Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 65 of 182
Found at i:20991396 original size:18 final size:18
Alignment explanation
Indices: 20991358--20991397 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20991348 CGGAAGGAAT
**
20991358 AGCATACTGGCTCGTTTG
1 AGCATACTGGCTCGTAAG
*
20991376 AGCATACTGGCTTGTAAG
1 AGCATACTGGCTCGTAAG
20991394 AGCA
1 AGCA
20991398 ATATTGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (18 bp):
AGCATACTGGCTCGTAAG
Found at i:20997992 original size:60 final size:61
Alignment explanation
Indices: 20997895--20998074 Score: 276
Period size: 60 Copynumber: 3.0 Consensus size: 61
20997885 TAAACTTCAT
**
20997895 CTTCTTCACGATAAAAC-AAGAGAAGAACTAGGGTTTTCCATTGTTAACTTTTGAAGCTTG
1 CTTCTTCACGGCAAAACAAAGAGAAGAACTAGGGTTTTCCATTGTTAACTTTTGAAGCTTG
* * * *
20997955 CTTTTTCACGGCAAAATAAA-AGAAGAGCTAGGGTTTTCCATTGTTAACTTTTGAAACTTG
1 CTTCTTCACGGCAAAACAAAGAGAAGAACTAGGGTTTTCCATTGTTAACTTTTGAAGCTTG
*
20998015 CTTCTTCATGGCAAAACAAAGAGAAGAACTAGGG-TTTCCATTGTTAACTTTTGAAGCTTG
1 CTTCTTCACGGCAAAACAAAGAGAAGAACTAGGGTTTTCCATTGTTAACTTTTGAAGCTTG
20998075 ATTAGGTGAG
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
60 93 0.87
61 14 0.13
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (61 bp):
CTTCTTCACGGCAAAACAAAGAGAAGAACTAGGGTTTTCCATTGTTAACTTTTGAAGCTTG
Found at i:21002879 original size:16 final size:15
Alignment explanation
Indices: 21002855--21002896 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
21002845 ATTAAAACAA
21002855 TAAAAATATTATAATT
1 TAAAAATATTAT-ATT
* *
21002871 TAAATATA-TGTATT
1 TAAAAATATTATATT
21002885 TAAAAATATTAT
1 TAAAAATATTAT
21002897 TGATTAAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
14 10 0.48
15 4 0.19
16 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TAAAAATATTATATT
Found at i:21004423 original size:13 final size:13
Alignment explanation
Indices: 21004405--21004446 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
21004395 ATAAATAAAT
21004405 AAATAATAAACCC
1 AAATAATAAACCC
*
21004418 AAATAATAAACCT
1 AAATAATAAACCC
* *
21004431 AAATAACAAACTC
1 AAATAATAAACCC
21004444 AAA
1 AAA
21004447 CCATACCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.64, C:0.19, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATAATAAACCC
Found at i:21005569 original size:30 final size:30
Alignment explanation
Indices: 21005515--21005787 Score: 237
Period size: 30 Copynumber: 9.0 Consensus size: 30
21005505 TAAAATTATG
* * *
21005515 TTTTGACCCCCAAATTTTTCAAAAATTCAAA
1 TTTT-ACCCCTAAACTTTCCAAAAATTCAAA
* * * *
21005546 TTTTACCCTTAAACTTTCTAAAAATCCAAG
1 TTTTACCCCTAAACTTTCCAAAAATTCAAA
*
21005576 TTTTACCCCTAAATTTTCCAAAAATTCAAA
1 TTTTACCCCTAAACTTTCCAAAAATTCAAA
* * * *
21005606 TTTAACCCTTGAACTTTTCAAAAATTCAAA
1 TTTTACCCCTAAACTTTCCAAAAATTCAAA
* * * *
21005636 TTTGACCCCCAAACTTTTCAAAAAATT-GAA
1 TTTTACCCCTAAAC-TTTCCAAAAATTCAAA
* * * *
21005666 TTTAACCCCCAAACCTTCCAAAAATTTAAA
1 TTTTACCCCTAAACTTTCCAAAAATTCAAA
* * **
21005696 TTTAACCCCTAAACTTTCCAAATATTTGAA
1 TTTTACCCCTAAACTTTCCAAAAATTCAAA
* *
21005726 TTTTA-CCCTCGAACTTTCCAAAAATTCCAA
1 TTTTACCCCT-AAACTTTCCAAAAATTCAAA
*
21005756 -TTTATCCCTTGAAACTTTCCAAAAATTCAAA
1 TTTTA-CCCCT-AAACTTTCCAAAAATTCAAA
21005787 T
1 T
21005788 GTAACCCTGT
Statistics
Matches: 195, Mismatches: 41, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
29 18 0.09
30 142 0.73
31 35 0.18
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (30 bp):
TTTTACCCCTAAACTTTCCAAAAATTCAAA
Found at i:21005659 original size:90 final size:90
Alignment explanation
Indices: 21005530--21005795 Score: 293
Period size: 90 Copynumber: 2.9 Consensus size: 90
21005520 ACCCCCAAAT
* * *
21005530 TTTTCAAAAATTCAAATTTTACCCTTAAAC-TTTCTAAAAATCCAAGTTTTACCCCTAAATTTTC
1 TTTTCAAAAATTCAAATTTTACCCTCAAACTTTTCAAAAAATCCAA-TTTTACCCCTAAACTTTC
*
21005594 CAAAAATTCAAATTTAACCCTTGAAC
65 CAAAAATTCAAATTTAACCCTTAAAC
* * ** * * *
21005620 TTTTCAAAAATTCAAATTTGACCCCCAAACTTTTCAAAAAATTGAATTTAACCCCCAAACCTTCC
1 TTTTCAAAAATTCAAATTTTACCCTCAAACTTTTCAAAAAATCCAATTTTACCCCTAAACTTTCC
* *
21005685 AAAAATTTAAATTTAACCCCTAAAC
66 AAAAATTCAAATTTAACCCTTAAAC
* * ** * * * *
21005710 TTTCCAAATATTTGAATTTTACCCTCGAACTTTCCAAAAATTCCAA-TTTATCCCTTGAAACTTT
1 TTTTCAAAAATTCAAATTTTACCCTCAAACTTTTCAAAAAATCCAATTTTA-CCCCT-AAACTTT
*
21005774 CCAAAAATTCAAATGTAACCCT
64 CCAAAAATTCAAATTTAACCCT
21005796 GTTTTAATGT
Statistics
Matches: 142, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
89 3 0.02
90 102 0.72
91 37 0.26
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (90 bp):
TTTTCAAAAATTCAAATTTTACCCTCAAACTTTTCAAAAAATCCAATTTTACCCCTAAACTTTCC
AAAAATTCAAATTTAACCCTTAAAC
Found at i:21017734 original size:40 final size:39
Alignment explanation
Indices: 21017665--21018011 Score: 295
Period size: 40 Copynumber: 8.8 Consensus size: 39
21017655 CCCGACCATG
*
21017665 GGGCAGATTGAAGCAATCCAATCTTTTACCCTAATCAGA
1 GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGA
* * **
21017704 GGGTAGATTGAAGACCATCCAATCTTTTACCCCGACCATG-
1 GGGCAGATTGAAG-CAATCCAATCTTTTACCCTAACCA-GA
* * * * *
21017744 GGGTAGATTAAAGCAATCCAATCTTTTACGCTAAGCAAA
1 GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGA
* * * **
21017783 AGGCAGATTGAAGACCATCCAATCTCTTACCCCGACCATG-
1 GGGCAGATTGAAG-CAATCCAATCTTTTACCCTAACCA-GA
** * *
21017823 GGATAGATTGATGCAATCCAATCTTTTACCCTAATCAGA
1 GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGA
* * * * ** *
21017862 GGGCAAATTGAAGACCATCCTATCTCTTACCCCGACCATA
1 GGGCAGATTGAAG-CAATCCAATCTTTTACCCTAACCAGA
* *
21017902 GGGCAGATTGAAGCAATCCAATCTTTTACGCTAAGCAGA
1 GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGA
* * * **
21017941 GGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGA
1 GGGCAGATTGAAG-CAATCCAATCTTTTACCCTAACCA-GA
* *
21017982 -GGCAGATTTAAGCAATCCAATATTTTACCC
1 GGGCAGATTGAAGCAATCCAATCTTTTACCC
21018012 CTAAAACTAT
Statistics
Matches: 236, Mismatches: 63, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
38 1 0.00
39 114 0.48
40 118 0.50
41 3 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (39 bp):
GGGCAGATTGAAGCAATCCAATCTTTTACCCTAACCAGA
Found at i:21017741 original size:79 final size:79
Alignment explanation
Indices: 21017646--21018011 Score: 552
Period size: 79 Copynumber: 4.6 Consensus size: 79
21017636 ACCACATCTG
* *
21017646 ATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAATCAGAGGGTAGA
1 ATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAAGCAGAGGGCAGA
21017711 TTGAAGACCATCCA
66 TTGAAGACCATCCA
* * * * * *
21017725 ATCTTTTACCCCGACCATGGGGTAGATTAAAGCAATCCAATCTTTTACGCTAAGCAAAAGGCAGA
1 ATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAAGCAGAGGGCAGA
21017790 TTGAAGACCATCCA
66 TTGAAGACCATCCA
** * * *
21017804 ATCTCTTACCCCGACCATGGGATAGATTGATGCAATCCAATCTTTTACCCTAATCAGAGGGCAAA
1 ATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAAGCAGAGGGCAGA
*
21017869 TTGAAGACCATCCT
66 TTGAAGACCATCCA
* *
21017883 ATCTCTTACCCCGACCATAGGGCAGATTGAAGCAATCCAATCTTTTACGCTAAGCAGAGGGCAGA
1 ATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAAGCAGAGGGCAGA
*
21017948 TTGAAGACCATCCG
66 TTGAAGACCATCCA
* * *
21017962 ATCTCTTACCCCGACCATGAGGCAGATTTAAGCAATCCAATATTTTACCC
1 ATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCC
21018012 CTAAAACTAT
Statistics
Matches: 256, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 256 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (79 bp):
ATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAAGCAGAGGGCAGA
TTGAAGACCATCCA
Found at i:21018681 original size:14 final size:15
Alignment explanation
Indices: 21018662--21018690 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21018652 TTATCATTTT
21018662 ATAAATA-TAAATAA
1 ATAAATATTAAATAA
21018676 ATAAATATTAAATAA
1 ATAAATATTAAATAA
21018691 TATTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAATATTAAATAA
Found at i:21018763 original size:13 final size:13
Alignment explanation
Indices: 21018745--21018786 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
21018735 ATAAATAAAT
21018745 AAATAATAAACCC
1 AAATAATAAACCC
*
21018758 AAATAATAAACCT
1 AAATAATAAACCC
*
21018771 AAATAACAAACCC
1 AAATAATAAACCC
21018784 AAA
1 AAA
21018787 CCATACCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.64, C:0.21, G:0.00, T:0.14
Consensus pattern (13 bp):
AAATAATAAACCC
Found at i:21019416 original size:12 final size:14
Alignment explanation
Indices: 21019399--21019430 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
21019389 GGACAGTGGT
21019399 CGACGGT-GACG-A
1 CGACGGTGGACGAA
21019411 CGACGGTGGACGAA
1 CGACGGTGGACGAA
21019425 CGACGG
1 CGACGG
21019431 AAGGCTCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 4 0.22
14 7 0.39
ACGTcount: A:0.25, C:0.25, G:0.44, T:0.06
Consensus pattern (14 bp):
CGACGGTGGACGAA
Found at i:21019899 original size:30 final size:31
Alignment explanation
Indices: 21019865--21019982 Score: 161
Period size: 30 Copynumber: 3.9 Consensus size: 31
21019855 TTCCAGTTTT
*
21019865 ACCCTCGAACCTTT-CAAAAATTCAAATTTG
1 ACCCTCGAAACTTTCCAAAAATTCAAATTTG
* *
21019895 ACCCT-TAAACTTTCCAAAAATTTAAATTTG
1 ACCCTCGAAACTTTCCAAAAATTCAAATTTG
* *
21019925 ACCCTCG-AACTTTCCAATAATTCCAATTTG
1 ACCCTCGAAACTTTCCAAAAATTCAAATTTG
*
21019955 ACCCTTGAAACTTTCCAAAAATTCAAAT
1 ACCCTCGAAACTTTCCAAAAATTCAAAT
21019983 GTAACCCGAT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
29 6 0.08
30 51 0.68
31 18 0.24
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (31 bp):
ACCCTCGAAACTTTCCAAAAATTCAAATTTG
Found at i:21019933 original size:60 final size:61
Alignment explanation
Indices: 21019865--21019982 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 61
21019855 TTCCAGTTTT
*
21019865 ACCCTCGAACCTTT-CAAAAATTCAAATTTGACCCTT-AAACTTTCCAAAAATTTAAATTTG
1 ACCCTCGAA-CTTTCCAAAAATTCAAATTTGACCCTTGAAACTTTCCAAAAATTCAAATTTG
* *
21019925 ACCCTCGAACTTTCCAATAATTCCAATTTGACCCTTGAAACTTTCCAAAAATTCAAAT
1 ACCCTCGAACTTTCCAAAAATTCAAATTTGACCCTTGAAACTTTCCAAAAATTCAAAT
21019983 GTAACCCGAT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 4 0.08
60 29 0.55
61 20 0.38
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.32
Consensus pattern (61 bp):
ACCCTCGAACTTTCCAAAAATTCAAATTTGACCCTTGAAACTTTCCAAAAATTCAAATTTG
Found at i:21020902 original size:17 final size:16
Alignment explanation
Indices: 21020880--21020936 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
21020870 ATCAATAAAA
21020880 TTTTAAAAATAATTTAT
1 TTTTAAAAATAATTT-T
*
21020897 TTTTAAATTATAATTTT
1 TTTTAAA-AATAATTTT
*
21020914 ATTT-AAAA-AATATTT
1 TTTTAAAAATAAT-TTT
21020929 TTTTAAAA
1 TTTTAAAA
21020937 CTTAATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
14 3 0.09
15 7 0.21
16 5 0.15
17 11 0.33
18 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTAAAAATAATTTT
Found at i:21020943 original size:32 final size:35
Alignment explanation
Indices: 21020879--21020945 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
21020869 TATCAATAAA
* * *
21020879 ATTTTAAAAATAATTTATTTTTAAATTATAATTTT
1 ATTTAAAAAATAATTTATTTTAAAACTATAATTTT
21020914 ATTTAAAAAAT-ATTT-TTTTAAAACT-TAATTTT
1 ATTTAAAAAATAATTTATTTTAAAACTATAATTTT
21020946 GATACAACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 7 0.24
33 8 0.28
34 4 0.14
35 10 0.34
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (35 bp):
ATTTAAAAAATAATTTATTTTAAAACTATAATTTT
Found at i:21022471 original size:39 final size:40
Alignment explanation
Indices: 21022285--21022469 Score: 221
Period size: 40 Copynumber: 4.7 Consensus size: 40
21022275 ATAACCTTGC
* *
21022285 AGTGTTTACAGTGTCACTGCTAGTTCAATTGTAATATCGT
1 AGTGTTTACAGTGTCACTGCCAGTTCAATAGTAATATCGT
* * *
21022325 AGTGTTTACAGTGTCACTGCTAGTTCAATTGTAATATCGC
1 AGTGTTTACAGTGTCACTGCCAGTTCAATAGTAATATCGT
* *
21022365 AGTGTTTACAGTGTCAGTGCCAGTTCAATAGT-ATATTGT
1 AGTGTTTACAGTGTCACTGCCAGTTCAATAGTAATATCGT
* * * * * *
21022404 AGTGTTTTCAATGTCATTGTCAGTTCAGTAGT-ATATTGT
1 AGTGTTTACAGTGTCACTGCCAGTTCAATAGTAATATCGT
* *
21022443 AGTGTTTACAGTGTCACTACCAATTCA
1 AGTGTTTACAGTGTCACTGCCAGTTCA
21022470 GTTGTAACAT
Statistics
Matches: 128, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 60 0.47
40 68 0.53
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (40 bp):
AGTGTTTACAGTGTCACTGCCAGTTCAATAGTAATATCGT
Found at i:21025622 original size:21 final size:20
Alignment explanation
Indices: 21025584--21025622 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
21025574 TCATTTTTAT
* *
21025584 CATTTTTAACTTATTGATTG
1 CATTTTTAACTCAGTGATTG
21025604 CATTTTCTAACTCAGTGAT
1 CATTTT-TAACTCAGTGAT
21025623 GCTTGGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (20 bp):
CATTTTTAACTCAGTGATTG
Found at i:21029481 original size:40 final size:40
Alignment explanation
Indices: 21029437--21029561 Score: 171
Period size: 40 Copynumber: 3.1 Consensus size: 40
21029427 ATCGGTTCGA
21029437 TTGTAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCAG
1 TTGTAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCAG
* * *
21029477 TTGTAATATCGTAGTGTTTACAATGTCACTGCCAGTTCAG
1 TTGTAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCAG
* * * * *
21029517 TAGT-ATATTACAGTGTTTATAGTGTCACTGCCAATTTAG
1 TTGTAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCAG
21029556 TTGTAA
1 TTGTAA
