Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 84 of 153
Found at i:26739697 original size:22 final size:21
Alignment explanation
Indices: 26739655--26739698 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
26739645 AACTGTAAAT
*
26739655 ATTAAACCCTAAACCATAAAC
1 ATTAAACCCTAAACCACAAAC
*
26739676 ATTAAACCCGTAAATCACAAAC
1 ATTAAACCC-TAAACCACAAAC
26739698 A
1 A
26739699 ACAACCACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.18
Consensus pattern (21 bp):
ATTAAACCCTAAACCACAAAC
Found at i:26740201 original size:114 final size:113
Alignment explanation
Indices: 26739950--26740348 Score: 564
Period size: 114 Copynumber: 3.5 Consensus size: 113
26739940 TGGTGATTTT
* * *
26739950 TTTCATAATCGCCACTAATTCTAATATACCTCAAGACCAAACGTTGCGTTTTGCTTAAGATATTT
1 TTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTT
* * * * *
26740015 TGCAGTGTTTTTATAATGCGCCACTAATTCTGTGCTTTAGCGGTGTTT
66 TGCAGCGTTTTTATAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTG
* * *
26740063 TTTTATAAGCGCCACTAATTCTAATATACCTCAAGACCAAAAGCTGCGTTTTGGTTTAGATATTT
1 TTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTT
* *
26740128 TGCAGCGCTTTTTATAAGGCGCCGCTAATGCTGTGCTTTAGCGGCGTTG
66 TGCAGCG-TTTTTATAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTG
26740177 TTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTT
1 TTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTT
* * * *
26740242 TGCGGCATTTTTTATAATGCGCCGCTAATACTGTACTTTAACGGCGTTG
66 TGCAGC-GTTTTTATAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTG
* * * * ** *
26740291 TTGCATAATCGCCACTAATTCTAGTATACCTCAAGATCGTACGCTGCGTTTTGTTTAA
1 TTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAA
26740349 CATTTTCTGC
Statistics
Matches: 256, Mismatches: 28, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
113 65 0.25
114 191 0.75
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (113 bp):
TTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTT
TGCAGCGTTTTTATAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTG
Found at i:26740598 original size:40 final size:39
Alignment explanation
Indices: 26740544--26740637 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
26740534 CAGGTTTGAC
* *
26740544 TTTTT-GCAGCGTTTTA-CAAAGAGCGCCGCTAATGCTAGA
1 TTTTTAGCGGCGTTTTAGC-AA-AGCGCAGCTAATGCTAGA
* *
26740583 TTTTTAGCGGCGTTTTATGCTAAGCGCAGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTA-GCAAAGCGCAGCTAATGCTAGA
*
26740623 TTTTTAGTGGCGTTT
1 TTTTTAGCGGCGTTT
26740638 ATTGTTCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.11
40 40 0.85
41 1 0.02
42 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTAGCAAAGCGCAGCTAATGCTAGA
Found at i:26743685 original size:36 final size:34
Alignment explanation
Indices: 26743634--26743709 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
26743624 TTAAGAATAC
*
26743634 AAAAA-TTATTAAAAATTATT-AGAAGTTTATAAAA
1 AAAAATTTATTAAAAA-TATTGA-AAATTTATAAAA
*
26743668 TAAAAATTTATTGAAAATATTGAAAATTTATAAAA
1 -AAAAATTTATTAAAAATATTGAAAATTTATAAAA
26743703 AAAAATT
1 AAAAATT
26743710 GTTATTTTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
34 7 0.19
35 20 0.54
36 10 0.27
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (34 bp):
AAAAATTTATTAAAAATATTGAAAATTTATAAAA
Found at i:26744806 original size:20 final size:20
Alignment explanation
Indices: 26744783--26744824 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
26744773 TTATAAATTC
*
26744783 TTTTTTGCTTTTTAACTTTT
1 TTTTTTCCTTTTTAACTTTT
*
26744803 TTTTTTCCTTTTTTACTTTT
1 TTTTTTCCTTTTTAACTTTT
26744823 TT
1 TT
26744825 AAACGAAAAA
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:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTCCTTTTTAACTTTT
Found at i:26752303 original size:12 final size:12
Alignment explanation
Indices: 26752286--26752310 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26752276 TTACCATGTA
26752286 ATATATGTATAT
1 ATATATGTATAT
26752298 ATATATGTATAT
1 ATATATGTATAT
26752310 A
1 A
26752311 AATCAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATATATGTATAT
Found at i:26754819 original size:41 final size:41
Alignment explanation
Indices: 26754757--26754932 Score: 307
Period size: 41 Copynumber: 4.3 Consensus size: 41
26754747 AATTTAACAT
* *
26754757 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
26754798 ATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
26754839 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
26754880 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
26754921 ATTCAGATCACC
1 ATTCAGATCACC
26754933 AATTCCAAAC
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:26761782 original size:45 final size:45
Alignment explanation
Indices: 26761726--26761811 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
26761716 AGTAAGCCAT
*
26761726 TTTCGCATGGCTCATATTCACATATCCCAAAATTAAACATAGCAA
1 TTTCACATGGCTCATATTCACATATCCCAAAATTAAACATAGCAA
26761771 TTTCACATGGCTCATATTCACATATCCCAAAATTAAACATA
1 TTTCACATGGCTCATATTCACATATCCCAAAATTAAACATA
26761812 TTAACTAGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.30
Consensus pattern (45 bp):
TTTCACATGGCTCATATTCACATATCCCAAAATTAAACATAGCAA
Found at i:26762165 original size:41 final size:41
Alignment explanation
Indices: 26762103--26762319 Score: 371
Period size: 41 Copynumber: 5.3 Consensus size: 41
26762093 AATTTAACAT
* *
26762103 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
26762144 ATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
26762185 ATTCAGATCACCGGTACTTAGCCTGCTAGACTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
26762226 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
26762267 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
26762308 ATTCAGATCACC
1 ATTCAGATCACC
26762320 AATTTCAAAC
Statistics
Matches: 164, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 164 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:26767361 original size:105 final size:105
Alignment explanation
Indices: 26767175--26767366 Score: 251
Period size: 105 Copynumber: 1.8 Consensus size: 105
26767165 GATTGAAGTG
* * *
26767175 AGTTAGCTAATTTAATATCGCAACTCCTAAACAGCATGATGACCTACGTTCACGACTAATTTTAC
1 AGTTAGCTAATTTAAGATCACAACTCCTAAACAGCATGATGACCTACGTTCAAGACTAATTTTAC
* *
26767240 AAAGGTTTGTTGATTTAAGATCACAACCTACTCATCTTTA
66 AAAGGTTAGTTAATTTAAGATCACAACCTACTCATCTTTA
** * * * * * *
26767280 AGTTAGCTGGTTTAAGATCACAACTCTTAAACAGCTTGATGAGCTATGTTCATAG-TTGATTTTA
1 AGTTAGCTAATTTAAGATCACAACTCCTAAACAGCATGATGACCTACGTTCA-AGACTAATTTTA
26767344 CAAAGGTTAGTTAATTTAAGATC
65 CAAAGGTTAGTTAATTTAAGATC
26767367 GTAACAATCT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
105 72 0.99
106 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (105 bp):
AGTTAGCTAATTTAAGATCACAACTCCTAAACAGCATGATGACCTACGTTCAAGACTAATTTTAC
AAAGGTTAGTTAATTTAAGATCACAACCTACTCATCTTTA
Found at i:26769147 original size:27 final size:26
Alignment explanation
Indices: 26769118--26769256 Score: 120
Period size: 27 Copynumber: 5.2 Consensus size: 26
26769108 GATATAATAG
* *
26769118 TCATTTTATCCTATGAGGATATTTCGG
1 TCATTTTA-CCTATGAGGGTATTTCGA
26769145 TCATTTTACCTTATG-GGAGTATTTCGA
1 TCATTTTACC-TATGAGG-GTATTTCGA
* * * *
26769172 TCATTCTACCTTGTGGGGGTATTTCAA
1 TCATTTTACC-TATGAGGGTATTTCGA
26769199 TCATTTTACACTAT-AGGGGTATTTCGA
1 TCATTTTAC-CTATGA-GGGTATTTCGA
* * *
26769226 TCATTCTACCCTATGGGGGTATTTCGG
1 TCATTTTA-CCTATGAGGGTATTTCGA
26769253 TCAT
1 TCAT
26769257 AATAGTGTAA
Statistics
Matches: 93, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
26 4 0.04
27 85 0.91
28 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (26 bp):
TCATTTTACCTATGAGGGTATTTCGA
Found at i:26769176 original size:54 final size:53
Alignment explanation
Indices: 26769118--26769256 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 53
26769108 GATATAATAG
* * *
26769118 TCATTTTATCCTATGAGGATATTTCGGTCATTTTAC-CT-TATGGGAGTATTTCGA
1 TCATTCTA-CCTATGGGGGTATTTCGGTCATTTTACACTATA-GGG-GTATTTCGA
* **
26769172 TCATTCTACCTTGTGGGGGTATTTCAATCATTTTACACTATAGGGGTATTTCGA
1 TCATTCTACC-TATGGGGGTATTTCGGTCATTTTACACTATAGGGGTATTTCGA
26769226 TCATTCTACCCTATGGGGGTATTTCGGTCAT
1 TCATTCTA-CCTATGGGGGTATTTCGGTCAT
26769257 AATAGTGTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
53 2 0.03
54 61 0.85
55 7 0.10
56 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (53 bp):
TCATTCTACCTATGGGGGTATTTCGGTCATTTTACACTATAGGGGTATTTCGA
Found at i:26771080 original size:295 final size:291
Alignment explanation
Indices: 26770494--26771087 Score: 841
Period size: 295 Copynumber: 2.0 Consensus size: 291
26770484 CCTTTTATTT
* * *
26770494 AAGTCCTCTAACAACCTTGTGGACTTTTGTAGCCTTTAGAAACAAATTAGAGTTGTTGCAACCAT
1 AAGTCCTCTAACAAACTTGTGGACTTTTGTAGCCGTTAGAAACAAATTAGAGTTATTGCAACCAT
* * *
26770559 AAAAACTAGCATTAAATGTAGTCTACAGCTTCGTTGTACCGGTAATAGTCTTGTATCGGTAGAAG
66 AAAAACTAGCATTAAATGCAGTCTAAAGCTTCGTTGTACCGATAATAGTCTTGTATCGGTAGAAG
* *
26770624 TCTTTCCAAAATATGACCCTCAGGCTTATTTTATCGATAGAAGTTCTCATGTATCGCTACAACTC
131 TCTTTCCAAAATATGACCCTCAAGCTTATTCTATCGATAGAAGTTCTCATGTATCGCTACAACTC
* * * *
26770689 TAAGAGCTTCATTTGTTATCAGTAGAACCCATTAGAGTATCAGTAGAAGTGCAGGGGAGGCTGAA
196 TAAGAGCTTCATTTGGTATCAATAGAACCCATTAGAGTATCAGTAGAAGTGCAGGGGAAGATGAA
*
26770754 CTTTGGCTACTATTTTGATTTGTTCTGGTAG
261 CTTTGGCTACTATTTTGACTTGTTCTGGTAG
* *
26770785 AAGTCCTCTAACAAACTTGTGGACTTTTGTAGCCGTTAGAAACAAATTAGAGTTATTGTAGCCAT
1 AAGTCCTCTAACAAACTTGTGGACTTTTGTAGCCGTTAGAAACAAATTAGAGTTATTGCAACCAT
** * * *
26770850 AAAAGTTAGCATTAAATGCAGTCTAAAGCTTTGTTGTACCGATAGAAGTGGTCTTGTATCTGTAG
66 AAAAACTAGCATTAAATGCAGTCTAAAGCTTCGTTGTACCGAT--AA-TAGTCTTGTATCGGTAG
* * *
26770915 AAGTCTTTCCAAAATATGACCGTTCAAGCTTGTTCTATCTG-TAGAAGTTCTTC-TGTATCGGTA
128 AAGTCTTTCCAAAATATGACC-CTCAAGCTTATTCTATC-GATAGAAGTTC-TCATGTATCGCTA
* * * * * **
26770978 GAACTCTGAGGGTTTCATTTGGTATCAATAGAACCTATTAGAGTATTGGTAGAAGTGCAGGGGAA
190 CAACTCTAAGAGCTTCATTTGGTATCAATAGAACCCATTAGAGTATCAGTAGAAGTGCAGGGGAA
*
26771043 GATGAACTTTGGCTACTATTTTGACTTGTTTTGGTAG
255 GATGAACTTTGGCTACTATTTTGACTTGTTCTGGTAG
26771080 AAGTCCTC
1 AAGTCCTC
26771088 AAGGTAATGG
Statistics
Matches: 266, Mismatches: 31, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
291 97 0.36
293 2 0.01
294 36 0.14
295 128 0.48
296 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (291 bp):
AAGTCCTCTAACAAACTTGTGGACTTTTGTAGCCGTTAGAAACAAATTAGAGTTATTGCAACCAT
AAAAACTAGCATTAAATGCAGTCTAAAGCTTCGTTGTACCGATAATAGTCTTGTATCGGTAGAAG
TCTTTCCAAAATATGACCCTCAAGCTTATTCTATCGATAGAAGTTCTCATGTATCGCTACAACTC
TAAGAGCTTCATTTGGTATCAATAGAACCCATTAGAGTATCAGTAGAAGTGCAGGGGAAGATGAA
CTTTGGCTACTATTTTGACTTGTTCTGGTAG
Found at i:26771205 original size:122 final size:122
Alignment explanation
Indices: 26770988--26771215 Score: 316
Period size: 122 Copynumber: 1.9 Consensus size: 122
26770978 GAACTCTGAG
** * *
26770988 GGTTTCATTTGGTATCAATAGAACCTATTAGAGTATTGGTAGAAGTGCAGGGGAAGATGAACTTT
1 GGTTTCAACTGGTATCAATAGAACCTAGTAGAGTATCGGTAGAAGTGCAGGGGAAGATGAACTTT
* * *
26771053 GGCTACTATTTTGACTTGTTTTGGTAGAAGTCCTCAAGGTAATGGTAAAACACTAGT
66 GGCCACTATTTTGACTTGTTTCGATAGAAGTCCTCAAGGTAATGGTAAAACACTAGT
* * * *
