Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 57 of 175
Found at i:16616251 original size:15 final size:17
Alignment explanation
Indices: 16616233--16616264 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16616223 TTCATCAACA
16616233 TGGGT-ATTG-TCAAGT
1 TGGGTGATTGATCAAGT
16616248 TGGGTGATTGATCAAGT
1 TGGGTGATTGATCAAGT
16616265 GCAGAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 4 0.27
17 6 0.40
ACGTcount: A:0.22, C:0.06, G:0.34, T:0.38
Consensus pattern (17 bp):
TGGGTGATTGATCAAGT
Found at i:16617509 original size:23 final size:25
Alignment explanation
Indices: 16617473--16617518 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
16617463 ATTGAGTCAT
*
16617473 TAAAAAATGATGAAATGAAAAAAAA
1 TAAAAAATGATGAAAAGAAAAAAAA
16617498 TAAAAAA-G-TGAAAAGAAAAAA
1 TAAAAAATGATGAAAAGAAAAAA
16617519 TGAAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 1 0.05
25 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (25 bp):
TAAAAAATGATGAAAAGAAAAAAAA
Found at i:16618921 original size:89 final size:89
Alignment explanation
Indices: 16618815--16619576 Score: 935
Period size: 89 Copynumber: 8.6 Consensus size: 89
16618805 GAGTAGCAGT
* *
16618815 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAACGGAA-AAAGCAGATCTTGTCTTCATGTAC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC-GAAGAAAGCAGATCTTGTCTTCATGTAC
*
16618879 TGGCGTGAAGTAGATCAAAGATAAT
65 TGGCGTGAAGTAGATCAAAGATAAC
* * *
16618904 AGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCAGAA-AAAGTAGATCTTGTCTTCATGTAC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC-GAAGAAAGCAGATCTTGTCTTCATGTAC
*
16618968 TGGCGTGAAGTAGATTAAAGATAAC
65 TGGCGTGAAGTAGATCAAAGATAAC
* **
16618993 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
16619058 GGCGTGAAGTAGATCAAAGATAAC
66 GGCGTGAAGTAGATCAAAGATAAC
*
16619082 AGATCTTGTCTTCCTATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
*
16619147 GGCGTGAAGTAGATCAAAGATAGC
66 GGCGTGAAGTAGATCAAAGATAAC
* *
16619171 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
* *
16619236 GGCGTGAAGTAAATCAAAGACAAC
66 GGCGTGAAGTAGATCAAAGATAAC
* * *
16619260 AGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
* *
16619325 GGCGTGAAGTAGATCGAAGA-AAGA
66 GGCGTGAAGTAGATCAAAGATAA-C
*** * * ***
16619349 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
* * *
16619413 GGTGGCGAAGTAGATCGAAGA-AAGC
66 GG-CGTGAAGTAGATCAAAGATAA-C
* *** * * * * ***
16619438 AGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCAAAGACAA-CAGATCTTGTCTCCCCATAC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTAC
* * ** * *
16619501 TGGTGGTGGAGTAGATTGAAGTTAGC
65 TGG-CGTGAAGTAGATCAAAGATAAC
* * * *
16619527 AGATCTTGTATTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGTAGATC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATC
16619577 GAAGAAAGTA
Statistics
Matches: 612, Mismatches: 54, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
88 45 0.07
89 543 0.89
90 24 0.04
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (89 bp):
AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
GGCGTGAAGTAGATCAAAGATAAC
Found at i:16619573 original size:14 final size:14
Alignment explanation
Indices: 16619554--16619590 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
16619544 ACTGGTGGCG
16619554 AAGTAGATCAAAGA
1 AAGTAGATCAAAGA
*
16619568 AAGTAGATCGAAGA
1 AAGTAGATCAAAGA
16619582 AAGTAGATC
1 AAGTAGATC
16619591 TTGTCTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.08, G:0.24, T:0.16
Consensus pattern (14 bp):
AAGTAGATCAAAGA
Found at i:16619619 original size:222 final size:221
Alignment explanation
Indices: 16619061--16619582 Score: 616
Period size: 222 Copynumber: 2.3 Consensus size: 221
16619051 ATGTACTGGC
* * * * *
16619061 GTGAAGTAGATCAAAGATAA-CAGATCTTGTCTTC-CTATACTGGTGGTGAAGTAGATCGAAGAA
1 GTGAAGTAGATCGAAGA-AAGCAGATCTTGTATTCAC-ATACTGG-CGCGAAGTAGATCAAAGAA
* ** *** * * * *
16619124 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATA
63 AGAAGATCAAGAAGTCATGTATTGGCGTCAAGTA-ATCGAAGAAAGCAGATCTTGTCTTCCCATA
* * *
16619189 CTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAAATCAAA
127 CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAAATCAAA
*
16619254 GACAACAGATCTTGTCTTCCCATACTGGTA
192 GACAACAGATCTTGTCTCCCCATACTGGTA
* * * * *
16619284 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAAAGA
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTATTCACATACTGGCGCGAAGTAGATCAAAGAAAGA
** *** *
16619349 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTG
66 AGATCAAGAAGTCATGTATTGGCGTCAAGTA-ATCGAAGAAAGCAGATCTTGTCTTCCCATACTG
*
16619414 GTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGAC
130 GTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAAATCAAAGAC
*
16619479 AACAGATCTTGTCTCCCCATACTGGTG
195 AACAGATCTTGTCTCCCCATACTGGTA
* * ** * *
16619506 GTGGAGTAGATTGAAGTTAGCAGATCTTGTATTCCCATACTGGTGGCGAAGTAGATCAAAGAAAG
1 GTGAAGTAGATCGAAGAAAGCAGATCTTGTATTCACATACTGG-CGCGAAGTAGATCAAAGAAAG
*
16619571 TAGATCGAAGAA
65 AAGATC-AAGAA
16619583 AGTAGATCTT
Statistics
Matches: 265, Mismatches: 30, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
222 205 0.77
223 59 0.22
224 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (221 bp):
GTGAAGTAGATCGAAGAAAGCAGATCTTGTATTCACATACTGGCGCGAAGTAGATCAAAGAAAGA
AGATCAAGAAGTCATGTATTGGCGTCAAGTAATCGAAGAAAGCAGATCTTGTCTTCCCATACTGG
TGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAAATCAAAGACA
ACAGATCTTGTCTCCCCATACTGGTA
Found at i:16620527 original size:8 final size:8
Alignment explanation
Indices: 16620514--16620560 Score: 58
Period size: 8 Copynumber: 5.5 Consensus size: 8
16620504 CAGTGTCCGT
16620514 TTTTTTTA
1 TTTTTTTA
16620522 TTTTTTTA
1 TTTTTTTA
*
16620530 TGTTTTTA
1 TTTTTTTA
16620538 TTTTCTTTTA
1 -TTT-TTTTA
16620548 TTTTTTTCA
1 TTTTTTT-A
16620557 TTTT
1 TTTT
16620561 ATTTCGTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 19 0.56
9 10 0.29
10 5 0.15
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:16623286 original size:29 final size:29
Alignment explanation
Indices: 16623244--16623494 Score: 181
Period size: 29 Copynumber: 8.6 Consensus size: 29
16623234 TTTGTAATCT
16623244 TCCCTTTTCATATTCGATGGTCTAAACCA
1 TCCCTTTTCATATTCGATGGTCTAAACCA
16623273 TCCCTTTTCATATTCGATGGT-TGAAACCA
1 TCCCTTTTCATATTCGATGGTCT-AAACCA
* * *
16623302 TCCCTTTTCATTAATCAATGGTCGT-CACCA
1 TCCCTTTTCA-TATTCGATGGTC-TAAACCA
* * * *
16623332 TCCCTTTTCATAATCGATAG-CTGAAGCTA
1 TCCCTTTTCATATTCGATGGTCT-AAACCA
* * * * * * *
16623361 TCCCTTTTCACATTTGATAGCCGAAGCTA
1 TCCCTTTTCATATTCGATGGTCTAAACCA
* *
16623390 TCCCTTTTCATATTTGATGGTCGT-TACCA
1 TCCCTTTTCATATTCGATGGTC-TAAACCA
* * *
16623419 TCCCTTTTCATGTTTGATGGTCGT-CACCA
1 TCCCTTTTCATATTCGATGGTC-TAAACCA
* * * *
16623448 TCCCTTTTCATAATCGATAG-CCAAAGCTA
1 TCCCTTTTCATATTCGATGGTCTAAA-CCA
*
16623477 TCCCTTTTTATATTCGAT
1 TCCCTTTTCATATTCGAT
16623495 AGCCGAAGCT
Statistics
Matches: 182, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.01
28 4 0.02
29 152 0.84
30 24 0.13
32 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCTAAACCA
Found at i:16623332 original size:30 final size:29
Alignment explanation
Indices: 16623244--16623465 Score: 182
Period size: 29 Copynumber: 7.6 Consensus size: 29
16623234 TTTGTAATCT
*
16623244 TCCCTTTTCATATTCGATGGTC-TAAACCA
1 TCCCTTTTCATAATCGATGGTCGT-AACCA
* * *
16623273 TCCCTTTTCATATTCGATGGTTGAAACCA
1 TCCCTTTTCATAATCGATGGTCGTAACCA
* *
16623302 TCCCTTTTCATTAATCAATGGTCGTCACCA
1 TCCCTTTTCA-TAATCGATGGTCGTAACCA
* *
16623332 TCCCTTTTCATAATCGATAG-C-TGAAGCTA
1 TCCCTTTTCATAATCGATGGTCGT-AA-CCA
* * * * * *
16623361 TCCCTTTTCACATTTGATAGCCG-AAGCTA
1 TCCCTTTTCATAATCGATGGTCGTAA-CCA
* * *
16623390 TCCCTTTTCATATTTGATGGTCGTTACCA
1 TCCCTTTTCATAATCGATGGTCGTAACCA
** * *
16623419 TCCCTTTTCATGTTTGATGGTCGTCACCA
1 TCCCTTTTCATAATCGATGGTCGTAACCA
16623448 TCCCTTTTCATAATCGAT
1 TCCCTTTTCATAATCGAT
16623466 AGCCAAAGCT
Statistics
Matches: 162, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 133 0.82
30 26 0.16
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.39
Consensus pattern (29 bp):
TCCCTTTTCATAATCGATGGTCGTAACCA
Found at i:16623422 original size:58 final size:58
Alignment explanation
Indices: 16623331--16623523 Score: 165
Period size: 58 Copynumber: 3.3 Consensus size: 58
16623321 GGTCGTCACC
* * ** * *
16623331 ATCCCTTTTCATAATCGATAGCTGAAGCTATCCCTTTTCACATTTGATAGCCGAAGCT
1 ATCCCTTTTCATATTTGATAGCCAAAGCCATCCCTTTTCATATTTGATAGCCGAAGCT
* *** * * * * *
16623389 ATCCCTTTTCATATTTGATGGTCGTTA-CCATCCCTTTTCATGTTTGATGGTCGTCA-CC
1 ATCCCTTTTCATATTTGATAG-CCAAAGCCATCCCTTTTCATATTTGATAGCCG-AAGCT
* * * * *
16623447 ATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTTATATTCGATAGCCGAAGCT
1 ATCCCTTTTCATATTTGATAGCCAAAGCCATCCCTTTTCATATTTGATAGCCGAAGCT
16623505 ATCCCTTTTCATTATTTGA
1 ATCCCTTTTCA-TATTTGA
16623524 GGGTTGTCGA
Statistics
Matches: 101, Mismatches: 29, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
57 3 0.03
58 90 0.89
59 8 0.08
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (58 bp):
ATCCCTTTTCATATTTGATAGCCAAAGCCATCCCTTTTCATATTTGATAGCCGAAGCT
Found at i:16623482 original size:116 final size:116
Alignment explanation
Indices: 16623244--16623523 Score: 373
Period size: 116 Copynumber: 2.4 Consensus size: 116
16623234 TTTGTAATCT
* * * * * * * *
16623244 TCCCTTTTCATATTCGATGGTCTAAACCATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTT
1 TCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTT
**
16623309 TCATTAATCAATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGAAGCTA
66 TCATT-ATCAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTA
* **
16623361 TCCCTTTTCACATTTGATAGCCGAAGCTATCCCTTTTCATATTTGATGGTCGTTACCATCCCTTT
1 TCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTT
**
16623426 TCATGT-TTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTA
66 TCAT-TATCAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTA
* *
16623477 TCCCTTTTTATATTCGATAGCCGAAGCTATCCCTTTTCATTATTTGA
1 TCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCA-TATTTGA
16623524 GGGTTGTCGA
Statistics
Matches: 143, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
116 77 0.54
117 65 0.45
118 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (116 bp):
TCCCTTTTCACATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGGTCGAAACCATCCCTTT
TCATTATCAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTA
Found at i:16623495 original size:29 final size:29
Alignment explanation
Indices: 16623331--16623516 Score: 124
Period size: 29 Copynumber: 6.4 Consensus size: 29
16623321 GGTCGTCACC
**
16623331 ATCCCTTTTCATAATCGATAGCTGAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
* * * *
16623360 ATCCCTTTTCACATTTGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
* * * *** *
16623389 ATCCCTTTTCATATTTGATGGTCGTTA-CC
1 ATCCCTTTTCATAATCGATAG-CCAAAGCT
** * * *** *
16623418 ATCCCTTTTCATGTTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATCGATAG-CCAAAGCT
16623447 ATCCCTTTTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
* * *
16623476 ATCCCTTTTTATATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAGCT
16623505 ATCCCTTTTCAT
1 ATCCCTTTTCAT
16623517 TATTTGAGGG
Statistics
Matches: 131, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
28 2 0.02
29 127 0.97
30 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCAAAGCT
Found at i:16641051 original size:79 final size:81
Alignment explanation
Indices: 16640949--16641138 Score: 246
Period size: 79 Copynumber: 2.4 Consensus size: 81
16640939 GCTCCTCGTT
* *
16640949 CAAATGCCTTCGGGACATAGCCCGGTTAT-AGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGG-AATCAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
16641012 GGATTTTGTAAC-TCGCA
64 GGATATGGTAACTTAGCA
* *
16641029 CAAATGCCTTCGGG-CTTAGCCCGGAATCAGTATCTCGCACAAATGCCTTCGGATCTTAATCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATCAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
16641093 ATATGGTCACTTAGCA
66 ATATGGTAACTTAGCA
16641109 CAAA-GCCTTCGGGACTTAGCCCGGACATCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATCA
16641139 TTCAAATAAC
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
78 5 0.05
79 55 0.57
80 33 0.34
81 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATCAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATGGTAACTTAGCA
Found at i:16641133 original size:40 final size:40
Alignment explanation
Indices: 16640949--16641133 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
16640939 GCTCCTCGTT
* *
16640949 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
16640989 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
16641029 CAAATGCCTTCGGG-CTTAGCCCGGA-ATCAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCA
** * * *
16641068 CAAATGCCTTC-GGATCTTAATCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
16641109 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16641134 CATCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 3 0.02
39 30 0.25
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:16665681 original size:27 final size:27
Alignment explanation
Indices: 16665651--16665828 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
16665641 ATATTGAGCC
* *
16665651 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