21029562 CATTAGATAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 31 0.43
40 41 0.57
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (40 bp):
TTGTAATATTGCAGTGTTTACAGTGTCACTGCCAGTTCAG
Found at i:21036209 original size:26 final size:25
Alignment explanation
Indices: 21036179--21036297 Score: 125
Period size: 26 Copynumber: 4.6 Consensus size: 25
21036169 TTTGAATTTT
21036179 GGCTCGATAAGAGCGT-ACTCTATCTG
1 GGCTCG-TAAGAGC-TAACTCTATCTG
* *
21036205 GGCTCATAAGAGCTAAACTCTGTCTG
1 GGCTCGTAAGAGCT-AACTCTATCTG
*
21036231 GGCTCGTAAGAGCTAAACTCTATTTG
1 GGCTCGTAAGAGCT-AACTCTATCTG
* *
21036257 GGCTCGTAAGAGCTAAAATCTGT-TG
1 GGCTCGTAAGAGCT-AACTCTATCTG
*
21036282 GGCTCGTATGAGCTAA
1 GGCTCGTAAGAGCTAA
21036298 ATTTCTGGAA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
24 3 0.04
25 22 0.27
26 58 0.70
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (25 bp):
GGCTCGTAAGAGCTAACTCTATCTG
Found at i:21036259 original size:52 final size:51
Alignment explanation
Indices: 21036179--21036298 Score: 163
Period size: 52 Copynumber: 2.3 Consensus size: 51
21036169 TTTGAATTTT
*
21036179 GGCTCGATAAGAGCGT--ACTCTATCTGGGCTCATAAGAGCTAAACTCTGTCTG
1 GGCTCG-TAAGAGC-TAAACTCTATCTGGGCTCATAAGAGCTAAAATCTGT-TG
* *
21036231 GGCTCGTAAGAGCTAAACTCTATTTGGGCTCGTAAGAGCTAAAATCTGTTG
1 GGCTCGTAAGAGCTAAACTCTATCTGGGCTCATAAGAGCTAAAATCTGTTG
*
21036282 GGCTCGTATGAGCTAAA
1 GGCTCGTAAGAGCTAAA
21036299 TTTCTGGAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
50 1 0.02
51 25 0.40
52 36 0.58
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (51 bp):
GGCTCGTAAGAGCTAAACTCTATCTGGGCTCATAAGAGCTAAAATCTGTTG
Found at i:21036288 original size:25 final size:25
Alignment explanation
Indices: 21036203--21036298 Score: 138
Period size: 26 Copynumber: 3.8 Consensus size: 25
21036193 GTACTCTATC
*
21036203 TGGGCTCATAAGAGCTAAACTCTGT
1 TGGGCTCGTAAGAGCTAAACTCTGT
*
21036228 CTGGGCTCGTAAGAGCTAAACTCTATT
1 -TGGGCTCGTAAGAGCTAAACTCT-GT
*
21036255 TGGGCTCGTAAGAGCTAAAATCTGT
1 TGGGCTCGTAAGAGCTAAACTCTGT
*
21036280 TGGGCTCGTATGAGCTAAA
1 TGGGCTCGTAAGAGCTAAA
21036299 TTTCTGGAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
25 19 0.30
26 44 0.69
27 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (25 bp):
TGGGCTCGTAAGAGCTAAACTCTGT
Found at i:21037621 original size:24 final size:24
Alignment explanation
Indices: 21037588--21037652 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
21037578 TTTATCTGAA
21037588 TAGCTGGCGAGCGTAAAAGCATAT
1 TAGCTGGCGAGCGTAAAAGCATAT
* *
21037612 TAGCTAGCGAGCGTAAATGCATAT
1 TAGCTGGCGAGCGTAAAAGCATAT
*
21037636 TAGCTGGAGAGCGTAAA
1 TAGCTGGCGAGCGTAAA
21037653 CATAAAGTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (24 bp):
TAGCTGGCGAGCGTAAAAGCATAT
Found at i:21037663 original size:24 final size:24
Alignment explanation
Indices: 21037636--21037753 Score: 130
Period size: 24 Copynumber: 4.9 Consensus size: 24
21037626 AAATGCATAT
* *
21037636 TAGCTGGA-GAGCGTAAACATAAAG
1 TAGCT-GACGAGCATAAACGTAAAG
*
21037660 TAGCTGACGAACATAAACGTAAAG
1 TAGCTGACGAGCATAAACGTAAAG
*
21037684 TGGCTGACGAGCATAAACGTAAAG
1 TAGCTGACGAGCATAAACGTAAAG
* ** *
21037708 TGGCTGGTGAGCATAAACGTATAG
1 TAGCTGACGAGCATAAACGTAAAG
* *
21037732 TGGCTGATGAGCATAAACGTAA
1 TAGCTGACGAGCATAAACGTAA
21037754 TTGAAACTTG
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
23 2 0.02
24 81 0.98
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.19
Consensus pattern (24 bp):
TAGCTGACGAGCATAAACGTAAAG
Found at i:21037707 original size:48 final size:48
Alignment explanation
Indices: 21037644--21037753 Score: 148
Period size: 48 Copynumber: 2.3 Consensus size: 48
21037634 ATTAGCTGGA
* *
21037644 GAGCGTAAACATAAAGTAGCTGACGAACATAAACGTAAAGTGGCTGAC
1 GAGCATAAACGTAAAGTAGCTGACGAACATAAACGTAAAGTGGCTGAC
* ** * * *
21037692 GAGCATAAACGTAAAGTGGCTGGTGAGCATAAACGTATAGTGGCTGAT
1 GAGCATAAACGTAAAGTAGCTGACGAACATAAACGTAAAGTGGCTGAC
21037740 GAGCATAAACGTAA
1 GAGCATAAACGTAA
21037754 TTGAAACTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.19
Consensus pattern (48 bp):
GAGCATAAACGTAAAGTAGCTGACGAACATAAACGTAAAGTGGCTGAC
Found at i:21041273 original size:28 final size:28
Alignment explanation
Indices: 21041225--21041283 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
21041215 TAAGAGTTAA
21041225 TTTCATTTTTAATATTATTAAT-TTTTT
1 TTTCATTTTTAATATTATTAATATTTTT
21041252 TTTCATTTTATAAT-TTAATTAATATTTTT
1 TTTCATTTT-TAATATT-ATTAATATTTTT
21041281 TTT
1 TTT
21041284 TATGATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 11 0.38
28 10 0.34
29 8 0.28
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTCATTTTTAATATTATTAATATTTTT
Found at i:21041987 original size:94 final size:94
Alignment explanation
Indices: 21041821--21042006 Score: 266
Period size: 94 Copynumber: 2.0 Consensus size: 94
21041811 GGTGATAGCC
*
21041821 TCTCACTACTACAATCATGGAATCCGTTTCACTTTCCATTTTTACGTCCTCGAGTGAACTAGCAG
1 TCTCACTACTACAATCATGGAATCCGTTTCACTTTCCATTTTTACGTCCTCGAGTGAACAAGCAG
* *
21041886 TACACATTCCCACTTGTAACGAGGAAAAT
66 TACACATTCCCACTCGTAACAAGGAAAAT
* ** * *
21041915 TCTCACTGCTACAATCATGGGCTCGGTTTCACTTTCCATTTTTACGTCCTCGAGTGAACCAATC-
1 TCTCACTACTACAATCATGGAATCCGTTTCACTTTCCATTTTTACGTCCTCGAGTGAA-CAAGCA
* *
21041979 GTATACATTCCTACTCGTAACAAGGAAA
65 GTACACATTCCCACTCGTAACAAGGAAA
21042007 GTTTTATTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 78 0.96
95 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (94 bp):
TCTCACTACTACAATCATGGAATCCGTTTCACTTTCCATTTTTACGTCCTCGAGTGAACAAGCAG
TACACATTCCCACTCGTAACAAGGAAAAT
Found at i:21042983 original size:18 final size:18
Alignment explanation
Indices: 21042960--21043003 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
21042950 ATCCCCAGCA
21042960 CAATTCCCATCACCACCT
1 CAATTCCCATCACCACCT
* * *
21042978 CAATTCACATCGCCATCT
1 CAATTCCCATCACCACCT
21042996 CAATTCCC
1 CAATTCCC
21043004 TTTGCCTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.45, G:0.02, T:0.25
Consensus pattern (18 bp):
CAATTCCCATCACCACCT
Found at i:21043295 original size:63 final size:61
Alignment explanation
Indices: 21043185--21043351 Score: 192
Period size: 62 Copynumber: 2.7 Consensus size: 61
21043175 ATTTATTTCG
* *
21043185 AATATTTTTGTAAACATTATTTT-TTATATTGTTTCATTTAATAAAATAGAAGTTCATTTGA
1 AATATTTTTGTACACATTATTTTGTAATATTGTTTCATTTAATAAAATAGAAGTTC-TTTGA
* * * * * * *
21043246 ATTTTTTTTGTACACATTAGTTTTGTCATATTGTATCGTTTAATGAAATAGAAGTTCTTTTA
1 AATATTTTTGTACACATTA-TTTTGTAATATTGTTTCATTTAATAAAATAGAAGTTCTTTGA
** *
21043308 AATATTTTTCAACACATTATTTTTGGAATATTGTTTCATTTAAT
1 AATATTTTTGTACACATTA-TTTTGTAATATTGTTTCATTTAAT
21043352 TGAGAACCAA
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
61 16 0.18
62 43 0.49
63 28 0.32
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (61 bp):
AATATTTTTGTACACATTATTTTGTAATATTGTTTCATTTAATAAAATAGAAGTTCTTTGA
Found at i:21046273 original size:24 final size:23
Alignment explanation
Indices: 21046246--21046323 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 23
21046236 CATAAAAACC
*
21046246 ATAAACATAGACCCTAATTTGTAA
1 ATAAAC-TAGACCCTAATTTGCAA
*
21046270 ATAAACTTAGTCCCTAATTTGCAA
1 ATAAAC-TAGACCCTAATTTGCAA
*
21046294 ATAAATCTAGGCCCTAATTTGCAA
1 ATAAA-CTAGACCCTAATTTGCAA
21046318 ATAAAC
1 ATAAAC
21046324 CACTAGGATG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 1 0.02
24 47 0.96
25 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (23 bp):
ATAAACTAGACCCTAATTTGCAA
Found at i:21050164 original size:53 final size:53
Alignment explanation
Indices: 21050078--21050187 Score: 157
Period size: 53 Copynumber: 2.1 Consensus size: 53
21050068 AGAACTTGGT
* * * * *
21050078 TTAAATTTAATTTGTGATATTTTTTTGCATTTTGTATTCGTGTTTGGTTTAAA
1 TTAAATTTAACTTGAGATACTTTCTTGCATTTTGTATTCATGTTTGGTTTAAA
* *
21050131 TTAAATTTAACTTGAGATCCTTTCTTGTATTTTGTATTCATGTTTGGTTTAAA
1 TTAAATTTAACTTGAGATACTTTCTTGCATTTTGTATTCATGTTTGGTTTAAA
21050184 TTAA
1 TTAA
21050188 TTTGTTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (53 bp):
TTAAATTTAACTTGAGATACTTTCTTGCATTTTGTATTCATGTTTGGTTTAAA
Found at i:21056416 original size:50 final size:48
Alignment explanation
Indices: 21056314--21056956 Score: 164
Period size: 49 Copynumber: 13.1 Consensus size: 48
21056304 TTTTTTCTTG
* *
21056314 GGTGTAAGATTCGCCGTTGCGGCTTCAATCTGTTCCCTTTT-TTTTCAAAA
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCTTTTGTTTT---AA
* *
21056364 GGTGTAAGATACGCCATTGCGACTTCAATCTATTCCCTGTTTGGTTTTAA
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TTT-GTTTTAA
* * * * *
21056414 GGTGTTAGATTCGTCATCGTGGCTTCAATCTA-TCCCTCTTTGATTTTAG
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TTTG-TTTTAA
* * * *** * * *
21056463 GGTATTAAG-TTCGTCGTCATGGCTTCAACCTA-TACCTCTTCGATTTTAA
1 GGT-GTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TTTG-TTTTAA
* ** * ** * *
21056512 GGTGTAAGATCCATCGTTGCAACTTCAATCT-TTCCCTCTTCGATTTTAG
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TTTG-TTTTAA
* * ** *** **
21056561 GGTGTTAGGTTCGCTGTTATAGCTTCAATCTA-TCCCTCTTCAATTTTAA
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TT-TGTTTTAA
* * * * * ** * * *
21056610 GGTATAAGGTCCACCGTTGCAACTTTAA-C-CTTCCCTCTTTGGTTTTAG
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TTT-GTTTTAA
* * *
21056658 GGTGTTAGATTCGCCATTGTGGCTTCAATCTA-TCCCTCTTCGATTTT-A
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TTTG-TTTTAA
* * * * * * * *
21056706 GGATGTTAGGTCCGTCGTTGCGACTTCAACCTA-TCCCTCTTCAGTTTTAA
1 GG-TGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TT-TGTTTTAA
* * * * * ** **
21056756 GGTGTAAGATTTGTCGTTACGACTTCAATCT-TTCCCTCTTCAATTTTTG
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TT-TGTTTTAA
* * * * * *
21056805 GGTGTTAGGTTCGTCGTTGCGGCTTCAACCTA-TCCCTCTTCAGTTTTAA
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TT-TGTTTTAA
* ** * * * *
21056854 GGTGTAAGATCCATCGTTACGACTTCAATCT-TTCCCTTTTTGATTTTAG
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCC-TTTTG-TTTTAA
* * * ** *
21056903 GGTGTTAGATCCGCTATTATGGCTTCAATCTATT-CCTCTTCGTTTTTAA
1 GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCT-TTTG-TTTTAA
21056952 GGTGT
1 GGTGT
21056957 TAAGTCCATC
Statistics
Matches: 455, Mismatches: 114, Indels: 49
0.74 0.18 0.08
Matches are distributed among these distances:
48 42 0.09
49 334 0.73
50 72 0.16
51 3 0.01
53 4 0.01
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (48 bp):
GGTGTAAGATTCGCCATTGCGGCTTCAATCTATTCCCTTTTGTTTTAA
Found at i:21056476 original size:49 final size:48
Alignment explanation
Indices: 21056386--21057001 Score: 298
Period size: 49 Copynumber: 12.6 Consensus size: 48
21056376 GCCATTGCGA
* * * *
21056386 CTTCAATCTATTCCCTGTTTGGTTTTAAGGTGTT-AGATTCGTCATCGTGG
1 CTTCAATCTA-TCCCTCTTCGATTTTAGGGTGTTAAG-TTCG-CATCGTGG
* * * *
21056436 CTTCAATCTATCCCTCTTTGATTTTAGGGTATTAAGTTCGTCGTCATGG
1 CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAAGTTCG-CATCGTGG
* * * * *
21056485 CTTCAACCTATACCTCTTCGATTTTAAGGTG-TAAGATC-CATCGTTGCAA
1 CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAAGTTCGCATCG-TG--G
* * * ** *
21056534 CTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGGTTCGCTGTTATAG
1 CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAAGTTCGC-ATCGTGG
* * * * * *
21056583 CTTCAATCTATCCCTCTTCAATTTTAAGGT-ATAAGGTC-CACCGTTGCAA
1 CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAAGTTCGCATCG-TG--G
* * * * *
21056632 CTTTAACCT-TCCCTCTTTGGTTTTAGGGTGTT-AGATTCGCCATTGTGG
1 CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAAG-TTCG-CATCGTGG
* * *
21056680 CTTCAATCTATCCCTCTTCGATTTTAGGATGTT-AGGTC-CGTCGTTGCG
1 CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAAGTTCGCATCG-TG-G
* * * *
21056728 ACTTCAACCTATCCCTCTTC-AGTTTTAAGGTG-TAAGATTTG--TCGTTACGA
1 -CTTCAATCTATCCCTCTTCGA-TTTTAGGGTGTTAAG-TTCGCATCG-T--GG
* * * * * * *
21056778 CTTCAATCTTTCCCTCTTCAATTTTTGGGTGTTAGGTTCGTCGTTGCGG
1 CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAAGTTCG-CATCGTGG
* * * *
21056827 CTTCAACCTATCCCTCTTC-AGTTTTAAGGTG-TAAGATC-CATCGTTACGA
1 CTTCAATCTATCCCTCTTCGA-TTTTAGGGTGTTAAGTTCGCATCG-T--GG
* * * * **
21056876 CTTCAATCTTTCCCTTTTTGATTTTAGGGTGTT-AGATCCGCTATTATGG
1 CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAAG-TTCGC-ATCGTGG
* * *
21056925 CTTCAATCTATTCCTCTTCGTTTTTAAGGTGTTAAG-TC-CATCGTTGCG
1 CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAAGTTCGCATCG-TG-G
*
21056973 ACTTCAACCTATCCCTCTTCGATTTTAGG
1 -CTTCAATCTATCCCTCTTCGATTTTAGG
21057002 ATGTCGCTTT
Statistics
Matches: 419, Mismatches: 105, Indels: 85
0.69 0.17 0.14
Matches are distributed among these distances:
46 11 0.03
47 9 0.02
48 49 0.12
49 308 0.74
50 29 0.07
51 8 0.02
52 5 0.01
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (48 bp):
CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAAGTTCGCATCGTGG
Found at i:21056586 original size:147 final size:149
Alignment explanation
Indices: 21056362--21057001 Score: 441
Period size: 147 Copynumber: 4.3 Consensus size: 149
21056352 TTTTTTTCAA
* ** * * * * * * *
21056362 AAGGTGTAAGATACGCCATTGCGACTTCAATCTATTCCCTGTTTGGTTTTAAGGTGTTAGATTCG
1 AAGGTGTAAGATCCATCGTTGCGACTTCAACCTA-TCCCTCTTCGATTTTAGGGTGTTAGGTTCG
* * * * *
21056427 TCATCG-T--GGCTTCAATCTATCCCTCTTTGATTTTAGGGTATTAAG-TTCGTCGTCATGGCTT