26771110 GGTTTCAACTGGTATCGATAGAACCCT-GTAGAGTATCGGTTGAAGTGCAGGAGG-GGTTGAACT
1 GGTTTCAACTGGTATCAATAGAA-CCTAGTAGAGTATCGGTAGAAGTGCAGG-GGAAGATGAACT
*
26771173 TTGGCCACTGTTTTGACTTGTTTCGATAGAAGTCCTCAAGGTA
64 TTGGCCACTATTTTGACTTGTTTCGATAGAAGTCCTCAAGGTA
26771216 TCAGTATTAC
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
122 87 0.95
123 5 0.05
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (122 bp):
GGTTTCAACTGGTATCAATAGAACCTAGTAGAGTATCGGTAGAAGTGCAGGGGAAGATGAACTTT
GGCCACTATTTTGACTTGTTTCGATAGAAGTCCTCAAGGTAATGGTAAAACACTAGT
Found at i:26774764 original size:20 final size:20
Alignment explanation
Indices: 26774736--26774788 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
26774726 TCTCCCTTCA
*
26774736 TGCTTATCTCAAATTCTCCT
1 TGCTCATCTCAAATTCTCCT
*
26774756 TGCTCATCTCAAATTTTCCT
1 TGCTCATCTCAAATTCTCCT
*
26774776 TGCTCATCCCAAA
1 TGCTCATCTCAAA
26774789 AAGAAGTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.40
Consensus pattern (20 bp):
TGCTCATCTCAAATTCTCCT
Found at i:26785219 original size:125 final size:121
Alignment explanation
Indices: 26785008--26785256 Score: 417
Period size: 125 Copynumber: 2.0 Consensus size: 121
26784998 AATATTAAGT
26785008 TATTATATCATAAAACATTAAAAAAATAAGCCATGTTATTCATTTTTTTATCACCGAAACTAGAA
1 TATTATATCATAAAACATTAAAAAAATAAGCCATGTTATTCATTTTTTTATCACCGAAACTAGAA
26785073 AAGAAAATTAGGTTTGAAGCTTTGAAATATTCGGCCATTGAAGACTTTGATTAACG
66 AAGAAAATTAGGTTTGAAGCTTTGAAATATTCGGCCATTGAAGACTTTGATTAACG
* *
26785129 TATTATATCATAAAACATTTAAAAAAATAAGCCATGTTCTTCCTTTTCTTTATGACACCGAAACT
1 TATTATATCATAAAACA-TTAAAAAAATAAGCCATGTTATTCATTTT-TTTAT--CACCGAAACT
* * *
26785194 AGAAAAGAAATTTTGGTTTGAAGCTTTGAAATATTCGGCCATTGAAGACTTTGATTAAGG
62 AGAAAAGAAAATTAGGTTTGAAGCTTTGAAATATTCGGCCATTGAAGACTTTGATTAACG
26785254 TAT
1 TAT
26785257 GTTTTTGTTT
Statistics
Matches: 119, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
121 17 0.14
122 27 0.23
123 5 0.04
125 70 0.59
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (121 bp):
TATTATATCATAAAACATTAAAAAAATAAGCCATGTTATTCATTTTTTTATCACCGAAACTAGAA
AAGAAAATTAGGTTTGAAGCTTTGAAATATTCGGCCATTGAAGACTTTGATTAACG
Found at i:26793221 original size:14 final size:14
Alignment explanation
Indices: 26793202--26793249 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
26793192 AAAGTCAAAA
26793202 AAAATAAAAAAATC
1 AAAATAAAAAAATC
26793216 AAAATAAAAAAAAT-
1 AAAAT-AAAAAAATC
26793230 AAAGA-AGAAAAAATC
1 AAA-ATA-AAAAAATC
26793245 AAAAT
1 AAAAT
26793250 CAAGATCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.03
14 16 0.55
15 12 0.41
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.12
Consensus pattern (14 bp):
AAAATAAAAAAATC
Found at i:26793708 original size:14 final size:14
Alignment explanation
Indices: 26793677--26793715 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
26793667 AGTTTTCAAA
*
26793677 AAAAAAAGAAAATG
1 AAAAAATGAAAATG
*
26793691 -AAAAATGAGAATG
1 AAAAAATGAAAATG
26793704 AAAAAATGAAAA
1 AAAAAATGAAAA
26793716 ATAAAAGAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAAAATGAAAATG
Found at i:26795143 original size:87 final size:87
Alignment explanation
Indices: 26794920--26795282 Score: 606
Period size: 87 Copynumber: 4.2 Consensus size: 87
26794910 AACAGATCAA
* * * * *
26794920 TAAAGA-AGCAAATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAGAACG-AGATCTTGCCT
1 TAAAGATAGCAGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAGAACGAAG-CCTTGCCT
26794983 CCATCGGTTGCAGTGGAGCTGGT
65 CCATCGGTTGCAGTGGAGCTGGT
* *
26795006 TAAAGA-AGCAGATCTTGCCTTCCTGTGTTAACAGCAAAGCAGATCAAGAACGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAGAACGAAGCCTTGCCTC
* *
26795070 CATCAGTTGCAGTGGAGATGGT
66 CATCGGTTGCAGTGGAGCTGGT
26795092 TAAAGATAGCAGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAGAACGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAGAACGAAGCCTTGCCTC
*
26795157 CATCGGTTGCAATGGAGCTGGT
66 CATCGGTTGCAGTGGAGCTGGT
26795179 TAAAGATAGCAGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAGAACGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAGAACGAAGCCTTGCCTC
26795244 CATCGGTTGCAGTGGAGCTGGT
66 CATCGGTTGCAGTGGAGCTGGT
26795266 TAAAGATAGCAGATCTT
1 TAAAGATAGCAGATCTT
26795283 ACCATCGGTT
Statistics
Matches: 260, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
86 80 0.31
87 180 0.69
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (87 bp):
TAAAGATAGCAGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAGAACGAAGCCTTGCCTC
CATCGGTTGCAGTGGAGCTGGT
Found at i:26795300 original size:41 final size:41
Alignment explanation
Indices: 26795243--26795323 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
26795233 AGCCTTGCCT
26795243 CCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTA
1 CCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTA
26795284 CCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
1 CCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
26795324 GCCTTCCTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (41 bp):
CCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTA
Found at i:26795386 original size:87 final size:87
Alignment explanation
Indices: 26795284--26795442 Score: 291
Period size: 87 Copynumber: 1.8 Consensus size: 87
26795274 GCAGATCTTA
26795284 CCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCA
1 CCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCA
26795349 GATCGAAAACAAAGCCTTACCT
66 GATCGAAAACAAAGCCTTACCT
* * *
26795371 CCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCA
1 CCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCA
26795436 GATCGAA
66 GATCGAA
26795443 GATTACAAGT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
CCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCA
GATCGAAAACAAAGCCTTACCT
Found at i:26795386 original size:128 final size:128
Alignment explanation
Indices: 26795156--26795410 Score: 447
Period size: 128 Copynumber: 2.0 Consensus size: 128
26795146 AGCCTTGCCT
**
26795156 CCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGTGTTAACAGCGAAGCA
1 CCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCA
* * *
26795221 GATCGAGAACGAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTA
66 GATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTA
*
26795284 CCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCA
1 CCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCA
*
26795349 GATCGAAAACAAAGCCTTACCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTT
66 GATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTT
26795411 GCCTTCCTGC
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 120 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (128 bp):
CCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCA
GATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTA
Found at i:26804004 original size:131 final size:131
Alignment explanation
Indices: 26803770--26804441 Score: 909
Period size: 131 Copynumber: 5.2 Consensus size: 131
26803760 TCGGTGAAAT
** * * *
26803770 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTTTCCCTGAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * *
26803835 CAGTAGCGGAGCAGATCGAAAACGGAGAATCTCATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
26803900 C
131 C
* * * *
26803901 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATCGGTTGGAACTTACAGCTCTTGTCTCCCTGAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
26803966 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
26804031 C
131 C
* * * ** * * *
26804032 CACACGTTCTATGTCTCTGGTCAGCAGTGGAGTAGGTTGGAAATTGCAGATCTTGTCTCCCTAAA
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * * *
26804097 TAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCTAGGAGTAGGGAAACAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
26804162 C
131 C
* * *
26804163 CACACGTCCTATGTCCCTGACCAGTAGTGGAATAGGTTGGAAGTTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * *
26804228 CAGTAGCGGAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGCAGTAGGGAAACAAATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
26804293 C
131 C
* * * * *
26804294 CATAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTCGAAATTGCAGAACTTGTCTCCCTAGG
1 CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * * * * * * *
26804359 CAATAGCTGAGCAGATCGAAGACAGCAAATCTTATCTT---CAAGTGTAAGGAAGCAGATTTAAG
66 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
26804421 C
131 C
* * *
26804422 CACAGGTCTTATCTCCCTGA
1 CACAAGTCCTATGTCCCTGA
26804442 GATTACAGTG
Statistics
Matches: 478, Mismatches: 63, Indels: 3
0.88 0.12 0.01
Matches are distributed among these distances:
128 35 0.07
131 443 0.93
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (131 bp):
CACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
C
Found at i:26804552 original size:44 final size:44
Alignment explanation
Indices: 26804486--26804885 Score: 184
Period size: 44 Copynumber: 8.7 Consensus size: 44
26804476 GGAAGTTGTG
* *
26804486 AATCTTATCTCCCTGATG-TTACAGTGGAGCAGGTTGAAGCCAGT
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATGGAAGCCAGT
* * * *
26804530 AATCTTATCTCCTTGAGATTACAGCGGAGTAGATGGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATGGAAGCCAGT
* * * *** **
26804574 AATCCTATCTCCCTGAGATTACAGTGGAGCGGAT-TAAATTAAA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATGGAAGCCAGT
* * *
26804617 AGATCTTATCT--CTGA-AGTTACAGTAGAGTAGATCGCATCAAATTGAAGCCAGA
1 A-ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATGGAAGCCAGT
* * * *
26804670 AATCTTATCTCCCTGAGATTACAGCGGAGCGGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATGGAAGCCAGT
* * * * ** ***
26804714 AACCCTATCTCCCTGAGACTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TGGAAGCCAGT
* * *
26804758 AATCTTATCTCTCTGA-AGTTACAGTAGTGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGA-TTAC---AGTG--GA--G---CAGATGGAAGCCAGT
* * * *
26804812 AATCTTATCTCCCTAAGATTACAGCGGAGTAGATGGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATGGAAGCCAGT
*
26804856 AATCCTATCTCCCTGAGATTACAGTGGAGC
1 AATCTTATCTCCCTGAGATTACAGTGGAGC
26804886 GGATTAAAAT
Statistics
Matches: 266, Mismatches: 59, Indels: 62
0.69 0.15 0.16
Matches are distributed among these distances:
41 1 0.00
42 11 0.04
43 7 0.03
44 166 0.62
45 6 0.02
47 8 0.03
49 7 0.03
51 5 0.02
52 12 0.05
53 10 0.04
54 31 0.12
55 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATGGAAGCCAGT
Found at i:26804838 original size:142 final size:142
Alignment explanation
Indices: 26804519--26805120 Score: 919
Period size: 142 Copynumber: 4.3 Consensus size: 142
26804509 GTGGAGCAGG
* * *
26804519 TTGAAGCCAGTAATCTTATCTCCTTGAGATTACAGCGGAGTAGATGGAAGCTAGTAATCCTATCT
1 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCT
*
26804584 CCCTGAGATTACAGTGGAGCGGATTAAATTAAAAGATCTTA--TCTCTGAAGTTACAGTAGAGTA
66 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTA
*
26804647 GATCGCATCAAA
131 GATCGCATCAGA
* * *
26804659 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCGGATTGAAGCTAGTAACCCTATCT
1 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCT
* *
26804724 CCCTGAGACTACAGTGGAGCGGATTAAAAT-AAAGAATCTTATCTCTCTGAAGTTACAGTAGTGT
66 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAAG-ATCTTATCTCTCTGAAGTTACAGTAGAGT
26804788 AGATCGCATCAGA
130 AGATCGCATCAGA
* *
26804801 TTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGCGGAGTAGATGGAAGCTAGTAATCCTATCT
1 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCT
*
26804866 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTA
66 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTA
26804931 GATCGCATCAGA
131 GATCGCATCAGA
* * *
26804943 TTGAAGCCAAAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
1 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCT
* * * *
26805008 CTCTGAGATTACACTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
66 CCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTA
* *
26805073 GATCACATTAGA
131 GATCGCATCAGA
* * * *
26805085 TTGCA-TCAG--GTCTTATCTCCCTGAGATTACGGCGGA
1 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGA
26805121 ATAGACCGAA
Statistics
Matches: 422, Mismatches: 36, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
139 28 0.07
140 93 0.22
141 2 0.00
142 295 0.70
143 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (142 bp):
TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCT
CCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTA
GATCGCATCAGA
Found at i:26805280 original size:50 final size:50
Alignment explanation
Indices: 26805136--26805284 Score: 158
Period size: 50 Copynumber: 3.0 Consensus size: 50
26805126 CCGAAGAATT
* * *
26805136 ACAGCGAATCTTAC-TCCCCAAGCGGTGCAGTGGAACAGATTAAAACCACA
1 ACAGCGAATCTTACTTCCCTAA-CGGTGCAGTGGAACAGATTAAAGCTACA
* * * ** * *
26805186 TCAGTGAATCTTGCTTCCCCT-ACATTGCAGTTGAAAAGATTAAAGCTACA
1 ACAGCGAATCTTACTT-CCCTAACGGTGCAGTGGAACAGATTAAAGCTACA
* *
26805236 ACAGCAAATCTTACTTCCTTAACGGTGCAGTGGAACAGATTAAAGCTAC
1 ACAGCGAATCTTACTTCCCTAACGGTGCAGTGGAACAGATTAAAGCTAC
26805285 GATGGTGAAT
Statistics
Matches: 77, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
49 3 0.04
50 69 0.90
51 2 0.03
52 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (50 bp):
ACAGCGAATCTTACTTCCCTAACGGTGCAGTGGAACAGATTAAAGCTACA
Found at i:26805311 original size:100 final size:101
Alignment explanation
Indices: 26805136--26805351 Score: 285
Period size: 100 Copynumber: 2.2 Consensus size: 101
26805126 CCGAAGAATT
26805136 ACAGCGAATCTTAC-TCCCCAAGCGGTGCAGTGGAACAGATTAAAACCACATCAGTGAATCTTGC
1 ACAGCGAATCTTACTTCCCCAAGCGGTGCAGTGGAACAGATTAAAACCACATCAGTGAATCTTGC
* * * *
26805200 TTCCCCTACATTGCAGTTGAAAAGATTAAAGCTACA
66 TTACCCAACATTGCAGTTAAAAAGATTAAAGCCACA
* ** * * *
26805236 ACAGCAAATCTTACTTCCTTAA-CGGTGCAGTGGAACAGATTAAAGCTACGAT-GGTGAATCTTG
1 ACAGCGAATCTTACTTCCCCAAGCGGTGCAGTGGAACAGATTAAAACCAC-ATCAGTGAATCTTG
*
26805299 TTTACCCAACATTGCAGTTAAAAAGATTAAAGCCACA
65 CTTACCCAACATTGCAGTTAAAAAGATTAAAGCCACA
**
26805336 ATGGCGAATCTTACTT
1 ACAGCGAATCTTACTT
26805352 TCCAAAAGTT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
100 93 0.93
101 7 0.07
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (101 bp):
ACAGCGAATCTTACTTCCCCAAGCGGTGCAGTGGAACAGATTAAAACCACATCAGTGAATCTTGC
TTACCCAACATTGCAGTTAAAAAGATTAAAGCCACA
Found at i:26805315 original size:50 final size:49
Alignment explanation
Indices: 26805138--26805356 Score: 143
Period size: 50 Copynumber: 4.4 Consensus size: 49
26805128 GAAGAATTAC
* * ** * *
26805138 AGCGAATCTTACTCCCCAAGCGGTGCAGTGGAACAGATTAAAACCAC-AT
1 AGCGAATCTTGCTTCCCAA-CATTGCAGTGGAAAAGATTAAAGCCACAAT
* * * * *
26805187 CAGTGAATCTTGCTTCCCCTACATTGCAGTTGAAAAGATTAAAGCTACAAC
1 -AGCGAATCTTGCTT-CCCAACATTGCAGTGGAAAAGATTAAAGCCACAAT
* * * ** * * *
26805238 AGCAAATCTTACTTCCTTAACGGTGCAGTGGAACAGATTAAAGCTACGAT
1 AGCGAATCTTGCTTCC-CAACATTGCAGTGGAAAAGATTAAAGCCACAAT
* * * **
26805288 GGTGAATCTTGTTTACCCAACATTGCAGTTAAAAAGATTAAAGCCACAAT
1 AGCGAATCTTGCTT-CCCAACATTGCAGTGGAAAAGATTAAAGCCACAAT
* * *
26805338 GGCGAATCTTACTTTCCAA
1 AGCGAATCTTGCTTCCCAA
26805357 AAGTTATGAG
Statistics
Matches: 126, Mismatches: 39, Indels: 9
0.72 0.22 0.05
Matches are distributed among these distances:
49 6 0.05
50 113 0.90
51 7 0.06
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (49 bp):
AGCGAATCTTGCTTCCCAACATTGCAGTGGAAAAGATTAAAGCCACAAT
Found at i:26807141 original size:114 final size:115
Alignment explanation
Indices: 26806996--26807234 Score: 435
Period size: 114 Copynumber: 2.1 Consensus size: 115
26806986 ATTATGTATT
26806996 ACTTATTTTAAATCAACACATGTATATTATTGCATATATTTTAAGTGTTCTTCTTGCATAATATT
1 ACTTATTTTAAATCAACACATGTATATTATTGCATATATTTTAAGTGTTCTTCTTGCATAATATT
26807061 TATTGCAAAATTCATCTAAATACTATCATTCTATCTAATGTTTATTTTAA
66 TATTGCAAAATTCATCTAAATACTATCATTCTATCTAATGTTTATTTTAA
* *
26807111 ACTTATTTT-AATTAACACATGTATATTATTGCATGTATTTTAAGTGTTCTTCTTGCATAATATT
1 ACTTATTTTAAATCAACACATGTATATTATTGCATATATTTTAAGTGTTCTTCTTGCATAATATT
*
26807175 TATTGCAAAATTCATCTAAATACTATCATTCTATCTAGTGTTTATTTTAA
66 TATTGCAAAATTCATCTAAATACTATCATTCTATCTAATGTTTATTTTAA
26807225 ACTCTATTTT
1 ACT-TATTTT
26807235 GAGCCTATTT
Statistics
Matches: 120, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
114 105 0.88
115 15 0.12
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (115 bp):
ACTTATTTTAAATCAACACATGTATATTATTGCATATATTTTAAGTGTTCTTCTTGCATAATATT
TATTGCAAAATTCATCTAAATACTATCATTCTATCTAATGTTTATTTTAA
Found at i:26808430 original size:12 final size:12
Alignment explanation
Indices: 26808413--26808440 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
26808403 ATTTTCATCT
26808413 TTTACAAAACAA
1 TTTACAAAACAA
26808425 TTTACAAAACAA
1 TTTACAAAACAA
26808437 TTTA
1 TTTA
26808441 TACATCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (12 bp):
TTTACAAAACAA
Found at i:26808956 original size:22 final size:22
Alignment explanation
Indices: 26808928--26809306 Score: 224
Period size: 22 Copynumber: 16.5 Consensus size: 22
26808918 GCTCAAAAAT
26808928 GAACAGCATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
26808950 GAACAGCATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
* * *
26808972 GAACAGCATTAGTATGCTCAAAAAT-
1 GAACAGCATT--TA-AC-CAACATTC
*
26808997 GAACAGCATTTAACCAACATAC
1 GAACAGCATTTAACCAACATTC
* *
26809019 GGACAACATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
* * * * * **
26809041 GGACAACATTAGTATGCTAAAAAAAC
1 GAACAGCATT--TA-AC-CAACATTC
*
26809067 GAACAGCATTTAACCATCATTC
1 GAACAGCATTTAACCAACATTC
* * * * *
26809089 GGACAGCATTAGTATGCTAGAAAAT-
1 GAACAGCATT--TA-ACCA-ACATTC
26809114 GAACAGCATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
* *
26809136 GGACAACATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
* *
26809158 GAACACCATTTAAACAACATTC
1 GAACAGCATTTAACCAACATTC
* * * * * *
26809180 AAACATCATTAGTATGCTAAAAAAT-
1 GAACAGCATT--TA-AC-CAACATTC
26809205 GAACAGCATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
*
26809227 GAACAGCATTTAAACAACATTC
1 GAACAGCATTTAACCAACATTC
* * * * * ***
26809249 GGACAACATTAGTATGCTAAAAAAG
1 GAACAGCATT--TA-ACCAACATTC
26809274 GAACAGCATTTAACCAACATTC
1 GAACAGCATTTAACCAACATTC
26809296 GAACAGCATTT
1 GAACAGCATTT
26809307 TGTCACCATA
Statistics
Matches: 265, Mismatches: 70, Indels: 44
0.70 0.18 0.12
Matches are distributed among these distances:
21 11 0.04
22 168 0.63
23 9 0.03
24 12 0.05
25 42 0.16
26 23 0.09
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (22 bp):
GAACAGCATTTAACCAACATTC
Found at i:26808995 original size:69 final size:69
Alignment explanation
Indices: 26808905--26809306 Score: 454
Period size: 69 Copynumber: 5.8 Consensus size: 69
26808895 ACCAATTTGG
* *
26808905 ACAGCATTATTATGCTCAAAAATGAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACAT
1 ACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACAT
26808970 TCGA
66 TCGA
* * * *
26808974 ACAGCATTAGTATGCTCAAAAATGAACAGCATTTAACCAACATACGGACAACATTTAACCAACAT
1 ACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACAT
*
26809039 TCGG
66 TCGA
* * * * * *
26809043 ACAACATTAGTATGCTAAAAAAACGAACAGCATTTAACCATCATTCGGACAGCATTAGTATGCTA
1 ACAGCATTAGTATGCT-AAAAAATGAACAGCATTTAACCAACATTCGAACAGCATT--TA-ACCA
* *
26809108 GAAAAT-GA
62 -ACATTCGA
* * * * * * * *
26809116 ACAGCATT--TA-AC-CAACATTCGGACAACATTTAACCAACATTCGAACACCATTTAAACAACA
1 ACAGCATTAGTATGCTAAAAAAT-GAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACA
*
26809177 TTCAA
65 TTCGA
* *
26809182 ACATCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGAACAGCATTTAAACAACAT
1 ACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACAT
*
26809247 TCGG
66 TCGA
* *
26809251 ACAACATTAGTATGCTAAAAAAGGAACAGCATTTAACCAACATTCGAACAGCATTT
1 ACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGAACAGCATTT
26809307 TGTCACCATA
Statistics
Matches: 277, Mismatches: 45, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
65 3 0.01
66 9 0.03
67 2 0.01
68 5 0.02
69 202 0.73
70 39 0.14
71 2 0.01
72 2 0.01
73 10 0.04
74 3 0.01
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.23
Consensus pattern (69 bp):
ACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACAT
TCGA
Found at i:26809071 original size:117 final size:117
Alignment explanation
Indices: 26808949--26809167 Score: 377
Period size: 117 Copynumber: 1.9 Consensus size: 117
26808939 AACCAACATT
26808949 CGAACAGCATTTAACCAACATTCGAACAGCATTAGTATGCTCA-AAAATGAACAGCATTTAACCA
1 CGAACAGCATTTAACCAACATTCGAACAGCATTAGTATGCT-AGAAAATGAACAGCATTTAACCA
*
26809013 ACATACGGACAACATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAAA
65 ACATACGGACAACATTTAACCAACATTCGAACAACATTAGTATGCTAAAAAAA
* *
26809066 CGAACAGCATTTAACCATCATTCGGACAGCATTAGTATGCTAGAAAATGAACAGCATTTAACCAA
1 CGAACAGCATTTAACCAACATTCGAACAGCATTAGTATGCTAGAAAATGAACAGCATTTAACCAA
* *
26809131 CATTCGGACAACATTTAACCAACATTCGAACACCATT
66 CATACGGACAACATTTAACCAACATTCGAACAACATT
26809168 TAAACAACAT
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
116 1 0.01
117 95 0.99
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.22
Consensus pattern (117 bp):
CGAACAGCATTTAACCAACATTCGAACAGCATTAGTATGCTAGAAAATGAACAGCATTTAACCAA
CATACGGACAACATTTAACCAACATTCGAACAACATTAGTATGCTAAAAAAA
Found at i:26809136 original size:47 final size:47
Alignment explanation
Indices: 26809025--26809236 Score: 243
Period size: 47 Copynumber: 4.6 Consensus size: 47
26809015 ATACGGACAA
*
26809025 CATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAAACGAACAG
1 CATTTAACCAACATTCGGACAACATTAGTATGCT-AAAAAATGAACAG
* * *
26809073 CATTTAACCATCATTCGGACAGCATTAGTATGCTAGAAAATGAACAG
1 CATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAATGAACAG
* * * * *
26809120 CATTTAACCAACATTCGGACAACATT--TA-AC-CAACATTCGAACAC
1 CATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAAT-GAACAG
* ** *
26809164 CATTTAAACAACATTCAAACATCATTAGTATGCTAAAAAATGAACAG
1 CATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAATGAACAG
* *
26809211 CATTTAACCAACATTCGAACAGCATT
1 CATTTAACCAACATTCGGACAACATT
26809237 TAAACAACAT
Statistics
Matches: 135, Mismatches: 24, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
43 3 0.02
44 28 0.21
45 2 0.01
46 2 0.01
47 64 0.47
48 36 0.27