16665678 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
16665705 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
16665733 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
16665760 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
16665787 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
16665814 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16665829 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:16665790 original size:82 final size:81
Alignment explanation
Indices: 16665672--16665827 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
16665662 TGCTATATAA
* * *
16665672 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
16665737 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16665754 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
16665818 CACTTAGTGC
65 CACTTAGTGC
16665828 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16668679 original size:21 final size:21
Alignment explanation
Indices: 16668655--16668760 Score: 67
Period size: 21 Copynumber: 5.1 Consensus size: 21
16668645 GTACAAAGAA
16668655 GGGCACGTATGTGCAATTCAG
1 GGGCACGTATGTGCAATTCAG
* * *
16668676 GGGCAC-TGAAGTACAA-ACAG
1 GGGCACGT-ATGTGCAATTCAG
* * *
16668696 GGGCATGAATGAGCAATTCAG
1 GGGCACGTATGTGCAATTCAG
* * *
16668717 GGGCAC-TGAAGTACAA-ACAG
1 GGGCACGT-ATGTGCAATTCAG
* *
16668737 GAGCATGTATGTGCAATTCAG
1 GGGCACGTATGTGCAATTCAG
16668758 GGG
1 GGG
16668761 TACCGAAGTA
Statistics
Matches: 58, Mismatches: 21, Indels: 12
0.64 0.23 0.13
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.32, C:0.17, G:0.33, T:0.18
Consensus pattern (21 bp):
GGGCACGTATGTGCAATTCAG
Found at i:16668696 original size:20 final size:20
Alignment explanation
Indices: 16668673--16668737 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
16668663 ATGTGCAATT
16668673 CAGGGGCACTGAAGTACAAA
1 CAGGGGCACTGAAGTACAAA
*
16668693 CAGGGGCA-TGAA-TGAGCAATT
1 CAGGGGCACTGAAGT-A-CAA-A
16668714 CAGGGGCACTGAAGTACAAA
1 CAGGGGCACTGAAGTACAAA
16668734 CAGG
1 CAGG
16668738 AGCATGTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 15 0.39
21 11 0.29
22 5 0.13
23 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.12
Consensus pattern (20 bp):
CAGGGGCACTGAAGTACAAA
Found at i:16668803 original size:40 final size:41
Alignment explanation
Indices: 16668629--16668796 Score: 189
Period size: 41 Copynumber: 4.1 Consensus size: 41
16668619 ACAAAACTTC
* *
16668629 ATTCAGGGGTACCAAAGTACAAAGA-AGGGCACGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAGA-GGCACGTATGTGCA
* * * * * *
16668670 ATTCAGGGGCACTGAAGTACAAACAGGGGCATGAATGAGCA
1 ATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGCA
* * *
16668711 ATTCAGGGGCACTGAAGTACAAACAG-GAGCATGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAGAG-GCACGTATGTGCA
*
16668752 ATTCAGGGGTACCGAAGTACAAA-AGAGGCACGTTTGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGCA
16668792 ATTCA
1 ATTCA
16668797 ACGGTACTCT
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.17
41 91 0.83
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.18
Consensus pattern (41 bp):
ATTCAGGGGTACCGAAGTACAAACAGAGGCACGTATGTGCA
Found at i:16671046 original size:80 final size:80
Alignment explanation
Indices: 16670884--16671062 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
16670874 AAATCACGTA
* * * *
16670884 CCTTCGGAATTTAA-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGGACTTAACCCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
16670948 TAACTTGCACAAATG
66 TAACTTGCACAAATG
* * *
16670963 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATAT
1 CCTTCGGGACTTAACCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGA-CATAGCCCGGATAT
* *
16671026 GGTCACTTAGCACAAA-G
64 AGTAACTT-GCACAAATG
*
16671043 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
16671063 CATCATTCAA
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
79 16 0.19
80 63 0.73
81 7 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
TAACTTGCACAAATG
Found at i:16671062 original size:40 final size:40
Alignment explanation
Indices: 16670898--16671062 Score: 192
Period size: 40 Copynumber: 4.1 Consensus size: 40
16670888 CGGAATTTAA
* * *
16670898 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTTGCACAAATGCCTTCGGGACTTAGC
* *
16670938 CCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGC
* * *
16670978 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTTGCACAAATGCCTTCGGGA-CTTAGC
* *
16671018 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAACTT-GCACAAATGCCTTCGGGACTTAGC
16671058 CCGGA
1 CCGGA
16671063 CATCATTCAA
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.04
40 92 0.87
41 10 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGC
Found at i:16680969 original size:12 final size:12
Alignment explanation
Indices: 16680944--16680982 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16680934 ACTCGCTTCT
* *
16680944 TTACTTACTCAC
1 TTACTTGCTTAC
*
16680956 TTACTTGTTTAC
1 TTACTTGCTTAC
16680968 TTACTTGCTTAC
1 TTACTTGCTTAC
16680980 TTA
1 TTA
16680983 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:16688679 original size:24 final size:24
Alignment explanation
Indices: 16688647--16688693 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16688637 CTAAATTTAT
*
16688647 AACACTTTCCTTTC-CTTTCTCTTC
1 AACACTTTCC-ATCACTTTCTCTTC
*
16688671 AACATTTTCCATCACTTTCTCTT
1 AACACTTTCCATCACTTTCTCTT
16688694 ATTTTCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (24 bp):
AACACTTTCCATCACTTTCTCTTC
Found at i:16691762 original size:75 final size:76
Alignment explanation
Indices: 16691576--16691787 Score: 347
Period size: 75 Copynumber: 2.8 Consensus size: 76
16691566 TATCCGTTAT
* * *
16691576 CGGTGGATTCAGCACTTAGCAACCACCAGTG-ATACGGGGAATCAGCACTTAGCAACCCCTTTCA
1 CGGTGGAATCTGCACTTAGCAACCACCAATGAAT-CGGGGAATCAGCACTTAGCAACCCCTTTCA
16691640 CATTCAATGATA
65 CATTCAATGATA
*
16691652 CGGTGGAATCTCCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCTGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
16691717 ATTTAA-GATA
66 ATTCAATGATA
*
16691727 CGGTGGGATCTGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCTGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
16691788 GGGGGAATCA
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
75 63 0.49
76 63 0.49
77 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (76 bp):
CGGTGGAATCTGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAATGATA
Found at i:16691810 original size:102 final size:102
Alignment explanation
Indices: 16691687--16691917 Score: 401
Period size: 102 Copynumber: 2.3 Consensus size: 102
16691677 CCAATGAATC
* * *
16691687 GGGGAATCAGCACTTAGCAACCCCTTTCACATTT-AAGATACGGTGGGATCTGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTGAA-ATACGGTGGAATCAGCACTTAGCAACC
*
16691751 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
65 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
*
16691789 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTGAAATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTGAAATACGGTGGAATCAGCACTTAGCAACCA
16691854 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
66 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
16691891 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
16691918 TATATTCAAA
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
102 121 0.98
103 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTGAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
Found at i:16692015 original size:51 final size:51
Alignment explanation
Indices: 16691939--16692108 Score: 211
Period size: 51 Copynumber: 3.3 Consensus size: 51
16691929 ATACCAGTTC
*
16691939 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATAT
1 ACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATAT
* *
16691990 ACATAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTAT
1 ACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATAT
* * * * *
16692041 GCATAGTAGCCTACACATAGTACTACACACGTGACCATCACTTTCAC-TTTT
1 ACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATC-CGATAT
*
16692092 ACATAGTGGCCTGCACA
1 ACATAGTAGCCTGCACA
16692109 CAGTCCGTGC
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.03
51 95 0.93
52 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
ACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATAT
Found at i:16696578 original size:20 final size:20
Alignment explanation
Indices: 16696539--16696580 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
16696529 TTTTCTACTG
**
16696539 TAGGCTCAGAGGTTTGCACT
1 TAGGCTCAGAGGTTCACACT
16696559 TAGGCTCAGAGGTTCACACT
1 TAGGCTCAGAGGTTCACACT
16696579 TA
1 TA
16696581 TGATGCGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (20 bp):
TAGGCTCAGAGGTTCACACT
Found at i:16697390 original size:21 final size:21
Alignment explanation
Indices: 16697366--16697414 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
16697356 ACTTCTCTGT
* *
16697366 TTTTATTTTTTTTCTTTTCTC
1 TTTTATTTGTTTTCTTTTATC
** *
16697387 TTTTAAATGTTTTCTTTTATT
1 TTTTATTTGTTTTCTTTTATC
16697408 TTTTATT
1 TTTTATT
16697415 ATTATTGTTT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTATTTGTTTTCTTTTATC
Found at i:16699598 original size:16 final size:16
Alignment explanation
Indices: 16699572--16699612 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
16699562 AGGAGGAAAG
16699572 AGGGTTT-GAAG-GATA
1 AGGGTTTAGAAGAG-TA
16699587 AGGGTTTAGAAGAGTA
1 AGGGTTTAGAAGAGTA
*
16699603 AGTGTTTAGA
1 AGGGTTTAGA
16699613 TGAAGTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (16 bp):
AGGGTTTAGAAGAGTA
Found at i:16705137 original size:27 final size:27
Alignment explanation
Indices: 16705098--16705526 Score: 377
Period size: 27 Copynumber: 15.9 Consensus size: 27
16705088 GGCCATAACA
*
16705098 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
16705125 ATCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
16705152 ATCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
16705179 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* **
16705206 GTCATTCTACCCTATGAGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
16705233 GTCATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * *
16705260 ATAATTCTACCCTATG-GAGGTATTTCA
1 GTCATTTTACCCTATGAG-GGTATTTCG
*
16705287 GTCATTTTACCCTATG-GAGGTATTTTG
1 GTCATTTTACCCTATGAG-GGTATTTCG
*
16705314 ATCATTTTACCCTAATG-GGGTATTTCG
1 GTCATTTTACCCT-ATGAGGGTATTTCG
16705341 GTCATTTTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* * *
16705368 GTCATTTTCCCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * ** * *
16705395 ATCATTCTACCCTATGACAGTGTTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
16705422 ATCATTCTACCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* **
16705449 GTCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * * *
16705476 GTTATTTT-TCTTA-CATGGGTATTTCA
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
16705502 GTCATTTTATCCTATGGGGGTATTT
1 GTCATTTTACCCTATGAGGGTATTT
16705527 TACCCTATAG
Statistics
Matches: 333, Mismatches: 59, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
26 23 0.07
27 306 0.92
28 4 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:16705164 original size:54 final size:54
Alignment explanation
Indices: 16705099--16705474 Score: 422
Period size: 54 Copynumber: 7.0 Consensus size: 54
16705089 GCCATAACAG
* **
16705099 TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGAGGGTATTTTGA
1 TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGA
* * * *
16705153 TCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTA-TTTCA
1 TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGA
** * *
16705206 GTCATTCTACCCTATGAGGGTATTTTAGTCATTTTACCTTATGGGGGTATTTTGA
1 -TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGA
* *
16705261 TAATTCTACCCTATG-GAGGTATTTCAGTCATTTTACCCTATG-GAGGTATTTTGA
1 TCATTCTACCCTATGAG-GGTATTTCGGTCATTTTACCCTATGAG-GGTATTTTGA
* * *
16705315 TCATTTTACCCTAATG-GGGTATTTCGGTCATTTTACCCTAT-AGGGGTATTTCGG
1 TCATTCTACCCT-ATGAGGGTATTTCGGTCATTTTACCCTATGA-GGGTATTTTGA
* * * * * * ** *
16705369 TCATTTTCCCCTATGGGGGTATTTTGATCATTCTACCCTATGACAGTGTTTTGA
1 TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGA
*
16705423 TCATTCTACCCTAT-AGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTT
1 TCATTCTACCCTATGA-GGGTATTTCGGTCATTTTACCCTATGAGGGTATTTT
16705475 AGTTATTTTT
Statistics
Matches: 274, Mismatches: 38, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
53 9 0.03
54 255 0.93
55 10 0.04
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (54 bp):
TCATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGA
Found at i:16705201 original size:81 final size:81
Alignment explanation
Indices: 16705099--16705474 Score: 488
Period size: 81 Copynumber: 4.6 Consensus size: 81
16705089 GCCATAACAG
* *
16705099 TCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGAGGGTATTTTGATCATTCTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGATCATTCTACCC
16705164 TATGGGGGTATTTCGA
66 TATGGGGGTATTTCGA
* *
16705180 TCATTTTACCCTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTT-AGTCATTTTACC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGA-TCATTCTACC
* *
16705244 TTATGGGGGTATTTTGA
65 CTATGGGGGTATTTCGA
* * * *