65 -C-TCGTTACGACTTCAATCTATCCCTCTTTGATTTTAAGGTATTAAGATCCGTCGTTATGACTT
*
21056488 CAACCTATACCTCTTCGATTTT
128 CAACCTATCCCTCTTCGATTTT
* * *
21056510 AAGGTGTAAGATCCATCGTTGCAACTTCAATCTTTCCCTCTTCGATTTTAGGGTGTTAGGTTCGC
1 AAGGTGTAAGATCCATCGTTGCGACTTCAACCTATCCCTCTTCGATTTTAGGGTGTTAGGTTCGC
* ** * ** *** *
21056575 T-GTTA-TAGCTTCAATCTATCCCTCTTCAATTTTAAGGTA-TAAGGTCCACCGTTGCAACTTTA
66 TCGTTACGA-CTTCAATCTATCCCTCTTTGATTTTAAGGTATTAAGATCCGTCGTTATGACTTCA
* *
21056637 ACCT-TCCCTCTTTGGTTTT
130 ACCTATCCCTCTTCGATTTT
* * * ** * * * * * *
21056656 AGGGTGTTAGATTCGCCATTGTGGCTTCAATCTATCCCTCTTCGATTTTAGGATGTTAGGTCCG-
1 AAGGTGTAAGATCCATCGTTGCGACTTCAACCTATCCCTCTTCGATTTTAGGGTGTTAGGTTCGC
* * * * ** *
21056720 TCGTTGCGACTTCAACCTATCCCTC-TTCAGTTTTAAGGT-GTAAGATTTGTCGTTACGACTTCA
66 TCGTTACGACTTCAATCTATCCCTCTTTGA-TTTTAAGGTATTAAGATCCGTCGTTATGACTTCA
* * *
21056783 ATCTTTCCCTCTTCAATTTT
130 ACCTATCCCTCTTCGATTTT
** * * * * * * * *
21056803 TGGGTGTTAGGTTCGTCGTTGCGGCTTCAACCTATCCCTCTTC-AGTTTTAAGGTG-TAAGATC-
1 AAGGTGTAAGATCCATCGTTGCGACTTCAACCTATCCCTCTTCGA-TTTTAGGGTGTTAGGTTCG
* * * * * *
21056865 CATCGTTACGACTTCAATCTTTCCCTTTTTGATTTTAGGGTGTT-AGATCCG-CTATTATGGCTT
65 C-TCGTTACGACTTCAATCTATCCCTCTTTGATTTTAAGGTATTAAGATCCGTC-GTTATGACTT
* * *
21056928 CAATCTATTCCTCTTCGTTTTT
128 CAACCTATCCCTCTTCGATTTT
21056950 AAGGTGTTAAG-TCCATCGTTGCGACTTCAACCTATCCCTCTTCGATTTTAGG
1 AAGGTG-TAAGATCCATCGTTGCGACTTCAACCTATCCCTCTTCGATTTTAGG
21057002 ATGTCGCTTT
Statistics
Matches: 384, Mismatches: 91, Indels: 35
0.75 0.18 0.07
Matches are distributed among these distances:
144 1 0.00
145 5 0.01
146 120 0.31
147 222 0.58
148 36 0.09
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (149 bp):
AAGGTGTAAGATCCATCGTTGCGACTTCAACCTATCCCTCTTCGATTTTAGGGTGTTAGGTTCGC
TCGTTACGACTTCAATCTATCCCTCTTTGATTTTAAGGTATTAAGATCCGTCGTTATGACTTCAA
CCTATCCCTCTTCGATTTT
Found at i:21056660 original size:195 final size:195
Alignment explanation
Indices: 21056446--21056802 Score: 454
Period size: 195 Copynumber: 1.8 Consensus size: 195
21056436 CTTCAATCTA
* *
21056446 TCCCTCTTTGATTTTAGGGTATTA-AGTTCGTCGTCATGGCTTCAACCTATACCTCTTCGATTTT
1 TCCCTCTTTGATTTTAGGGTATTAGA-TTCGCCATCATGGCTTCAACCTATACCTCTTCGATTTT
* * * * *
21056510 AAGG-TGTAAGATCCATCGTTGCAACTTCAATCTTTCCCTCTTC-GATTTTAGGGTGTTAGGTTC
65 -AGGATGTAAGATCCATCGTTGCAACTTCAACCTATCCCTCTTCAG-TTTTAAGGTGTAAGATTC
21056573 G-CTGTTATAG-CTTCAATCTATCCCTCTTCAATTTTAAGGTATAAGGTCCACCGTTGCAACTTT
128 GTC-GTTA-AGACTTCAATCTATCCCTCTTCAATTTTAAGGTATAAGGTCCACCGTTGCAACTTT
21056636 AACCT
191 AACCT
* * ** * *
21056641 TCCCTCTTTGGTTTTAGGGTGTTAGATTCGCCATTGTGGCTTCAATCTATCCCTCTTCGATTTTA
1 TCCCTCTTTGATTTTAGGGTATTAGATTCGCCATCATGGCTTCAACCTATACCTCTTCGATTTTA
* * * * *
21056706 GGATGTTAGGTCCGTCGTTGCGACTTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGATTTGTC
66 GGATGTAAGATCCATCGTTGCAACTTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGATTCGTC
* *
21056771 GTTACGACTTCAATCTTTCCCTCTTCAATTTT
131 GTTAAGACTTCAATCTATCCCTCTTCAATTTT
21056803 TGGGTGTTAG
Statistics
Matches: 137, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
194 4 0.03
195 130 0.95
196 3 0.02
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (195 bp):
TCCCTCTTTGATTTTAGGGTATTAGATTCGCCATCATGGCTTCAACCTATACCTCTTCGATTTTA
GGATGTAAGATCCATCGTTGCAACTTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGATTCGTC
GTTAAGACTTCAATCTATCCCTCTTCAATTTTAAGGTATAAGGTCCACCGTTGCAACTTTAACCT
Found at i:21056845 original size:98 final size:98
Alignment explanation
Indices: 21056383--21057001 Score: 430
Period size: 98 Copynumber: 6.3 Consensus size: 98
21056373 TACGCCATTG
* * * * * * * * * *
21056383 CGACTTCAATCTATTCCCTGTTTGGTTTTAAGGTGTTAGATTCGTCATCGTGGCTTCAATCTATC
1 CGACTTCAATCTA-TCCCTCTTCGATTTTAGGGTGTTAGGTCCGTCGTTGCGGCTTCAACCTATC
* * * * * *
21056448 CCTCTT-TGATTTTAGGGTATTAAG-TTCGTCGTCA
65 CCTCTTCAG-TTTTAAGGT-GTAAGATCCATCGTTA
* * * * * * * * ** * *
21056482 TGGCTTCAACCTATACCTCTTCGATTTTAAGGTGTAAGATCCATCGTTGCAACTTCAATCTTTCC
1 CGACTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAGGTCCGTCGTTGCGGCTTCAACCTATCC
* * *
21056547 CTCTTC-GATTTTAGGGTGTTAGGTTCGC-T-GTTA
66 CTCTTCAG-TTTTAAGGTG-TAAGATC-CATCGTTA
* * * * * ** ** *
21056580 -TAGCTTCAATCTATCCCTCTTCAATTTTAAGGTATAAGGTCCACCGTTGCAACTTTAACCT-TC
1 CGA-CTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAGGTCCGTCGTTGCGGCTTCAACCTATC
** * * * ** * *
21056643 CCTCTTTGGTTTTAGGGTGTTAGATTCGCCATTG
65 CCTCTTCAGTTTTAAGGTGTAAGATCCATCGTTA
* * * *
21056677 TGGCTTCAATCTATCCCTCTTCGATTTTAGGATGTTAGGTCCGTCGTTGCGACTTCAACCTATCC
1 CGACTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAGGTCCGTCGTTGCGGCTTCAACCTATCC
***
21056742 CTCTTCAGTTTTAAGGTGTAAGATTTGTCGTTA
66 CTCTTCAGTTTTAAGGTGTAAGATCCATCGTTA
* * * *
21056775 CGACTTCAATCTTTCCCTCTTCAATTTTTGGGTGTTAGGTTCGTCGTTGCGGCTTCAACCTATCC
1 CGACTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAGGTCCGTCGTTGCGGCTTCAACCTATCC
21056840 CTCTTCAGTTTTAAGGTGTAAGATCCATCGTTA
66 CTCTTCAGTTTTAAGGTGTAAGATCCATCGTTA
* * * * * ** * *
21056873 CGACTTCAATCTTTCCCTTTTTGATTTTAGGGTGTTAGATCCG-CTATTATGGCTTCAATCTATT
1 CGACTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAGGTCCGTC-GTTGCGGCTTCAACCTATC
*
21056937 CCTCTTC-GTTTTTAAGGTGTTAAG-TCCATCGTTG
65 CCTCTTCAG-TTTTAAGGTG-TAAGATCCATCGTTA
*
21056971 CGACTTCAACCTATCCCTCTTCGATTTTAGG
1 CGACTTCAATCTATCCCTCTTCGATTTTAGG
21057002 ATGTCGCTTT
Statistics
Matches: 423, Mismatches: 84, Indels: 27
0.79 0.16 0.05
Matches are distributed among these distances:
95 1 0.00
96 3 0.01
97 71 0.17
98 331 0.78
99 16 0.04
100 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (98 bp):
CGACTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAGGTCCGTCGTTGCGGCTTCAACCTATCC
CTCTTCAGTTTTAAGGTGTAAGATCCATCGTTA
Found at i:21064599 original size:15 final size:15
Alignment explanation
Indices: 21064579--21064608 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21064569 AACATACGTA
21064579 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
21064594 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
21064609 GATCACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (15 bp):
CAATAAAATGCAAAG
Found at i:21065266 original size:29 final size:29
Alignment explanation
Indices: 21065203--21065268 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
21065193 AATTAATAAC
* *
21065203 ACAATAAAGATATAATTATAGTATTAAAT
1 ACAATAAAGATATAATCATAGTAATAAAT
*
21065232 AAAATAACA-ATATAATCATAGTAAT-AAT
1 ACAATAA-AGATATAATCATAGTAATAAAT
21065260 GACAATAAA
1 -ACAATAAA
21065269 TATTAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
28 4 0.13
29 26 0.84
30 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (29 bp):
ACAATAAAGATATAATCATAGTAATAAAT
Found at i:21065469 original size:4 final size:4
Alignment explanation
Indices: 21065460--21065499 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
21065450 CAAATAGCAT
*
21065460 AATA AATA AATA AATA AATA AATTA ATTA AATTA AATA AA
1 AATA AATA AATA AATA AATA AA-TA AATA AA-TA AATA AA
21065500 AGCAAGCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 25 0.78
5 7 0.22
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (4 bp):
AATA
Found at i:21065492 original size:9 final size:9
Alignment explanation
Indices: 21065460--21065499 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
21065450 CAAATAGCAT
21065460 AATAAA-TA
1 AATAAATTA
21065468 AATAAA-TA
1 AATAAATTA
21065476 AATAAATTA
1 AATAAATTA
*
21065485 ATTAAATTA
1 AATAAATTA
21065494 AATAAA
1 AATAAA
21065500 AGCAAGCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AATAAATTA
Found at i:21065681 original size:20 final size:21
Alignment explanation
Indices: 21065658--21065706 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
21065648 AACAAACAAT
* *
21065658 ATAATAAATTAAATATCAA-A
1 ATAATAAACTAAATATAAATA
21065678 ATAA-ACAACTAAATATAAATA
1 ATAATA-AACTAAATATAAATA
21065699 ATAATAAA
1 ATAATAAA
21065707 AAAGAATACG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 15 0.62
21 7 0.29
22 1 0.04
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAATAAACTAAATATAAATA
Found at i:21067265 original size:18 final size:17
Alignment explanation
Indices: 21067236--21067277 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
21067226 TTTCACCCAA
*
21067236 AAAAAAGGAAAGAAGAG
1 AAAAAAGGAAAGAAAAG
*
21067253 AAGAAAAGTAAAGAAAAG
1 AA-AAAAGGAAAGAAAAG
21067271 AAAAAAG
1 AAAAAAG
21067278 AAAAAAGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (17 bp):
AAAAAAGGAAAGAAAAG
Found at i:21067282 original size:23 final size:23
Alignment explanation
Indices: 21067239--21067281 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21067229 CACCCAAAAA
* *
21067239 AAAGGAAAGAAGAGAAGAAAAGT
1 AAAGAAAAGAAGAAAAGAAAAGT
21067262 AAAGAAAAGAA-AAAAGAAAA
1 AAAGAAAAGAAGAAAAGAAAA
21067282 AAGGAGAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (23 bp):
AAAGAAAAGAAGAAAAGAAAAGT
Found at i:21068813 original size:81 final size:81
Alignment explanation
Indices: 21068678--21069377 Score: 476
Period size: 81 Copynumber: 8.2 Consensus size: 81
21068668 TACATCATCT
* * *
21068678 CATCCAATCTCTTACCTCGACCATGGGGTAGATTGAAGCCATCCAATCTTTTACCCTAACTAGAG
1 CATCCAATCTCTTACCCCAACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACTAGAG
21068743 GGCATATTGAAGACAC
66 GGCATATTGAAGACAC
* * *
21068759 CATCCAATCTCTTACCCCTACCATGGGGGAGATCGAAGCCATCCAATCTTTTACCCTAACTAGAG
1 CATCCAATCTCTTACCCCAACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACTAGAG
* * *
21068824 GGTAGATTGAAGACAT
66 GGCATATTGAAGACAC
* *
21068840 CATCAAATCTCTTACCCCAACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCTTAACTAGAG
1 CATCCAATCTCTTACCCCAACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACTAGAG
*
21068905 GGCATATT-AA-AGAC
66 GGCATATTGAAGACAC
* * * * * **
21068919 CATCCAATCTTTTACCCCAACCATCGGGCAGATTGAAGACCATCTAATCTTTTACCCCAACCATC
1 CATCCAATCTCTTACCCCAACCATGGGGCAGATTGAAG-CCATCCAATCTTTTACCCTAACTAGA
* *
21068984 GGGTAGATTGAAG---C
65 GGGCATATTGAAGACAC
* * * *
21068998 CATCCAATCTTTTACCCCTAAGTCAAGAGGGGAGATTGAAGCCACCATCCAATCTTTTACCCATA
1 CATCCAATCTCTTACCCC-AA-CCATG-GGGCAGATTGAAG---CCATCCAATCTTTTACCC-TA
*
21069063 ATCAAGAGGGGCATATTGAAG-CAAC
59 A-CTAGA-GGGCATATTGAAGAC-AC
* * * * *
21069088 CATCCAATCTTTTACCCTTAAATCAAGAGGGGCAGATTGAAGTCACCATACAATCTTTTACCCTT
1 CATCCAATCTCTTACCC--CAA-CCA-TGGGGCAGATTGAAG---CCATCCAATCTTTTACCC-T
* * * *
21069153 AATCAAGAAGGGAAAATTGAAGCCAC
58 AA-CTAG-AGGGCATATTGAAGACAC
* * * * * * *
21069179 TATCCAATATTTTACCTCTAAGTCAATAGGGGCAAATTGAAGCAACCATCCAGTCTTTTACCCCT
1 CATCCAATCTCTTACC-CCAA--CCAT-GGGGCAGATTGAAG---CCATCCAATCTTTTA-CCCT
* * *
21069244 AATCAAGAGGGGCAGATTGAAGTCAC
58 AA-CTAGA-GGGCATATTGAAGACAC
* * * * * * *
21069270 CATCCAATTTTTTACCCTTAATCAAGAGAGACAGATTAAAGTCACCATCCAATCTTTTACCCCTA
1 CATCCAATCTCTTACCC-CAACCATG-G-GGCAGATTGAAG---CCATCCAATCTTTTA-CCCTA
** * *
21069335 GTTAAGAGTGGCAGATTGAAGCCAC
59 ACT-AGAG-GGCATATTGAAGACAC
* *
21069360 CATTCAATCTTTTACCCC
1 CATCCAATCTCTTACCCC
21069378 TAAATCAAAA
Statistics
Matches: 512, Mismatches: 78, Indels: 50
0.80 0.12 0.08
Matches are distributed among these distances:
79 56 0.11
80 31 0.06
81 144 0.28
82 12 0.02
84 18 0.04
85 2 0.00
86 2 0.00
87 11 0.02
88 1 0.00
89 3 0.01
90 85 0.17
91 139 0.27
92 8 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (81 bp):
CATCCAATCTCTTACCCCAACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCTAACTAGAG
GGCATATTGAAGACAC
Found at i:21069081 original size:45 final size:44
Alignment explanation
Indices: 21068716--21069409 Score: 555
Period size: 45 Copynumber: 16.1 Consensus size: 44
21068706 TAGATTGAAG
* * *
21068716 CCATCCAATCTTTTACCCTAA-CTAGA-GGGCATATTGAAGACA
1 CCATCCAATCTTTTACCCTAATCAAGAGGGGCAGATTGAAGCCA
* * * *
21068758 CCATCCAATCTCTTACCCCT-ACCATG-GGGG-AGATCGAAG---
1 CCATCCAATCTTTTA-CCCTAATCAAGAGGGGCAGATTGAAGCCA
* * *
21068797 CCATCCAATCTTTTACCCTAA-CTAGA-GGGTAGATTGAAGACA
1 CCATCCAATCTTTTACCCTAATCAAGAGGGGCAGATTGAAGCCA
* * * * * *
21068839 TCATCAAATCTCTTACCCCAA-CCA-TGGGGCAGATTGAAG---
1 CCATCCAATCTTTTACCCTAATCAAGAGGGGCAGATTGAAGCCA
* * * *
21068878 CCATCCAATCTTTTACCTTAA-CTAGA-GGGCATATTAAAG--A
1 CCATCCAATCTTTTACCCTAATCAAGAGGGGCAGATTGAAGCCA
* * **
21068918 CCATCCAATCTTTTACCCCAA-CCA-TCGGGCAGATTGAAG--A
1 CCATCCAATCTTTTACCCTAATCAAGAGGGGCAGATTGAAGCCA
* * * ** *
21068958 CCATCTAATCTTTTACCCCAA-CCA-TCGGGTAGATTGAAG---
1 CCATCCAATCTTTTACCCTAATCAAGAGGGGCAGATTGAAGCCA
21068997 CCATCCAATCTTTTACCCCTAAGTCAAGAGGGG-AGATTGAAGCCA
1 CCATCCAATCTTTTA-CCCTAA-TCAAGAGGGGCAGATTGAAGCCA
* *
21069042 CCATCCAATCTTTTACCCATAATCAAGAGGGGCATATTGAAGCAA
1 CCATCCAATCTTTTACCC-TAATCAAGAGGGGCAGATTGAAGCCA
*
21069087 CCATCCAATCTTTTACCCTTAAATCAAGAGGGGCAGATTGAAGTCA
1 CCATCCAATCTTTTACCC-T-AATCAAGAGGGGCAGATTGAAGCCA
* * * *
21069133 CCATACAATCTTTTACCCTTAATCAAGAAGGGAAAATTGAAGCCA
1 CCATCCAATCTTTTACCC-TAATCAAGAGGGGCAGATTGAAGCCA
* * * * *
21069178 CTATCCAATATTTTACCTCTAAGTCAATAGGGGCAAATTGAAGCAA
1 CCATCCAATCTTTTACC-CTAA-TCAAGAGGGGCAGATTGAAGCCA
* *
21069224 CCATCCAGTCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGTCA
1 CCATCCAATCTTTTA-CCCTAATCAAGAGGGGCAGATTGAAGCCA
* * * * *
21069269 CCATCCAATTTTTTACCCTTAATCAAGAGAGACAGATTAAAGTCA
1 CCATCCAATCTTTTACCC-TAATCAAGAGGGGCAGATTGAAGCCA
* * *