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (47 bp):
CATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAATGAACAG
Found at i:26809183 original size:11 final size:11
Alignment explanation
Indices: 26809128--26809189 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
26809118 AGCATTTAAC
**
26809128 CAACATTCGGA
1 CAACATTCAAA
* *
26809139 CAACATTTAAC
1 CAACATTCAAA
*
26809150 CAACATTCGAA
1 CAACATTCAAA
* *
26809161 CACCATTTAAA
1 CAACATTCAAA
26809172 CAACATTCAAA
1 CAACATTCAAA
*
26809183 CATCATT
1 CAACATT
26809190 AGTATGCTAA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.44, C:0.27, G:0.05, T:0.24
Consensus pattern (11 bp):
CAACATTCAAA
Found at i:26809193 original size:91 final size:91
Alignment explanation
Indices: 26808905--26809258 Score: 302
Period size: 91 Copynumber: 3.8 Consensus size: 91
26808895 ACCAATTTGG
* * * *
26808905 ACAGCATTATTATGCTCAAAAATGAACAGCATTTAACCAACATTCGAACAGCATTTAACCAACAT
1 ACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGGACAACATTTAACCAACAT
* ** * * *
26808970 TCGAACAGCATTAGTATGCTCAAAAAT-GA
66 TCGAACAACATT--TA--AACAACATTCAA
* * * * * * * * *
26808999 ACAGCATT--TA-ACCAACATACGGACAACATTTAACCAACATTCGGACAACATTAGTATGCTAA
1 ACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGGACAACATT--TA-AC-CA
* ** * * * **
26809061 AAAAACGAACAGCATTTAACCATCATTCGG
62 ACATTCGAACAACATTTAAACAACATTCAA
*
26809091 ACAGCATTAGTATGCTAGAAAATGAACAGCATTTAACCAACATTCGGACAACATTTAACCAACAT
1 ACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGGACAACATTTAACCAACAT
*
26809156 TCGAACACCATTTAAACAACATTCAA
66 TCGAACAACATTTAAACAACATTCAA
* * * *
26809182 ACATCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGAACAGCATTTAAACAACAT
1 ACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGGACAACATTTAACCAACAT
*
26809247 TCGGACAACATT
66 TCGAACAACATT
26809259 AGTATGCTAA
Statistics
Matches: 206, Mismatches: 46, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
91 129 0.63
92 12 0.06
93 6 0.03
94 11 0.05
95 48 0.23
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.23
Consensus pattern (91 bp):
ACAGCATTAGTATGCTAAAAAATGAACAGCATTTAACCAACATTCGGACAACATTTAACCAACAT
TCGAACAACATTTAAACAACATTCAA
Found at i:26810100 original size:40 final size:39
Alignment explanation
Indices: 26809977--26810106 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 39
26809967 ATAATCCCGT
* * * * *
26809977 ACACTAAGTGCCTTACATAGCCAAATCTATCTCAATCTCTC
1 ACACTAAGTGCCATAAATAGCCGAAGCTATCTC-AT-TCGC
* * *
26810018 ACACTAAGTGCCATATATAAAGTCGAAGCTATTCTCAATCGC
1 ACACTAAGTGCCATA-A-ATAGCCGAAGCTA-TCTCATTCGC
26810060 ACACTAAGTGCCATAAATAGCCGAAGCTATCTCGATTCGC
1 ACACTAAGTGCCATAAATAGCCGAAGCTATCTC-ATTCGC
*
26810100 AAACTAA
1 ACACTAA
26810107 TGCTAAACAT
Statistics
Matches: 73, Mismatches: 12, Indels: 9
0.78 0.13 0.10
Matches are distributed among these distances:
39 4 0.05
40 22 0.30
41 15 0.21
42 18 0.25
43 10 0.14
44 4 0.05
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (39 bp):
ACACTAAGTGCCATAAATAGCCGAAGCTATCTCATTCGC
Found at i:26814174 original size:122 final size:122
Alignment explanation
Indices: 26813920--26814176 Score: 304
Period size: 122 Copynumber: 2.1 Consensus size: 122
26813910 TCCTGTATCA
** * **
26813920 GTAGAACTCTGAG-GGTTTCATTTAGTATCAATAGAACCCATTAGAGTATCGGTAGAAGTGCAAG
1 GTAGAACTCTG-GTGGTTTCAACTGGTATCAATAGAACCCAGCAGAGTATCGGTAGAAGTGCAAG
* *
26813984 GGAGGCTAAACTTTGCCCACTATTTTGACTTGTTTTGGTAGAAGTCCTCAAAGTAGCG
65 GGAGGCTAAACTTTGCCCACTATTTTGACTTGTTTCGATAGAAGTCCTCAAAGTAGCG
* * * *
26814042 GTAGACCTCTGGTGGTTTCAACTGGTATCAGTAGAACCTAGCAGAGTATCGGTAGAAGTGCTAGA
1 GTAGAACTCTGGTGGTTTCAACTGGTATCAATAGAACCCAGCAGAGTATCGGTAGAAGTGCAAG-
* * * * **
26814107 GG-GGCTGAACTTTGGCTACTATTTTGACTTGTTTCGATAGAAGTTCT-AAAGGTATTG
65 GGAGGCTAAACTTTGCCCACTATTTTGACTTGTTTCGATAGAAGTCCTCAAA-GTAGCG
*
26814164 GTATAACTCTGGT
1 GTAGAACTCTGGT
26814177 TGTATCGATA
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
121 4 0.04
122 107 0.95
123 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (122 bp):
GTAGAACTCTGGTGGTTTCAACTGGTATCAATAGAACCCAGCAGAGTATCGGTAGAAGTGCAAGG
GAGGCTAAACTTTGCCCACTATTTTGACTTGTTTCGATAGAAGTCCTCAAAGTAGCG
Found at i:26819835 original size:16 final size:16
Alignment explanation
Indices: 26819814--26819865 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
26819804 TTTAGTTCGC
26819814 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
26819830 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
26819846 TGTAATGGAATAAAGG
1 TGTATTGGATTAGAGG
26819862 TGTA
1 TGTA
26819866 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:26820123 original size:18 final size:17
Alignment explanation
Indices: 26820102--26820136 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26820092 TTATTATTTA
*
26820102 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
26820120 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
26820137 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:26820130 original size:28 final size:27
Alignment explanation
Indices: 26820060--26820132 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
26820050 TTTATTATCA
*
26820060 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
26820088 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
26820115 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
26820133 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:26820270 original size:18 final size:17
Alignment explanation
Indices: 26820249--26820283 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26820239 TTATTATTAA
*
26820249 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
26820267 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
26820284 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:26820295 original size:147 final size:149
Alignment explanation
Indices: 26820021--26820295 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
26820011 ATGATTATTG
*
26820021 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
26820086 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
26820151 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
26820170 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
26820233 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
26820296 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:26820346 original size:17 final size:16
Alignment explanation
Indices: 26820324--26820370 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
26820314 ACTCAAACCA
26820324 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
26820341 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
26820355 TAAATATATGATTTAA
1 T-AATATATGATTTAA
26820371 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:26820371 original size:17 final size:17
Alignment explanation
Indices: 26820343--26820376 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26820333 ATTATAACTA
*
26820343 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
26820360 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
26820377 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:26820519 original size:93 final size:92
Alignment explanation
Indices: 26820409--26820603 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
26820399 GATTATAGTT
* * *
26820409 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
26820472 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
26820502 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
26820567 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
26820594 TATGAATTTA
1 TATGAATTTA
26820604 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:26825589 original size:18 final size:19
Alignment explanation
Indices: 26825551--26825590 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
26825541 CATAAATTTT
*
26825551 AAAAATAAAAAATTTTATA
1 AAAAATAAAAAATCTTATA
*
26825570 AAAAATAAAAACTCTT-TA
1 AAAAATAAAAAATCTTATA
26825588 AAA
1 AAA
26825591 TTTAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAATAAAAAATCTTATA
Found at i:26825611 original size:17 final size:17
Alignment explanation
Indices: 26825591--26825624 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
26825581 CTCTTTAAAA
26825591 TTTAAAAATAAAAATAT
1 TTTAAAAATAAAAATAT
26825608 TTTAAAAATAAAAATAT
1 TTTAAAAATAAAAATAT
26825625 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTAAAAATAAAAATAT
Found at i:26825632 original size:17 final size:17
Alignment explanation
Indices: 26825593--26825633 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
26825583 CTTTAAAATT
*
26825593 TAAAAATAAAAATATTT
1 TAAAAATAAAAATATTA
26825610 TAAAAATAAAAATATATA
1 TAAAAATAAAAATAT-TA
26825628 TAAAAA
1 TAAAAA
26825634 AATTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATAAAAATATTA
Found at i:26826731 original size:17 final size:18
Alignment explanation
Indices: 26826709--26826742 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
26826699 TGTTGATAAC
26826709 ATAATAAATA-ATTAAAA
1 ATAATAAATATATTAAAA
*
26826726 ATAATAAGTATATTAAA
1 ATAATAAATATATTAAA
26826743 TAACAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAAATATATTAAAA
Found at i:26826853 original size:18 final size:19
Alignment explanation
Indices: 26826827--26826864 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
26826817 CACTTATTTT
*
26826827 TTTAATTTTATAT-AATTA
1 TTTAATTTTAGATAAATTA
*
26826845 TTTACTTTTAGATAAATTA
1 TTTAATTTTAGATAAATTA
26826864 T
1 T
26826865 ATATATAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTAATTTTAGATAAATTA
Found at i:26827915 original size:9 final size:9
Alignment explanation
Indices: 26827898--26827934 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26827888 TGAGTTTTCG
26827898 AATTCGAAT
1 AATTCGAAT
*
26827907 AACTCGAAT
1 AATTCGAAT
26827916 AATTCGAAT
1 AATTCGAAT
26827925 AATTCGAAT
1 AATTCGAAT
26827934 A
1 A
26827935 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26828971 original size:5 final size:5
Alignment explanation
Indices: 26828961--26828996 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
26828951 CTTGAAAATT
26828961 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
26828997 CGAATGCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:26829862 original size:24 final size:24
Alignment explanation
Indices: 26829830--26829885 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
26829820 CTAGACTAAT
26829830 CAGAGTTTGATTGAAACAAATAAA
1 CAGAGTTTGATTGAAACAAATAAA
26829854 CAGAGTTTGATTGAAACAAATAAA
1 CAGAGTTTGATTGAAACAAATAAA
26829878 CAGAGTTT
1 CAGAGTTT
26829886 AACTAGAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.27
Consensus pattern (24 bp):
CAGAGTTTGATTGAAACAAATAAA
Found at i:26831778 original size:29 final size:28
Alignment explanation
Indices: 26831736--26831847 Score: 120
Period size: 28 Copynumber: 3.9 Consensus size: 28
26831726 AATTTTGGCA
*
26831736 TTTTTTTTCTAATTTGGTACCTAAGCTT
1 TTTTTTTTCCAATTTGGTACCTAAGCTT
*
26831764 TTTTTTTGTCCAATTTGGTACCTAA-ATT
1 TTTTTTT-TCCAATTTGGTACCTAAGCTT
* *
26831792 TTATAATTTTTCCTATTTTGGTAGCTAAGCTT
1 TT-T--TTTTTCC-AATTTGGTACCTAAGCTT
26831824 TTTTTTGTT-CAATTTGGTACCTAA
