size: 32
1988063 CTTTTAAATC
* *
1988073 CACAACTCCGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988104 CACAAGTCAGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988136 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988168 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988200 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988232 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988264 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988296 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988328 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
1988360 CACAAGTCAGTGACAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988392 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988424 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1988456 CACAAGTCGATGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988488 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988520 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1988552 CACAAGTCAGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988584 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988616 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1988648 CACAAGGCGGTGGCAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988680 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988712 CACAAGTCCGTGGCAACTCC-TTTCAAAGCCCA
1 CACAAGTCGGTGGCAAC-CCATTTCAAAGCCCA
* *
1988744 CACAAGTCGGTGGCAACCCATTCCGAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988776 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988808 CACAAGTCGGTGGCAACCCA-TTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988839 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988871 CACAAGTCGGTGGCAACCCA-TTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988902 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988934 CACAAGTCGGTGGCAACCCA-TTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988965 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988997 CACAAGTCGGTGGCAACCCATTCCAAAG-CCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1989028 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989060 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989092 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989124 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989156 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989188 CATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1989220 CACAAGGCGGTGGCAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989252 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989284 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1989316 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989348 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989380 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1989412 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989444 CACAAGTCGGTGGCAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989476 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989508 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989540 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1989572 CACAAGTCGGT
1 CACAAGTCGGT
1989583 TGTCCAAAGC
Statistics
Matches: 1418, Mismatches: 54, Indels: 13
0.95 0.04 0.01
Matches are distributed among these distances:
31 136 0.10
32 1280 0.90
33 2 0.00
ACGTcount: A:0.31, C:0.36, G:0.19, T:0.14
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1988161 original size:64 final size:64
Alignment explanation
Indices: 1988073--1991086 Score: 5118
Period size: 64 Copynumber: 47.4 Consensus size: 64
1988063 CTTTTAAATC
* * * *
1988073 CACAACTCCGTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1988136 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1988200 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1988264 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1988328 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGACAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* * *
1988392 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* * *
1988456 CACAAGTCGATGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1988520 CACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1988584 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1988648 CACAAGGCGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1988712 CACAAGTCCGTGGCAACTCC-TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCGAAGCCCA
1 CACAAGTCGGTGGCAAC-CCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1988776 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATT-CAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1988839 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATT-CAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1988902 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATT-CAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1988965 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAG-CCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1989028 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1989092 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* * *
1989156 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACATAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1989220 CACAAGGCGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1989284 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1989348 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1989412 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1989476 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1989540 CACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTTG--------TCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1989596 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1989660 CACAAGCCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1989724 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1989788 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* * *
1989852 CACAAGTCAGTGACAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1989916 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1989980 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1990044 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGACAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1990108 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGATGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1990172 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1990236 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1990300 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAGCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* * *
1990364 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1990428 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1990492 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1990556 CACAAGTCGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* * *
1990620 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1990684 CACAAGTCGGTTG--------TCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1990740 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGCCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* *
1990804 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1990868 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
*
1990932 CACAAGTCGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
* * ** *
1990996 CACAAGTCGGTGGCAACTCATTTCAAAGCGCACACAAGTCGGTGGCAACCCATTTAAAAGCCTA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
** * *
1991060 TGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
1991087 TCACCATTTT
Statistics
Matches: 2802, Mismatches: 128, Indels: 41
0.94 0.04 0.01
Matches are distributed among these distances:
56 106 0.04
63 264 0.09
64 2431 0.87
65 1 0.00
ACGTcount: A:0.32, C:0.35, G:0.19, T:0.15
Consensus pattern (64 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCA
Found at i:1988197 original size:96 final size:96
Alignment explanation
Indices: 1988073--1991086 Score: 5109
Period size: 96 Copynumber: 31.6 Consensus size: 96
1988063 CTTTTAAATC
* * * *
1988073 CACAACTCCGTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1988137 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988168 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1988233 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988264 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1988329 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
1988360 CACAAGTCAGTGACAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1988425 ACAAGTCGGTGGCAACTCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988456 CACAAGTCGATGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1988521 ACAAGTCGGTGGCAACTCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1988552 CACAAGTCAGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1988617 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
1988648 CACAAGGCGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1988713 ACAAGTCCGTGGCAACTCC-TTTCAAAGCCCA
66 ACAAGTCGGTGGCAAC-CCATTTCAAAGCCCA
* *
1988744 CACAAGTCGGTGGCAACCCATTCCGAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1988809 ACAAGTCGGTGGCAACCCA-TTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1988839 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCA-TTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1988903 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1988934 CACAAGTCGGTGGCAACCCATT-CAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1988998 ACAAGTCGGTGGCAACCCATTCCAAAG-CCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1989028 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1989093 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989124 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1989189 ATAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
