Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 74 of 318
Found at i:21546042 original size:21 final size:21
Alignment explanation
Indices: 21546016--21546056 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21546006 ACTCAGAGCG
*
21546016 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGAGAGGCA
*
21546037 GAGGCAGCGGCGAGAGAGGC
1 GAGGCAGCAGCGAGAGAGGC
21546057 GGAGCAGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.54, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGAGAGGCA
Found at i:21553012 original size:11 final size:13
Alignment explanation
Indices: 21552983--21553015 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
21552973 GCCGTGTGTC
21552983 ACACACGGTCTAA
1 ACACACGGTCTAA
21552996 ACACACGGTCTAA
1 ACACACGGTCTAA
21553009 ACACACG
1 ACACACG
21553016 CCCATGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.33, G:0.15, T:0.12
Consensus pattern (13 bp):
ACACACGGTCTAA
Found at i:21555185 original size:45 final size:45
Alignment explanation
Indices: 21555121--21555210 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
21555111 AAATAATCAG
** *
21555121 TCTAAATTTTTACCCATGATAGATATTTGTGTATTTTGATGCCTA
1 TCTAAATTTTTACCCATGATAGATATTTGCATATTTTGATACCTA
21555166 TCTAAATTTTTACCCATGATAGATATTTGCATATTTTGATACCTA
1 TCTAAATTTTTACCCATGATAGATATTTGCATATTTTGATACCTA
21555211 ATGGCAGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (45 bp):
TCTAAATTTTTACCCATGATAGATATTTGCATATTTTGATACCTA
Found at i:21556797 original size:28 final size:28
Alignment explanation
Indices: 21556766--21556820 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
21556756 TGCTTGGATT
21556766 GGTGCTATGTTATGTTGTGTAGGTGTGC
1 GGTGCTATGTTATGTTGTGTAGGTGTGC
21556794 GGTGCTATGTTATGTTGTGTAGGTGTG
1 GGTGCTATGTTATGTTGTGTAGGTGTG
21556821 TGCATAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.11, C:0.05, G:0.40, T:0.44
Consensus pattern (28 bp):
GGTGCTATGTTATGTTGTGTAGGTGTGC
Found at i:21560884 original size:87 final size:86
Alignment explanation
Indices: 21560728--21560889 Score: 204
Period size: 87 Copynumber: 1.9 Consensus size: 86
21560718 CATGCATAAA
* * * * *
21560728 GTTGAGTTCTTACTCTTAATAGATTCATAATGCAGGGTTTAGGTGGTCCTATTGAGACGGACTTG
1 GTTGAGTTATTACTCTTAATAGATTCATAATCCAGAGTTTAGGTGGTACTAGTGAGACGGACTTG
21560793 ATGAATTCACCAACATGTGAG
66 ATGAATTCACCAACATGTGAG
*
21560814 GTTGAGTTTATTACTCTTAAT-GAGTTCAT-ATCCCAGAGTTTGGGTGGTACTAGTGAGACAGG-
1 GTTGAG-TTATTACTCTTAATAGA-TTCATAAT-CCAGAGTTTAGGTGGTACTAGTGAGAC-GGA
*
21560876 CTTTATGAATTCAC
62 CTTGATGAATTCAC
21560890 GAAATTTAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
86 10 0.15
87 53 0.82
88 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (86 bp):
GTTGAGTTATTACTCTTAATAGATTCATAATCCAGAGTTTAGGTGGTACTAGTGAGACGGACTTG
ATGAATTCACCAACATGTGAG
Found at i:21571650 original size:17 final size:17
Alignment explanation
Indices: 21571620--21571666 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
21571610 TTATTTCTAC
**
21571620 TTTATTTTGCTTTTCCT
1 TTTATTTTTATTTTCCT
* *
21571637 TTTGTTTTTATTTTTCT
1 TTTATTTTTATTTTCCT
21571654 TTTATTTTTATTT
1 TTTATTTTTATTT
21571667 CTATTTCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTCCT
Found at i:21571662 original size:23 final size:23
Alignment explanation
Indices: 21571620--21571672 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
21571610 TTATTTCTAC
* *
21571620 TTTATTTTGCTTTTCCTTTTGTT
1 TTTATTTTGCTTTTACTTTTATT
* *
21571643 TTTATTTTTCTTTTATTTTTATT
1 TTTATTTTGCTTTTACTTTTATT
*
21571666 TCTATTT
1 TTTATTT
21571673 CCAATTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.77
Consensus pattern (23 bp):
TTTATTTTGCTTTTACTTTTATT
Found at i:21581919 original size:17 final size:17
Alignment explanation
Indices: 21581897--21581929 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21581887 GGAACAACCA
21581897 TTAAGTTGTTCTATAAC
1 TTAAGTTGTTCTATAAC
*
21581914 TTAAGTTGTTTTATAA
1 TTAAGTTGTTCTATAA
21581930 AAGGTCTAGT
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:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (17 bp):
TTAAGTTGTTCTATAAC
Found at i:21583838 original size:2 final size:2
Alignment explanation
Indices: 21583831--21583858 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21583821 AGATGTAATC