16705261 TAATTCTACCCTATGGAGGTATTTCAGTCATTTTACCCTATG-GAGGTATTTTGATCATTTTACC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAG-GGTATTTTGATCATTCTACC
*
16705325 CTAAT-GGGGTATTTCGG
65 CT-ATGGGGGTATTTCGA
* * * *
16705342 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTCCCCTATGGGGGTATTTTGATCATTCTACCC
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGATCATTCTACCC
*** * *
16705407 TATGACAGTGTTTTGA
66 TATGGGGGTATTTCGA
* * * *
16705423 TCATTCTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTT
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTT
16705475 AGTTATTTTT
Statistics
Matches: 261, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
80 4 0.02
81 253 0.97
82 4 0.02
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTTGATCATTCTACCC
TATGGGGGTATTTCGA
Found at i:16705541 original size:17 final size:18
Alignment explanation
Indices: 16705505--16705543 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16705495 TATTTCAGTC
* *
16705505 ATTTTATCCTATGGGGGT
1 ATTTTACCCTATGAGGGT
16705523 ATTTTACCCTAT-AGGGT
1 ATTTTACCCTATGAGGGT
16705540 ATTT
1 ATTT
16705544 AGGTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.46
Consensus pattern (18 bp):
ATTTTACCCTATGAGGGT
Found at i:16718681 original size:19 final size:19
Alignment explanation
Indices: 16718654--16718690 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16718644 TCCTTCAAAG
*
16718654 AATATATGAAAAAAATGTT
1 AATACATGAAAAAAATGTT
16718673 AATACATGAAAAAAATGT
1 AATACATGAAAAAAATGT
16718691 GTCTTCATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (19 bp):
AATACATGAAAAAAATGTT
Found at i:16722919 original size:16 final size:17
Alignment explanation
Indices: 16722895--16722928 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16722885 AGAAATCACC
16722895 TTTTGTTGT-TTTTGAT
1 TTTTGTTGTATTTTGAT
*
16722911 TTTTTTTGTATTTTGAT
1 TTTTGTTGTATTTTGAT
16722928 T
1 T
16722929 GCGTGCGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (17 bp):
TTTTGTTGTATTTTGAT
Found at i:16723044 original size:7 final size:7
Alignment explanation
Indices: 16723017--16723056 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
16723007 AAATTTTTTC
16723017 TTTCTGTT
1 TTTCT-TT
16723025 TTTCTTGT
1 TTTCTT-T
16723033 TTTCTTT
1 TTTCTTT
16723040 TTTCTTT
1 TTTCTTT
16723047 TTTCTTT
1 TTTCTTT
16723054 TTT
1 TTT
16723057 TGCTACCGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 19 0.61
8 12 0.39
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:16723057 original size:8 final size:8
Alignment explanation
Indices: 16723012--16723057 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
16723002 AATACAAATT
16723012 TTTTCTTTC
1 TTTT-TTTC
*
16723021 TGTTTTTC
1 TTTTTTTC
*
16723029 TTGTTTTC
1 TTTTTTTC
16723037 -TTTTTTC
1 TTTTTTTC
16723044 -TTTTTTC
1 TTTTTTTC
16723051 TTTTTTT
1 TTTTTTT
16723058 GCTACCGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 13 0.41
8 16 0.50
9 3 0.09
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:16723057 original size:15 final size:16
Alignment explanation
Indices: 16723017--16723057 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
16723007 AAATTTTTTC
*
16723017 TTTCTGTTTTTCTTGT
1 TTTCTTTTTTTCTTGT
16723033 TTTC-TTTTTTCTT-T
1 TTTCTTTTTTTCTTGT
16723047 TTTCTTTTTTT
1 TTTCTTTTTTT
16723058 GCTACCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 14 0.61
16 4 0.17
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTCTTGT
Found at i:16726469 original size:38 final size:38
Alignment explanation
Indices: 16726412--16726708 Score: 126
Period size: 38 Copynumber: 7.8 Consensus size: 38
16726402 ATTGGGAAAT
* * *
16726412 GGTTATCTATTGGTACTTCGAGGAGACACCGAGTTGAC
1 GGTTATCTACTGATCCTTCGAGGAGACACCGAGTTGAC
* * * *
16726450 GGTTATCTACTAATCCTTCGGGGCGACACC-ATGTTAAC
1 GGTTATCTACTGATCCTTCGAGGAGACACCGA-GTTGAC
** * * * * *
16726488 CATTATCTACTGGTCTTTCGGGGCA-ACACCGTGTTGAT
1 GGTTATCTACTGATCCTTCGAGG-AGACACCGAGTTGAC
* * *
16726526 AGTTATCTACTGATCCTT-TAGG-GTAACACC-ATGTTGAT
1 GGTTATCTACTGATCCTTCGAGGAG--ACACCGA-GTTGAC
* * * * * *
16726564 GATGATCTACT-AGCCTTTC-AGGGCGACAACGTGTTGAC
1 GGTTATCTACTGATCC-TTCGA-GGAGACACCGAGTTGAC
* * * * *
16726602 AGTTATCTACTGGTCCTTCGAGGAAACACCGTGTTAAC
1 GGTTATCTACTGATCCTTCGAGGAGACACCGAGTTGAC
* * * *
16726640 GGTTATCTATTGGTCCTTC-AGGCTGACATC-ATGTTGAC
1 GGTTATCTACTGATCCTTCGAGG-AGACACCGA-GTTGAC
** * *
16726678 AATTATCTACTGTTCCTTCGAGGTGACACCG
1 GGTTATCTACTGATCCTTCGAGGAGACACCG
16726709 TGTAAACTGT
Statistics
Matches: 190, Mismatches: 51, Indels: 35
0.69 0.18 0.13
Matches are distributed among these distances:
37 9 0.05
38 172 0.91
39 8 0.04
40 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (38 bp):
GGTTATCTACTGATCCTTCGAGGAGACACCGAGTTGAC
Found at i:16726542 original size:76 final size:75
Alignment explanation
Indices: 16726414--16726707 Score: 250
Period size: 76 Copynumber: 3.9 Consensus size: 75
16726404 TGGGAAATGG
* * * * * * **
16726414 TTATCTATTGGTAC-TTCGAGGAGACACCGAGTTGACGGTTATCTACTAATCCTTCGGGGCGACA
1 TTATCTACTGGT-CTTTCG-GGCGACACCGTGTTGACAGTTATCTACTGATCCTTCGAGGTAACA
*
16726478 CCATGTTAACCA
64 CCATGTTAACGA
* * *
16726490 TTATCTACTGGTCTTTCGGGGCAACACCGTGTTGATAGTTATCTACTGATCCTT-TAGGGTAACA
1 TTATCTACTGGTCTTTC-GGGCGACACCGTGTTGACAGTTATCTACTGATCCTTCGA-GGTAACA
* *
16726554 CCATGTTGATGA
64 CCATGTTAACGA
* * * * * *
16726566 TGATCTACTAGCCTTTCAGGGCGACAACGTGTTGACAGTTATCTACTGGTCCTTCGAGGAAACAC
1 TTATCTACTGGTCTTTC-GGGCGACACCGTGTTGACAGTTATCTACTGATCCTTCGAGGTAACAC
* *
16726631 CGTGTTAACGG
65 CATGTTAACGA
* * * * * * * *
16726642 TTATCTATTGGTCCTTCAGGCTGACATCATGTTGACAATTATCTACTGTTCCTTCGAGGTGACAC
1 TTATCTACTGGTCTTTCGGGC-GACACCGTGTTGACAGTTATCTACTGATCCTTCGAGGTAACAC
16726707 C
65 C
16726708 GTGTAAACTG
Statistics
Matches: 173, Mismatches: 40, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
75 4 0.02
76 167 0.97
77 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (75 bp):
TTATCTACTGGTCTTTCGGGCGACACCGTGTTGACAGTTATCTACTGATCCTTCGAGGTAACACC
ATGTTAACGA
Found at i:16726686 original size:114 final size:113
Alignment explanation
Indices: 16726412--16726688 Score: 281
Period size: 114 Copynumber: 2.4 Consensus size: 113
16726402 ATTGGGAAAT
* * * * *
16726412 GGTTATCTATTGGTACTTCGAGGAGACACCGA-GTTGACGGTTATCTACTAATCCTTCGGGGCGA
1 GGTTATCTATTGGTCCTTC-AGGTGACACC-ATGTTGACGATTATCTACTAAGCCTTCAGGGCGA
* * * * * *
16726476 CACCATGTTAACCATTATCTACTGGTCTTTCGGGGCAACACCGTGTTGAT
64 CAACATGTTAACCATTATCTACTGGTCCTTCGAGGAAACACCGTGTTAAC
* * * * * * *
16726526 AGTTATCTACTGATCCTTTAGGGTAACACCATGTTGATGATGATCTACT-AGCCTTTCAGGGCGA
1 GGTTATCTATTGGTCCTTCA-GGTGACACCATGTTGACGATTATCTACTAAGCC-TTCAGGGCGA
* *
16726590 CAACGTGTTGA-CAGTTATCTACTGGTCCTTCGAGGAAACACCGTGTTAAC
64 CAACATGTTAACCA-TTATCTACTGGTCCTTCGAGGAAACACCGTGTTAAC
* *
16726640 GGTTATCTATTGGTCCTTCAGGCTGACATCATGTTGACAATTATCTACT
1 GGTTATCTATTGGTCCTTCAGG-TGACACCATGTTGACGATTATCTACT
16726689 GTTCCTTCGA
Statistics
Matches: 129, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
113 9 0.07
114 120 0.93
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (113 bp):
GGTTATCTATTGGTCCTTCAGGTGACACCATGTTGACGATTATCTACTAAGCCTTCAGGGCGACA
ACATGTTAACCATTATCTACTGGTCCTTCGAGGAAACACCGTGTTAAC
Found at i:16738606 original size:27 final size:26
Alignment explanation
Indices: 16738575--16738752 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
16738565 TAAATTGTAC
*
16738575 AGCACTAAGGGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
16738602 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
16738628 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
16738656 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
16738684 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
16738711 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
16738738 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16738753 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:16738690 original size:82 final size:81
Alignment explanation
Indices: 16738576--16738731 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
16738566 AAATTGTACA
* *
16738576 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
16738640 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
16738657 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
16738722 TGCGAGTTGA
65 TGCGAATTGA
16738732 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16738743 original size:82 final size:81
Alignment explanation
Indices: 16738572--16738752 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
16738562 GATTAAATTG
* * *
16738572 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16738637 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
16738653 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
16738717 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
16738735 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16738753 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16738763 original size:27 final size:27
Alignment explanation
Indices: 16738657--16738763 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
16738647 TGACCATGCG
* * * *
16738657 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
16738685 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
16738712 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
16738739 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
16738764 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:16746614 original size:27 final size:27
Alignment explanation
Indices: 16746563--16746739 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
16746553 TAAATTGTAC
16746563 AGCACTAAG-GTGCG-ATTCGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
* * *
16746589 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16746615 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
16746643 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
16746671 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16746698 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
16746725 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16746740 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
26 8 0.06
27 95 0.74
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:16746676 original size:82 final size:80
Alignment explanation
Indices: 16746564--16746718 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
16746554 AAATTGTACA
* *
16746564 GCACTAAGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 GCACTAAGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
16746628 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
* ** *
16746644 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAG-GTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
16746709 TGCGAGTTGA
64 TGCGAATTGA
16746719 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 8 0.12
81 6 0.09
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (80 bp):
GCACTAAGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:16746730 original size:82 final size:81
Alignment explanation
Indices: 16746560--16746739 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
16746550 GATTAAATTG
* *
16746560 TACAGCACTAAG-GTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16746624 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
16746640 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
16746704 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
16746722 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16746740 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 10 0.12
81 7 0.09
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16746750 original size:27 final size:27
Alignment explanation
Indices: 16746644--16746750 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
16746634 TGACCATGCG
* * * *
16746644 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
16746672 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
16746699 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
16746726 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
16746751 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:16754522 original size:26 final size:27
Alignment explanation
Indices: 16754492--16754660 Score: 158
Period size: 26 Copynumber: 6.6 Consensus size: 27
16754482 TAAATTGTAC
*
16754492 AGCACTAAG-GTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
16754518 TGCACTAAGTGTGC-AAAT-AATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
16754542 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
16754569 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16754596 AGCAC-AAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16754621 AGCACTAAGTGTGCG-AGTGA-TATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
16754646 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16754661 GACCAATATA
Statistics
Matches: 118, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
25 48 0.41
26 58 0.49
27 12 0.10
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:16754626 original size:78 final size:77
Alignment explanation
Indices: 16754493--16754636 Score: 193
Period size: 78 Copynumber: 1.9 Consensus size: 77
16754483 AAATTGTACA
* * *
16754493 GCACTAAGGTGCGATTTGACTATGTTGCACTAAGTGTGCAAATAATATGATGCACTAAGTGTGCG