1 TTTTTT-TTCCAATTTGGTACCTAA
26831848 ATTTGTCAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
28 23 0.33
29 21 0.30
30 5 0.07
31 17 0.24
32 4 0.06
ACGTcount: A:0.21, C:0.13, G:0.12, T:0.54
Consensus pattern (28 bp):
TTTTTTTTCCAATTTGGTACCTAAGCTT
Found at i:26831837 original size:59 final size:60
Alignment explanation
Indices: 26831738--26831851 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 60
26831728 TTTTGGCATT
*
26831738 TTTTTTCTAATTTGGTACCTAAGCTTTTTTTTTGTCCAATTTGGTACCTAAATTTTATAA
1 TTTTTCCTAATTTGGTACCTAAGCTTTTTTTTTGTCCAATTTGGTACCTAAATTTTATAA
* * *
26831798 TTTTTCCTATTTTGGTAGCTAAGC-TTTTTTTTGTTCAATTTGGTACCTAAATTT
1 TTTTTCCTAATTTGGTACCTAAGCTTTTTTTTTGTCCAATTTGGTACCTAAATTT
26831852 GTCAAATATC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 29 0.58
60 21 0.42
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.54
Consensus pattern (60 bp):
TTTTTCCTAATTTGGTACCTAAGCTTTTTTTTTGTCCAATTTGGTACCTAAATTTTATAA
Found at i:26832875 original size:11 final size:11
Alignment explanation
Indices: 26832855--26832899 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
26832845 TTCACTGTTG
26832855 TTTTGTTATTA
1 TTTTGTTATTA
* *
26832866 TTTTGATATTG
1 TTTTGTTATTA
*
26832877 TTTTGTTGTTA
1 TTTTGTTATTA
*
26832888 TTTTGCTATTA
1 TTTTGTTATTA
26832899 T
1 T
26832900 ATTACCACTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.16, C:0.02, G:0.13, T:0.69
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:26832878 original size:22 final size:22
Alignment explanation
Indices: 26832852--26832897 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
26832842 ATTTTCACTG
26832852 TTGTTTTGTTATTATTTTGATA
1 TTGTTTTGTTATTATTTTGATA
* *
26832874 TTGTTTTGTTGTTATTTTGCTA
1 TTGTTTTGTTATTATTTTGATA
26832896 TT
1 TT
26832898 ATATTACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.02, G:0.15, T:0.70
Consensus pattern (22 bp):
TTGTTTTGTTATTATTTTGATA
Found at i:26835515 original size:30 final size:30
Alignment explanation
Indices: 26835479--26835542 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
26835469 NNNNNNNNNN
*
26835479 TAGTGGAGTTGGTGGTGGAAAAGGTGTGGC
1 TAGTGGAGTTGGTGGTGGAAAAGGAGTGGC
26835509 TAGTGGAGTTGGTGGTGGAAAAGGAGTGGC
1 TAGTGGAGTTGGTGGTGGAAAAGGAGTGGC
26835539 TAGT
1 TAGT
26835543 TGAGAAAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.03, G:0.48, T:0.27
Consensus pattern (30 bp):
TAGTGGAGTTGGTGGTGGAAAAGGAGTGGC
Found at i:26836914 original size:27 final size:26
Alignment explanation
Indices: 26836870--26836920 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
26836860 AATCTTGACA
* *
26836870 TTTTTTTTCTAATTTGGTACCTAAGC
1 TTTTTTTTCCAATATGGTACCTAAGC
26836896 TTTTTTTGTCCAATATGGTACCTAA
1 TTTTTTT-TCCAATATGGTACCTAA
26836921 ATTTTACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.51
Consensus pattern (26 bp):
TTTTTTTTCCAATATGGTACCTAAGC
Found at i:26836925 original size:26 final size:26
Alignment explanation
Indices: 26836869--26836925 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
26836859 TAATCTTGAC
* *
26836869 ATTTTTTTTCTAATTTGGTACCTAAG
1 ATTTTTTTTCCAATATGGTACCTAAG
*
26836895 CTTTTTTTGTCCAATATGGTACCTAA-
1 ATTTTTTT-TCCAATATGGTACCTAAG
26836921 ATTTT
1 ATTTT
26836926 ACAATTTTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.53
Consensus pattern (26 bp):
ATTTTTTTTCCAATATGGTACCTAAG
Found at i:26842391 original size:91 final size:90
Alignment explanation
Indices: 26842284--26842460 Score: 237
Period size: 91 Copynumber: 2.0 Consensus size: 90
26842274 TTAGTAACAA
* * * * * ** * *
26842284 CTTTTATCTGCAAATACGTTGTGCATTCACAACCTACTAGCAGTTTATTAACTTACAAACATTGG
1 CTTTTATATGCAAATACGATGTGCATTCACAACCTAATAGCAATATATTAACCAACAAACACTAG
*
26842349 CAGTTCATCCATAAACTTATAGACAG
66 CAGTTCATCCACAAAC-TATAGACAG
*
26842375 CTTTTATATGCAAATACGATGTGCATTCACAACCTAATGGCAATATATTAACCAACAAACACTAG
1 CTTTTATATGCAAATACGATGTGCATTCACAACCTAATAGCAATATATTAACCAACAAACACTAG
*
26842440 CGGTTCATCCACAAACTATAG
66 CAGTTCATCCACAAACTATAG
26842461 TGTCCGGGTT
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
90 5 0.07
91 69 0.93
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.30
Consensus pattern (90 bp):
CTTTTATATGCAAATACGATGTGCATTCACAACCTAATAGCAATATATTAACCAACAAACACTAG
CAGTTCATCCACAAACTATAGACAG
Found at i:26843172 original size:22 final size:23
Alignment explanation
Indices: 26843129--26843172 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
26843119 CGTGATTTTT
* *
26843129 TTCTGAAAATATACTAAGGTTTC
1 TTCTGAAAATAAACAAAGGTTTC
*
26843152 TTCT-AAAATAAACAAATGTTT
1 TTCTGAAAATAAACAAAGGTTT
26843173 TAATATGTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (23 bp):
TTCTGAAAATAAACAAAGGTTTC
Found at i:26843678 original size:9 final size:9
Alignment explanation
Indices: 26843664--26843694 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26843654 GTTAAACGGA
26843664 TCGAGTTAT
1 TCGAGTTAT
*
26843673 TCGAGTTAA
1 TCGAGTTAT
26843682 TCGAGTTAT
1 TCGAGTTAT
26843691 TCGA
1 TCGA
26843695 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:26844023 original size:30 final size:31
Alignment explanation
Indices: 26843989--26844048 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
26843979 AAACCTTTTA
* *
26843989 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCACCCAAAACTTTTACTCCCTTCCCAC
* *
26844019 TTTTCACCTAAAACTTTTATTCCCTTCCCA
1 TTTTCACCCAAAACTTTTACTCCCTTCCCA
26844049 TCTCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCACCCAAAACTTTTACTCCCTTCCCAC
Found at i:26844597 original size:5 final size:5
Alignment explanation
Indices: 26844587--26844617 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
26844577 CTCGAAAATT
26844587 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
26844618 CAAATGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:26847054 original size:53 final size:52
Alignment explanation
Indices: 26846974--26847118 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 52
26846964 AAAAAAAAAG
* *
26846974 AAAAAAAATTT-TGGTGCTGGCCAGTCAATGGCCGGCACCACCTTTACGAGA
1 AAAAAAAATTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGA
** *
26847025 AAAGAAAAATTTCGGGTGCTGGCCTGTCAATGGCTAGCACCACCTTTACGGGA
1 AAA-AAAAATTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGA
* ** *
26847078 AAAAAAATTTTCGGGTGCTAACCTGTTAATGGCCGGCACCA
1 AAAAAAAATTTCGGGTGCTGGCCTGTCAATGGCCGGCACCA
26847119 ATATACGAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
51 3 0.04
52 40 0.49
53 38 0.47
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (52 bp):
AAAAAAAATTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGA
Found at i:26847117 original size:52 final size:52
Alignment explanation
Indices: 26846972--26847118 Score: 199
Period size: 53 Copynumber: 2.8 Consensus size: 52
26846962 CAAAAAAAAA
*
26846972 AGAAAAAAAATTTT--GGTGCTGGCCAGTCAATGGCCGGCACCACCTTTACG
1 AGAAAAAAAATTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACG
* **
26847022 AGAAAAGAAAAATTTCGGGTGCTGGCCTGTCAATGGCTAGCACCACCTTTACG
1 AGAAAA-AAAATTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACG
* ** *
26847075 GGAAAAAAAATTTTCGGGTGCTAACCTGTTAATGGCCGGCACCA
1 AGAAAAAAAATTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCA
26847119 ATATACGAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 6 0.07
51 7 0.08
52 32 0.39
53 38 0.46
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (52 bp):
AGAAAAAAAATTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACG
Found at i:26847194 original size:61 final size:61
Alignment explanation
Indices: 26847113--26847229 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
26847103 TTAATGGCCG
* ***
26847113 GCACCAATATACGAAAAAATTAAAAAAAACTTTTTTGGCGG-GGCCTATCAATGGCCAGCAC
1 GCACCAATATAAGAAAAAATTAAAAAAAA-AAATTTGGCGGTGGCCTATCAATGGCCAGCAC
* *
26847174 GCACCAGTATAAGAAAAAATTAAAAAAAAAAATTTGGCGGTGGCCTGTCAATGGCC
1 GCACCAATATAAGAAAAAATTAAAAAAAAAAATTTGGCGGTGGCCTATCAATGGCC
26847230 GACACCACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
60 8 0.16
61 41 0.84
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (61 bp):
GCACCAATATAAGAAAAAATTAAAAAAAAAAATTTGGCGGTGGCCTATCAATGGCCAGCAC
Found at i:26847549 original size:114 final size:112
Alignment explanation
Indices: 26847174--26847703 Score: 553
Period size: 114 Copynumber: 4.8 Consensus size: 112
26847164 TGGCCAGCAC
* ** * *
26847174 GCACCAGTATAAGAAAAAATTAAAAAA-AA-A--AATTTGGCGGTGGCCTGTCAATGGCCGACAC
1 GCACCAGTATACGAAAAAATTAAAAAATAATATTTTTTTAGTGGTGGCCTGTCAATGGCCGACAC
* * *
26847235 CACTTTTACAGGAAAAAAAATTTTC-AGGTGCTGGCCTGTCAATGGCAG
66 CACCTTTACGGGAAAAAAAA-TTTCGA-GTGCTGGCCTGTCAATGGCCG
* * *
26847283 GCACTAGTATACGAAAAAATTAAAAAA-AA-A----TTTAGTGGTGGCCTGTCAATGGTCGGCAC
1 GCACCAGTATACGAAAAAATTAAAAAATAATATTTTTTTAGTGGTGGCCTGTCAATGGCCGACAC
***** *
26847342 CACCTTTACAGGGAAATTTTTTTTTCGGGTGCTGGCCTGTCAATGGCCG
66 CACCTTTAC-GGGAAA-AAAAATTTCGAGTGCTGGCCTGTCAATGGCCG
* *
26847391 GCACCAGTATACGAAAAAATTAATAAAACAAT-TTTTTTTAGTGGTGGCCTGTCAATGGCCGGCA
1 GCACCAGTATACGAAAAAATTAA-AAAATAATATTTTTTTAGTGGTGGCCTGTCAATGGCCGACA
* *
26847455 CCACCTTTACGGGAAAAAAAATTTCGAGTGCTAGCCTGTCAATGGCTG
65 CCACCTTTACGGGAAAAAAAATTTCGAGTGCTGGCCTGTCAATGGCCG
* * * * *
26847503 GCACCAATATACGAAAAAATTTTAAAAAATAATATTTTTTTTGTGGTGGCCTGTCTATGACTGAC
1 GCACCAGTATACGAAAAAA--TTAAAAAATAATATTTTTTTAGTGGTGGCCTGTCAATGGCCGAC
* ** * *
26847568 GCCACCTTTACGAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCG
64 ACCACCTTTACGGGAAAAAAAATTTCGAGTGCTGGCCTGTCAATGGCCG
* * * * *
26847617 GCACCAGTATACGAAAAAATTAAAAAAATATTTTTATTTTTTGGTGGTGGCCTGTGAATGGCTGA
1 GCACCAGTATACGAAAAAATT-AAAAAATA-ATAT-TTTTTTAGTGGTGGCCTGTCAATGGCCGA
*
26847682 CACCACCTTTACGAGAAAAAAA
63 CACCACCTTTACGGGAAAAAAA
26847704 CAGGTCGATA
Statistics
Matches: 357, Mismatches: 48, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
107 33 0.09
108 51 0.14
109 32 0.09
110 2 0.01
112 44 0.12
113 21 0.06
114 129 0.36
115 45 0.13
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (112 bp):
GCACCAGTATACGAAAAAATTAAAAAATAATATTTTTTTAGTGGTGGCCTGTCAATGGCCGACAC
CACCTTTACGGGAAAAAAAATTTCGAGTGCTGGCCTGTCAATGGCCG
Found at i:26847809 original size:52 final size:49
Alignment explanation
Indices: 26847736--26847875 Score: 181
Period size: 52 Copynumber: 2.7 Consensus size: 49
26847726 AAAATTAAAA
* * *
26847736 TTTTTTTTGTGGTGGCCTGTCAATAGCCGGTACTACCTTTACGAGGGAAAT
1 TTTTTTTTGTGGTGGCCTGTCAATGGCCGGCACCACCTTTAC--GGGAAAT
26847787 TTTTATTTTGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAATT
1 TTTT-TTTTGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAA-T
*
26847838 TTTTTTTTCAGGTGCTGGCCTGTCAATGGCCGGCACCA
1 TTTTTTTT---GTGGTGGCCTGTCAATGGCCGGCACCA
26847876 ATATACAAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
50 10 0.12
51 9 0.11
52 35 0.44
53 26 0.32
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (49 bp):
TTTTTTTTGTGGTGGCCTGTCAATGGCCGGCACCACCTTTACGGGAAAT
Found at i:26851177 original size:18 final size:18
Alignment explanation
Indices: 26851156--26851190 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26851146 TATTTTATTA
*
26851156 TATCGTTTTATTTATTTC
1 TATCGTTTTATATATTTC