21069314 CCATCCAATCTTTTACCCCTAGTTAAGAGTGGCAGATTGAAGCCA
1 CCATCCAATCTTTTA-CCCTAATCAAGAGGGGCAGATTGAAGCCA
* * * *
21069359 CCATTCAATCTTTTACCCCTAAATCAAAATGGGCAGATTGAAGCTA
1 CCATCCAATCTTTTA-CCCT-AATCAAGAGGGGCAGATTGAAGCCA
21069405 CCATC
1 CCATC
21069410 TCACAGAAGC
Statistics
Matches: 540, Mismatches: 83, Indels: 54
0.80 0.12 0.08
Matches are distributed among these distances:
38 9 0.02
39 66 0.12
40 75 0.14
42 64 0.12
43 12 0.02
44 16 0.03
45 193 0.36
46 103 0.19
47 2 0.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (44 bp):
CCATCCAATCTTTTACCCTAATCAAGAGGGGCAGATTGAAGCCA
Found at i:21069156 original size:91 final size:91
Alignment explanation
Indices: 21068716--21069409 Score: 536
Period size: 91 Copynumber: 8.1 Consensus size: 91
21068706 TAGATTGAAG
* * * * *
21068716 CCATCCAATCTTTTA-CCCTAA-CTAGA-GGGCATATTGAAGACACCATCCAATCTCTTACCCCT
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCTT
* * *
21068778 --ACCATG-GGGG-AGATCGAAG---
66 AAATCAAGAGGGGCAGATTGAAGTCA
* * * * * *
21068797 CCATCCAATCTTTTA-CCCTAA-CTAGA-GGGTAGATTGAAGACATCATCAAATCTCTTACCC--
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCTT
* * *
21068857 CAA-CCA-TGGGGCAGATTGAAG---
66 AAATCAAGAGGGGCAGATTGAAGTCA
* * * *
21068878 CCATCCAATCTTTTA-CCTTAA-CTAGA-GGGCATATTAAAG--ACCATCCAATCTTTTACCC--
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCTT
* * **
21068936 CAA-CCA-TCGGGCAGATTGAAG--A
66 AAATCAAGAGGGGCAGATTGAAGTCA
* * ** * *
21068958 CCATCTAATCTTTTACCCC-AA-CCA-TCGGGTAGATTGAAG---CCATCCAATCTTTTACCCCT
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCTT
* *
21069017 AAGTCAAGAGGGG-AGATTGAAGCCA
66 AAATCAAGAGGGGCAGATTGAAGTCA
* * *
21069042 CCATCCAATCTTTTACCCATAATCAAGAGGGGCATATTGAAGCAACCATCCAATCTTTTACCCTT
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCTT
21069107 AAATCAAGAGGGGCAGATTGAAGTCA
66 AAATCAAGAGGGGCAGATTGAAGTCA
* * * * * * *
21069133 CCATACAATCTTTTACCCTTAATCAAGAAGGGAAAATTGAAGCCACTATCCAATATTTTA-CCTC
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCT-
* * *
21069197 TAAGTCAATAGGGGCAAATTGAAG-CAA
65 TAAATCAAGAGGGGCAGATTGAAGTC-A
* * *
21069224 CCATCCAGTCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGTCACCATCCAATTTTTTACCCTT
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCTT
* * *
21069289 -AATCAAGAGAGACAGATTAAAGTCA
66 AAATCAAGAGGGGCAGATTGAAGTCA
* * * * *
21069314 CCATCCAATCTTTTACCCCTAGTTAAGAGTGGCAGATTGAAGCCACCATTCAATCTTTTACCCCT
1 CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCTT
* *
21069379 AAATCAAAATGGGCAGATTGAAG-CTA
66 AAATCAAGAGGGGCAGATTGAAGTC-A
21069405 CCATC
1 CCATC
21069410 TCACAGAAGC
Statistics
Matches: 511, Mismatches: 76, Indels: 42
0.81 0.12 0.07
Matches are distributed among these distances:
79 54 0.11
80 33 0.06
81 103 0.20
82 11 0.02
83 3 0.01
84 18 0.04
85 2 0.00
86 2 0.00
87 11 0.02
90 110 0.22
91 161 0.32
92 3 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (91 bp):
CCATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCACCATCCAATCTTTTACCCTT
AAATCAAGAGGGGCAGATTGAAGTCA
Found at i:21069194 original size:136 final size:134
Alignment explanation
Indices: 21068716--21069409 Score: 578
Period size: 136 Copynumber: 5.4 Consensus size: 134
21068706 TAGATTGAAG
* * * * *
21068716 CCATCCAATCTTTTA-CCCT-AA-CTAGA-GGGCATATTGAAGACACCATCCAATCTCTTACCCC
1 CCATCCAATCTTTTACCCCTAAATCAAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCT
* * * * * * *
21068777 T-ACCATG-GGGGAGATCGAAG---CCATCCAATCTTTTACCCTAA-CTAGA-GGGTAGATTGAA
66 TAATCAAGAGGGAAGATTGAAGCCACCATCCAATCTTTTACCCTAATCAAGAGGGGCAAATTGAA
21068835 G-ACA
131 GCA-A
* * * * *
21068839 TCATCAAATCTCTTACCCC--AA-CCA-TGGGGCAGATTGAAG---CCATCCAATCTTTTA-CCT
1 CCATCCAATCTTTTACCCCTAAATCAAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCT
* * * * * * ** *
21068896 TAA-CTAGAGGGCATATTAAAG--ACCATCCAATCTTTTACCCCAA-CCA-TCGGGCAGATTGAA
66 TAATCAAGAGGGAAGATTGAAGCCACCATCCAATCTTTTACCCTAATCAAGAGGGGCAAATTGAA
21068956 G--A
131 GCAA
* * ** * *
21068958 CCATCTAATCTTTTACCCC--AA-CCA-TCGGGTAGATTGAAG---CCATCCAATCTTTTACCCC
1 CCATCCAATCTTTTACCCCTAAATCAAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCT
* *
21069016 TAAGTCAAGAGGGGAGATTGAAGCCACCATCCAATCTTTTACCCATAATCAAGAGGGGCATATTG
66 TAA-TCAAGAGGGAAGATTGAAGCCACCATCCAATCTTTTACCC-TAATCAAGAGGGGCAAATTG
21069081 AAGCAA
129 AAGCAA
* *
21069087 CCATCCAATCTTTTACCCTTAAATCAAGAGGGGCAGATTGAAGTCACCATACAATCTTTTACCCT
1 CCATCCAATCTTTTACCCCTAAATCAAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCT
* * * *
21069152 TAATCAAGAAGGGAAAATTGAAGCCACTATCCAATATTTTACCTCTAAGTCAATAGGGGCAAATT
66 TAATCAAG-AGGGAAGATTGAAGCCACCATCCAATCTTTTACC-CTAA-TCAAGAGGGGCAAATT
21069217 GAAGCAA
128 GAAGCAA
* *
21069224 CCATCCAGTCTTTTACCCCT-AATCAAGAGGGGCAGATTGAAGTCACCATCCAATTTTTTACCCT
1 CCATCCAATCTTTTACCCCTAAATCAAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCT
* * * * * * *
21069288 TAATCAAGAGAGACAGATTAAAGTCACCATCCAATCTTTTACCCCTAGTTAAGAGTGGCAGATTG
66 TAATCAAGAGGGA-AGATTGAAGCCACCATCCAATCTTTTA-CCCTAATCAAGAGGGGCAAATTG
*
21069353 AAGCCA
129 AAGCAA
* * *
21069359 CCATTCAATCTTTTACCCCTAAATCAAAATGGGCAGATTGAAG-CTACCATC
1 CCATCCAATCTTTTACCCCTAAATCAAGAGGGGCAGATTGAAGTC-ACCATC
21069410 TCACAGAAGC
Statistics
Matches: 474, Mismatches: 67, Indels: 47
0.81 0.11 0.08
Matches are distributed among these distances:
119 55 0.12
120 29 0.06
121 34 0.07
122 14 0.03
123 28 0.06
124 22 0.05
125 2 0.00
126 2 0.00
127 12 0.03
129 18 0.04
131 2 0.00
132 2 0.00
133 12 0.03
135 46 0.10
136 154 0.32
137 42 0.09
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (134 bp):
CCATCCAATCTTTTACCCCTAAATCAAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCCT
TAATCAAGAGGGAAGATTGAAGCCACCATCCAATCTTTTACCCTAATCAAGAGGGGCAAATTGAA
GCAA
Found at i:21072590 original size:18 final size:18
Alignment explanation
Indices: 21072567--21072605 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
21072557 GCAAGATGAA
*
21072567 ATCACGAAACTAAATCTT
1 ATCACGAAACTAAATCCT
*
21072585 ATCACGACACTAAATCCT
1 ATCACGAAACTAAATCCT
21072603 ATC
1 ATC
21072606 TTCCTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.28, G:0.05, T:0.26
Consensus pattern (18 bp):
ATCACGAAACTAAATCCT
Found at i:21074229 original size:13 final size:13
Alignment explanation
Indices: 21074213--21074245 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
21074203 TGATTTCTAA
21074213 TTTAATTTTCCCC
1 TTTAATTTTCCCC
21074226 TTTAAATTTTCCCC
1 TTT-AATTTTCCCC
21074240 TTTAAT
1 TTTAAT
21074246 CTGTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTAATTTTCCCC
Found at i:21074235 original size:14 final size:14
Alignment explanation
Indices: 21074216--21074244 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21074206 TTTCTAATTT
21074216 AATTTTCCCCTTTA
1 AATTTTCCCCTTTA
21074230 AATTTTCCCCTTTA
1 AATTTTCCCCTTTA
21074244 A
1 A
21074245 TCTGTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTTTCCCCTTTA
Found at i:21075580 original size:14 final size:15
Alignment explanation
Indices: 21075554--21075600 Score: 62
Period size: 14 Copynumber: 3.2 Consensus size: 15
21075544 GCACTAACCC
21075554 AAAATCTCCTAAATCA
1 AAAATC-CCTAAATCA
21075570 AAAA-CCCTAAA-CA
1 AAAATCCCTAAATCA
*
21075583 AAAATCCCCAAATCA
1 AAAATCCCTAAATCA
21075598 AAA
1 AAA
21075601 CTCTTACCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 6 0.21
14 12 0.43
15 6 0.21
16 4 0.14
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAATCCCTAAATCA
Found at i:21075673 original size:23 final size:24
Alignment explanation
Indices: 21075631--21075680 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
21075621 CCCAAAATCC
*
21075631 AAAATCCCCAAATTTAACAACC-T
1 AAAATCCCCAAATTCAACAACCAT
* *
21075654 AAAATCTCCAAATTCGACAACCAT
1 AAAATCCCCAAATTCAACAACCAT
21075678 AAA
1 AAA
21075681 CAATTCATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.20
Consensus pattern (24 bp):
AAAATCCCCAAATTCAACAACCAT
Found at i:21077400 original size:58 final size:58
Alignment explanation
Indices: 21077337--21077518 Score: 199
Period size: 59 Copynumber: 3.1 Consensus size: 58
21077327 GTAAAATGGT
* * *
21077337 AATTTTAGAC-TCTCGAGGGCAAAATGATAATTTTGGAAAAATTTAGGGTTAAAAATGA
1 AATTTTAGACATCTCGAGGGTAAAATGATAATTTTAGAAAAATTTA-GGTCAAAAATGA
* * *
21077395 CATTTTAGACATCT-GAGGGTAAAATGATAATTTTTAGAAAAATCTAGATCAAAAATGA
1 AATTTTAGACATCTCGAGGGTAAAATGATAA-TTTTAGAAAAATTTAGGTCAAAAATGA
* * * **
21077453 AATTTTTGGACAT-TCGAGGGTAAAATGGTAATTTTTGAAAGTTTTAAGGTCAAAAATGTA
1 AA-TTTTAGACATCTCGAGGGTAAAATGATAATTTTAGAAAAATTT-AGGTCAAAAATG-A
21077513 AATTTT
1 AATTTT
21077519 GGAAGTTTAG
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
58 46 0.44
59 55 0.53
60 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (58 bp):
AATTTTAGACATCTCGAGGGTAAAATGATAATTTTAGAAAAATTTAGGTCAAAAATGA
Found at i:21077427 original size:28 final size:28
Alignment explanation
Indices: 21077325--21077428 Score: 88
Period size: 28 Copynumber: 3.6 Consensus size: 28
21077315 GGATACTCGG
*
21077325 GGGTAAAATGGTAATTTTAGAC-TCTCGA
1 GGGTAAAATGATAATTTTAGACATCT-GA
* * * *
21077353 GGGCAAAATGATAATTTTGGAAAAAT-TTA
1 GGGTAAAATGATAATTTT--AGACATCTGA
*
21077382 GGGTTAAAAATGA-CATTTTAGACATCTGA
1 GGG-T-AAAATGATAATTTTAGACATCTGA
21077411 GGGTAAAATGATAATTTT
1 GGGTAAAATGATAATTTT
21077429 TAGAAAAATC
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
27 7 0.12
28 26 0.45
29 9 0.16
30 8 0.14
31 8 0.14
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (28 bp):
GGGTAAAATGATAATTTTAGACATCTGA
Found at i:21077429 original size:29 final size:29
Alignment explanation
Indices: 21077325--21077488 Score: 85
Period size: 29 Copynumber: 5.7 Consensus size: 29
21077315 GGATACTCGG
*
21077325 GGGTAAAATGGTAA-TTTTAGAC-TCTCGA
1 GGGTAAAATGATAATTTTTAGACATCT-GA
* * * * *
21077353 GGGCAAAATGATAATTTTGGAAAAAT-TTA
1 GGGTAAAATGATAATTTT-TAGACATCTGA
*
21077382 GGGTTAAAAATGA-CA-TTTTAGACATCTGA
1 GGG-T-AAAATGATAATTTTTAGACATCTGA
*
21077411 GGGTAAAATGATAATTTTTAGAAAAATCT-A
1 GGGTAAAATGATAATTTTTAG--ACATCTGA
* *
21077441 -GATCAAAAATGA-AATTTTTGGACAT-TCGA
1 GGGT--AAAATGATAATTTTTAGACATCT-GA
*
21077470 GGGTAAAATGGTAATTTTT
1 GGGTAAAATGATAATTTTT
21077489 GAAAGTTTTA
Statistics
Matches: 101, Mismatches: 19, Indels: 31
0.67 0.13 0.21
Matches are distributed among these distances:
27 8 0.08
28 27 0.27
29 31 0.31
30 15 0.15
31 20 0.20
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (29 bp):
GGGTAAAATGATAATTTTTAGACATCTGA
Found at i:21077474 original size:59 final size:58
Alignment explanation
Indices: 21077349--21077610 Score: 193
Period size: 59 Copynumber: 4.5 Consensus size: 58
21077339 TTTTAGACTC
* * * * *
21077349 TCGAGGGCAAAATGATAA-TTTTGGAAAAATTTAGGGTTAAAAATGACATTTTAGACA-
1 TCGAGGGTAAAATGATAATTTTTAGAAAAATTTA-GGTCAAAAATGAAATTTTGGACAT
* *
21077406 TCTGAGGGTAAAATGATAATTTTTAGAAAAATCTAGATCAAAAATGAAATTTTTGGACAT
1 TC-GAGGGTAAAATGATAATTTTTAGAAAAATTTAGGTCAAAAATGAAA-TTTTGGACAT
* **
21077466 TCGAGGGTAAAATGGTAATTTTT-GAAAGTTTTAAGGTCAAAAATGTAAATTTTGGA-AGT
1 TCGAGGGTAAAATGATAATTTTTAGAAAAATTT-AGGTCAAAAATG-AAATTTTGGACA-T
* ** * *
21077525 T-TAGGGGTAAAAATG-TAATTTTTAG-AAGTTTTAGGGTCAACAATGTAATTTTTGGA-AGT
1 TCGA-GGGT-AAAATGATAATTTTTAGAAAAATTTA-GGTCAAAAATG-AAATTTTGGACA-T
*
21077584 TC-AGGGGTAAAAATG-TAATTTTCAGAA
1 TCGA-GGGT-AAAATGATAATTTTTAGAA
21077611 GTTTTAAGGT
Statistics
Matches: 176, Mismatches: 16, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
57 2 0.01
58 35 0.20
59 126 0.72
60 13 0.07
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (58 bp):
TCGAGGGTAAAATGATAATTTTTAGAAAAATTTAGGTCAAAAATGAAATTTTGGACAT
Found at i:21077537 original size:29 final size:29
Alignment explanation
Indices: 21077469--21077678 Score: 151
Period size: 29 Copynumber: 7.1 Consensus size: 29
21077459 TGGACATTCG
* *
21077469 AGGGT-AAAATGGTAATTTTTGAAAGTTTT
1 AGGGTAAAAAT-GTAAATTTTGGAAGTTTT
*
21077498 AAGGTCAAAAATGTAAATTTTGGAAG-TTT
1 AGGGT-AAAAATGTAAATTTTGGAAGTTTT
* *
21077527 AGGGGTAAAAATGTAATTTTTAGAAGTTTT
1 A-GGGTAAAAATGTAAATTTTGGAAGTTTT
* * *
21077557 AGGGTCAACAATGTAATTTTTGGAAG-TTC
1 AGGGT-AAAAATGTAAATTTTGGAAGTTTT
*
21077586 AGGGGTAAAAATGT-AATTTTCAGAAGTTTT
1 A-GGGTAAAAATGTAAATTTT-GGAAGTTTT
* * *
21077616 AAGGTTAAAATGT-AATTTTGGAGAAGTTTG
1 AGGGTAAAAATGTAAATTTT-G-GAAGTTTT
** * * **
21077646 AGGGCCAAAATATAATTTTTGGAAAATTT
1 AGGGTAAAAATGTAAATTTTGGAAGTTTT
21077675 AGGG
1 AGGG
21077679 ACCTTTAGGG
Statistics
Matches: 145, Mismatches: 26, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
28 5 0.03
29 69 0.48
30 61 0.42
31 10 0.07
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (29 bp):
AGGGTAAAAATGTAAATTTTGGAAGTTTT
Found at i:21077611 original size:59 final size:58
Alignment explanation
Indices: 21077443--21077643 Score: 239
Period size: 59 Copynumber: 3.4 Consensus size: 58
21077433 AAAATCTAGA
* *
21077443 TCAAAAATGAAATTTTTGGACA-TTC-GAGGGT-AAAATGGTAATTTTTGAAAGTTTTAAGG
1 TCAAAAATGTAATTTTTGGA-AGTTCAG-GGGTAAAAAT-GTAATTTTAG-AAGTTTTAAGG
* * *
21077502 TCAAAAATGTAAATTTTGGAAGTTTAGGGGTAAAAATGTAATTTTTAGAAGTTTTAGGG
1 TCAAAAATGTAATTTTTGGAAGTTCAGGGGTAAAAATGTAA-TTTTAGAAGTTTTAAGG
*
21077561 TCAACAATGTAATTTTTGGAAGTTCAGGGGTAAAAATGTAATTTTCAGAAGTTTTAAGG
1 TCAAAAATGTAATTTTTGGAAGTTCAGGGGTAAAAATGTAATTTT-AGAAGTTTTAAGG
* *
21077620 T-TAAAATGTAATTTTGGAGAAGTT
1 TCAAAAATGTAATTTTTG-GAAGTT