1 GCACTAAGGTGCGAGTTGACTATGTAGCACTAAGTGTGCAAATAATACGATGCACTAAGTGTGCG
16754558 AATTGACCATGG
66 AATTGACCATGG
* * *
16754570 GCACTAAGTGTGCGAGTTGACTATGTAGCAC-AAGTGTGCGATTGATTACG-TAGCACTAAGTGT
1 GCACTAAG-GTGCGAGTTGACTATGTAGCACTAAGTGTGCAAAT-AATACGAT-GCACTAAGTGT
16754633 GCGA
63 GCGA
16754637 GTGATATATA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
77 19 0.33
78 39 0.67
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (77 bp):
GCACTAAGGTGCGAGTTGACTATGTAGCACTAAGTGTGCAAATAATACGATGCACTAAGTGTGCG
AATTGACCATGG
Found at i:16757431 original size:57 final size:58
Alignment explanation
Indices: 16757286--16757433 Score: 140
Period size: 57 Copynumber: 2.6 Consensus size: 58
16757276 ATTGATCTTG
* * ** *
16757286 TTATAGAAAGGATTTAGCCTGGACGGGTAATCCCGATAAAATACCTCTTGAGCATACA
1 TTATATAAAGGATTTAGCCTGGACTGGTAATCCAAATAAAATACCTCTTAAGCATACA
* * * * * ** *
16757344 TTATGAT-TAGGGTTTAGCCTTGACTAGTAATCTAAATCAAGCT-CCTC-TAAGCTTACA
1 TTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCAAAT-AAAATACCTCTTAAGCATACA
16757401 TTATATAAAGGATTTAGCCTGGACTGGTAATCC
1 TTATATAAAGGATTTAGCCTGGACTGGTAATCC
16757434 TGTTATATGA
Statistics
Matches: 69, Mismatches: 18, Indels: 7
0.73 0.19 0.07
Matches are distributed among these distances:
56 2 0.03
57 33 0.48
58 30 0.43
59 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (58 bp):
TTATATAAAGGATTTAGCCTGGACTGGTAATCCAAATAAAATACCTCTTAAGCATACA
Found at i:16768858 original size:27 final size:28
Alignment explanation
Indices: 16768720--16768845 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
16768710 TAAATTGTAC
*
16768720 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
16768748 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
16768776 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
16768804 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
16768831 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16768846 GACTTAATAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:16776924 original size:27 final size:28
Alignment explanation
Indices: 16776786--16776911 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
16776776 TAAATTGTAC
*
16776786 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
16776814 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
16776842 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
16776870 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
16776897 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16776912 GACTTAATAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:16780220 original size:137 final size:138
Alignment explanation
Indices: 16779973--16780220 Score: 365
Period size: 137 Copynumber: 1.8 Consensus size: 138
16779963 TAGAAAAAGA
* * * *
16779973 AATTATATTCTTTCCAAAAGAAAATTAGTTTTCATGTATTTTATATTCTGATCGAAATTAACTAA
1 AATTATATTCTTTCCAAAAGAAAATTAATTTCCATGTATTTTATATTCTGACCGAAATTAAATAA
*
16780038 TATAATTTTTTATATTAACAAATTCTGTAAAATATATAAAATTAATATTTTGTATAAATCAAATT
66 TATAATTGTTTATATTAACAAATTCTGTAAAATATATAAAATTAATATTTTGTATAAATCAAATT
16780103 CATATATT
131 CATATATT
* ** * *
16780111 AATTATTTTCTTTGTAAAAGAATATTAATTTCCATGTCTTTTATATTC-GACCGAAATTAAATAA
1 AATTATATTCTTTCCAAAAGAAAATTAATTTCCATGTATTTTATATTCTGACCGAAATTAAATAA
* *
16780175 TATAATTGTTTATATTAATAAATT-TGGTAAAATATATACAATTAAT
66 TATAATTGTTTATATTAACAAATTCT-GTAAAATATATAAAATTAAT
16780221 CGTTGCACAT
Statistics
Matches: 97, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
136 1 0.01
137 55 0.57
138 41 0.42
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAAAATTAATTTCCATGTATTTTATATTCTGACCGAAATTAAATAA
TATAATTGTTTATATTAACAAATTCTGTAAAATATATAAAATTAATATTTTGTATAAATCAAATT
CATATATT
Found at i:16785172 original size:40 final size:40
Alignment explanation
Indices: 16785135--16785359 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
16785125 GCTACTCGTT
* *
16785135 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
16785175 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
16785215 CAAATGCCTTCGGGACTTAACTTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
16785255 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
16785294 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16785335 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16785360 CATCATTCGA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 116 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16785319 original size:119 final size:120
Alignment explanation
Indices: 16785137--16785352 Score: 296
Period size: 119 Copynumber: 1.8 Consensus size: 120
16785127 TACTCGTTCA
*
16785137 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
16785202 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACTTGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACTTGGATTTAGTAACTCGCACC
* * **
16785257 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
16785319 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
16785353 GCCCGGACAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.05
119 60 0.71
120 20 0.24
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACTTGGATTTAGTAACTCGCACC
Found at i:16786570 original size:56 final size:56
Alignment explanation
Indices: 16786484--16786603 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
16786474 TATTAGTTTA
16786484 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
16786540 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
16786596 TTGCCCAT
1 TTGCCCAT
16786604 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:16793259 original size:119 final size:120
Alignment explanation
Indices: 16793077--16793299 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
16793067 TACTCGTTCA
* *
16793077 AATGCCTTCGGGACATAGCCCGGTTATAGTAAGTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
16793142 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
16793197 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
16793259 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
16793300 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:16793299 original size:40 final size:39
Alignment explanation
Indices: 16793056--16793299 Score: 262
Period size: 40 Copynumber: 6.1 Consensus size: 39
16793046 CGGAATTTAA
** *
16793056 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* * *
16793096 CCGGTTATAGTAAGTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* *
16793136 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* *
16793176 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
16793215 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTA-CTCGCACAAATGCCTTCGGGA-CTTAGC
* *
16793255 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
16793295 CCGGA
1 CCGGA
16793300 CATCATTCGA
Statistics
Matches: 178, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
38 3 0.02
39 31 0.17
40 131 0.74
41 13 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16794494 original size:56 final size:56
Alignment explanation
Indices: 16794427--16794602 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
16794417 TATTAGTTTA
16794427 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
16794483 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
16794539 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
16794595 TTGCCCAT
1 TTGCCCAT
16794603 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:16812844 original size:40 final size:40
Alignment explanation
Indices: 16812789--16813256 Score: 821
Period size: 40 Copynumber: 11.7 Consensus size: 40
16812779 TGAGCATTGG
16812789 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
16812829 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
16812869 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
16812909 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
16812949 GATATATCC-GGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
16812988 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
16813028 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
16813068 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
16813108 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
16813148 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
16813188 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
16813228 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
16813257 ATGTGTTTGC
Statistics
Matches: 409, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
39 38 0.09
40 371 0.91
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:16821732 original size:40 final size:40
Alignment explanation
Indices: 16821677--16822092 Score: 676
Period size: 40 Copynumber: 10.7 Consensus size: 40
16821667 GAGCATTGGA
16821677 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16821717 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
16821757 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT-
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
16821796 ATATATCC-GGCTAAGA-CCGAA-GC-ATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
16821832 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
16821872 ATATATCC-GGCTAAGA-CCGAA-GCAA-TATGCGAG-T-
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
16821906 A-ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16821945 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
16821985 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16822025 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
16822065 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
16822093 ATGTGTTTGC
Statistics
Matches: 352, Mismatches: 12, Indels: 24
0.91 0.03 0.06
Matches are distributed among these distances:
33 6 0.02
34 9 0.03
35 18 0.05
36 22 0.06
37 25 0.07
38 19 0.05
39 19 0.05
40 234 0.66
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:16844611 original size:27 final size:26
Alignment explanation
Indices: 16844580--16844757 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
16844570 TAAATTGTAC
*
16844580 AGCACTAAGGGTGCGATTCGAATATGT
1 AGCACTAAGTGTGCGATT-GAATATGT
* *
16844607 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGAATATGT
** *
16844633 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGAATATGT
* *
16844661 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGAATATGT
* *
16844689 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGAATATGT
* *
16844716 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGAATATGT
*
16844743 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16844758 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGAATATGT
Found at i:16844698 original size:82 final size:81
Alignment explanation
Indices: 16844581--16844736 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
16844571 AAATTGTACA
* *
16844581 GCACTAAGGGTGCGATTCGAATATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGAATATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
16844645 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * * ** *
16844662 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGAATATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
16844727 TGCGAGTTGA
65 TGCGAATTGA
16844737 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 14 0.22
82 49 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGAATATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16844704 original size:55 final size:54
Alignment explanation
Indices: 16844608--16844757 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 54
16844598 CGAATATGTT
** * *
16844608 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACGCA
* * ** *
16844662 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
* * *
16844717 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
16844758 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 37 0.45
55 44 0.54
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
Found at i:16844748 original size:82 final size:81
Alignment explanation
Indices: 16844577--16844757 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
16844567 GATTAAATTG
* * *
16844577 TACAGCACTAAGGGTGCGATTCGAATATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGAATATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16844642 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * ** *
16844658 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGAATATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
16844722 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
16844740 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16844758 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGAATATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16844768 original size:27 final size:27
Alignment explanation
Indices: 16844662--16844768 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
16844652 TGACCATGCG
* * * *
16844662 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
16844690 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
16844717 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
16844744 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
16844769 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:16850743 original size:17 final size:19
Alignment explanation
Indices: 16850718--16850752 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16850708 TATATTAAAT