*
26851174 TATCTTTTTATATATTT
1 TATCGTTTTATATATTT
26851191 TCAAACTCTA
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:0.20, C:0.09, G:0.03, T:0.69
Consensus pattern (18 bp):
TATCGTTTTATATATTTC
Found at i:26851220 original size:3 final size:3
Alignment explanation
Indices: 26851207--26851256 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
26851197 TCTAGATTGT
* *
26851207 TTA TTA TTTA TTA TTCA -TA TTA TTA TTA ATA TTA TTA TTA TCA TTA
1 TTA TTA -TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26851253 TTA T
1 TTA T
26851257 CTTTTTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.03
3 35 0.88
4 4 0.10
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:26851231 original size:12 final size:11
Alignment explanation
Indices: 26851207--26851256 Score: 66
Period size: 12 Copynumber: 4.4 Consensus size: 11
26851197 TCTAGATTGT
26851207 TTATTAT-TTA
1 TTATTATATTA
26851217 TTATTCATATTA
1 TTATT-ATATTA
26851229 TTATTAATATTA
1 TTATT-ATATTA
26851241 TTATTATCATTA
1 TTATTAT-ATTA
26851253 TTAT
1 TTAT
26851257 CTTTTTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 27 0.75
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTATATTA
Found at i:26855063 original size:44 final size:44
Alignment explanation
Indices: 26854984--26855591 Score: 396
Period size: 44 Copynumber: 13.6 Consensus size: 44
26854974 CATATCAAAC
* * * * *
26854984 CTTATCTCCCTGATGTTGCAGTGGAGTAGGTTGAAGGTACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
**
26855028 CTTATCTCCCTGAAGTTGCAGTGGAGCAGCCTGAAGATAGCGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AAGT
* * * * *
26855073 CTTATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A-CA-AG-T
* * * * *
26855124 CTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TCATA-ATA-AA-C
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGATACAAGT
* * * *
26855165 CTTATCTCCCTAAAGTTGCAGTGTAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
* * * * *
26855209 CTTATCTCCCTAAAGTTGCAGCGGAGTAGACTGAAGATAGTGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA--CAAGT
* ** * * *
26855254 CTTATTTCCCTGAAGTTGCAACGGAACAAATTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
* * * *
26855298 TTTATCTCCCTAAAGTTGCAGTGG-GCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
* * * *
26855341 CTTATCTCCCTGAAGTTACAGTGGAGTAGACTAAAGATAGCGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AAGT
* * * * * *
26855386 CTTATTTCCCTAAAGTTGCAGTGGAACATATTGCAGTTATAAATTATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A-CA-AG-T
* * * *
26855437 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG-TA-AACT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGATACAAGT
* * *
26855479 -TTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
* * *
26855522 CTTATCTTCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AAGT
*
26855567 CTTATTTCCCTGAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
26855592 ACATATTAAA
Statistics
Matches: 434, Mismatches: 96, Indels: 67
0.73 0.16 0.11
Matches are distributed among these distances:
41 54 0.12
42 9 0.02
43 46 0.11
44 130 0.30
45 117 0.27
46 9 0.02
47 4 0.01
48 5 0.01
49 4 0.01
50 3 0.01
51 53 0.12
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
Found at i:26855215 original size:181 final size:181
Alignment explanation
Indices: 26854891--26855273 Score: 561
Period size: 181 Copynumber: 2.1 Consensus size: 181
26854881 AAGCCACTAG
* * * * ** *
26854891 TCTTATCTCCCTAAAGTTGTAGTGGAACAGATTGAAGCTATAAATTCTAGATCTTATCTCTTTAA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAATAGATCTTATCTCTCTAA
* * * *
26854956 AGTTGCAATAGAGTAGATCATATCAAACCTTATCTCCCTGATGTTGCAGTGGAGTAGGTTGAAGG
66 AGTTGCAATAGAGCAGATCATATCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGG
* * * *
26855021 TACTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGCCTGAAGATAGCGAA
131 TACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGAA
*
26855072 TCTTATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAATAGATCTTATCTCTCTAA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAATAGATCTTATCTCTCTAA
* *
26855137 AGTTGCAGTAGAGCAGATCATAAT-AAACCTTATCTCCCTAAAGTTGCAGTGTAGCAGGTTGAAG
66 AGTTGCAATAGAGCAGATCAT-ATCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAG
* * *
26855201 TTACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGTAGACTGAAGATAGTGAA
130 GTACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGAA
26855253 TCTTATTTCCCTGAAGTTGCA
1 TCTTATTTCCCTGAAGTTGCA
26855274 ACGGAACAAA
Statistics
Matches: 179, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
181 177 0.99
182 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (181 bp):
TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAATAGATCTTATCTCTCTAA
AGTTGCAATAGAGCAGATCATATCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGG
TACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGATAGCGAA
Found at i:26855526 original size:181 final size:180
Alignment explanation
Indices: 26855298--26855622 Score: 560
Period size: 181 Copynumber: 1.8 Consensus size: 180
26855288 AGTTACAAGT
26855298 TTTATCTCCCTAAAGTTGCAGTGGGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGT
1 TTTATCTCCCTAAAGTTGCAGTGGGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGT
* * ** *
26855363 GGAGTAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACATATTGCAGTTATAA
66 AGAGCAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACATATTAAAGCTATAA
26855428 ATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGTAAAC
131 ATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGTAAAC
* *
26855478 TTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTTCCTGAAGTTGCAG
1 TTTATCTCCCTAAAGTTGCAGTGG-GCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAG
* *
26855543 TAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAGCTATA
65 TAGAGCAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACATATTAAAGCTATA
26855608 AATTATAGATCTTAT
130 AATTATAGATCTTAT
26855623 GTAACACCCC
Statistics
Matches: 135, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
180 24 0.18
181 111 0.82
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (180 bp):
TTTATCTCCCTAAAGTTGCAGTGGGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGT
AGAGCAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACATATTAAAGCTATAA
ATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGTAAAC
Found at i:26855579 original size:313 final size:314
Alignment explanation
Indices: 26854985--26855586 Score: 963
Period size: 313 Copynumber: 1.9 Consensus size: 314
26854975 ATATCAAACC
* * * * *
26854985 TTATCTCCCTGATGTTGCAGTGGAGTAGGTTGAAGGTACTAGTCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGGTACAAGTCTTATCTCCCTGAAGTTACAGT
* * * *
26855050 GGAGCAGCCTGAAGATAGCGAATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTATAA
66 GGAGCAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTATAA
26855115 ATAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAATAAACCTTATCTCCCTAAAG
131 ATAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAATAAACCTTATCTCCCTAAAG
* * *
26855180 TTGCAGTGTAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGTAGACTGAAG
196 TTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAG
*
26855245 ATAGTGAATCTTATTTCCCTGAAGTTGCAACGGAACAAATTGAAGTTACAAGTT
261 ATAGCGAATCTTATTTCCCTGAAGTTGCAACGGAACAAATTGAAGTTACAAGTT
*
26855299 TTATCTCCCTAAAGTTGCAGTGG-GCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGT
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGGTACAAGTCTTATCTCCCTGAAGTTACAGT
* * ** *
26855363 GGAGTAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACATATTGCAGTTATAA
66 GGAGCAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTATAA
* * * *
26855428 ATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGTAAACTTTATCTCCCTAAAG
131 ATAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAATAAACCTTATCTCCCTAAAG
* * *
26855493 TTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTTCCTGAAGTTGCAGTAGAGCAGACTGAAG
196 TTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAG
26855558 ATAGCGAATCTTATTTCCCTGAAGTTGCA
261 ATAGCGAATCTTATTTCCCTGAAGTTGCA
26855587 GTGGAACATA
Statistics
Matches: 262, Mismatches: 26, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
313 241 0.92
314 21 0.08
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (314 bp):
TTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGGTACAAGTCTTATCTCCCTGAAGTTACAGT
GGAGCAGACTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTATAA
ATAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAATAAACCTTATCTCCCTAAAG
TTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTGAAG
ATAGCGAATCTTATTTCCCTGAAGTTGCAACGGAACAAATTGAAGTTACAAGTT
Found at i:26857010 original size:50 final size:50
Alignment explanation
Indices: 26856939--26857279 Score: 495
Period size: 50 Copynumber: 6.7 Consensus size: 50
26856929 ACATGCCAAA
26856939 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
* * * * *
26856989 GCCATGTCCCAGACATGGTCTTATA-GATGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCGTCTCGGTGCCCAT
26857039 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
26857089 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
* *
26857139 GCCATGTCCCAGACATGGTCTTACATGGGATCTTTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
* * * * *
26857189 GTCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG-TGCCCAT
*
26857245 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
26857280 TTACCCAAAT
Statistics
Matches: 260, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
49 1 0.00
50 215 0.83
51 1 0.00
52 1 0.00
53 2 0.01
54 1 0.00
55 2 0.01
56 37 0.14
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:26857753 original size:45 final size:45
Alignment explanation
Indices: 26857695--26857997 Score: 179
Period size: 44 Copynumber: 6.7 Consensus size: 45
26857685 AGAACAAATC
** * *
26857695 ATAGCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* * *
26857740 ATAGCAAATCTTATCTCTCTGAAGCTGCAGTAGAGCAGATTAAAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* * * *
26857785 CCATA--AACT-TTATCTCCCTGAAGATACAGTAGAGCAGGA-TAAAG
1 --ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAG
* ** * * * *
26857829 TTA-TTAATCTTATCTCCCTAAAGATGTAGTGGAGCAGATTGAAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
** * ** * **
26857873 ATA-TTAATATTATCTCCCAAAAGTTGTAGTGGAATAGATTAAAG
1 ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* * * * *
26857917 CTACAAGTTATAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAG
1 --A-TAG---CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
*
26857968 ATAGCGAATCTTAT-TCCCTTGAAGTTGCAG
1 ATAGCAAATCTTATCTCCC-TGAAGTTGCAG
26857998 CGAAGCGGGT
Statistics
Matches: 207, Mismatches: 37, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 97 0.47
45 61 0.29
46 1 0.00
47 4 0.02
48 2 0.01
49 1 0.00
51 35 0.17
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (45 bp):
ATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
Found at i:26859504 original size:18 final size:18