21077644 TGAGGGCCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
58 18 0.15
59 95 0.77
60 11 0.09
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (58 bp):
TCAAAAATGTAATTTTTGGAAGTTCAGGGGTAAAAATGTAATTTTAGAAGTTTTAAGG
Found at i:21078255 original size:18 final size:19
Alignment explanation
Indices: 21078225--21078275 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
21078215 TTCTCTTCTT
* *
21078225 TTTATTAATTATTATCAATA
1 TTTATT-ATTATTATAAACA
21078245 -TTATTATTATTA-AAACA
1 TTTATTATTATTATAAACA
21078262 TTTATTATTATTAT
1 TTTATTATTATTAT
21078276 TATTCATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATTATTATTATAAACA
Found at i:21080042 original size:205 final size:206
Alignment explanation
Indices: 21079399--21080071 Score: 1008
Period size: 206 Copynumber: 3.3 Consensus size: 206
21079389 TCTGGTTTCA
* * * *
21079399 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCGGAGCACTTATTTTGATCCACTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTT
* ** *
21079464 CTCTGTGTTTCATCAGGAAGACGGATTTGGTTCACTTCTCAACATCTCATCAGGAAGCTAACCAT
66 CTCTGTGTTTCATCAGGAAGACGGATTTGGTTCACTTCTTAGTATCTCATCAGGAAGCTAACCAC
* *
21079529 TTTATTGTTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCATAT
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
*
21079594 TGAGCGTGAGT
196 CGAGCGTGAGT
21079605 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTT
* * *
21079670 TTGTGTGTTTCATCAGGAAGACGGATTTGGTTCACTTCTCT-GTATCTCATCAAGAAGCTAACCA
66 CTCTGTGTTTCATCAGGAAGACGGATTTGGTTCACTTCT-TAGTATCTCATCAGGAAGCTAACCA
* * *
21079734 CTTTATTGCTTCGACCTGCTTCTCAGTATCCCATCAGGAAGCTGAGGTTCGAAGATTTGCTCATG
130 CTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATA
21079799 TCGAGCGTGAGT
195 TCGAGCGTGAGT
* * *** ** *
21079811 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGATGACGACCGCATTGTTTGTTTCAATCCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTT
* * * * *
21079876 CTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAGGAAGCTAACCA-
66 CTCTGTGTTTCATCAGGAAGACGGATTTGGTTCACTTCTTAGTATCTCATCAGGAAGCTAACCAC
*
21079940 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATTAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
*
21080005 CGAGCGTGGGT
196 CGAGCGTGAGT
* **
21080016 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCATCGTTTGTTTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTT
21080072 AGTAATCGCA
Statistics
Matches: 422, Mismatches: 43, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
205 123 0.29
206 299 0.71
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (206 bp):
TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTT
CTCTGTGTTTCATCAGGAAGACGGATTTGGTTCACTTCTTAGTATCTCATCAGGAAGCTAACCAC
TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATAT
CGAGCGTGAGT
Found at i:21080325 original size:78 final size:78
Alignment explanation
Indices: 21080179--21080342 Score: 186
Period size: 78 Copynumber: 2.1 Consensus size: 78
21080169 AGGCTCGGCA
* ** * *
21080179 TAAGAGATTGGTTGACGACGATCTACCTTAGGCTTGGGGTAAAAGATCAAATAGTTGCAATCTAC
1 TAAGAGATTGATTGACGACGATCTACCCCAGGCTCGGGGTAAAAGATCAAATAGTTGCAACCTAC
21080244 CCCTGGATCAGGG
66 CCCTGGATCAGGG
* * * * * *
21080257 TAAGAGATTGATTGATGATGATCTGCCCCAGGCTCGGGGTAAGAGATCAAATGGCTT-CAACCTG
1 TAAGAGATTGATTGACGACGATCTACCCCAGGCTCGGGGTAAAAGATCAAATAG-TTGCAACCTA
* *
21080321 CCCCTGGCTCGGGG
65 CCCCTGGATCAGGG
*
21080335 CAAGAGAT
1 TAAGAGAT
21080343 CAAAAGCTTC
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 69 0.97
79 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (78 bp):
TAAGAGATTGATTGACGACGATCTACCCCAGGCTCGGGGTAAAAGATCAAATAGTTGCAACCTAC
CCCTGGATCAGGG
Found at i:21080361 original size:38 final size:39
Alignment explanation
Indices: 21080279--21080353 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
21080269 TGATGATGAT
* *
21080279 CTGCCCCAGGCTCGGGGTAAGAGATCAAATGGCTTCAAC
1 CTGCCCCAGGCTCGGGGCAAGAGATCAAATAGCTTCAAC
*
21080318 CTGCCCCTGGCTCGGGGCAAGAGATCAAA-AGCTTCA
1 CTGCCCCAGGCTCGGGGCAAGAGATCAAATAGCTTCA
21080354 TTTTGCCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 6 0.18
39 27 0.82
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (39 bp):
CTGCCCCAGGCTCGGGGCAAGAGATCAAATAGCTTCAAC
Found at i:21080612 original size:94 final size:92
Alignment explanation
Indices: 21080402--21080675 Score: 397
Period size: 93 Copynumber: 3.0 Consensus size: 92
21080392 TGCAATTTGA
* * * * * * **
21080402 ATCCATCTCTACTGCATCTTCATGAAGATAGGATTTGATG-TCGAAGCTTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTAAAGCTTCATCTTGCTCTTACT
*
21080466 GCAACTTCAGAGAGATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
* * *
21080493 ATCCAAATTTACTACAACTTTAAGAGGATAGGAATTGATGTTTTAAAGCTTCATCTTGCTCTTAC
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATG-TTTAAAGCTTCATCTTGCTCTTAC
*
21080558 TACAACTTCAGAGAAGATAAAAACTTGCT
65 TACAACTTCAGAG-AGATAAAGACTTGCT
*
21080587 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTAAAGCTTCATCTTGCTCCTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTAAAGCTTCATCTTGCTCTTACT
21080652 ACAACTTCAGAGAGATAAAGACTT
66 ACAACTTCAGAGAGATAAAGACTT
21080676 TTCCCTTTGT
Statistics
Matches: 162, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
91 31 0.19
92 11 0.07
93 69 0.43
94 51 0.31
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (92 bp):
ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTAAAGCTTCATCTTGCTCTTACT
ACAACTTCAGAGAGATAAAGACTTGCT
Found at i:21080824 original size:50 final size:50
Alignment explanation
Indices: 21080770--21081090 Score: 253
Period size: 50 Copynumber: 6.4 Consensus size: 50
21080760 TTTGCTACTC
* * *
21080770 AGACCTTTCCTTTCTGTCTTTTTACGGTACTGGATTCGCCGTTAC-GACTT
1 AGACCTTTCCTTT-TGTCTTTTTATGGTACTGGATCCGCCGTTGCGGACTT
* ** *
21080820 AGACCTTTCCCTTTTGTCTTTTTGTGGTACTGGATCTACCGTTGCGGTCTT
1 AGACCTTT-CCTTTTGTCTTTTTATGGTACTGGATCCGCCGTTGCGGACTT
* ** * * * * *
21080871 AGATCTTTCCCATCGTGTCTTCTGA-GGTACACGG-TCTGCC-TTGC-GACTC
1 AGACCTTT-CC-TTTTGTCTTTTTATGGTAC-TGGATCCGCCGTTGCGGACTT
* * *
21080920 AGACCTTTTCCTTTTGTCTTTTTTTGGTACTGGATCCGCCATTGCGGTCTT
1 AGACC-TTTCCTTTTGTCTTTTTATGGTACTGGATCCGCCGTTGCGGACTT
* ** * *
21080971 AGATCTTTCCCGTCGTGTCTTTTGA-GGTACACGG-TCCGCCGTTGC-GACTT
1 AGACCTTT-CC-TTTTGTCTTTTTATGGTAC-TGGATCCGCCGTTGCGGACTT
* *
21081021 AGACCTTTCCCTTTTGTCTTTTTATGGTACTAGATCCGCCGTTGCGGTCTT
1 AGACCTTT-CCTTTTGTCTTTTTATGGTACTGGATCCGCCGTTGCGGACTT
* *
21081072 AGATCTTTCCCTTTGTCTT
1 AGACCTTTCCTTTTGTCTT
21081091 CACAGTACTG
Statistics
Matches: 212, Mismatches: 44, Indels: 30
0.74 0.15 0.10
Matches are distributed among these distances:
48 10 0.05
49 30 0.14
50 87 0.41
51 64 0.30
52 21 0.10
ACGTcount: A:0.12, C:0.26, G:0.21, T:0.41
Consensus pattern (50 bp):
AGACCTTTCCTTTTGTCTTTTTATGGTACTGGATCCGCCGTTGCGGACTT
Found at i:21080918 original size:100 final size:101
Alignment explanation
Indices: 21080806--21081082 Score: 439
Period size: 100 Copynumber: 2.8 Consensus size: 101
21080796 GTACTGGATT
* * **
21080806 CGCCGTTACGACTTAGACCTTTCCCTTTTGTCTTTTTGTGGTACTGGATCTACCGTTGCGGTCTT
1 CGCCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTATGGTACTGGATCCGCCGTTGCGGTCTT
21080871 AGATCTTTCCCATCGTGTCTTCTGAGGTACACGGTC
66 AGATCTTTCCCATCGTGTCTTCTGAGGTACACGGTC
* * * * *
21080907 TGCC-TTGCGACTCAGACCTTTTCCTTTTGTCTTTTTTTGGTACTGGATCCGCCATTGCGGTCTT
1 CGCCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTATGGTACTGGATCCGCCGTTGCGGTCTT
* *
21080971 AGATCTTTCCCGTCGTGTCTTTTGAGGTACACGGTC
66 AGATCTTTCCCATCGTGTCTTCTGAGGTACACGGTC
*
21081007 CGCCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTATGGTACTAGATCCGCCGTTGCGGTCTT
1 CGCCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTATGGTACTGGATCCGCCGTTGCGGTCTT
21081072 AGATCTTTCCC
66 AGATCTTTCCC
21081083 TTTGTCTTCA
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
100 90 0.57
101 69 0.43
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.40
Consensus pattern (101 bp):
CGCCGTTGCGACTTAGACCTTTCCCTTTTGTCTTTTTATGGTACTGGATCCGCCGTTGCGGTCTT
AGATCTTTCCCATCGTGTCTTCTGAGGTACACGGTC
Found at i:21080972 original size:151 final size:150
Alignment explanation
Indices: 21080670--21080981 Score: 412
Period size: 151 Copynumber: 2.1 Consensus size: 150
21080660 AGAGAGATAA
* * * *
21080670 AGACTTTTCCCTTTGTCTTTTTGCGGTATTGGATCCACCGTTGCGGTTTTAGATCTTACACGTCG
1 AGACCTTTCCCTTTGTCTTTTTGCGGTACTGGATCCACCGTTGCGGTCTTAGATCTTACACATCG
* *
21080735 TGTCTTCTGAGGTACATAGTCCGCCTTTGCTACTCAGACCTTTCCTTTCTGTCTTTTTACGGTAC
66 TGTCTTCTGAGGTACACAGTCCGCCTTTGCGACTCAGACCTTTCCTTTCTGTCTTTTTACGGTAC
* *
21080800 TGGATTCGCCGTTACGACTT
131 TGGATCCGCCATTACGACTT
* * * *
21080820 AGACCTTTCCCTTTTGTCTTTTTGTGGTACTGGATCTACCGTTGCGGTCTTAGATCTTTCCCATC
1 AGACCTTTCCC-TTTGTCTTTTTGCGGTACTGGATCCACCGTTGCGGTCTTAGATCTTACACATC
* * **
21080885 GTGTCTTCTGAGGTACACGGTCTGCC-TTGCGACTCAGACCTTTTCCTTT-TGTCTTTTTTTGGT
65 GTGTCTTCTGAGGTACACAGTCCGCCTTTGCGACTCAGACC-TTTCCTTTCTGTCTTTTTACGGT
* *
21080948 ACTGGATCCGCCATTGCGGTCTT
129 ACTGGATCCGCCATTAC-GACTT
*
21080971 AGATCTTTCCC
1 AGACCTTTCCC
21080982 GTCGTGTCTT
Statistics
Matches: 140, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
150 49 0.35
151 91 0.65
ACGTcount: A:0.13, C:0.26, G:0.20, T:0.41
Consensus pattern (150 bp):
AGACCTTTCCCTTTGTCTTTTTGCGGTACTGGATCCACCGTTGCGGTCTTAGATCTTACACATCG
TGTCTTCTGAGGTACACAGTCCGCCTTTGCGACTCAGACCTTTCCTTTCTGTCTTTTTACGGTAC
TGGATCCGCCATTACGACTT
Found at i:21081013 original size:151 final size:151
Alignment explanation
Indices: 21080670--21081031 Score: 394
Period size: 151 Copynumber: 2.4 Consensus size: 151
21080660 AGAGAGATAA
* * * ** * * * *
21080670 AGACTTTTCCCT-TTGTCTTTTTGCGGTATTGGATCCACCGTTGCGGTTTTAGATCTTACACGTC
1 AGACCTTTCCCTCGTGTCTTTTTGAGGTACCGGATCCACCGTTGCGGTCTTAGATCTTTCCCATC
* *
21080734 GTGTCTTCTGAGGTACATAGTCCGCCTTTGCTACTCAGACCTTTCCTTTCTGTCTTTTTACGGTA
66 GTGTCTTCTGAGGTACACAGTCCGCCTTTGCGACTCAGACCTTTCCTTTCTGTCTTTTTACGGTA
* *
21080799 CTGGATTCGCCGTTACGACTT
131 CTGGATCCGCCATTACGACTT
** * * *
21080820 AGACCTTTCCCTTTTGTCTTTTTGTGGTACTGGATCTACCGTTGCGGTCTTAGATCTTTCCCATC
1 AGACCTTTCCCTCGTGTCTTTTTGAGGTACCGGATCCACCGTTGCGGTCTTAGATCTTTCCCATC
* * **
21080885 GTGTCTTCTGAGGTACACGGTCTGCC-TTGCGACTCAGACCTTTTCCTTT-TGTCTTTTTTTGGT
66 GTGTCTTCTGAGGTACACAGTCCGCCTTTGCGACTCAGACC-TTTCCTTTCTGTCTTTTTACGGT
* *
21080948 ACTGGATCCGCCATTGCGGTCTT
130 ACTGGATCCGCCATTAC-GACTT
* * * *
21080971 AGATCTTTCCCGTCGTGTC-TTTTGAGGTACACGG-TCCGCCGTTGC-GACTTAGACCTTTCCC
1 AGACCTTTCCC-TCGTGTCTTTTTGAGGTAC-CGGATCCACCGTTGCGGTCTTAGATCTTTCCC
21081032 TTTTGTCTTT
Statistics
Matches: 180, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
150 64 0.36
151 109 0.61
152 7 0.04
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.40
Consensus pattern (151 bp):
AGACCTTTCCCTCGTGTCTTTTTGAGGTACCGGATCCACCGTTGCGGTCTTAGATCTTTCCCATC
GTGTCTTCTGAGGTACACAGTCCGCCTTTGCGACTCAGACCTTTCCTTTCTGTCTTTTTACGGTA
CTGGATCCGCCATTACGACTT
Found at i:21081871 original size:108 final size:109
Alignment explanation
Indices: 21081676--21081890 Score: 308
Period size: 108 Copynumber: 2.0 Consensus size: 109
21081666 TGCAGGGCGA
** *
21081676 ATGAATTTTTATTGGAGGCAAAGCTCACATGGCTGAAAAGATTAAAAAATGACCCATATTAGTCA
1 ATGAATTTTTATTGGAGGCAAAGCTCACATGAATAAAAAGATTAAAAAATGACCCATATTAGTCA
* * *
21081741 AAGGATGCCAAATATAAAGTGAGCAAAGAATAGGGTTAGGTGGG
66 AAGAATGCCAAACACAAAGTGAGCAAAGAATAGGGTTAGGTGGG
** * *
21081785 ATGAA-TTTTATTGGAGGCAAAGCTTGCATGAATAAAAAGATT-AAAAATGACTCATATTGGTCA
1 ATGAATTTTTATTGGAGGCAAAGCTCACATGAATAAAAAGATTAAAAAATGACCCATATTAGTCA
*
21081848 AAGAATTGCCAAACCCAAAGTGAGCAAAGAATAGGGTTAGGTG
66 AAGAA-TGCCAAACACAAAGTGAGCAAAGAATAGGGTTAGGTG
21081891 CCCCAGATAT
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 23 0.24
108 66 0.70
109 5 0.05
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (109 bp):
ATGAATTTTTATTGGAGGCAAAGCTCACATGAATAAAAAGATTAAAAAATGACCCATATTAGTCA
AAGAATGCCAAACACAAAGTGAGCAAAGAATAGGGTTAGGTGGG
Found at i:21082159 original size:8 final size:8
Alignment explanation
Indices: 21082146--21082196 Score: 66
Period size: 8 Copynumber: 6.1 Consensus size: 8
21082136 CGACCTCTCC
21082146 TTTTCTTT
1 TTTTCTTT
21082154 TTTTCTTT
1 TTTTCTTT
*
21082162 TTTTGTTT
1 TTTTCTTT
*
21082170 TTTTGTTTT
1 TTTT-CTTT
21082179 TTCTTCTTT
1 TT-TTCTTT
21082188 TTTTCTTT
1 TTTTCTTT
21082196 T
1 T
21082197 CTTTTATTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 26 0.68
9 10 0.26
10 2 0.05
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.86
Consensus pattern (8 bp):
TTTTCTTT
Found at i:21082172 original size:23 final size:24
Alignment explanation
Indices: 21082145--21082201 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 24
21082135 TCGACCTCTC
21082145 CTTTTCTTTTTTTCTT-TTTTTGTT
1 CTTTTCTTTTTTTCTTCTTTTT-TT
21082169 -TTTT-TGTTTTTTCTTCTTTTTTT
1 CTTTTCT-TTTTTTCTTCTTTTTTT
21082192 CTTTTCTTTT
1 CTTTTCTTTT
21082202 ATTCATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
22 1 0.03
23 15 0.52
24 12 0.41
25 1 0.03
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (24 bp):
CTTTTCTTTTTTTCTTCTTTTTTT
Found at i:21083071 original size:9 final size:9
Alignment explanation
Indices: 21083059--21083095 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
21083049 CTTTTTCGAC
21083059 TTCTTTTTT
1 TTCTTTTTT