16850718 AAATATATTAT-ATATTTA
1 AAATATATTATAATATTTA
16850736 AAAT-TATTATAATATTT
1 AAATATATTATAATATTT
16850753 TAATTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATATTATAATATTTA
Found at i:16851837 original size:199 final size:199
Alignment explanation
Indices: 16851484--16851876 Score: 678
Period size: 199 Copynumber: 2.0 Consensus size: 199
16851474 TATTGAGTTG
* *
16851484 ATGGAAACCTTGTTGTGTAACACCCCTAACCCGTACCCGTCGTCGAAATAGGGTTACAGAGCATC
1 ATGGAAACCTTGCTGTGTAACACCCCTAACCCGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
*
16851549 ACCGCAAAAACGTAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
66 ACCGCAAAAACATAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
16851614 ACACATGCATATCATCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGGT
131 ACACATGCATATCATCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGGT
16851679 TACA
196 TACA
* * * * *
16851683 ATGGAAGCCTTGCTGTGTAACATCCTTAACCCGTACCCGTCGCCGGAATAGGTTTACAGAGCATC
1 ATGGAAACCTTGCTGTGTAACACCCCTAACCCGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
* *
16851748 ACCGCAAAAACATAACTCAAATCATTCATGTCTAACATTTTATAATAATTCCAAAATCTAATCAA
66 ACCGCAAAAACATAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
* *
16851813 ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACACTTTAGAAACGATTCGG
131 ACACATGCATATCATCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGG
16851877 GACTAAATCG
Statistics
Matches: 182, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
199 182 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (199 bp):
ATGGAAACCTTGCTGTGTAACACCCCTAACCCGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
ACCGCAAAAACATAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
ACACATGCATATCATCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGGT
TACA
Found at i:16857017 original size:56 final size:50
Alignment explanation
Indices: 16856806--16857044 Score: 221
Period size: 50 Copynumber: 4.7 Consensus size: 50
16856796 GATAATAACA
* * ** * * *
16856806 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTCT-CGG
* * * ** * *
16856855 TGCGAATGCCATATCCCAGATATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTCTCGG
* * *
16856905 TGCCAACGCCATGTCCCAGACATGGTCTTACTTGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTCTCGG
* *
16856955 TGCCAATGCCATGTCCCAGACATGGTATTACATGAGACCTTTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTC--G-TCTC--GG
*
16857010 ATGCCAATGCCATGTCCCAGACGTGGTCTTACATG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATG
16857045 GGATCTCTTT
Statistics
Matches: 158, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 81 0.51
52 1 0.01
53 4 0.03
55 2 0.01
56 32 0.20
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTCTCGG
Found at i:16865640 original size:31 final size:31
Alignment explanation
Indices: 16865605--16865685 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
16865595 TATGTTTTAG
16865605 ACATTGCTGAATTTGATTTGTATATA-GATAT
1 ACATTGCTGAATTTGATTTGTATA-AGGATAT
* *
16865636 ACATTG-TCAAATTTGATTCGTATAAGGATAT
1 ACATTGCT-GAATTTGATTTGTATAAGGATAT
* *
16865667 ATATTGCCGAATTT-ATTTG
1 ACATTGCTGAATTTGATTTG
16865686 ATCATTGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
30 6 0.15
31 35 0.85
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (31 bp):
ACATTGCTGAATTTGATTTGTATAAGGATAT
Found at i:16875389 original size:25 final size:25
Alignment explanation
Indices: 16875355--16875569 Score: 191
Period size: 25 Copynumber: 8.6 Consensus size: 25
16875345 CACTCCACCA
* *
16875355 CTCGTGAGAGCATATCGATTTATAG
1 CTCGTGAGAGCATACCGATTTACAG
* * * *
16875380 CTCGTGAGAGCATACCAATTCAAAA
1 CTCGTGAGAGCATACCGATTTACAG
*
16875405 CTCGT-ATGAGCTTACCGATTTACAG
1 CTCGTGA-GAGCATACCGATTTACAG
* *
16875430 CTCGAGAGAGCATACCGATTTACAA
1 CTCGTGAGAGCATACCGATTTACAG
* * ** *
16875455 CTCGAGAGGGCATGTCGATTCACAG
1 CTCGTGAGAGCATACCGATTTACAG
* *
16875480 CTCAT-ATGAGCTTACCGATTTACAG
1 CTCGTGA-GAGCATACCGATTTACAG
* *
16875505 CTTGTAAGAGCATACCGATTTACAG
1 CTCGTGAGAGCATACCGATTTACAG
* * * *
16875530 CTTGAGAGAGCATATCGATTCACAG
1 CTCGTGAGAGCATACCGATTTACAG
*
16875555 CTCGTGTGAGCATAC
1 CTCGTGAGAGCATAC
16875570 GTGTAGAGGA
Statistics
Matches: 150, Mismatches: 36, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
24 2 0.01
25 146 0.97
26 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
CTCGTGAGAGCATACCGATTTACAG
Found at i:16875565 original size:75 final size:75
Alignment explanation
Indices: 16875355--16875565 Score: 271
Period size: 75 Copynumber: 2.8 Consensus size: 75
16875345 CACTCCACCA
* * * * * * * *
16875355 CTCGTGAGAGCATATCGATTTATAGCTCGTGAGAGCATACCAATTCAAAACTCGTATGAGCTTAC
1 CTCGAGAGAGCATACCGATTTACAGCTCGAGAGAGCATATCGATTCACAGCTCGTATGAGCTTAC
16875420 CGATTTACAG
66 CGATTTACAG
* * * *
16875430 CTCGAGAGAGCATACCGATTTACAACTCGAGAGGGCATGTCGATTCACAGCTCATATGAGCTTAC
1 CTCGAGAGAGCATACCGATTTACAGCTCGAGAGAGCATATCGATTCACAGCTCGTATGAGCTTAC
16875495 CGATTTACAG
66 CGATTTACAG
* * *
16875505 CTTGTA-AGAGCATACCGATTTACAGCTTGAGAGAGCATATCGATTCACAGCTCGTGTGAGC
1 CTCG-AGAGAGCATACCGATTTACAGCTCGAGAGAGCATATCGATTCACAGCTCGTATGAGC
16875566 ATACGTGTAG
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
75 115 0.99
76 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (75 bp):
CTCGAGAGAGCATACCGATTTACAGCTCGAGAGAGCATATCGATTCACAGCTCGTATGAGCTTAC
CGATTTACAG
Found at i:16875752 original size:31 final size:30
Alignment explanation
Indices: 16875717--16875774 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
16875707 TTACATGAAC
*
16875717 TACATGGAAAT-GATTTTACATGATATATAGA
1 TACAT-GAAATGGATGTTACATG-TATATAGA
*
16875748 TACATGATATGGATGTTACATGTATAT
1 TACATGAAATGGATGTTACATGTATAT
16875775 GGGAACTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (30 bp):
TACATGAAATGGATGTTACATGTATATAGA
Found at i:16882850 original size:21 final size:22
Alignment explanation
Indices: 16882826--16882866 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16882816 TTTTGGATTA
16882826 AATTGA-ATAAATTACATGTTT
1 AATTGAGATAAATTACATGTTT
* *
16882847 AATTGAGTTAAATTATATGT
1 AATTGAGATAAATTACATGT
16882867 ATAGATCCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.44
Consensus pattern (22 bp):
AATTGAGATAAATTACATGTTT
Found at i:16883241 original size:25 final size:24
Alignment explanation
Indices: 16883175--16883289 Score: 88
Period size: 25 Copynumber: 4.7 Consensus size: 24
16883165 CCGATCGTGA
**
16883175 GAGCATACTGATTTATAGCTCATG
1 GAGCATACCAATTTATAGCTCATG
* *
16883199 GAGCATACCGATTCATAGCTCGTATG
1 GAGCATACCAATTTATAGCTC--ATG
* *
16883225 G-GCTTACCAATTTATAGCTCCTG
1 GAGCATACCAATTTATAGCTCATG
** * *
16883248 AGAGCATTTCGATTTATAGCTCCTG
1 -GAGCATACCAATTTATAGCTCATG
*
16883273 AGAGCATACCGATTTAT
1 -GAGCATACCAATTTAT
16883290 TGCTTGAGAG
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.03
24 20 0.27
25 49 0.65
26 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (24 bp):
GAGCATACCAATTTATAGCTCATG
Found at i:16883288 original size:50 final size:49
Alignment explanation
Indices: 16883172--16883289 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 49
16883162 CCACCGATCG
* *
16883172 TGAGAGCATACTGATTTATAGCTCATGGAGCATACCGATTCATAGCTCG
1 TGAGAGCATACCGATTTATAGCTCATGGAGCATACCGATTCATAGCTCC
* * * * ** *
16883221 T-ATGGGCTTACCAATTTATAGCTCCTGAGAGCATTTCGATTTATAGCTCC
1 TGA-GAGCATACCGATTTATAGCTCATG-GAGCATACCGATTCATAGCTCC
16883271 TGAGAGCATACCGATTTAT
1 TGAGAGCATACCGATTTAT
16883290 TGCTTGAGAG
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
48 1 0.02
49 20 0.37
50 32 0.59
51 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (49 bp):
TGAGAGCATACCGATTTATAGCTCATGGAGCATACCGATTCATAGCTCC
Found at i:16885150 original size:17 final size:17
Alignment explanation
Indices: 16885109--16885168 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
16885099 CATACATCAA
** *
16885109 TGGCGGACAATATTTCT
1 TGGCGGACAATATCGCC
* *
16885126 TGGAGGACAGTATCGCC
1 TGGCGGACAATATCGCC
* *
16885143 TGGTGGACAATATCGCT
1 TGGCGGACAATATCGCC
16885160 TGGCGGACA
1 TGGCGGACA
16885169 CGATTCACAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (17 bp):
TGGCGGACAATATCGCC
Found at i:16886088 original size:26 final size:26
Alignment explanation
Indices: 16886046--16886095 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
16886036 GGTCACCATT
16886046 GCAAAGGTCTCTGCCCCTTGACCCAC
1 GCAAAGGTCTCTGCCCCTTGACCCAC
*
16886072 GCAAGGGTCTTCT-CCCCTTGACCC
1 GCAAAGGTC-TCTGCCCCTTGACCC
16886096 CTTCGCGTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.16, C:0.42, G:0.20, T:0.22
Consensus pattern (26 bp):
GCAAAGGTCTCTGCCCCTTGACCCAC
Found at i:16887056 original size:29 final size:28
Alignment explanation
Indices: 16887024--16887084 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
16887014 AAAAAGCCCT
16887024 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** * *
16887053 TTTTTTGATTATTTACCGGAATGGTCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
16887081 TTTT
1 TTTT
16887085 CTGGGAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:16887341 original size:22 final size:22
Alignment explanation
Indices: 16887314--16887364 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
16887304 CTCTCTAATC
16887314 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
16887336 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
16887358 CTCTCAA
1 CTCTCAA
16887365 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:16887387 original size:40 final size:40
Alignment explanation
Indices: 16887341--16887416 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
16887331 AAATTCTCTC
16887341 AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTT
1 AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTT
* *
16887381 AATTTCCTTCCAAAATTCTCTCAAATCCATTTTTAA
1 AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAA
16887417 AATATTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (40 bp):
AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTT
Found at i:16887449 original size:29 final size:30
Alignment explanation
Indices: 16887410--16887470 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
16887400 CTCAAATCCA
16887410 TTTTTAAAAT-ATTTATAA-TTTTTTATATT
1 TTTTTAAAATAATTT-TAATTTTTTTATATT
16887439 TTTTTAAAATAATTTTAATTTTTTTATATT
1 TTTTTAAAATAATTTTAATTTTTTTATATT
16887469 TT
1 TT
16887471 CATCAATGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (30 bp):
TTTTTAAAATAATTTTAATTTTTTTATATT
Found at i:16888564 original size:7 final size:7
Alignment explanation
Indices: 16888552--16888583 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
16888542 AGTCGATTGA
16888552 TATTTAG
1 TATTTAG
16888559 TATTTAG
1 TATTTAG
16888566 TATTTAG
1 TATTTAG
16888573 TATTTAG
1 TATTTAG
16888580 TATT
1 TATT
16888584 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:16889255 original size:18 final size:18
Alignment explanation
Indices: 16889234--16889268 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16889224 AGGTATGTTT
* *
16889234 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
16889252 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
16889269 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:16889557 original size:24 final size:24
Alignment explanation
Indices: 16889527--16889579 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
16889517 ATGCCGAACC
16889527 GGAAGAACCACAACCACCACCAGA
1 GGAAGAACCACAACCACCACCAGA
* *
16889551 GGAAGAACCACAATCACCACCGGA
1 GGAAGAACCACAACCACCACCAGA
16889575 GGAAG
1 GGAAG
16889580 CACAACCGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.32, G:0.23, T:0.02
Consensus pattern (24 bp):
GGAAGAACCACAACCACCACCAGA
Found at i:16889583 original size:21 final size:21
Alignment explanation
Indices: 16889524--16889595 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
16889514 CAGATGCCGA
* *
16889524 ACCGGAAGAACCACAACCACC
1 ACCGGAGGAAGCACAACCACC
* *
16889545 ACCAGAGGAAGAACCACAATCACC
1 ACCGGAGGAAG---CACAACCACC
*
16889569 ACCGGAGGAAGCACAACCGCC
1 ACCGGAGGAAGCACAACCACC
*
16889590 GCCGGA
1 ACCGGA
16889596 AGCTAGAGGA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
21 21 0.52
24 19 0.47
ACGTcount: A:0.39, C:0.38, G:0.22, T:0.01
Consensus pattern (21 bp):
ACCGGAGGAAGCACAACCACC
Found at i:16889851 original size:28 final size:28
Alignment explanation
Indices: 16889819--16892250 Score: 3166
Period size: 28 Copynumber: 86.4 Consensus size: 28
16889809 TAACCTAACC
16889819 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
16889847 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16889875 CTAACCTAAATTAACT-AAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
16889903 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* ** *
16889931 ATAACCTAAATTAATTAAAAACATTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16889960 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16889988 TTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
16890016 CTAACCTAAATTAACTAAAACCCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
** *
16890045 CTAACCTAAATTAACAAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16890074 CTAACCTAAATTAATTACAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16890102 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
16890131 CTAACCTAAATTAACTAAAAACCCTAAG