Alignment explanation
Indices: 26859483--26859517 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26859473 TATTTTATTA
*
26859483 TATCGTTTTATTTATTTC
1 TATCGTTTTATATATTTC
*
26859501 TATCTTTTTATATATTT
1 TATCGTTTTATATATTT
26859518 TCAAACTCTA
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:0.20, C:0.09, G:0.03, T:0.69
Consensus pattern (18 bp):
TATCGTTTTATATATTTC
Found at i:26859547 original size:3 final size:3
Alignment explanation
Indices: 26859534--26859583 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
26859524 TCTAGATTGT
* *
26859534 TTA TTA TTTA TTA TTCA -TA TTA TTA TTA ATA TTA TTA TTA TCA TTA
1 TTA TTA -TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26859580 TTA T
1 TTA T
26859584 CTTTTTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.03
3 35 0.88
4 4 0.10
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:26859558 original size:12 final size:11
Alignment explanation
Indices: 26859534--26859583 Score: 66
Period size: 12 Copynumber: 4.4 Consensus size: 11
26859524 TCTAGATTGT
26859534 TTATTAT-TTA
1 TTATTATATTA
26859544 TTATTCATATTA
1 TTATT-ATATTA
26859556 TTATTAATATTA
1 TTATT-ATATTA
26859568 TTATTATCATTA
1 TTATTAT-ATTA
26859580 TTAT
1 TTAT
26859584 CTTTTTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 27 0.75
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTATATTA
Found at i:26862961 original size:27 final size:27
Alignment explanation
Indices: 26862931--26862995 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
26862921 AATATTGTTG
*
26862931 ATAATAA-ATAATATATATTT-AAAATAT
1 ATAATAATATAA-ATAT-TTTCAAAAAAT
26862958 ATAAGTATATATAAATATTTTCAAAAAAT
1 ATAA-TA-ATATAAATATTTTCAAAAAAT
26862987 ATAATAATA
1 ATAATAATA
26862996 AATTTAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 7 0.21
28 7 0.21
29 15 0.45
30 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
ATAATAATATAAATATTTTCAAAAAAT
Found at i:26862991 original size:49 final size:46
Alignment explanation
Indices: 26862855--26863003 Score: 122
Period size: 49 Copynumber: 3.0 Consensus size: 46
26862845 AAAATCAAAG
* *
26862855 AAATATATAAAAATACATAAGTATTTTCAAATATATATAATA-AATTTA
1 AAATATAT-AAAATA-ATAAATATTTTCAAA-AAATATAATATAATTTA
* * * *
26862903 AAATATGTCAAAATAAAAAATATTGTTGATAATAA-ATAATATATATTTA
1 AAATATAT-AAAATAATAAATATT-TTCA-AAAAATATAATATA-ATTTA
*
26862952 AAATATATAAGTATATATAAATATTTTCAAAAAATATAATAATAAATTTA
1 AAATATATAA-AATA-ATAAATATTTTCAAAAAATATAAT-AT-AATTTA
26863002 AA
1 AA
26863004 TTTTATAGTA
Statistics
Matches: 80, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
47 13 0.16
48 24 0.30
49 25 0.31
50 17 0.21
51 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (46 bp):
AAATATATAAAATAATAAATATTTTCAAAAAATATAATATAATTTA
Found at i:26865731 original size:17 final size:18
Alignment explanation
Indices: 26865709--26865753 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
26865699 TCTAATGAAC
*
26865709 TACAAATAATCAATA-AA
1 TACAAATAAGCAATACAA
26865726 TACAAATAAGCAATACAA
1 TACAAATAAGCAATACAA
*
26865744 TACACATAAG
1 TACAAATAAG
26865754 AGTAATAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.60, C:0.16, G:0.04, T:0.20
Consensus pattern (18 bp):
TACAAATAAGCAATACAA
Found at i:26866100 original size:16 final size:18
Alignment explanation
Indices: 26866081--26866127 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
26866071 GAAGGAAATC
26866081 AAATAAGTAATA-TA-CT
1 AAATAAGTAATATTAGCT
26866097 AAATAA-TATATATTAGTCT
1 AAATAAGTA-ATATTAG-CT
26866116 AAATAAGTAATA
1 AAATAAGTAATA
26866128 CATATGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.08
16 9 0.35
17 2 0.08
19 11 0.42
20 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (18 bp):
AAATAAGTAATATTAGCT
Found at i:26866121 original size:35 final size:34
Alignment explanation
Indices: 26866081--26866177 Score: 101
Period size: 35 Copynumber: 2.8 Consensus size: 34
26866071 GAAGGAAATC
* *
26866081 AAATAAGTAATATACTAAATAATATATATTAGTCT
1 AAATAAGTAATATA-TAAATAATATATATTAATAT
* *
26866116 AAATAAGTAATACATATGAAATGATA-ATTTTAATAT
1 AAATAAGTAAT--ATAT-AAATAATATATATTAATAT
26866152 AAATAA-TAATATAT-AATAATATATAT
1 AAATAAGTAATATATAAATAATATATAT
26866178 AAAAAATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
31 6 0.12
32 3 0.06
33 4 0.08
35 15 0.29
36 14 0.27
37 10 0.19
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (34 bp):
AAATAAGTAATATATAAATAATATATATTAATAT
Found at i:26866163 original size:12 final size:12
Alignment explanation
Indices: 26866146--26866180 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
26866136 ATGATAATTT
26866146 TAATATAAATAA
1 TAATATAAATAA
26866158 TAATATATAATAA
1 TAATATA-AATAA
26866171 TATATATAAA
1 TA-ATATAAA
26866181 AAATTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.33
13 9 0.43
14 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATATAAATAA
Found at i:26866347 original size:15 final size:17
Alignment explanation
Indices: 26866327--26866361 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
26866317 TAGTATAGGA
26866327 TAATTT-TAAAATAA-T
1 TAATTTATAAAATAACT
26866342 TAATTTATAAAATAACT
1 TAATTTATAAAATAACT
26866359 TAA
1 TAA
26866362 AATAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTTATAAAATAACT
Found at i:26866419 original size:26 final size:26
Alignment explanation
Indices: 26866332--26866419 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
26866322 TAGGATAATT
* * **
26866332 TTAAAATAATTAATTTATAAAATAAC
1 TTAAAATAAATAATTTACAAAGCAAC
*
26866358 TTAAAATAAAATAATATACAAAGCAAC
1 TTAAAAT-AAATAATTTACAAAGCAAC
* * *
26866385 TCAACATAAATAATTTACAAAGCAAG
1 TTAAAATAAATAATTTACAAAGCAAC
26866411 TTAAAATAA
1 TTAAAATAA
26866420 TCATATAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 31 0.62
27 19 0.38
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.28
Consensus pattern (26 bp):
TTAAAATAAATAATTTACAAAGCAAC
Found at i:26866477 original size:15 final size:15
Alignment explanation
Indices: 26866460--26866489 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
26866450 GAGAAATTCT
26866460 AAAATGAAACAAATTA
1 AAAAT-AAACAAATTA
26866476 AAAATAAACAAATT
1 AAAATAAACAAATT
26866490 TTAAAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (15 bp):
AAAATAAACAAATTA
Found at i:26866500 original size:15 final size:16
Alignment explanation
Indices: 26866453--26866498 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
26866443 TATATATGAG
*
26866453 AAATTCTAAAATGAAAC
1 AAATTTTAAAAT-AAAC
*
26866470 AAA-TTAAAAATAAAC
1 AAATTTTAAAATAAAC
26866485 AAATTTTAAAATAA
1 AAATTTTAAAATAA
26866499 CATATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 7 0.28
16 15 0.60
17 3 0.12
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (16 bp):
AAATTTTAAAATAAAC
Found at i:26868134 original size:21 final size:18
Alignment explanation
Indices: 26868089--26868135 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
26868079 TTTGGGCCAT
26868089 TTGGGTTTATTATTTTGG
1 TTGGGTTTATTATTTTGG
*
26868107 TTAGGTTTATTATGTTTGG
1 TTGGGTTTATTAT-TTTGG
26868126 ACTTGGGTTT
1 --TTGGGTTT
26868136 TAGTTATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.50
19 5 0.21
21 7 0.29
ACGTcount: A:0.13, C:0.02, G:0.28, T:0.57
Consensus pattern (18 bp):
TTGGGTTTATTATTTTGG
Found at i:26868482 original size:44 final size:43
Alignment explanation
Indices: 26868415--26868568 Score: 132
Period size: 44 Copynumber: 3.5 Consensus size: 43
26868405 TCATTGTTTT
* * * * *
26868415 AATCTACTCCACAGCATCCTCAGGGAAGTAGGTTTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAGTAGG-TTGGTAGCTTC
* * *
26868459 AATCTGCTCCACTGCAACTTCAGGGATA-TAAGATTGGTATCTCC
1 AATCTGCTCCACTGCAACTTCAGGGA-AGT-AGGTTGGTAGCTTC
* * * * *
26868503 AACCTGCTCCACTACAACTTTAGGG-AGATAAGGCTGGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAAG-T-AGGTTGGTAGCTTC
26868547 AATCTGCTCCACTGCAACTTCA
1 AATCTGCTCCACTGCAACTTCA
26868569 AGGATATAAG
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 1 0.01
44 83 0.95
45 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAAGTAGGTTGGTAGCTTC
Found at i:26868578 original size:44 final size:44
Alignment explanation
Indices: 26868451--26868581 Score: 172
Period size: 44 Copynumber: 3.0 Consensus size: 44
26868441 AGTAGGTTTA
*
26868451 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGATTG
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGACTG
* * * * * * *
26868495 GTATCTCCAACCTGCTCCACTACAACTTTAGGGAGATAAGGCTG
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGACTG
* *
26868539 GTGGCTTCAATCTGCTCCACTGCAACTTCAAGGATATAAGACT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGACT
26868582 TGTTATGGTA
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (44 bp):
GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGATATAAGACTG
Found at i:26868808 original size:139 final size:138
Alignment explanation
Indices: 26868510--26868992 Score: 532
Period size: 139 Copynumber: 3.5 Consensus size: 138
26868500 TCCAACCTGC
* * * * *
26868510 TCCACTACAACTTTAGGGAGATAAGG-CTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGGAT
1 TCCACTACAACTTTAGGGAGAT-AGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * *
26868574 ATAAGACTT-G-TTATGGT-AGATTTAATCCGACCTACTGTAACTTCAGAGGTATAGGATTCATT
65 ATAAGACTTGGCTT-TGGTGA-ATTTGATCCGACCTACTGCAACTTCAGAGGTATAGGATT-TTT
26868636 -ATTTTAATCCG
127 CATTTTAATCCG
* * *
26868647 CTCCACTACAA-TTTCAGAGAGATAGGATTAGTAGCTTTAATCTACTCCACTGCAACTTCAGGGA
1 -TCCACTACAACTTT-AGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGA
* * *
26868711 GATAAGGA-TTGGCTTTGGTGAATTTGATCCAAACTATTGCAACTTCAGAGGTATAGGATTTTTC
64 GATAA-GACTTGGCTTTGGTGAATTTGATCCGACCTACTGCAACTTCAGAGGTATAGGATTTTTC
*
26868775 ATTTTAATCAG
128 ATTTTAATCCG
* * *
26868786 TTCCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAATCTGCTCTATTGCAACTTCAGGGAG
1 -TCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * * * *
26868851 ATAAGATTTGGCGTTGGTGAATTTGGTTCGACCTACTGCAACTTTAGAGGTATAGGATTTGTCAT
65 ATAAGACTTGGCTTTGGTGAATTTGATCCGACCTACTGCAACTTCAGAGGTATAGGATTTTTCAT
26868916 TTTAATCCG
130 TTTAATCCG
* * ** * * * * *
26868925 -CACATTGCAACTCCAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAT
1 TC-CACTACAACTTTAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
26868989 ATAA
65 ATAA
26868993 AGTTTGATAT
Statistics
Matches: 294, Mismatches: 41, Indels: 20
0.83 0.12 0.06
Matches are distributed among these distances:
137 7 0.02
138 114 0.39
139 167 0.57
140 6 0.02
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (138 bp):
TCCACTACAACTTTAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTTGGCTTTGGTGAATTTGATCCGACCTACTGCAACTTCAGAGGTATAGGATTTTTCATT
TTAATCCG
Found at i:26874389 original size:24 final size:24
Alignment explanation
Indices: 26874354--26874404 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
26874344 TGGTGGACTT
* *
26874354 TAATGCATATG-ATGTAATGAAATG
1 TAATGCAGATGAATGGAATG-AATG
26874378 TAATGCAGATGAATGGAATGAATG
1 TAATGCAGATGAATGGAATGAATG
26874402 TAA
1 TAA
26874405 AAAGAGTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.29
Consensus pattern (24 bp):