21083068 TTCTTTTTT
1 TTCTTTTTT
*
21083077 TT-TTTTTC
1 TTCTTTTTT
21083085 TT-TTTTTT
1 TTCTTTTTT
21083093 TTC
1 TTC
21083096 GATTTTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 14 0.56
9 11 0.44
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:21083079 original size:14 final size:14
Alignment explanation
Indices: 21083062--21083094 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
21083052 TTTCGACTTC
21083062 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
21083076 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
21083090 TTTTT
1 TTTTT
21083095 CGATTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (14 bp):
TTTTTTTTCTTTTT
Found at i:21083101 original size:21 final size:20
Alignment explanation
Indices: 21083039--21083134 Score: 63
Period size: 21 Copynumber: 4.5 Consensus size: 20
21083029 TTTTTCTTCC
21083039 TTTCTTTCTTCTTTTTCGACTTCTT
1 TTTCTTT-TT-TTTTT-GA-TT-TT
*
21083064 TTT-TTTCTTTTTT--TTTT
1 TTTCTTTTTTTTTTGATTTT
21083081 TTTCTTTTTTTTTTCGATTTT
1 TTTCTTTTTTTTTT-GATTTT
* *
21083102 TTGACCTTTTTTTTTGATTTT
1 TT-TCTTTTTTTTTTGATTTT
*
21083123 TTGCCTTTTTTT
1 TT-TCTTTTTTT
21083135 CAATTTTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
17 5 0.08
18 11 0.18
21 22 0.37
22 15 0.25
23 1 0.02
24 3 0.05
25 3 0.05
ACGTcount: A:0.04, C:0.14, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTCTTTTTTTTTTGATTTT
Found at i:21083102 original size:14 final size:14
Alignment explanation
Indices: 21083050--21083103 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
21083040 TTCTTTCTTC
*
21083050 TTTTTCGACTTCTTT
1 TTTTTCGA-TTTTTT
**
21083065 TTTTTCTTTTTTTT
1 TTTTTCGATTTTTT
21083079 TTTTTC---TTTTT
1 TTTTTCGATTTTTT
21083090 TTTTTCGATTTTTT
1 TTTTTCGATTTTTT
21083104 GACCTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 11 0.33
14 16 0.48
15 6 0.18
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTTCGATTTTTT
Found at i:21087355 original size:29 final size:29
Alignment explanation
Indices: 21087196--21087475 Score: 117
Period size: 28 Copynumber: 9.7 Consensus size: 29
21087186 GGATACCTGG
*
21087196 GGGTAAAATGGTAA-TTTTGG-ACTCTCGA
1 GGGTAAAATGGTAATTTTTGGAAAT-TCGA
* * *
21087224 GAGTAAAATGGTAATTTTGGGAAAATT-TA
1 GGGTAAAATGGTAATTTTTGG-AAATTCGA
* * * *
21087253 GGGTTAAAATGAT-A-TTTTAGACA-TCTAA
1 GGG-TAAAATGGTAATTTTTGGAAATTC-GA
* *
21087281 GGGTAAAA-GGTAATTTTTAGAAAAATC-A
1 GGGTAAAATGGTAATTTTT-GGAAATTCGA
* *
21087309 GGATCAAAAAATGG-AATTTTTGGACATTCGA
1 GGGT---AAAATGGTAATTTTTGGAAATTCGA
21087340 GGGTAAAATGGTAATTTTT-GAAAGTTTCG-
1 GGGTAAAATGGTAATTTTTGGAAA--TTCGA
* *
21087369 GGGTCAAAAATAG-AATTTTTGGAAGTTC-A
1 GGGT--AAAATGGTAATTTTTGGAAATTCGA
*
21087398 GGGGAAAAAAT-GTAATTTTT-GAAAGTTTCGA
1 -GGG-TAAAATGGTAATTTTTGGAAA--TTCGA
* * * *
21087429 GGTTAAAAT-GTAATTTTTGGAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGAAATTCGA
*
21087457 GGGTAAAAT-ATAATTTTTG
1 GGGTAAAATGGTAATTTTTG
21087476 AAGTTTCGAG
Statistics
Matches: 192, Mismatches: 31, Indels: 58
0.68 0.11 0.21
Matches are distributed among these distances:
26 3 0.02
27 8 0.04
28 63 0.33
29 51 0.27
30 38 0.20
31 27 0.14
32 2 0.01
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTGGAAATTCGA
Found at i:21087378 original size:59 final size:59
Alignment explanation
Indices: 21087200--21087503 Score: 208
Period size: 59 Copynumber: 5.2 Consensus size: 59
21087190 ACCTGGGGGT
* * * * *
21087200 AAAATGGTAA-TTTTGGAC-TCTCGAGAGTAAAATGGTAATTTTGGGAAAATTT-AGGGT-T
1 AAAATGG-AATTTTTGGACAT-TCGAGGGTAAAATGGTAATTTT-TGAAAGTTTCGGGGTCA
* * ** * *
21087258 AAAAT-G-ATATTTTAGACA-TCTAAGGGTAAAA-GGTAATTTTTAGAAA-AATCAGGATCAA
1 AAAATGGAAT-TTTTGGACATTC-GAGGGTAAAATGGTAATTTTT-GAAAGTTTCGGGGTC-A
21087316 AAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGAAAGTTTCGGGGTCA
1 AAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGAAAGTTTCGGGGTCA
* * * *
21087375 AAAATAGAATTTTTGGA-AGTTC-AGGGGAAAAAAT-GTAATTTTTGAAAGTTTCGAGGT-T
1 AAAATGGAATTTTTGGACA-TTCGA-GGG-TAAAATGGTAATTTTTGAAAGTTTCGGGGTCA
* * * * *
21087433 AAAATGTAATTTTTGGA-AGTTTGGGGGTAAAAT-ATAATTTTTG-AAGTTTCGAGGTCA
1 AAAATGGAATTTTTGGACA-TTCGAGGGTAAAATGGTAATTTTTGAAAGTTTCGGGGTCA
*
21087490 AAAATGTAATTTTT
1 AAAATGGAATTTTT
21087504 TAAGTTTGGG
Statistics
Matches: 203, Mismatches: 25, Indels: 37
0.77 0.09 0.14
Matches are distributed among these distances:
55 2 0.01
56 31 0.15
57 44 0.22
58 34 0.17
59 67 0.33
60 25 0.12
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (59 bp):
AAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTTGAAAGTTTCGGGGTCA
Found at i:21087453 original size:58 final size:58
Alignment explanation
Indices: 21087344--21087646 Score: 291
Period size: 58 Copynumber: 5.2 Consensus size: 58
21087334 ATTCGAGGGT
* *
21087344 AAAATGGTAATTTTTGAAAGTTTCGGGGTCAAAAATAG-AATTTTTGGAAGTTCAGGGGAA
1 AAAAT-GTAATTTTTGAAAGTTTCGAGGT-AAAAAT-GTAATTTTTGGAAGTTTAGGGGAA
* **
21087404 AAAATGTAATTTTTGAAAGTTTCGAGGTTAAAATGTAATTTTTGGAAGTTT-GGGGGT
1 AAAATGTAATTTTTGAAAGTTTCGAGGTAAAAATGTAATTTTTGGAAGTTTAGGGGAA
* * * *
21087461 AAAATATAATTTTTG-AAGTTTCGAGGTCAAAAATGTAATTTTT-TAAGTTTGGGGGTA
1 AAAATGTAATTTTTGAAAGTTTCGAGGT-AAAAATGTAATTTTTGGAAGTTTAGGGGAA
* *
21087518 AAAATATAATTTTT-AGAAGTTT-TAGGGTTAAAAATGTAA-TTTTGGAAGTTTA-GGGATA
1 AAAATGTAATTTTTGA-AAGTTTCGA-GG-TAAAAATGTAATTTTTGGAAGTTTAGGGGA-A
* * * * **
21087576 AAAATGTAATTTTTGGAAGTTT-AAGGGTAAAAATGTAATTTTGGAGAAGTTTGGGGGTC
1 AAAATGTAATTTTTGAAAGTTTCGA-GGTAAAAATGTAATTTTTG-GAAGTTTAGGGGAA
*
21087635 AAAATATAATTT
1 AAAATGTAATTT
21087647 CTGGATAGTT
Statistics
Matches: 208, Mismatches: 22, Indels: 27
0.81 0.09 0.11
Matches are distributed among these distances:
56 18 0.09
57 70 0.34
58 71 0.34
59 41 0.20
60 8 0.04
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (58 bp):
AAAATGTAATTTTTGAAAGTTTCGAGGTAAAAATGTAATTTTTGGAAGTTTAGGGGAA
Found at i:21087494 original size:29 final size:28
Alignment explanation
Indices: 21087315--21087617 Score: 242
Period size: 29 Copynumber: 10.5 Consensus size: 28
21087305 ATCAGGATCA
* * **
21087315 AAAAATGGAATTTTTGGACATTCGAGGGT
1 AAAAATGTAATTTTTGAAGTTTCGA-GGT
*
21087344 -AAAATGGTAATTTTTGAAAGTTTCGGGGT
1 AAAAAT-GTAATTTTTG-AAGTTTCGAGGT
* *
21087373 CAAAAATAG-AATTTTTGGAAG-TTCAGGGGA
1 -AAAAAT-GTAATTTTT-GAAGTTTC-GAGGT
21087403 AAAAATGTAATTTTTGAAAGTTTCGAGGT
1 AAAAATGTAATTTTTG-AAGTTTCGAGGT
* * *
21087432 TAAAATGTAATTTTTGGAAGTTTGGGGGT
1 AAAAATGTAATTTTT-GAAGTTTCGAGGT
*
21087461 -AAAATATAATTTTTGAAGTTTCGAGGT
1 AAAAATGTAATTTTTGAAGTTTCGAGGT
* * *
21087488 CAAAAATGTAATTTTTTAAGTTTGGGGGT
1 -AAAAATGTAATTTTTGAAGTTTCGAGGT
* *
21087517 AAAAATATAATTTTTAGAAGTTT-TAGGGTT
1 AAAAATGTAATTTTT-GAAGTTTCGA-GG-T
* *
21087547 AAAAATGTAATTTTGGAAGTTTAG-GGAT
1 AAAAATGTAATTTTTGAAGTTTCGAGG-T
*
21087575 AAAAATGTAATTTTTGGAAGTTT-AAGGGT
1 AAAAATGTAATTTTT-GAAGTTTCGA-GGT
21087604 AAAAATGTAATTTT
1 AAAAATGTAATTTT
21087618 GGAGAAGTTT
Statistics
Matches: 226, Mismatches: 29, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
27 11 0.05
28 51 0.23
29 118 0.52
30 39 0.17
31 7 0.03
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (28 bp):
AAAAATGTAATTTTTGAAGTTTCGAGGT
Found at i:21088773 original size:18 final size:19
Alignment explanation
Indices: 21088743--21088793 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
21088733 TCTCTTCTTT
* *
21088743 TTTATTAATTATTATCAATA
1 TTTATT-ATTATTATAAACA
21088763 -TTATTATTATTA-AAACA
1 TTTATTATTATTATAAACA
21088780 TTTATTATTATTAT
1 TTTATTATTATTAT
21088794 TATTCATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATTATTATTATAAACA
Found at i:21090788 original size:21 final size:21
Alignment explanation
Indices: 21090763--21090802 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
21090753 CAAAACAACG
21090763 TAGTTTT-ATCTTTTAACTTGA
1 TAGTTTTGA-CTTTTAACTTGA
21090784 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
21090803 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:21091203 original size:19 final size:20
Alignment explanation
Indices: 21091179--21091235 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
21091169 AAAATTATAG
* *
21091179 AATTTTTATAAA-TATTTTT
1 AATTTTTAAAAATTATTTTC
21091198 AA-TTTTAAAAATTATTTTC
1 AATTTTTAAAAATTATTTTC
*
21091217 AATTTTTGAAAATTATTTT
1 AATTTTTAAAAATTATTTT
21091236 GATTATTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.24
19 10 0.30
20 15 0.45
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTC
Found at i:21091228 original size:20 final size:19
Alignment explanation
Indices: 21091179--21091235 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
21091169 AAAATTATAG
*
21091179 AATTTTTATAAA-TATTTTT
1 AATTTTTA-AAATTATTTTC
*
21091198 AATTTTAAAAATTATTTTC
1 AATTTTTAAAATTATTTTC
21091217 AATTTTTGAAAATTATTTT
1 AATTTTT-AAAATTATTTT
21091236 GATTATTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.09
19 19 0.58
20 11 0.33
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTTAAAATTATTTTC
Found at i:21092729 original size:11 final size:11
Alignment explanation
Indices: 21092712--21092762 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
21092702 TAAAACTCAA
21092712 TTAATTTTAAAT
1 TTAA-TTTAAAT
*
21092724 TTATTTTACAAT
1 TTAATTTA-AAT
*
21092736 TTAAATTTAATT
1 TT-AATTTAAAT
21092748 TTAATTTAAAT
1 TTAATTTAAAT
21092759 TTAA
1 TTAA
21092763 AATTATTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
11 16 0.48
12 12 0.36
13 5 0.15
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:21092738 original size:7 final size:6
Alignment explanation
Indices: 21092712--21092781 Score: 58
Period size: 6 Copynumber: 12.0 Consensus size: 6
21092702 TAAAACTCAA
* * *
21092712 TTAATT TTAAAT TT-ATT TTACAAT TTAAAT TT-AAT TTTAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT TTAAAT
*
21092759 TTAAAA TT--AT TCTAAAT TTAAAT
1 TTAAAT TTAAAT T-TAAAT TTAAAT
21092782 AAATAGAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
4 2 0.04
5 10 0.19
6 32 0.62
7 8 0.15
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:21092755 original size:17 final size:17
Alignment explanation
Indices: 21092712--21092762 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
21092702 TAAAACTCAA
21092712 TTAATTTTAAATTT-ATT
1 TTAA-TTTAAATTTAATT
21092729 TTACAATTTAAATTTAATT
1 TT--AATTTAAATTTAATT
21092748 TTAATTTAAATTTAA
1 TTAATTTAAATTTAA
21092763 AATTATTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 15 0.48
18 9 0.29
19 7 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAATTTAAATTTAATT
Found at i:21092776 original size:23 final size:23
Alignment explanation
Indices: 21092728--21092781 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
21092718 TTAAATTTAT
* *
21092728 TTTACAATTTAAATTTAATTTTAA
1 TTTA-AATTTAAAATTAATTTAAA
21092752 TTTAAATTTAAAATT-ATTCTAAA
1 TTTAAATTTAAAATTAATT-TAAA
21092775 TTTAAAT
1 TTTAAAT
21092782 AAATAGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 3 0.11
23 20 0.74
24 4 0.15
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAAATTTAAAATTAATTTAAA
Found at i:21094585 original size:30 final size:30
Alignment explanation
Indices: 21094550--21094762 Score: 229
Period size: 30 Copynumber: 7.2 Consensus size: 30
21094540 CTAAATTGTC
**
21094550 CAAAAATTACATTTTGACATCTAAACTTTT
1 CAAAAATTACATTTTGACCCCTAAACTTTT
* * * * *
21094580 TAAAAATTATATTTTAACCCTTAAACTTTC
1 CAAAAATTACATTTTGACCCCTAAACTTTT
21094610 CAAAAATTACATTTTGACTCCC-AAACTTTT
1 CAAAAATTACATTTTGAC-CCCTAAACTTTT
*
21094640 CAAATATTACATTTTTG-CCCCTAAACTTTT
1 CAAAAATTACA-TTTTGACCCCTAAACTTTT
* *
21094670 CAAATATTACATTTTTG-CCCTTAAACTTTT
1 CAAAAATTACA-TTTTGACCCCTAAACTTTT
* * *
21094700 CAAAATTTACATTTTTACCCCTAAAC-TTC
1 CAAAAATTACATTTTGACCCCTAAACTTTT
* *
21094729 CAAAAATTACATTTTTACCCCTAAA-TTTC
1 CAAAAATTACATTTTGACCCCTAAACTTTT
21094758 CAAAA
1 CAAAA
21094763 TATCATTTTT
Statistics
Matches: 158, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
29 41 0.26
30 110 0.70
31 7 0.04
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.40
Consensus pattern (30 bp):
CAAAAATTACATTTTGACCCCTAAACTTTT
Found at i:21094808 original size:29 final size:29
Alignment explanation
Indices: 21094726--21094893 Score: 118
Period size: 29 Copynumber: 5.8 Consensus size: 29
21094716 ACCCCTAAAC
**
21094726 TTCCAAAAATTA-CATTTTTACCC-CTAAAT
1 TTCCAAAAATTATCA-TTTTACCCTC-GGAT
**
21094755 TTCC-AAAA-TATCATTTTTGTCCTC-GAGT
1 TTCCAAAAATTATCA-TTTTACCCTCGGA-T
*
21094783 TTCCAAAAATTATCATTTTACTCTCGGAT
1 TTCCAAAAATTATCATTTTACCCTCGGAT
* * *
21094812 GTCTAAAAATTA-CTGTTTTACCCTCGGAT
1 TTCCAAAAATTATC-ATTTTACCCTCGGAT
* *
21094841 GTT-CAAAAATTATCGTTTTACCCTC-AAGT
1 -TTCCAAAAATTATCATTTTACCCTCGGA-T
*
21094870 TTCCAAAAATTACCATTTTACCCT
1 TTCCAAAAATTATCATTTTACCCT
21094894 AGACATCCAA
Statistics
Matches: 113, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
27 3 0.03
28 22 0.19
29 79 0.70
30 9 0.08
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (29 bp):
TTCCAAAAATTATCATTTTACCCTCGGAT
Found at i:21102430 original size:37 final size:37
Alignment explanation
Indices: 21102353--21102502 Score: 129
Period size: 37 Copynumber: 3.9 Consensus size: 37
21102343 GTTATTGGAT
* * * **
21102353 CACCGACACAAAGCCTTCTAAGCATATAGCCTGATTA
1 CACCGACACAAAGCCTACTAAGCACAAAGCCTGAAAA
* * *
21102390 CACCGGCACAAAGCCTATTAAGCACAAAGCTTGAAAA