1 CTAACCTAAATTAATTAAAAACCCTAAT
16890159 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
16890187 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16890215 CTAACCTAAATTAACTAAAAACCCT-A-
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16890241 --AA--TTAATT-A--AAA-ACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16890261 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
16890290 CTAACCTAAATTAAGTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
16890319 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16890347 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16890376 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16890404 CTAATCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* ** * *
16890432 CTCACCTAAATTAGCTAAAACCCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16890461 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16890490 CTAACCTAAATTAACTAAAAACCCCTAAT
1 CTAACCTAAATTAATTAAAAA-CCCTAAT
16890519 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
16890547 CTAACCTAAATTAACTAAAAACCTTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
16890576 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16890604 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16890633 CTAATCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
16890661 CTAACTTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
16890690 CTAACCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
16890719 CTAACCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16890748 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16890776 CTAACCTAAACTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16890804 CTAACCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* * *
16890833 CTAACCTAAACTAATTAAAAATCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
16890862 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16890890 CTAACCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
** * *
16890919 CTAACCTAAATTAACAAAAAACCTTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
16890948 CTAACCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16890977 CTAACCTAAATTACA--AAAAACCCTAAAC
1 CTAACCTAAATTA-ATTAAAAACCCT-AAT
16891005 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
16891033 CTAACTTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16891062 CTAACCTAAATTAATTAAAAACTCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
16891090 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
16891118 CTAAGCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16891147 CTAACCTAAATTAATTAAAATCCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16891175 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16891204 CTAACCTAAATTAACTAAAAA-CCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
16891231 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16891259 CTAACCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
16891288 CTAACCTAAATTAA-TAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16891315 CTAACCTAAATTAATTAAAAAACCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
16891344 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
16891372 CTAAGCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16891401 CTAACCTAAATTAATTAAAATCCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16891429 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
16891458 CTAACCTAAATTAACTAAAAACCTTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
16891486 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16891514 CGT----TAAATTAACTAAAAACCCTAAAC
1 C-TAACCTAAATTAATTAAAAACCCT-AAT
*
16891540 CTAACCTAAATTAATTAAAACCCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16891568 CTAGCCTAAATTAATTAAAAACCCTAAA
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16891596 CTTAACCTTAATTAATTAAAAACCCAAAT
1 C-TAACCTAAATTAATTAAAAACCCTAAT
* *
16891625 CTAACCTAAATTAACTAAAAACCCTAAAG
1 CTAACCTAAATTAATTAAAAACCCT-AAT
** *
16891654 CTAACCTAAATTAACAAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16891683 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
** *
16891711 CTAACCTAAATTAACAAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
16891740 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16891768 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16891797 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16891825 CTAACCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16891854 CTAACCTGAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16891882 CTAACCTAAATTAATGAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16891911 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
16891939 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16891967 CTAACCTAAA-TAATT---AACCCTAAA
1 CTAACCTAAATTAATTAAAAACCCTAAT
16891991 CTTAACCTAAATTAATTAAAAACCCTAAT
1 C-TAACCTAAATTAATTAAAAACCCTAAT
*
16892020 CTAACCTAAATTAA-TAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
16892048 CT-ACCTAAA-TAA-TAAAAA-CCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16892072 CTAA-CTAAA--AACTAAAAA-CCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
** *
16892097 CTAACCTAAA-TAACAAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
16892125 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16892153 CTAACCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
16892182 CTAACCTAAATTAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16892211 CTAACCTAAATTAATTAAAAACCCTAAA
1 CTAACCTAAATTAATTAAAAACCCTAAT
16892239 CTAACCTAAATT
1 CTAACCTAAATT
16892251 TTTTTGGCTT
Statistics
Matches: 2160, Mismatches: 182, Indels: 124
0.88 0.07 0.05
Matches are distributed among these distances:
18 5 0.00
19 4 0.00
21 1 0.00
22 7 0.00
23 2 0.00
24 34 0.02
25 39 0.02
26 22 0.01
27 81 0.04
28 1006 0.47
29 954 0.44
30 5 0.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (28 bp):
CTAACCTAAATTAATTAAAAACCCTAAT
Found at i:16889979 original size:57 final size:56
Alignment explanation
Indices: 16889820--16892250 Score: 2830
Period size: 57 Copynumber: 43.2 Consensus size: 56
16889810 AACCTAACCC
* *
16889820 TAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAATC
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
*
16889876 TAACCTAAATTAACT-AAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAATA
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
** * *
16889932 TAACCTAAATTAATTAAAAACATTAAACCTAACCTAAATTAACTAAAAACCCTAATT
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* * *
16889989 TAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAACTAAAACCCCTAAA
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
** * *
16890044 CCTAACCTAAATTAACAAAAAACCCTAAACCTAACCTAAATTAATTACAAACCCTAATC
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* *
16890103 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAAGC
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* *
16890160 TAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAATC
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* *
16890216 TAACCTAAATTAACT---AA----AAA-C---CCTAAATTAATTAAAAACCCTAATC
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
** * *
16890262 TAACCTAAAT-TAATTAAAAACCCTAAACCTAACCTAAATTAAGTAAAAACCCTAAA
1 TAA-CCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
*
16890318 CCTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * * *
16890375 CCTAACCTAAATTAACTAAAAACCCT-AATCTAATCTAAATTAATTAAAAACCCTAATC
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* ** *
16890433 TCACCTAAATTAGCTAAAACCCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * *
16890489 CCTAACCTAAATTAACTAAAAACCCCT-AATCTAACCTAAATTAATTAAAAACCCTAATC
1 --TAACCTAAATTAATTAAAAA-CCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* * *
16890548 TAACCTAAATTAACTAAAAACCTTAAACCTAACCTAAATTAATTAAAAACCCTAATC
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* *
16890605 TAACCTAAATTAATTAAAAACCCTAAACCTAATCTAAATTAATTAAAAACCCTAATC
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* * *
16890662 TAACTTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAAA
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * *
16890718 CCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAATC
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* * *
16890777 TAACCTAAACTAATTAAAAACCCT-AATCTAACCTAAATTAACTAAAAACCCTAAA
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * *
16890832 CCTAACCTAAACTAATTAAAAATCCTAAACCTAACCTAAATTAATTAAAAACCCTAATC
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* ** *
16890891 TAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCTTAAA
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
*
16890947 CCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTACA--AAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTA-ATTAAAAACCCTAAA
* * *
16891004 CCTAACCTAAATTAATTAAAAACCCT-AATCTAACTTAAATTAACTAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * *
16891061 CCTAACCTAAATTAATTAAAAACTCT-AATCTAACCTAAATTAATTAAAAACCCTAATC
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* * * *
16891119 TAAGCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAATTAAAATCCCTAATC
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* *
16891176 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAACTAAAAA-CCTAATC
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* *
16891232 TAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAACTAAAAACCCTAAA
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* *
16891287 CCTAACCTAAATTAA-TAAAAACCCT-AATCTAACCTAAATTAATTAAAAAACCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * *
16891343 CCTAACCTAAATTAATTAAAAACCCT-AATCTAAGCTAAATTAACTAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* *
16891400 CCTAACCTAAATTAATTAAAATCCCT-AATCTAACCTAAATTAATTAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * *
16891457 CCTAACCTAAATTAACTAAAAA-CCTTAATCTAACCTAAATTAATTAAAAACCCT-AA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * * *
16891513 T--CGTTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAATTAAAACCCCTAATC
1 TAAC-CTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* * *
16891569 TAGCCTAAATTAATTAAAAACCCTAAACTTAACCTTAATTAATTAAAAACCC-AAA
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * **
16891624 TCTAACCTAAATTAACTAAAAACCCTAAAGCTAACCTAAATTAACAAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * **
16891682 CCTAACCTAAATTAACTAAAAACCCT-AATCTAACCTAAATTAACAAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
*
16891739 CCTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * *
16891796 CCTAACCTAAATTAACTAAAAACCCT-AATCTAACCTAAATTAACTAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * *
16891853 CCTAACCTGAATTAATTAAAAACCCT-AATCTAACCTAAATTAATGAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* * *
16891910 CCTAACCTAAATTAACTAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAATC
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* *
16891968 TAACCTAAA-TAATT---AACCCTAAACTTAACCTAAATTAATTAAAAACCCTAATC
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
*
16892021 TAACCTAAATTAA-TAAAAACCCTAAACCT-ACCTAAA-TAA-TAAAAA-CCTAATC
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAA-A
* **
16892073 TAA-CTAAA--AACTAAAAA-CCTAAACCTAACCTAAA-TAACAAAAAACCCTAAA
1 TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
* *
16892124 CCTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAACTAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
*
16892181 CCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
1 --TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
16892239 CTAACCTAAATT
1 -TAACCTAAATT
16892251 TTTTTGGCTT
Statistics
Matches: 2145, Mismatches: 155, Indels: 149
0.88 0.06 0.06
Matches are distributed among these distances:
46 32 0.01
47 3 0.00
49 14 0.01
50 18 0.01
51 10 0.00
52 22 0.01
53 69 0.03
54 42 0.02
55 44 0.02
56 355 0.17
57 1261 0.59
58 270 0.13
59 5 0.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (56 bp):
TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAAA
Found at i:16890242 original size:18 final size:18
Alignment explanation
Indices: 16890219--16890259 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
16890209 CCTAATCTAA
16890219 CCTAAATTAACTAAAAAC
1 CCTAAATTAACTAAAAAC
*
16890237 CCTAAATTAATTAAAAAC
1 CCTAAATTAACTAAAAAC
16890255 CCTAA
1 CCTAA
16890260 TCTAACCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (18 bp):
CCTAAATTAACTAAAAAC
Found at i:16890293 original size:29 final size:29
Alignment explanation
Indices: 16890237--16892250 Score: 2761
Period size: 29 Copynumber: 71.3 Consensus size: 29
16890227 AACTAAAAAC
*
16890237 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16890265 CCTAAATTAATTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16890294 CCTAAATTAAGTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16890323 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16890351 CCTAAATTAATTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16890380 CCTAAATTAACTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* * *
16890408 TCTAAATTAATTAAAAACCCT-AATCTCA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