1989220 CACAAGGCGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1989285 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1989316 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1989381 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1989412 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1989477 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989508 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
1989573 ACAAGTCGGTTG--------TCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1989596 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1989661 ACAAGCCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1989692 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1989757 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1989788 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* * *
1989853 ACAAGTCAGTGACAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1989884 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
1989949 ACAAGTCGGTGGCAACTCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1989980 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1990045 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1990076 CACAAGTCAGTGACAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
1990141 ACAAGTCGATGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1990172 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1990237 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1990268 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1990333 ACAAGTCGGTGGCAAGCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1990364 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1990429 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1990460 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1990525 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
1990556 CACAAGTCGGTGGCAACCTATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1990621 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
1990652 CACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTTG--------TCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1990709 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
1990740 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGCCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
*
1990805 ACAAGTCGGTGGCAACCCATTCCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
1990836 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1990901 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
1990932 CACAAGTCGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAC
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* *
1990997 ACAAGTCGGTGGCAACTCATTTCAAAGCGCA
66 ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * ** * *
1991028 CACAAGTCGGTGGCAACCCATTTAAAAGCCTATGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
1991087 TCACCATTTT
Statistics
Matches: 2789, Mismatches: 107, Indels: 45
0.95 0.04 0.02
Matches are distributed among these distances:
88 170 0.06
94 84 0.03
95 214 0.08
96 2319 0.83
97 2 0.00
ACGTcount: A:0.32, C:0.35, G:0.19, T:0.15
Consensus pattern (96 bp):
CACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:1989626 original size:32 final size:32
Alignment explanation
Indices: 1989585--1990694 Score: 1977
Period size: 32 Copynumber: 34.7 Consensus size: 32
1989575 AAGTCGGTTG
1989585 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1989617 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
1989649 TTCAAAGCCCACACAAGCCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1989681 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1989713 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1989745 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1989777 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1989809 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * *
1989841 TTCAAAGCCCACACAAGTCAGTGACAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1989873 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1989905 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
1989937 TTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1989969 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990001 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1990033 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * *
1990065 TTCAAAGCCCACACAAGTCAGTGACAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990097 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
1990129 TTCAAAGCCCACACAAGTCGATGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990161 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990193 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990225 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990257 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990289 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
1990321 TTCAAAGCCCACACAAGTCGGTGGCAAGCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1990353 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1990385 TCCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1990417 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990449 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990481 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990513 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
1990545 TTCAAAGCCCACACAAGTCGGTGGCAACCTAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1990577 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1990609 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1990641 TCCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
1990673 TTCAAAGCCCACACAAGTCGGT
1 TCCAAAGCCCACACAAGTCGGT
1990695 TGTCCAAAGC
Statistics
Matches: 1040, Mismatches: 38, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 1040 1.00
ACGTcount: A:0.32, C:0.36, G:0.18, T:0.14
Consensus pattern (32 bp):
TCCAAAGCCCACACAAGTCGGTGGCAACCCAT
Found at i:1990738 original size:32 final size:32
Alignment explanation
Indices: 1990699--1991086 Score: 659
Period size: 32 Copynumber: 12.1 Consensus size: 32
1990689 GTCGGTTGTC
*
1990699 CAAAGCCCACACAAGTCGGTGGCAACCCATTC
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1990731 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
*
1990763 CAAAGCCCACACAAGCCGGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
*
1990795 CAAAGCCCACACAAGTCGGTGGCAACCCATTC
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1990827 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1990859 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1990891 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1990923 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
* *
1990955 CAAAACCCACACAAGTCGGTGGCAACCCATTC
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
*
1990987 CAAAGCCCACACAAGTCGGTGGCAACTCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
*
1991019 CAAAGCGCACACAAGTCGGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
* * ** * *
1991051 AAAAGCCTATGCAAGTCAGTGGCAACCCTTTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1991083 CAAA
1 CAAA
1991087 TCACCATTTT
Statistics
Matches: 336, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 336 1.00
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.15
Consensus pattern (32 bp):
CAAAGCCCACACAAGTCGGTGGCAACCCATTT
Found at i:1991597 original size:20 final size:20
Alignment explanation
Indices: 1991569--1991643 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1991559 TCATACCCTG
1991569 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1991589 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1991609 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1991629 ATGTATCGATACATT
1 ATGTATCGATACATT
1991644 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1991636 original size:40 final size:39
Alignment explanation
Indices: 1991569--1991646 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1991559 TCATACCCTG
* *
1991569 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1991609 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1991647 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1997154 original size:15 final size:15
Alignment explanation
Indices: 1997134--1997164 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1997124 TAAAAATGTC
*
1997134 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1997149 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1997164 C
1 C
1997165 CAAAGGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1999253 original size:13 final size:13
Alignment explanation
Indices: 1999235--1999272 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1999225 CATTTTTCTT
1999235 TGTATCGATACAA
1 TGTATCGATACAA
*
1999248 TGTATCGATACAC
1 TGTATCGATACAA
*
1999261 TGTATTGATACA
1 TGTATCGATACA
1999273 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2001181 original size:18 final size:18
Alignment explanation
Indices: 2001158--2001196 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2001148 TAAGGGGGAG
2001158 AATGTACGAATCTGTTAA
1 AATGTACGAATCTGTTAA
*
2001176 AATGTACGAATTTGTTAA
1 AATGTACGAATCTGTTAA
2001194 AAT
1 AAT
2001197 TATTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (18 bp):
AATGTACGAATCTGTTAA
Found at i:2001849 original size:20 final size:20
Alignment explanation
Indices: 2001804--2001855 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
2001794 GTAGCCAAAC
**
2001804 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
2001824 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
2001843 TTGTATCGATACA
1 TTGTATCGATACA
2001856 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Done.