1 CACCGACACAAAGCCTACTAAGCACAAAGCCTGAAAA
* *
21102427 CACCGACACAGAGCCAGCCTACTAGGCACAAAGCCTGGAAA
1 CACCGACACA-A---AGCCTACTAAGCACAAAGCCTGAAAA
* * * * *
21102468 CACCGGCATAGAGCCTACTAGGCACAAAGCTTGAA
1 CACCGACACAAAGCCTACTAAGCACAAAGCCTGAA
21102503 TTTGTGTAAG
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
37 60 0.66
38 1 0.01
41 30 0.33
ACGTcount: A:0.37, C:0.30, G:0.19, T:0.14
Consensus pattern (37 bp):
CACCGACACAAAGCCTACTAAGCACAAAGCCTGAAAA
Found at i:21102456 original size:41 final size:37
Alignment explanation
Indices: 21102401--21102502 Score: 114
Period size: 41 Copynumber: 2.6 Consensus size: 37
21102391 ACCGGCACAA
* *
21102401 AGCCTATTAAGCACAAAGCTTGAAAACACCGACACAGAG
1 AGCCTACTAGGCACAAAGCTTGAAAACACCG--ACAGAG
* * * *
21102440 CCAGCCTACTAGGCACAAAGCCTGGAAACACCGGCATAG
1 --AGCCTACTAGGCACAAAGCTTGAAAACACCGACAGAG
21102479 AGCCTACTAGGCACAAAGCTTGAA
1 AGCCTACTAGGCACAAAGCTTGAA
21102503 TTTGTGTAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 22 0.42
39 4 0.08
41 27 0.51
ACGTcount: A:0.38, C:0.28, G:0.21, T:0.13
Consensus pattern (37 bp):
AGCCTACTAGGCACAAAGCTTGAAAACACCGACAGAG
Found at i:21109467 original size:37 final size:37
Alignment explanation
Indices: 21109405--21109618 Score: 243
Period size: 37 Copynumber: 5.8 Consensus size: 37
21109395 GGATCATCGA
* * * * **
21109405 CACAAAGCCTGCTAGGCATATAGCTTGATTACACCGG
1 CACAGAGCCTACTAGGCACAAAGCTTGAAAACACCGG
* *
21109442 CACAGAGCCTACTAAGCACAAAGCTTGAAAACACCGA
1 CACAGAGCCTACTAGGCACAAAGCTTGAAAACACCGG
* *
21109479 CACAG-GACCTACTAGGCATAAAGCTTGAAAACACTGG
1 CACAGAG-CCTACTAGGCACAAAGCTTGAAAACACCGG
* *
21109516 CACAAAGCCTACTAGGTACAAAGCCTT-AAAACACCGG
1 CACAGAGCCTACTAGGCACAAAG-CTTGAAAACACCGG
** *
21109553 CACAGAGCCTACTTTGCACAAAGCCTGAAAACACCGG
1 CACAGAGCCTACTAGGCACAAAGCTTGAAAACACCGG
* *
21109590 CACAGAGCTTACTAGGCACAAAGCCTGAA
1 CACAGAGCCTACTAGGCACAAAGCTTGAA
21109619 TTTGTTTAAG
Statistics
Matches: 149, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
36 3 0.02
37 142 0.95
38 4 0.03
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (37 bp):
CACAGAGCCTACTAGGCACAAAGCTTGAAAACACCGG
Found at i:21109673 original size:22 final size:21
Alignment explanation
Indices: 21109647--21109697 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
21109637 TTCACAAAGG
*
21109647 ATTATACATGTCAACAAAAAT
1 ATTATACATGACAACAAAAAT
*
21109668 CATTATATATGACAACAAAAAT
1 -ATTATACATGACAACAAAAAT
21109690 A-TATACAT
1 ATTATACAT
21109698 CAATTCTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.23
21 1 0.04
22 19 0.73
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (21 bp):
ATTATACATGACAACAAAAAT
Found at i:21112435 original size:14 final size:13
Alignment explanation
Indices: 21112403--21112441 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
21112393 AATCAAAACA
*
21112403 AATAAAATGAAAT
1 AATAAAAAGAAAT
21112416 AATAAAAAGAAAT
1 AATAAAAAGAAAT
21112429 AACT-AAAAGAAAT
1 AA-TAAAAAGAAAT
21112442 CAAATCTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (13 bp):
AATAAAAAGAAAT
Found at i:21113632 original size:71 final size:71
Alignment explanation
Indices: 21113535--21113692 Score: 228
Period size: 71 Copynumber: 2.2 Consensus size: 71
21113525 CATCACGTCC
* * *
21113535 TATGTTGCGACAAAAAGGTGAGTCTACTCGTTTGGTGTAATCGTACATGCGTTGTCGTGACATAG
1 TATGTCGCGACAAAAAGATGAGTCTACTCGTTTGGTGTAATCGTACATGCATTGTCGTGACATAG
*
21113600 GTGACG
66 GTGACA
*
21113606 TATGTCGCGA-AAAAGAGATGAGTCTACTCTTTTGGTGTAATCGTACATGCATTGTCGTGACATA
1 TATGTCGCGACAAAA-AGATGAGTCTACTCGTTTGGTGTAATCGTACATGCATTGTCGTGACATA
*
21113670 GGTGATA
65 GGTGACA
* *
21113677 TATGTCGTGAGAAAAA
1 TATGTCGCGACAAAAA
21113693 AGTCAGCATC
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
70 4 0.05
71 70 0.90
72 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (71 bp):
TATGTCGCGACAAAAAGATGAGTCTACTCGTTTGGTGTAATCGTACATGCATTGTCGTGACATAG
GTGACA
Found at i:21122044 original size:29 final size:29
Alignment explanation
Indices: 21122012--21122193 Score: 179
Period size: 30 Copynumber: 6.1 Consensus size: 29
21122002 TGTTTTATTT
* * * *
21122012 AAAATTACGTTGTACCCCTTAAACTTTCAA
1 AAAATTACATTTTA-CCCTCAAACTTTCTA
*
21122042 AAAATATAAATTTTACCC-CAAAACTTTCTA
1 AAAAT-TACATTTTACCCTC-AAACTTTCTA
*
21122072 AAAATTGCATTTTAACCCTCAAACTTTCTA
1 AAAATTACATTTT-ACCCTCAAACTTTCTA
* * * *
21122102 GAAATTCCATTTGACCCTTAAACTTTCTA
1 AAAATTACATTTTACCCTCAAACTTTCTA
21122131 AAAATTACATTTTGACCCTCAAACTTTCTA
1 AAAATTACATTTT-ACCCTCAAACTTTCTA
* *
21122161 AAAATTATATTTTGACCAC-CAAACTTTCCA
1 AAAATTACATTTT-ACC-CTCAAACTTTCTA
21122191 AAA
1 AAA
21122194 TTTTAGTTTT
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
29 31 0.24
30 90 0.70
31 8 0.06
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTACCCTCAAACTTTCTA
Found at i:21122195 original size:59 final size:59
Alignment explanation
Indices: 21122027--21122193 Score: 194
Period size: 59 Copynumber: 2.8 Consensus size: 59
21122017 TACGTTGTAC
* * * *
21122027 CCCTTAAACTTTCAAAAAATATAAATTTT-ACCCCAAAACTTTCTAAAAATTGCATTTTAA
1 CCCTCAAACTTTCTAAAAAT-TAAATTTTGACCCC-AAACTTTCTAAAAATTACATTTTGA
* ** *
21122087 CCCTCAAACTTTCTAGAAATTCCA-TTTGACCCTTAAACTTTCTAAAAATTACATTTTGA
1 CCCTCAAACTTTCTAAAAATTAAATTTTGACCC-CAAACTTTCTAAAAATTACATTTTGA
* *
21122146 CCCTCAAACTTTCTAAAAATTATATTTTGACCACCAAACTTTCCAAAA
1 CCCTCAAACTTTCTAAAAATTAAATTTTGACC-CCAAACTTTCTAAAA
21122194 TTTTAGTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
58 3 0.03
59 50 0.56
60 36 0.40
61 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (59 bp):
CCCTCAAACTTTCTAAAAATTAAATTTTGACCCCAAACTTTCTAAAAATTACATTTTGA
Found at i:21128354 original size:24 final size:24
Alignment explanation
Indices: 21128319--21128370 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
21128309 TCGCATTCAT
*
21128319 CATTCATACCCATCTAGTTAGGAG
1 CATTCATACCCATCTAATTAGGAG
*
21128343 CATTCATGCCCATCTAATTAGGAG
1 CATTCATACCCATCTAATTAGGAG
21128367 CATT
1 CATT
21128371 TGACTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (24 bp):
CATTCATACCCATCTAATTAGGAG
Found at i:21129155 original size:45 final size:43
Alignment explanation
Indices: 21128874--21129802 Score: 582
Period size: 44 Copynumber: 21.8 Consensus size: 43
21128864 TACAGTCTAG
* * * *
21128874 TCTTTTACCCCTAAGTCAAGAGGGACAGATTAAAGAATATCCAA
1 TCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGCACATCCAA
**
21128918 TCTTTTACCCCTAAGTCAAGAGGGATAGATTGAAG-ACCATCCAA
1 TCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGCA-CATCCAA
* * *
21128962 TCTTTTACCCCTAAGTCAATAGGGGCAAATTGAAG-ACCATCTAA
1 TCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGCA-CATCCAA
*
21129006 TCTTTTACCCCTAAGTTAAGAGGGGCAGATTGAAAGCCATCATCCAA
1 TCTTTTACCCCTAA-TCAAGAGGGGCAGATTG-AAG-CA-CATCCAA
* * *
21129053 TCTTTTACCCCTAATCTAGAAGGACAGATTGAAGC-CATCCAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCACATCCAA
* * *
21129095 TCTTTTACCCTTAATCAAGAGGGGCAGAATGAAGCCACAACCTAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG-CACATCC-AA
*
21129140 TCTTTTACCCCTAATCAAGAGGGGCAAATTGAAG--CATCCAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCACATCCAA
*
21129181 TCTTTTA-CCCTAATC-AGA-GGGCAGATTGAAGACACA-CTAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG-CACATCCAA
** * * * * *
21129221 TCTCATACCCC-GA-CCA-TGTGGCATATT-AA--ATCATCCAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCA-CATCCAA
* * *
21129259 TCTTTTACCCCTAAGTTAAGAGGGGCATATTAAAGCCATCATCCAA
1 TCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAG-CA-CATCCAA
* *
21129305 TCTTTTA-CCCTAATCAAGAAGGGCAGGTTGAAGCCACCATCCAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG-CA-CATCCAA
* **
21129349 TCTTTTACCTCTAATCAAGAGAAGCAGATTGAAGACACA-CCAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG-CACATCCAA
* * * * * *
21129392 TCTCTTA-CCTTGATC-A-TGGGGTAGATTGAA--AAAGTCCCAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCACA-T-CCAA
* * *
21129432 TCTCTTACGCC-AATC-ATA-GGGCAGATTGAAAGC-CATCCAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTG-AAGCACATCCAA
* * * * *
21129472 TCTCTTACCTC-GA-CCA-TGGGGCAGATTGAAG-ACAT-C-A
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCACATCCAA
* * *
21129509 TCTAATCTACCCC-GATC-A-TGGGGCAGATTGAAGCCACTATCCAA
1 TCT--TTTACCCCTAATCAAGAGGGGCAGATTGAAG-CAC-ATCCAA
21129553 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGTCACCATCCAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG-CA-CATCCAA
* *
21129598 TCTTTTACCTCTAATCAAGAGAGGCAGATTGAAGACACAT-CAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG-CACATCCAA
* * * * *
21129641 TATCTTA-CCCTGATC-A-TGGGGCAGATTGAAAAAGCA-ATCTAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTG---AAGCACATCCAA
* * * * * *
21129683 TCTTTTACCCC-GA-CCA-TGCGACAGATTAAAGACATCATCCAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG-CA-CATCCAA
* * * * *
21129725 TCTCTTACCCC-GATC-A-TGGGGTAGATTGAAGCCACTACCCAA
1 TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAG-CAC-ATCCAA
*
21129767 TCTTTTACCTCTAAATCAAGAGGGGCAGATTGAAGC
1 TCTTTTACCCCT-AATCAAGAGGGGCAGATTGAAGC
21129803 TACCATCTCA
Statistics
Matches: 714, Mismatches: 109, Indels: 123
0.75 0.12 0.13
Matches are distributed among these distances:
36 1 0.00
37 8 0.01
38 25 0.04
39 40 0.06
40 97 0.14
41 27 0.04
42 136 0.19
43 33 0.05
44 157 0.22
45 126 0.18
46 43 0.06
47 21 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
TCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCACATCCAA
Found at i:21129603 original size:249 final size:248
Alignment explanation
Indices: 21128999--21129674 Score: 750
Period size: 249 Copynumber: 2.7 Consensus size: 248
21128989 AATTGAAGAC
* * *
21128999 CATCTAATCTTTTACCCCTAAGTTAAGAGGGGCAGATTGAAAGCCATCATCCAATCTTTTACCCC
1 CATCCAATCTTCTACCCC--AGATAAGAGGGGCAGATTG-AAGCCATCATCCAATCTTTTACCCC
* * * *
21129064 TAATCTAGAAGGACAGATTGAAG--CCATCCAATCTTTTACC-CTTAATCAAGAGGGGCAGAATG
63 TAATCAAGAAGGGCAGATTGAAGCACCATCCAATCTTTTACCTC-TAATCAAGAGAGGCAGATTG
* * * * * ** *
21129126 AAGCCACAACCTAATCTTTTACCCCTAATCAAGAGGGGCAAATTGAAGCA-TCCAATCTTTTACC
127 AAGACAC-ACC-AATCTCTTA-CCCTGATC-A-TGGGGCAGATTGAAAAAGTCCAATCTCTTACC
* * *
21129190 CTAATCAGAGGGCAGATTGAAGACACACTAATCTCATACCCCGACCATGTGGCATATTAAAT
187 CTAATCAGAGGGCAGATTGAAGACACACCAATCTCATACCCCGACCATGGGGCAGATTAAAT
* * * *
21129252 CATCCAATCTTTTACCCCTAAGTTAAGAGGGGCATATTAAAGCCATCATCCAATCTTTTA-CCCT
1 CATCCAATCTTCTACCCC--AGATAAGAGGGGCAGATTGAAGCCATCATCCAATCTTTTACCCCT
* *
21129316 AATCAAGAAGGGCAGGTTGAAGCCACCATCCAATCTTTTACCTCTAATCAAGAGAAGCAGATTGA
64 AATCAAGAAGGGCAGATTGAAG-CACCATCCAATCTTTTACCTCTAATCAAGAGAGGCAGATTGA
* *
21129381 AGACACACCAATCTCTTACCTTGATCATGGGGTAGATTGAAAAAGTCCCAATCTCTTACGCC-AA
128 AGACACACCAATCTCTTACCCTGATCATGGGGCAGATTGAAAAAGT-CCAATCTCTTAC-CCTAA
* * *
21129445 TCATAGGGCAGATTGAA-AGC-CATCCAATCTCTTACCTCGACCATGGGGCAGATTGAAGA-
191 TCAGAGGGCAGATTGAAGA-CACA-CCAATCTCATACCCCGACCATGGGGCAGATT-AA-AT
* *
21129504 CAT-C-ATCTAATCTACCCC-GATCA-TGGGGCAGATTGAAGCCA-CTATCCAATCTTTTACCCC
1 CATCCAATCT--TCTACCCCAGATAAGAGGGGCAGATTGAAGCCATC-ATCCAATCTTTTACCCC
*
21129564 TAATCAAGAGGGGCAGATTGAAGTCACCATCCAATCTTTTACCTCTAATCAAGAGAGGCAGATTG
63 TAATCAAGAAGGGCAGATTGAAG-CACCATCCAATCTTTTACCTCTAATCAAGAGAGGCAGATTG
* *
21129629 AAGACACATCAATATCTTACCCTGATCATGGGGCAGATTGAAAAAG
127 AAGACACACCAATCTCTTACCCTGATCATGGGGCAGATTGAAAAAG
21129675 CAATCTAATC
Statistics
Matches: 369, Mismatches: 39, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
247 1 0.00
248 28 0.08
249 121 0.33
250 9 0.02
251 86 0.23
252 43 0.12
253 40 0.11
254 40 0.11
255 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (248 bp):
CATCCAATCTTCTACCCCAGATAAGAGGGGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAA
TCAAGAAGGGCAGATTGAAGCACCATCCAATCTTTTACCTCTAATCAAGAGAGGCAGATTGAAGA
CACACCAATCTCTTACCCTGATCATGGGGCAGATTGAAAAAGTCCAATCTCTTACCCTAATCAGA
GGGCAGATTGAAGACACACCAATCTCATACCCCGACCATGGGGCAGATTAAAT
Found at i:21129629 original size:169 final size:169
Alignment explanation
Indices: 21129451--21129800 Score: 410
Period size: 169 Copynumber: 2.1 Consensus size: 169
21129441 CCAATCATAG
* * *
21129451 GGCAGATTGAAAG-C-CATCCAATCTCTTA-CCTCGACCATGGGGCAGATTGAAGACATC-ATCT
1 GGCAGATTGAAAGACACAT-CAATATCTTACCCT-GACCATGGGGCAGATTGAA-AAAGCAATCT
* * * * * *
21129512 AATC-TACCCCGATCATGGGGCAGATTGAAGCCA-CTATCCAATCTTTTACCCCTAATCAAGAGG
63 AATCTTACCCCGACCATGCGACAGATTAAAGACATC-ATCCAATCTCTTACCCC-AATC-A-AGG
* *
21129575 GGCAGATTGAAGTCACCATCCAATCTTTTACCTCT-AATCAAGAGA
124 GGCAGATTGAAGCCACCACCCAATCTTTTACCTCTAAATCAAGAGA
*
21129620 GGCAGATTG-AAGACACATCAATATCTTACCCTGATCATGGGGCAGATTGAAAAAGCAATCTAAT
1 GGCAGATTGAAAGACACATCAATATCTTACCCTGACCATGGGGCAGATTGAAAAAGCAATCTAAT
* * *
21129684 CTTTTACCCCGACCATGCGACAGATTAAAGACATCATCCAATCTCTTACCCCGATCATGGGGTAG
66 C--TTACCCCGACCATGCGACAGATTAAAGACATCATCCAATCTCTTACCCCAATCAAGGGGCAG
* *
21129749 ATTGAAGCCACTACCCAATCTTTTACCTCTAAATCAAGAGG
129 ATTGAAGCCACCACCCAATCTTTTACCTCTAAATCAAGAGA
21129790 GGCAGATTGAA
1 GGCAGATTGAA
21129801 GCTACCATCT
Statistics
Matches: 154, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
168 6 0.04
169 78 0.51
170 25 0.16
171 4 0.03
172 40 0.26
173 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (169 bp):
GGCAGATTGAAAGACACATCAATATCTTACCCTGACCATGGGGCAGATTGAAAAAGCAATCTAAT
CTTACCCCGACCATGCGACAGATTAAAGACATCATCCAATCTCTTACCCCAATCAAGGGGCAGAT