** *
16890436 CCTAAATTAGCTAAAACCCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16890465 CCTAAATTAATTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16890494 CCTAAATTAACTAAAAACCCCT-AATCTAA
1 CCTAAATTAATTAAAAA-CCCTAAACCTAA
*
16890523 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16890551 CCTAAATTAACTAAAAACCTTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16890580 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16890608 CCTAAATTAATTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16890637 TCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16890665 CTTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16890694 CCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16890723 CCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16890752 CCTAAATTAACTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16890780 CCTAAACTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16890808 CCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16890837 CCTAAACTAATTAAAAATCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16890866 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16890894 CCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
** *
16890923 CCTAAATTAACAAAAAACCTTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16890952 CCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16890981 CCTAAATTACA--AAAAACCCTAAACCTAA
1 CCTAAATTA-ATTAAAAACCCTAAACCTAA
*
16891009 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891037 CTTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891066 CCTAAATTAATTAAAAACTCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891094 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891122 GCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891151 CCTAAATTAATTAAAATCCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16891179 CCTAAATTAATTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891208 CCTAAATTAACTAAAAA-CCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891235 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891263 CCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891292 CCTAAATTAA-TAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891319 CCTAAATTAATTAAAAAACCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891348 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891376 GCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891405 CCTAAATTAATTAAAATCCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16891433 CCTAAATTAATTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* * *
16891462 CCTAAATTAACTAAAAA-CCTTAATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891490 CCTAAATTAATTAAAAACCCTAATCGT--
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891517 --TAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* * *
16891544 CCTAAATTAATTAAAACCCCT-AATCTAG
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891572 CCTAAATTAATTAAAAACCCTAAACTTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891601 CCTTAATTAATTAAAAACCC-AAATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891629 CCTAAATTAACTAAAAACCCTAAAGCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
**
16891658 CCTAAATTAACAAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891687 CCTAAATTAACTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
**
16891715 CCTAAATTAACAAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891744 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16891772 CCTAAATTAATTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891801 CCTAAATTAACTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891829 CCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891858 CCTGAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891886 CCTAAATTAATGAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
* *
16891915 CCTAAATTAACTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891943 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891971 CCTAAA-TAATT---AACCCTAAACTTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16891996 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16892024 CCTAAATTAA-TAAAAACCCTAAACCT-A
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16892051 CCTAAA-TAA-TAAAAA-CCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16892076 -CTAAA--AACTAAAAA-CCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
**
16892101 CCTAAA-TAACAAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16892129 CCTAAATTAATTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16892157 CCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
*
16892186 CCTAAATTAACTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16892215 CCTAAATTAATTAAAAACCCTAAA-CTAA
1 CCTAAATTAATTAAAAACCCTAAACCTAA
16892243 CCTAAATT
1 CCTAAATT
16892251 TTTTTGGCTT
Statistics
Matches: 1787, Mismatches: 153, Indels: 92
0.88 0.08 0.05
Matches are distributed among these distances:
23 2 0.00
24 24 0.01
25 43 0.02
26 19 0.01
27 69 0.04
28 778 0.44
29 847 0.47
30 5 0.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (29 bp):
CCTAAATTAATTAAAAACCCTAAACCTAA
Found at i:16890842 original size:11 final size:10
Alignment explanation
Indices: 16890454--16891495 Score: 129
Period size: 9 Copynumber: 109.6 Consensus size: 10
16890444 AGCTAAAACC
16890454 CCTAAACCTAA
1 CCTAAA-CTAA
*
16890465 CCTAAATTAA
1 CCTAAACTAA
*
16890475 -TTAAA--AA
1 CCTAAACTAA
16890482 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16890494 CCTAAATTAA
1 CCTAAACTAA
16890504 -CTAAA--AA
1 CCTAAACTAA
*
16890511 CCCCTAATCTAA
1 --CCTAAACTAA
*
16890523 CCTAAATTAA
1 CCTAAACTAA
*
16890533 -TTAAA--AA
1 CCTAAACTAA
*
16890540 CCCTAATCTAA
1 -CCTAAACTAA
*
16890551 CCTAAATTAA
1 CCTAAACTAA
16890561 -CTAAA--AA
1 CCTAAACTAA
16890568 CCTTAAACCTAA
1 CC-TAAA-CTAA
*
16890580 CCTAAATTAA
1 CCTAAACTAA
*
16890590 -TTAAA--AA
1 CCTAAACTAA
*
16890597 CCCTAATCTAA
1 -CCTAAACTAA
*
16890608 CCTAAATTAA
1 CCTAAACTAA
*
16890618 -TTAAA--AA
1 CCTAAACTAA
16890625 CCCTAAACCTAA
1 -CCTAAA-CTAA
* *
16890637 TCTAAATTAA
1 CCTAAACTAA
*
16890647 -TTAAA--AA
1 CCTAAACTAA
*
16890654 CCCTAATCTAA
1 -CCTAAACTAA
* *
16890665 CTTAAATTAA
1 CCTAAACTAA
16890675 -CTAAA--AA
1 CCTAAACTAA
16890682 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16890694 CCTAAATTAA
1 CCTAAACTAA
16890704 -CTAAA--AA
1 CCTAAACTAA
16890711 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16890723 CCTAAATTAA
1 CCTAAACTAA
16890733 -CTAAA--AA
1 CCTAAACTAA
16890740 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16890752 CCTAAATTAA
1 CCTAAACTAA
16890762 -CTAAA--AA
1 CCTAAACTAA
*
16890769 CCCTAATCTAA
1 -CCTAAACTAA
16890780 CCTAAACTAA
1 CCTAAACTAA
*
16890790 -TTAAA--AA
1 CCTAAACTAA
*
16890797 CCCTAATCTAA
1 -CCTAAACTAA
*
16890808 CCTAAATTAA
1 CCTAAACTAA
16890818 -CTAAA--AA
1 CCTAAACTAA
16890825 CCCTAAACCTAA
1 -CCTAAA-CTAA
16890837 CCTAAACTAA
1 CCTAAACTAA
*
16890847 -TTAAA--AA
1 CCTAAACTAA
16890854 TCCTAAACCTAA
1 -CCTAAA-CTAA
*
16890866 CCTAAATTAA
1 CCTAAACTAA
*
16890876 -TTAAA--AA
1 CCTAAACTAA
*
16890883 CCCTAATCTAA
1 -CCTAAACTAA
*
16890894 CCTAAATTAA
1 CCTAAACTAA
16890904 -CTAAA--AA
1 CCTAAACTAA
16890911 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16890923 CCTAAATTAA
1 CCTAAACTAA
*
16890933 -C-AAA-AAA
1 CCTAAACTAA
16890940 CCTTAAACCTAA
1 CC-TAAA-CTAA
*
16890952 CCTAAATTAA
1 CCTAAACTAA
16890962 -CTAAA--AA
1 CCTAAACTAA
16890969 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16890981 CCTAAA-TTA
1 CCTAAACTAA
*
16890990 -C-AAA-AAA
1 CCTAAACTAA
16890997 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16891009 CCTAAATTAA
1 CCTAAACTAA
*
16891019 -TTAAA--AA
1 CCTAAACTAA
*
16891026 CCCTAATCTAA
1 -CCTAAACTAA
* *
16891037 CTTAAATTAA
1 CCTAAACTAA
16891047 -CTAAA--AA
1 CCTAAACTAA
16891054 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16891066 CCTAAATTAA
1 CCTAAACTAA
*
16891076 -TTAAA--AA
1 CCTAAACTAA
*
16891083 CTCTAATCTAA
1 C-CTAAACTAA
*
16891094 CCTAAATTAA
1 CCTAAACTAA
*
16891104 -TTAAA--AA
1 CCTAAACTAA
*
16891111 CCCTAATCTAA
1 -CCTAAACTAA
* *
16891122 GCTAAATTAA
1 CCTAAACTAA
16891132 -CTAAA--AA
1 CCTAAACTAA
16891139 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16891151 CCTAAATTAA
1 CCTAAACTAA
* * *
16891161 -TTAAAAT-C
1 CCTAAACTAA
*
16891169 CCTAATCTAA
1 CCTAAACTAA
*
16891179 CCTAAATTAA
1 CCTAAACTAA
*
16891189 -TTAAA--AA
1 CCTAAACTAA
16891196 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16891208 CCTAAATTAA
1 CCTAAACTAA
16891218 -CTAAA--AA
1 CCTAAACTAA
*
16891225 CCTAATCTAA
1 CCTAAACTAA
*
16891235 CCTAAATTAA
1 CCTAAACTAA
*
16891245 -TTAAA--AA
1 CCTAAACTAA
*
16891252 CCCTAATCTAA
1 -CCTAAACTAA
*
16891263 CCTAAATTAA
1 CCTAAACTAA
16891273 -CTAAA--AA
1 CCTAAACTAA
16891280 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16891292 CCTAAATTAA
1 CCTAAACTAA
16891302 --TAAA--AA
1 CCTAAACTAA
*
16891308 CCCTAATCTAA
1 -CCTAAACTAA
*
16891319 CCTAAATTAA
1 CCTAAACTAA
* *
16891329 -TTAAA-AAA
1 CCTAAACTAA
16891337 CCTAAACCTAA
1 CCTAAA-CTAA
*
16891348 CCTAAATTAA
1 CCTAAACTAA
*
16891358 -TTAAA--AA
1 CCTAAACTAA
*
16891365 CCCTAATCTAA
1 -CCTAAACTAA
* *
16891376 GCTAAATTAA
1 CCTAAACTAA
16891386 -CTAAA--AA
1 CCTAAACTAA
16891393 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16891405 CCTAAATTAA
1 CCTAAACTAA
* * *
16891415 -TTAAAAT-C
1 CCTAAACTAA
*
16891423 CCTAATCTAA
1 CCTAAACTAA
*
16891433 CCTAAATTAA
1 CCTAAACTAA
*
16891443 -TTAAA--AA
1 CCTAAACTAA
16891450 CCCTAAACCTAA
1 -CCTAAA-CTAA
*
16891462 CCTAAATTAA
1 CCTAAACTAA
16891472 -CTAAA--AA
1 CCTAAACTAA
*
16891479 CCTTAATCTAA
1 CC-TAAACTAA
16891490 CCTAAA
1 CCTAAA
16891496 TTAATTAAAA
Statistics
Matches: 747, Mismatches: 126, Indels: 317
0.63 0.11 0.27
Matches are distributed among these distances:
6 2 0.00
7 66 0.09
8 17 0.02
9 277 0.37
10 197 0.26
11 146 0.20
12 42 0.06
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (10 bp):
CCTAAACTAA
Found at i:16892191 original size:11 final size:10
Alignment explanation
Indices: 16892088--16892248 Score: 57
Period size: 9 Copynumber: 16.8 Consensus size: 10
16892078 AAAAACTAAA
16892088 AACCTAAACCT
1 AACCTAAA-CT
16892099 AACCTAAA-T
1 AACCTAAACT
*
16892108 AA-C-AAA-A
1 AACCTAAACT
16892115 AACCCTAAACCT
1 AA-CCTAAA-CT
*
16892127 AACCTAAATT
1 AACCTAAACT
*
16892137 AA-TTAAA--
1 AACCTAAACT
*
16892144 AACCCTAATCT
1 AA-CCTAAACT
*
16892155 AACCTAAATT
1 AACCTAAACT
16892165 AA-CTAAA--
1 AACCTAAACT
16892172 AACCCTAAACCT
1 AA-CCTAAA-CT
*
16892184 AACCTAAATT
1 AACCTAAACT
16892194 AA-CTAAA--
1 AACCTAAACT
16892201 AACCCTAAACCT
1 AA-CCTAAA-CT
*
16892213 AACCTAAATT
1 AACCTAAACT
*
16892223 AA-TTAAA--
1 AACCTAAACT
16892230 AACCCTAAACT
1 AA-CCTAAACT
16892241 AACCTAAA
1 AACCTAAA
16892249 TTTTTTTGGC
Statistics
Matches: 115, Mismatches: 12, Indels: 47
0.66 0.07 0.27
Matches are distributed among these distances:
7 13 0.11
8 1 0.01
9 39 0.34
10 26 0.23
11 30 0.26
12 6 0.05
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (10 bp):
AACCTAAACT
Found at i:16892350 original size:56 final size:54
Alignment explanation
Indices: 16892251--16892391 Score: 140
Period size: 55 Copynumber: 2.5 Consensus size: 54
16892241 AACCTAAATT
* *
16892251 TTTTTGGCTTAATAATTTTACATATTTTGAACACTTTAATAACCATTAACACAA
1 TTTTTGGCTTAATAATTTGACATATTTTGAAAACTTTAATAACCATTAACACAA
* * * * *
16892305 TTTTTGGACTTAATAATTTGAGAT-TATTTGATAAATTTTACTAACCATTAAGAAAAAA
1 TTTTTGG-CTTAATAATTTGACATAT-TTTGA-AAACTTTAATAACCATT-A-ACACAA
* *
16892363 ATTTTGGCTTAATAATTTTACATAATTTT
1 TTTTTGGCTTAATAATTTGACAT-ATTTT
16892392 ACATAATGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
54 8 0.11
55 19 0.27
56 14 0.20
57 15 0.21
58 13 0.19
59 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.45
Consensus pattern (54 bp):
TTTTTGGCTTAATAATTTGACATATTTTGAAAACTTTAATAACCATTAACACAA
Found at i:16892389 original size:10 final size:10
Alignment explanation
Indices: 16892374--16892398 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16892364 TTTTGGCTTA
16892374 ATAATTTTAC
1 ATAATTTTAC
16892384 ATAATTTTAC
1 ATAATTTTAC
16892394 ATAAT
1 ATAAT
16892399 GTTAGGTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:16895705 original size:125 final size:126
Alignment explanation
Indices: 16895479--16895817 Score: 572
Period size: 126 Copynumber: 2.7 Consensus size: 126
16895469 CCCAAACTTG
* *
16895479 CTACTGTAGCAAAATCGCATCCACGAAGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* *
16895544 TAGAAATGATTTTATACTATTTGCTCAGAAACATCAG-AAAAAAATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
* * *
16895604 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTATTCTCAAATAGCATCCTCA
1 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
16895669 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
* * *
16895730 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCATAAATTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
16895795 TAGAAGCGATTTTATACTATTTG
66 TAGAAACGATTTTATACTATTTG
16895818 ACCAGAGACG
Statistics
Matches: 199, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
125 95 0.48
126 104 0.52
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGTGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
Found at i:16901295 original size:24 final size:25
Alignment explanation