TAATGCAGATGAATGGAATGAATG
Found at i:26876371 original size:17 final size:18
Alignment explanation
Indices: 26876349--26876393 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
26876339 TCTAATGAGC
*
26876349 TACAAATAATCAATA-AA
1 TACAAATAAGCAATACAA
26876366 TACAAATAAGCAATACAA
1 TACAAATAAGCAATACAA
*
26876384 TACACATAAG
1 TACAAATAAG
26876394 AGCAATAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.60, C:0.16, G:0.04, T:0.20
Consensus pattern (18 bp):
TACAAATAAGCAATACAA
Found at i:26876738 original size:16 final size:18
Alignment explanation
Indices: 26876719--26876765 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
26876709 GAAGAAAATC
26876719 AAATAAGTAATA-TA-CT
1 AAATAAGTAATATTAGCT
26876735 AAATAA-TATATATTAGTCT
1 AAATAAGTA-ATATTAG-CT
26876754 AAATAAGTAATA
1 AAATAAGTAATA
26876766 CATATGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.08
16 9 0.35
17 2 0.08
19 11 0.42
20 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (18 bp):
AAATAAGTAATATTAGCT
Found at i:26876974 original size:15 final size:17
Alignment explanation
Indices: 26876954--26876988 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
26876944 TAGTATAAGA
26876954 TAATTT-TAAAATAA-T
1 TAATTTATAAAATAACT
26876969 TAATTTATAAAATAACT
1 TAATTTATAAAATAACT
26876986 TAA
1 TAA
26876989 AATAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTTATAAAATAACT
Found at i:26876993 original size:26 final size:26
Alignment explanation
Indices: 26876959--26877046 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
26876949 TAAGATAATT
* * **
26876959 TTAAAATAATTAATTTATAAAATAAC
1 TTAAAATAAATAATTTACAAAGCAAC
*
26876985 TTAAAATAAAATAATATACAAAGCAAC
1 TTAAAAT-AAATAATTTACAAAGCAAC
* *
26877012 TTAACATAAATAATTTACAAAGCAAG
1 TTAAAATAAATAATTTACAAAGCAAC
26877038 TTAAAATAA
1 TTAAAATAA
26877047 TTAAAAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 32 0.62
27 20 0.38
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (26 bp):
TTAAAATAAATAATTTACAAAGCAAC
Found at i:26877109 original size:16 final size:15
Alignment explanation
Indices: 26877088--26877117 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
26877078 GAGAAATTTT
26877088 AAAATAAAACAAATTA
1 AAAAT-AAACAAATTA
26877104 AAAATAAACAAATT
1 AAAATAAACAAATT
26877118 TTAAAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAATAAACAAATTA
Found at i:26877128 original size:15 final size:16
Alignment explanation
Indices: 26877081--26877126 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
26877071 TATATAAGAG
26877081 AAATTTTAAAATAAAAC
1 AAATTTTAAAAT-AAAC
*
26877098 AAA-TTAAAAATAAAC
1 AAATTTTAAAATAAAC
26877113 AAATTTTAAAATAA
1 AAATTTTAAAATAA
26877127 CATATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 7 0.27
16 16 0.62
17 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATTTTAAAATAAAC
Found at i:26886294 original size:31 final size:32
Alignment explanation
Indices: 26886258--26886328 Score: 108
Period size: 31 Copynumber: 2.2 Consensus size: 32
26886248 TATGATAGTC
* *
26886258 TGGTATAAATTACTTGCTATGATGAC-GTATA
1 TGGTATAAAGTACTTGCTATGACGACGGTATA
26886289 TGGTATAAAGTACTTGCTATGACGACGGTATA
1 TGGTATAAAGTACTTGCTATGACGACGGTATA
*
26886321 TGGCATAA
1 TGGTATAA
26886329 GACCATGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (32 bp):
TGGTATAAAGTACTTGCTATGACGACGGTATA
Found at i:26893165 original size:8 final size:9
Alignment explanation
Indices: 26893136--26893164 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
26893126 AAAAAGGACT
26893136 AAATCATAA
1 AAATCATAA
26893145 AAATCATAA
1 AAATCATAA
26893154 AAATCATAA
1 AAATCATAA
26893163 AA
1 AA
26893165 TTTAATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATCATAA
Found at i:26893863 original size:21 final size:21
Alignment explanation
Indices: 26893814--26893865 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
26893804 TAAATTGGAT
26893814 AAAATGTAAAAGTTTAGGGTA
1 AAAATGTAAAAGTTTAGGGTA
**
26893835 AATGTGTAAAAGTTTA-GGTCA
1 AAAATGTAAAAGTTTAGGGT-A
26893856 AAAATGTAAA
1 AAAATGTAAA
26893866 TTTAAATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (21 bp):
AAAATGTAAAAGTTTAGGGTA
Found at i:26894372 original size:20 final size:20
Alignment explanation
Indices: 26894347--26894422 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
26894337 TGTACGGGAC
26894347 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGT
26894367 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTTGGTGCCTCTGT
* * * * **
26894387 ATACACTTTCGTGTCTCTAA
1 TTGCACTTTGGTGCCTCTGT
*
26894407 TTGCACTATGGTGCCT
1 TTGCACTTTGGTGCCT
26894423 TTGTATGGCA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTGT
Found at i:26899108 original size:26 final size:27
Alignment explanation
Indices: 26899052--26899109 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
26899042 TTAAATTTAA
* *
26899052 AATTTTATACTTTTTAATTATTTATGT
1 AATTTTATACTTTTTAAATATTTATAT
26899079 -ATTTTATA-TTTTTAAAT-TTTATAAT
1 AATTTTATACTTTTTAAATATTTAT-AT
26899104 AATTTT
1 AATTTT
26899110 TTGAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 9 0.33
26 13 0.48
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
AATTTTATACTTTTTAAATATTTATAT
Found at i:26899116 original size:20 final size:19
Alignment explanation
Indices: 26899087--26899127 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
26899077 GTATTTTATA
*
26899087 TTTTTAAATTTTATAATAAT
1 TTTTTAAATTTAAT-ATAAT
*
26899107 TTTTTGAATTTAATATAAT
1 TTTTTAAATTTAATATAAT
26899126 TT
1 TT
26899128 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTAAATTTAATATAAT
Found at i:26899731 original size:10 final size:10
Alignment explanation
Indices: 26899718--26899753 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
26899708 AAATTTACAA
26899718 TTTTTATATT
1 TTTTTATATT
26899728 TTTTTATGATT
1 TTTTTAT-ATT
*
26899739 TTTATATATT
1 TTTTTATATT
26899749 TTTTT
1 TTTTT
26899754 CTAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTTATATT
Found at i:26899733 original size:19 final size:20
Alignment explanation
Indices: 26899711--26899763 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
26899701 TTTATAAAAA
26899711 TTTACAATTTTTATAT-TTT
1 TTTACAATTTTTATATATTT
**
26899730 TTTATGATTTTTATATATTT
1 TTTACAATTTTTATATATTT
*
26899750 TTTTCTAATTTTTA
1 TTTAC-AATTTTTA
26899764 GTAAAAGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 14 0.52
20 6 0.22
21 7 0.26
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTACAATTTTTATATATTT
Found at i:26899748 original size:21 final size:21
Alignment explanation
Indices: 26899718--26899763 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
26899708 AAATTTACAA
*
26899718 TTTT-TATATTTTTTTATGAT
1 TTTTATATATTTTTTTATAAT
*
26899738 TTTTATATATTTTTTTCTAAT
1 TTTTATATATTTTTTTATAAT
26899759 TTTTA
1 TTTTA
26899764 GTAAAAGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTATATATTTTTTTATAAT
Found at i:26899752 original size:58 final size:58
Alignment explanation
Indices: 26899643--26899751 Score: 143
Period size: 56 Copynumber: 1.9 Consensus size: 58
26899633 TTCTTACGAC
*
26899643 TTTATAAAATTTTATAAATTTTTTATATTTCTATATATTTTATAATATTTTTATTTTT
1 TTTATAAAAATTTATAAATTTTTTATATTTCTATATATTTTATAATATTTTTATTTTT
* * *
26899701 TTTATAAAAATTTA-CAA-TTTTTATATTTTTTTATGATTTT-TATATATTTTT
1 TTTATAAAAATTTATAAATTTTTTATATTTCTATAT-ATTTTATA-ATATTTTT
26899752 TTCTAATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
56 17 0.38
57 15 0.33
58 13 0.29
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (58 bp):
TTTATAAAAATTTATAAATTTTTTATATTTCTATATATTTTATAATATTTTTATTTTT
Found at i:26902535 original size:12 final size:12
Alignment explanation
Indices: 26902514--26902543 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26902504 TACACGCTAA
26902514 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
26902526 AAAAAGAAAAAG
1 AAAAAAAAAAAG
26902538 AAAAAA
1 AAAAAA
26902544 CTTTAAGCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:26911875 original size:35 final size:35
Alignment explanation
Indices: 26911836--26911906 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
26911826 ATTAAATAGA
26911836 TATTAATTTATAAAATTTAAAATAGATAATCAATT
1 TATTAATTTATAAAATTTAAAATAGATAATCAATT
* *
26911871 TATTAATTTATAAAATTTAACATAGATAATCGATT
1 TATTAATTTATAAAATTTAAAATAGATAATCAATT
26911906 T
1 T
26911907 TGTTGTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (35 bp):
TATTAATTTATAAAATTTAAAATAGATAATCAATT
Found at i:26913684 original size:14 final size:14
Alignment explanation
Indices: 26913665--26913691 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26913655 AATAGTTATT
26913665 CATTTATTTATAAA
1 CATTTATTTATAAA
26913679 CATTTATTTATAA
1 CATTTATTTATAA
26913692 TTTTATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
CATTTATTTATAAA
Found at i:26914386 original size:13 final size:13
Alignment explanation
Indices: 26914368--26914393 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26914358 AGTCGCTGTG
26914368 TTGCAACATGAGA
1 TTGCAACATGAGA
26914381 TTGCAACATGAGA
1 TTGCAACATGAGA
26914394 AGTTTAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
TTGCAACATGAGA
Found at i:26929323 original size:24 final size:23
Alignment explanation
Indices: 26929296--26929365 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
26929286 AACTATTTCG
26929296 AAATAAAGTTTTGATTTTTAAGAA
1 AAATAAAGTTTTGATTTTTAA-AA
**
26929320 AAATAGTGATTTT--TTTTTAAAA
1 AAATAAAG-TTTTGATTTTTAAAA
* *
26929342 AAAGAAAGTTTAGATTTTTAAAA
1 AAATAAAGTTTTGATTTTTAAAA
26929365 A
1 A
26929366 TAAAAATATG
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
21 3 0.08
22 7 0.19
23 17 0.46
24 6 0.16
25 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.41
Consensus pattern (23 bp):
AAATAAAGTTTTGATTTTTAAAA
Found at i:26929477 original size:149 final size:152
Alignment explanation
Indices: 26929186--26929483 Score: 451
Period size: 149 Copynumber: 2.0 Consensus size: 152
26929176 CATTTTATTC
* *
26929186 AAAAAAGAGAAAGTTTAGATTTTTGAAAATAAAAATATGTTTTTTAGTCATTTTAAAAGAAAAAA
1 AAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGATTTTTAGTCATTTTAAAAGAAAAAA
* * * *
26929251 GTTTAAATTTTCAAAACAAAGTATTGATCATTTTCAACTATTTCGAAATAAAGTTTTGATTTTTA
66 GTTTAAATTCTCAAAACAAAGTATTGATCATTTTCAACTATTTCGAAATAAAGCTCTGAATTTTA
*
26929316 AGAAAAATAGTGATTTTTTTTT
131 ACAAAAATAGTGATTTTTTTTT
* *
26929338 AAAAAA-AGAAAGTTTAGATTTTTAAAAATAAAAATATGATTTTTAGTCATTTT-AATG-GAAAA
1 AAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGATTTTTAGTCATTTTAAAAGAAAAAA
* *
26929400 GTTTAAAATTCT-AAAACAAAGTTTTGATCCTTTTCAACTATTTCGAAATAAAGCTCTGAATTTT
66 GTTT-AAATTCTCAAAACAAAGTATTGATCATTTTCAACTATTTCGAAATAAAGCTCTGAATTTT
*
26929464 AACAAAAGTAGTGATTTTTT
130 AACAAAAATAGTGATTTTTT
26929484 AAAGAAAATT
Statistics
Matches: 133, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
149 73 0.55
150 9 0.07
151 45 0.34
152 6 0.05
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (152 bp):
AAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATGATTTTTAGTCATTTTAAAAGAAAAAA
GTTTAAATTCTCAAAACAAAGTATTGATCATTTTCAACTATTTCGAAATAAAGCTCTGAATTTTA
ACAAAAATAGTGATTTTTTTTT
Done.