TGAAGCCACCACCCAATCTTTTACCTCTAAATCAAGAGA
Found at i:21129751 original size:42 final size:41
Alignment explanation
Indices: 21128944--21129775 Score: 326
Period size: 42 Copynumber: 19.7 Consensus size: 41
21128934 CAAGAGGGAT
* *
21128944 AGATTGAAGAC-CATCCAATCTTTTACCCCTAAGTCAATAGGGGC
1 AGATTGAAGACACATCCAATCTCTTACCCC-GA-TC-AT-GGGGC
* * * * * *
21128988 AAATTGAAGAC-CATCTAATCTTTTACCCCTAAGTTAAGAGGGGC
1 AGATTGAAGACACATCCAATCTCTTACCCC---GATCA-TGGGGC
* * * *
21129032 AGATTGAAAGCCATCATCCAATCTTTTACCCCTAATC-TAGAAGGAC
1 AGATTG-AAGACA-CATCCAATCTCTTACCCC-GATCAT-G--GGGC
* ** *
21129078 AGATTGAAG-C-CATCCAATCTTTTACCCTTAATCAAGAGGGGC
1 AGATTGAAGACACATCCAATCTCTTACCC-CGATC-A-TGGGGC
* * * * * *
21129120 AGAATGAAGCCACAACCTAATCTTTTACCCCTAATCAAGAGGGGC
1 AGATTGAAGACACATCC-AATCTCTTACCCC-GATC-A-TGGGGC
* * **
21129165 AAATTGAAG---CATCCAATCTTTTACCCTAATCA-GAGGGC
1 AGATTGAAGACACATCCAATCTCTTACCCCGATCATG-GGGC
* * * *
21129203 AGATTGAAGACACA-CTAATCTCATACCCCGACCATGTGGC
1 AGATTGAAGACACATCCAATCTCTTACCCCGATCATGGGGC
* * * * * *
21129243 ATATT-AA-A-TCATCCAATCTTTTACCCCTAAGTTAAGAGGGGC
1 AGATTGAAGACACATCCAATCTCTTACCCC---GATCA-TGGGGC
* * * * ** *
21129285 ATATTAAAGCCATCATCCAATCTTTTACCCTAATCAAGAAGGGC
1 AGATTGAAGACA-CATCCAATCTCTTACCCCGATCATG--GGGC
* * * ** * *
21129329 AGGTTGAAGCCACCATCCAATCTTTTACCTCTAATCAAGAGAAGC
1 AGATTGAAGACA-CATCCAATCTCTTACC-CCGATCATG-G-GGC
** *
21129374 AGATTGAAGACACA-CCAATCTCTTACCTTGATCATGGGGT
1 AGATTGAAGACACATCCAATCTCTTACCCCGATCATGGGGC
* * *
21129414 AGATTGAA-A-A-AGTCCCAATCTCTTACGCCAATCATAGGGC
1 AGATTGAAGACACA-T-CCAATCTCTTACCCCGATCATGGGGC
* *
21129454 AGATTGAA-AGC-CATCCAATCTCTTACCTCGACCATGGGGC
1 AGATTGAAGA-CACATCCAATCTCTTACCCCGATCATGGGGC
*
21129494 AGATTGAAGACATCATCTAA--TC-TACCCCGATCATGGGGC
1 AGATTGAAGACA-CATCCAATCTCTTACCCCGATCATGGGGC
* * * *
21129533 AGATTGAAGCCACTATCCAATCTTTTACCCCTAATCAAGAGGGGC
1 AGATTGAAGACAC-ATCCAATCTCTTACCCC-GATC-A-TGGGGC
* * ** *
21129578 AGATTGAAGTCACCATCCAATCTTTTACCTCTAATCAAGAGAGGC
1 AGATTGAAGACA-CATCCAATCTCTTACC-CCGATCATG-G-GGC
* *
21129623 AGATTGAAGACACAT-CAATATCTTACCCTGATCATGGGGC
1 AGATTGAAGACACATCCAATCTCTTACCCCGATCATGGGGC
* * * * * *
21129663 AGATTGAA-AAAGCAATCTAATCTTTTACCCCGACCATGCGAC
1 AGATTGAAGACA-C-ATCCAATCTCTTACCCCGATCATGGGGC
* *
21129705 AGATTAAAGACATCATCCAATCTCTTACCCCGATCATGGGGT
1 AGATTGAAGACA-CATCCAATCTCTTACCCCGATCATGGGGC
* * *
21129747 AGATTGAAGCCACTACCCAATCTTTTACC
1 AGATTGAAGACAC-ATCCAATCTCTTACC
21129776 TCTAAATCAA
Statistics
Matches: 618, Mismatches: 110, Indels: 122
0.73 0.13 0.14
Matches are distributed among these distances:
37 4 0.01
38 27 0.04
39 37 0.06
40 107 0.17
41 25 0.04
42 143 0.23
43 35 0.06
44 84 0.14
45 111 0.18
46 28 0.05
47 17 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (41 bp):
AGATTGAAGACACATCCAATCTCTTACCCCGATCATGGGGC
Found at i:21130277 original size:94 final size:94
Alignment explanation
Indices: 21130116--21130314 Score: 308
Period size: 94 Copynumber: 2.1 Consensus size: 94
21130106 AGCGCTGAAG
* *
21130116 AAGCCAAATTCAGTGGGACCGAACGAAATTGATCCTCTTTTTAGTCTTTGCTCTATTCTTGTTAC
1 AAGCCAAATTCAGTGGGACCGAACGAAATTGATCCTCCTTTTAGTCTTTGCTCCATTCTTGTTAC
* *
21130181 ACAGCAACAAGGAAAGAGGGTTAGCTGTT
66 ACAACAACAAGGAAAGAGGGTTAGCTCTT
* * *
21130210 AAGCCAAATTCAGTGGGATCGAACGAAATTGATCCTCCTTTTAGTCTTTGCTCCGTTTTTGTTAC
1 AAGCCAAATTCAGTGGGACCGAACGAAATTGATCCTCCTTTTAGTCTTTGCTCCATTCTTGTTAC
*
21130275 ACAACAACGAGGAAAGAGGGTTAGCTCTT
66 ACAACAACAAGGAAAGAGGGTTAGCTCTT
*
21130304 AGAGCCCAATT
1 A-AGCCAAATT
21130315 TTTCCGGACC
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 87 0.92
95 8 0.08
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (94 bp):
AAGCCAAATTCAGTGGGACCGAACGAAATTGATCCTCCTTTTAGTCTTTGCTCCATTCTTGTTAC
ACAACAACAAGGAAAGAGGGTTAGCTCTT
Found at i:21131784 original size:30 final size:30
Alignment explanation
Indices: 21131713--21131822 Score: 132
Period size: 30 Copynumber: 3.6 Consensus size: 30
21131703 TATGTTTCAG
* * *
21131713 CCCCCAAACTTTCAAAAAATTTCAAATTTT-A
1 CCCCTAAACTTTCTAAAAA-TT-ACATTTTAA
* *
21131744 CTCCCAAAACTTTCTAAAAATTGCATTTTAA
1 C-CCCTAAACTTTCTAAAAATTACATTTTAA
21131775 CCCCTAAACTTTCTAAAAATTACATTTTAA
1 CCCCTAAACTTTCTAAAAATTACATTTTAA
*
21131805 CCCCTAAACTTTCCAAAA
1 CCCCTAAACTTTCTAAAA
21131823 TTTTAGTTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
30 49 0.70
31 5 0.07
32 16 0.23
ACGTcount: A:0.40, C:0.26, G:0.01, T:0.33
Consensus pattern (30 bp):
CCCCTAAACTTTCTAAAAATTACATTTTAA
Found at i:21151511 original size:9 final size:9
Alignment explanation
Indices: 21151499--21151533 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
21151489 TCTAAAACTT
21151499 TCAAAATTC
1 TCAAAATTC
21151508 TCAAAATTC
1 TCAAAATTC
*
21151517 TTAAAATTC
1 TCAAAATTC
*
21151526 TCTAAATT
1 TCAAAATT
21151534 TTTTACACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (9 bp):
TCAAAATTC
Found at i:21151709 original size:48 final size:46
Alignment explanation
Indices: 21151636--21151731 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 46
21151626 TGGTAAAAGT
*
21151636 TAATTTTTAATTTTTTTTTATTTTTATAATTTAAAT-ATTTTTTAA
1 TAATATTTAATTTTTTTTTATTTTTATAATTTAAATAATTTTTTAA
*
21151681 TAATATTTAATTATTTTATATTATTTTTATAATTTAATTAATTTTTTAA
1 TAATATTTAATT-TTTT-T-TTATTTTTATAATTTAAATAATTTTTTAA
21151730 TA
1 TA
21151732 TTGTTTATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
45 11 0.24
46 4 0.09
47 1 0.02
48 18 0.40
49 11 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (46 bp):
TAATATTTAATTTTTTTTTATTTTTATAATTTAAATAATTTTTTAA
Found at i:21151716 original size:18 final size:17
Alignment explanation
Indices: 21151653--21151730 Score: 62
Period size: 17 Copynumber: 4.8 Consensus size: 17
21151643 TAATTTTTTT
21151653 TTATTTTTATAATTTAA
1 TTATTTTTATAATTTAA
*
21151670 ATATTTTT-TAA--TAA
1 TTATTTTTATAATTTAA
21151684 -TATTTAATTAT--TTTATA
1 TTATTT--TTATAATTTA-A
21151701 TTATTTTTATAATTTAA
1 TTATTTTTATAATTTAA
21151718 TTAATTTTT-TAAT
1 TT-ATTTTTATAAT
21151731 ATTGTTTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 20
0.70 0.01 0.28
Matches are distributed among these distances:
13 5 0.10
14 3 0.06
15 2 0.04
16 10 0.20
17 15 0.30
18 15 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTTTATAATTTAA
Found at i:21153205 original size:15 final size:15
Alignment explanation
Indices: 21153185--21153218 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
21153175 ATCATCACCA
21153185 CCCATGCAAGCATAG
1 CCCATGCAAGCATAG
*
21153200 CCCATGCAAGCATCG
1 CCCATGCAAGCATAG
21153215 CCCA
1 CCCA
21153219 CGCAGCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.41, G:0.18, T:0.12
Consensus pattern (15 bp):
CCCATGCAAGCATAG
Found at i:21154243 original size:20 final size:21
Alignment explanation
Indices: 21154208--21154263 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
21154198 ATAAATACTA
*
21154208 AAACTCTAATTTTAAAAA-CCT
1 AAACCCTAA-TTTAAAAACCCT
21154229 AAACCCTAATTTAAAAACCCT
1 AAACCCTAATTTAAAAACCCT
21154250 AAA-CCTAA-TTAAAA
1 AAACCCTAATTTAAAA
21154264 CAAAAACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 6 0.18
20 13 0.39
21 14 0.42
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (21 bp):
AAACCCTAATTTAAAAACCCT
Found at i:21154650 original size:29 final size:29
Alignment explanation
Indices: 21154591--21154651 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
21154581 CCTTAATTTT
* *
21154591 AATATAAGGATTAAATTGAGTAACTTGTG
1 AATATAAGGATTAAATTGAGTAAATTATG
21154620 AATAT-AGGACTT-AATTGAGTCAAATTATG
1 AATATAAGGA-TTAAATTGAGT-AAATTATG
21154649 AAT
1 AAT
21154652 TTTAGGGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (29 bp):
AATATAAGGATTAAATTGAGTAAATTATG
Found at i:21155543 original size:18 final size:18
Alignment explanation
Indices: 21155520--21155561 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
21155510 AAACCGAACT
21155520 GTTGACTTTGACCAAACA
1 GTTGACTTTGACCAAACA
* *
21155538 GTTGACTTTGACCGAACC
1 GTTGACTTTGACCAAACA
21155556 GTTGAC
1 GTTGAC
21155562 CGTTGATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (18 bp):
GTTGACTTTGACCAAACA
Found at i:21155575 original size:26 final size:26
Alignment explanation
Indices: 21155545--21155595 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
21155535 ACAGTTGACT
*
21155545 TTGACCGAACCGTTGACCGTTGATTG
1 TTGACCGAACCGTTGACCATTGATTG
** *
21155571 TTGACTTAATCGTTGACCATTGATT
1 TTGACCGAACCGTTGACCATTGATT
21155596 TTTCTATTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
TTGACCGAACCGTTGACCATTGATTG
Found at i:21162392 original size:18 final size:17
Alignment explanation
Indices: 21162366--21162402 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
21162356 ATTGCAAACA
21162366 TTTTTTTATTTTACTTT
1 TTTTTTTATTTTACTTT
*
21162383 TTTTTCTTATTTTCCTTT
1 TTTTT-TTATTTTACTTT
21162401 TT
1 TT
21162403 CAAGTGACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTATTTTACTTT
Found at i:21163023 original size:17 final size:18
Alignment explanation
Indices: 21162986--21163025 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
21162976 AACAAAAGGG
*
21162986 ATGCAGTGACAAAATAAA
1 ATGCAATGACAAAATAAA
*
21163004 ATGCAATGACAATA-AAA
1 ATGCAATGACAAAATAAA
21163021 ATGCA
1 ATGCA
21163026 TGAAAACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.17
Consensus pattern (18 bp):
ATGCAATGACAAAATAAA
Found at i:21168491 original size:18 final size:18
Alignment explanation
Indices: 21168468--21168513 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
21168458 GAATCGTGTG
* *
21168468 ACCCGACCCGTTGACCCA
1 ACCCGACCCATTGACCAA
21168486 ACCCGACCCATTGACCAA
1 ACCCGACCCATTGACCAA
*
21168504 ACCCAACCCA
1 ACCCGACCCA
21168514 ATCCGCTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.50, G:0.11, T:0.09
Consensus pattern (18 bp):
ACCCGACCCATTGACCAA
Found at i:21168564 original size:23 final size:23
Alignment explanation
Indices: 21168532--21168602 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
21168522 TCTTTGACCA
*
21168532 AACCAAATCGAACCGTTGACTTT
1 AACCGAATCGAACCGTTGACTTT
*
21168555 GACCGAATCGAACCGTTGACTTT
1 AACCGAATCGAACCGTTGACTTT
* *
21168578 AACTGAA-CTGAACTGTTGACTTT
1 AACCGAATC-GAACCGTTGACTTT
21168601 AA
1 AA
21168603 TTGAACCGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 1 0.02
23 41 0.98
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (23 bp):
AACCGAATCGAACCGTTGACTTT
Found at i:21168607 original size:23 final size:23
Alignment explanation
Indices: 21168540--21168615 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
21168530 CAAACCAAAT
* * *
21168540 CGAACCGTTGACTTTGACCGAAT
1 CGAACCGTTGACTTTAACTGAAC
21168563 CGAACCGTTGACTTTAACTGAAC
1 CGAACCGTTGACTTTAACTGAAC
* * *
21168586 TGAACTGTTGACTTTAATTGAAC
1 CGAACCGTTGACTTTAACTGAAC
21168609 CGAACCG
1 CGAACCG
21168616 AATTATTGAC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (23 bp):
CGAACCGTTGACTTTAACTGAAC
Found at i:21169054 original size:17 final size:17
Alignment explanation
Indices: 21169032--21169064 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21169022 CATGATATTG
*
21169032 AGATTAAGATTGAGATT
1 AGATTAAAATTGAGATT
21169049 AGATTAAAATTGAGAT
1 AGATTAAAATTGAGAT
21169065 ATACATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (17 bp):
AGATTAAAATTGAGATT
Found at i:21170899 original size:18 final size:18
Alignment explanation
Indices: 21170878--21170912 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21170868 TTACTTTTAA
*
21170878 ATTATTTAATAATAAATT
1 ATTATTTAATAAGAAATT
*
21170896 ATTATTTGATAAGAAAT
1 ATTATTTAATAAGAAAT
21170913 ATGTATGATT
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:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (18 bp):
ATTATTTAATAAGAAATT
Found at i:21171032 original size:18 final size:19
Alignment explanation
Indices: 21171002--21171049 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
21170992 TTAATAATTT
21171002 ATTTAT-TTAAATTT-TTAA
1 ATTTATATT-AATTTATTAA
21171020 ATTTATATTAATTTATTAA
1 ATTTATATTAATTTATTAA
*
21171039 CTTTCATATTA
1 ATTT-ATATTA
21171050 TCTTAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 11 0.42
19 9 0.35
20 6 0.23
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTATATTAATTTATTAA
Found at i:21175829 original size:25 final size:20
Alignment explanation
Indices: 21175777--21175817 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21175767 TATTTGAACC
21175777 TTAATTTTGTTTTGGAGCTT
1 TTAATTTTGTTTTGGAGCTT
21175797 TTAATTTTGTTTTGGAGCTT
1 TTAATTTTGTTTTGGAGCTT
21175817 T
1 T
21175818 ATTTCAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (20 bp):
TTAATTTTGTTTTGGAGCTT
Found at i:21181993 original size:64 final size:64
Alignment explanation
Indices: 21181916--21182044 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
21181906 TCATTAATTC
21181916 CATGTCCAATGCATCCACATCAAAAGCAGAATAATGACAAGGATTCATGTTTAAAAGGTACCTA
1 CATGTCCAATGCATCCACATCAAAAGCAGAATAATGACAAGGATTCATGTTTAAAAGGTACCTA
21181980 CATGTCCAATGCATCCACATCAAAAGCAGAATAATGACAAGGATTCATGTTTAAAAGGTACCTA
1 CATGTCCAATGCATCCACATCAAAAGCAGAATAATGACAAGGATTCATGTTTAAAAGGTACCTA
21182044 C
1 C
21182045 TATCCTGATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (64 bp):
CATGTCCAATGCATCCACATCAAAAGCAGAATAATGACAAGGATTCATGTTTAAAAGGTACCTA
Done.