Indices: 16901268--16901333 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 25
16901258 TGTGAAAGAA
*
16901268 ATAGAAACTATAGATTGTGAAACT-
1 ATAGAAACTATAGATTGTGAAAATG
* *
16901292 ATAGGAGACTAT-GATTGTTAAAATG
1 ATA-GAAACTATAGATTGTGAAAATG
* *
16901317 ATAAAAACTTTAGATTG
1 ATAGAAACTATAGATTG
16901334 AGACAAACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (25 bp):
ATAGAAACTATAGATTGTGAAAATG
Found at i:16901888 original size:13 final size:13
Alignment explanation
Indices: 16901870--16901894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16901860 TCTATCACTG
16901870 GTGGCAGGCCATA
1 GTGGCAGGCCATA
16901883 GTGGCAGGCCAT
1 GTGGCAGGCCAT
16901895 GAGATTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTGGCAGGCCATA
Found at i:16902950 original size:37 final size:39
Alignment explanation
Indices: 16902861--16902959 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 39
16902851 CAAGATAAAC
*
16902861 ATTAA-ATTAAA-TATTAAGATAATCACTTTAATATTAA
1 ATTAATATTAAACTATTAAGATAATCACTTAAATATTAA
*
16902898 ATTAATA-AAATACTATTAAGATAAGT-AC-TAAAT-TTAA
1 ATTAATATTAA-ACTATTAAGATAA-TCACTTAAATATTAA
* *
16902935 TTTAATATTAAACTATTAAAATAAT
1 ATTAATATTAAACTATTAAGATAAT
16902960 ATTATTTTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
36 1 0.02
37 29 0.56
38 8 0.15
39 13 0.25
40 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (39 bp):
ATTAATATTAAACTATTAAGATAATCACTTAAATATTAA
Found at i:16904583 original size:16 final size:16
Alignment explanation
Indices: 16904562--16904592 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16904552 CTATGTATGC
*
16904562 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
16904578 AAAATACAAAAGACA
1 AAAATACAAAAGACA
16904593 TAATAGGGAA
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:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:16921472 original size:148 final size:148
Alignment explanation
Indices: 16921204--16921499 Score: 565
Period size: 148 Copynumber: 2.0 Consensus size: 148
16921194 GCTAAAACAA
16921204 GAAAAATACTAAAGAAATATCCTAAAATGCAACTAAACATACCTAAGTACAGGCAATTAACTAAA
1 GAAAAATACTAAAGAAATATCCTAAAATGCAACTAAACATACCTAAGTACAGGCAATTAACTAAA
16921269 TCTAAAAGCATGAAATATAACTCTTTTCAAGAGTTATCAGCAGTCTGAGTGCACCAACTAAGCAA
66 TCTAAAAGCATGAAATATAACTCTTTTCAAGAGTTATCAGCAGTCTGAGTGCACCAACTAAGCAA
16921334 AAACATTGACTAAGCTTG
131 AAACATTGACTAAGCTTG
**
16921352 GAAAAATACTAAAGAAATATCCTAAAATGCAACTAAATGTACCTAAGTACAGGCAATTAACTAAA
1 GAAAAATACTAAAGAAATATCCTAAAATGCAACTAAACATACCTAAGTACAGGCAATTAACTAAA
*
16921417 TCTAAAAGCATGAAATATAACTCTTTTCAAGAGTTATCAGCAGTCTGAGTGCACCAACTAAGTAA
66 TCTAAAAGCATGAAATATAACTCTTTTCAAGAGTTATCAGCAGTCTGAGTGCACCAACTAAGCAA
16921482 AAACATTGACTAAGCTTG
131 AAACATTGACTAAGCTTG
16921500 AAGATTAGAT
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 145 1.00
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (148 bp):
GAAAAATACTAAAGAAATATCCTAAAATGCAACTAAACATACCTAAGTACAGGCAATTAACTAAA
TCTAAAAGCATGAAATATAACTCTTTTCAAGAGTTATCAGCAGTCTGAGTGCACCAACTAAGCAA
AAACATTGACTAAGCTTG
Found at i:16926546 original size:19 final size:19
Alignment explanation
Indices: 16926512--16926560 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 19
16926502 AAAGAAAGAC
16926512 AGAAAAAGA-AATAAAAA-
1 AGAAAAAGAGAATAAAAAG
16926529 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAAT-AAAAAG
16926549 AGCAAAAAGAGA
1 AG-AAAAAGAGA
16926561 TTGAGAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.32
18 3 0.11
19 5 0.18
20 2 0.07
21 9 0.32
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.04
Consensus pattern (19 bp):
AGAAAAAGAGAATAAAAAG
Found at i:16929986 original size:21 final size:21
Alignment explanation
Indices: 16929960--16930022 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
16929950 TTGGTATTTG
*
16929960 GGAATTGGTTCGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
16929981 GGAATTGGTAGGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
16930002 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
16930023 ATGGTTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 21 0.58
22 15 0.42
ACGTcount: A:0.29, C:0.03, G:0.35, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:16933130 original size:39 final size:39
Alignment explanation
Indices: 16933064--16933148 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 39
16933054 GTATTACGAC
* * ** *
16933064 ATATGTTTGAATGTTATGTAATTATATGAGTATTGTGAT
1 ATATGCTTAAATGTTATGTAACCATATGAGTAATGTGAT
* *
16933103 ATATGCTTAAATGTTATGTGACCATATGTGTAATGTGAT
1 ATATGCTTAAATGTTATGTAACCATATGAGTAATGTGAT
*
16933142 ACATGCT
1 ATATGCT
16933149 GATGTGATCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.44
Consensus pattern (39 bp):
ATATGCTTAAATGTTATGTAACCATATGAGTAATGTGAT
Found at i:16937877 original size:27 final size:27
Alignment explanation
Indices: 16937839--16937895 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
16937829 AGCCAAAAGG
16937839 TGGGAGTCTTCTTTCCCCACTTAGTAA
1 TGGGAGTCTTCTTTCCCCACTTAGTAA
16937866 TGGGAGTCTTCTTTCCCCACTTAGTAA
1 TGGGAGTCTTCTTTCCCCACTTAGTAA
16937893 TGG
1 TGG
16937896 CTTTATGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (27 bp):
TGGGAGTCTTCTTTCCCCACTTAGTAA
Found at i:16939023 original size:18 final size:18
Alignment explanation
Indices: 16939000--16939034 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16938990 ATGATGTGCC
16939000 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
*
16939018 AAACTATTTTGATGCTT
1 AAACTATTTTCATGCTT
16939035 ACTATTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:16943428 original size:22 final size:22
Alignment explanation
Indices: 16943400--16943459 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
16943390 TTGATCGTTG
16943400 TGTTGCAACATGGGAAGTTTGA
1 TGTTGCAACATGGGAAGTTTGA
16943422 TGTTGCAACATGGGAAGTTTGA
1 TGTTGCAACATGGGAAGTTTGA
16943444 TGTTGCAACATAGGGA
1 TGTTGCAACAT-GGGA
16943460 GCAAAATGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.30
Consensus pattern (22 bp):
TGTTGCAACATGGGAAGTTTGA
Found at i:16958235 original size:16 final size:17
Alignment explanation
Indices: 16958216--16958249 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16958206 ATTTTCACAA
16958216 TCTAGAGTTTTCT-TAG
1 TCTAGAGTTTTCTATAG
*
16958232 TCTATAGTTTTCTATAG
1 TCTAGAGTTTTCTATAG
16958249 T
1 T
16958250 TTTCATAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (17 bp):
TCTAGAGTTTTCTATAG
Found at i:16958252 original size:26 final size:26
Alignment explanation
Indices: 16958216--16958267 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
16958206 ATTTTCACAA
*
16958216 TCTAGAGTTTTCTTAGTCTATAGTTT
1 TCTAGAGTTTTCATAGTCTATAGTTT
*
16958242 TCTATAGTTTTCATAGTCTATAGTTT
1 TCTAGAGTTTTCATAGTCTATAGTTT
16958268 CACATCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.13, T:0.54
Consensus pattern (26 bp):
TCTAGAGTTTTCATAGTCTATAGTTT
Found at i:16959262 original size:28 final size:28
Alignment explanation
Indices: 16959211--16959304 Score: 143
Period size: 28 Copynumber: 3.3 Consensus size: 28
16959201 TAGATAAACT
* * *
16959211 ACCACTAATAACACTTTTGTGGACAAGCC
1 ACCACTGAT-ACAATTTTGTGGACATGCC
*
16959240 ACCACTGATACAATTTAGTGGACATGCC
1 ACCACTGATACAATTTTGTGGACATGCC
16959268 ACCACTGATACAATTTTGTGGACATGCC
1 ACCACTGATACAATTTTGTGGACATGCC
16959296 ACCACTGAT
1 ACCACTGAT
16959305 TTGCAGATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
28 52 0.87
29 8 0.13
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (28 bp):
ACCACTGATACAATTTTGTGGACATGCC
Found at i:16961411 original size:21 final size:21
Alignment explanation
Indices: 16961363--16961417 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
16961353 AAAATTACGG
16961363 CGATGTCACGACACAGGGGTT
1 CGATGTCACGACACAGGGGTT
*
16961384 CTG-TGTCGCGACATCA-GGGTT
1 C-GATGTCACGACA-CAGGGGTT
*
16961405 CGATGTCATGACA
1 CGATGTCACGACA
16961418 GACTCTGGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.04
21 24 0.86
22 3 0.11
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.24
Consensus pattern (21 bp):
CGATGTCACGACACAGGGGTT
Found at i:16965130 original size:51 final size:49
Alignment explanation
Indices: 16964972--16965152 Score: 281
Period size: 49 Copynumber: 3.7 Consensus size: 49
16964962 AAGCAGTGGT
* *
16964972 AGTATATCTGCAAGTTAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
16965021 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
* * * *
16965070 AGTATATCTGCATATTAGTGGTGGCTTTTCCACAAAAGAGTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCAC-AAA-ATTTATCAATGGC
*
16965121 AGTTTATCTGCAAATCAGTGGTGGCTTGTCCA
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCA
16965153 TAAATGGTGT
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
49 77 0.64
50 3 0.03
51 40 0.33
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (49 bp):
AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
Found at i:16965139 original size:100 final size:98
Alignment explanation
Indices: 16964972--16965152 Score: 301
Period size: 100 Copynumber: 1.8 Consensus size: 98
16964962 AAGCAGTGGT
*
16964972 AGTATATCTGCAAGTTAGTGGTGGCTTGTCCACAAAATTTATCAATGGCAGTATATCTGCAAATC
1 AGTATATCTGCAAGTTAGTGGTGGCTTGTCCACAAAAGTTATCAATGGCAGTATATCTGCAAATC
16965037 AGTGGTGGCTTGTCCACAAAATTTATCAATGGC
66 AGTGGTGGCTTGTCCACAAAATTTATCAATGGC
* *
16965070 AGTATATCTGCATA-TTAGTGGTGGCTTTTCCACAAAAGAGTTATCAATGGCAGTTTATCTGCAA
1 AGTATATCTGCA-AGTTAGTGGTGGCTTGTCCAC-AAA-AGTTATCAATGGCAGTATATCTGCAA
16965134 ATCAGTGGTGGCTTGTCCA
63 ATCAGTGGTGGCTTGTCCA
16965153 TAAATGGTGT
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
98 30 0.39
99 4 0.05
100 43 0.56
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (98 bp):
AGTATATCTGCAAGTTAGTGGTGGCTTGTCCACAAAAGTTATCAATGGCAGTATATCTGCAAATC
AGTGGTGGCTTGTCCACAAAATTTATCAATGGC
Found at i:16971734 original size:46 final size:46
Alignment explanation
Indices: 16971667--16971847 Score: 317
Period size: 46 Copynumber: 3.9 Consensus size: 46
16971657 ACATTGCGAT
* *
16971667 AACTCAGTATGGTTTTCTTCACAGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
16971713 AACTCAGTATGGTTTTTTTCACTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
16971759 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
16971805 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTT
16971848 TACACTTTGC
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:16973117 original size:16 final size:17
Alignment explanation
Indices: 16973071--16973118 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
16973061 AAATTCTTTT
*
16973071 TAAATCGCAAAATTCAC
1 TAAATCACAAAATTCAC
16973088 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
16973105 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
16973119 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:16973936 original size:21 final size:20
Alignment explanation
Indices: 16973897--16973937 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
16973887 ACTTTAAAAT
*
16973897 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATGATATTAAC
*
16973917 CAAGTTCAAAATTATATTAAC
1 CAAGTT-AAAATGATATTAAC
16973938 AACTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (20 bp):
CAAGTTAAAATGATATTAAC
Found at i:16982145 original size:23 final size:23
Alignment explanation
Indices: 16982107--16982150 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
16982097 TTATTTGATA
*
16982107 AAATGTTTTGATATAACAAATTG
1 AAATGTTTTGATATAAAAAATTG
16982130 AAATGTTTTTGA-ATAAAAAAT
1 AAATG-TTTTGATATAAAAAAT
16982151 AAACTTGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (23 bp):
AAATGTTTTGATATAAAAAATTG
Found at i:16984018 original size:52 final size:52
Alignment explanation
Indices: 16983826--16984018 Score: 181
Period size: 52 Copynumber: 3.7 Consensus size: 52
16983816 CACTTGATAT
* * *
16983826 GCCCATATGCGAGTTGTAGTCAATGTGCAAGCTATGCTAATGTGT-ATTTGC
1 GCCCATATGCGAGTTGTAGTCAATATGCGAGCTATGCTAATGTGTGAGTTGC
* * ** * * * * *
16983877 GCCTATCTATGAGTTGTAGTCAATATACGCGAGCTATGTTATTGTGCGTGTTGT
1 GCCCATATGCGAGTTGTAGTCAATAT--GCGAGCTATGCTAATGTGTGAGTTGC
* * *
16983931 GCCCATATGCGAGCTGTAGTCAATATGTGAACTATGCTAATGTGTGAGTTGC
1 GCCCATATGCGAGTTGTAGTCAATATGCGAGCTATGCTAATGTGTGAGTTGC
* * * * *
16983983 ACCCATGTGTGAGTTGTGGTCAATGTGCGAGCTATG
1 GCCCATATGCGAGTTGTAGTCAATATGCGAGCTATG
16984019 ACATGTGTGA
Statistics
Matches: 107, Mismatches: 32, Indels: 5
0.74 0.22 0.03
Matches are distributed among these distances:
51 21 0.20
52 47 0.44
53 15 0.14
54 24 0.22
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (52 bp):
GCCCATATGCGAGTTGTAGTCAATATGCGAGCTATGCTAATGTGTGAGTTGC
Found at i:16994979 original size:12 final size:10
Alignment explanation
Indices: 16994953--16994985 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
16994943 TATATTAAAA
16994953 ATATAGAATT
1 ATATAGAATT
16994963 ATATAGAATT
1 ATATAGAATT
*
16994973 ATATATAATT
1 ATATAGAATT
16994983 ATA
1 ATA
16994986 AAAATTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (10 bp):
ATATAGAATT
Found at i:16995207 original size:13 final size:13
Alignment explanation
Indices: 16995189--16995218 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16995179 AACCAGTAGA
16995189 ATATTTTATATCT
1 ATATTTTATATCT
*
16995202 ATATTTTGTATCT
1 ATATTTTATATCT
16995215 ATAT
1 ATAT
16995219 AACTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (13 bp):
ATATTTTATATCT
Done.