21583831 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
21583859 GAATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:21589192 original size:30 final size:31
Alignment explanation
Indices: 21589106--21589196 Score: 98
Period size: 30 Copynumber: 2.9 Consensus size: 31
21589096 TTAGAGGGAA
* * *
21589106 AAAAAAAAGAAAAGATGAATTAGGGATTAAGG
1 AAAAGAAAGAAAATATCAATT-GGGATTAAGG
21589138 AAAAGAAAGAAAATATCAATTGGGATTAA-G
1 AAAAGAAAGAAAATATCAATTGGGATTAAGG
*
21589168 AAGAAGAAA-AGAAA-ATCGATTGGGATTAA
1 AA-AAGAAAGA-AAATATCAATTGGGATTAA
21589197 CATTTTAGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
30 18 0.34
31 17 0.32
32 18 0.34
ACGTcount: A:0.57, C:0.02, G:0.23, T:0.18
Consensus pattern (31 bp):
AAAAGAAAGAAAATATCAATTGGGATTAAGG
Found at i:21600708 original size:44 final size:42
Alignment explanation
Indices: 21600636--21600758 Score: 147
Period size: 44 Copynumber: 2.9 Consensus size: 42
21600626 TAGGATTTCG
*
21600636 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCA
1 ATATGTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT-A
* * * * * *
21600679 ATATGTGATTTACGTGTAAAACCATGTCTGGGACATCGGCATT
1 ATATGTGATTT-CATGTAAGACCACGTCTGGGACGTTGGCATA
* *
21600722 GTATTTGATTTCATGTAAGACCACGTCTGGGACGTTG
1 ATATGTGATTTCATGTAAGACCACGTCTGGGACGTTG
21600759 ACATTGTACG
Statistics
Matches: 65, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 21 0.32
43 19 0.29
44 25 0.38
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
ATATGTGATTTCATGTAAGACCACGTCTGGGACGTTGGCATA
Found at i:21600764 original size:42 final size:42
Alignment explanation
Indices: 21600637--21600766 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
21600627 AGGATTTCGA
* **
21600637 TATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCAA
1 TATGTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT-TG
* * * * *
21600680 TATGTGATTTACGTGTAAAACCATGTCTGGGACATCGGCATTG
1 TATGTGATTT-CATGTAAGACCACGTCTGGGACGTTGGCATTG
* *
21600723 TATTTGATTTCATGTAAGACCACGTCTGGGACGTTGACATTG
1 TATGTGATTTCATGTAAGACCACGTCTGGGACGTTGGCATTG
21600765 TA
1 TA
21600767 CGAGCTTTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 28 0.39
43 18 0.25
44 25 0.35
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TATGTGATTTCATGTAAGACCACGTCTGGGACGTTGGCATTG
Found at i:21604877 original size:2 final size:2
Alignment explanation
Indices: 21604870--21604899 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21604860 ATAAATATTC
21604870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21604900 GTGTTCATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21608017 original size:54 final size:54
Alignment explanation
Indices: 21607935--21608042 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
21607925 TCTCAGGATG
21607935 ATTTTTCCCACATCAATGGTCTTTCCAGTTAAAATCGAGTATAATAAGACCATT
1 ATTTTTCCCACATCAATGGTCTTTCCAGTTAAAATCGAGTATAATAAGACCATT
21607989 ATTTTTCCCACATCAATGGTCTTTCCAGTTAAAATCGAGTATAATAAGACCATT
1 ATTTTTCCCACATCAATGGTCTTTCCAGTTAAAATCGAGTATAATAAGACCATT
21608043 CGCTCTAATG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (54 bp):
ATTTTTCCCACATCAATGGTCTTTCCAGTTAAAATCGAGTATAATAAGACCATT
Found at i:21609173 original size:17 final size:18
Alignment explanation
Indices: 21609146--21609181 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
21609136 AATCAAATAT
21609146 ATGCATATTAATTTATTA
1 ATGCATATTAATTTATTA
21609164 ATGC-TATTAATTTATTA
1 ATGCATATTAATTTATTA
21609181 A
1 A
21609182 AACAAGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAATTTATTA
Found at i:21617457 original size:11 final size:11
Alignment explanation
Indices: 21617441--21617480 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
21617431 TTGGATTCAC
21617441 ATATGACTCAA
1 ATATGACTCAA
* *
21617452 ATATGATTTAA
1 ATATGACTCAA
*
21617463 ATATGAATCAA
1 ATATGACTCAA
21617474 ATATGAC
1 ATATGAC
21617481 AAATCAGTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (11 bp):
ATATGACTCAA
Found at i:21617707 original size:90 final size:90
Alignment explanation
Indices: 21617607--21617809 Score: 280
Period size: 90 Copynumber: 2.3 Consensus size: 90
21617597 GAAAGAAACA
* * * *
21617607 AATTTTTTTGTATTAAATTGTTTGGTTATTGTACTTGACAAAAATGGATTTCTTTAAATTAAAGT
1 AATTTGTTTGTATTAAATTGTTTGGTTATTGTACATGACAAAAATGGATTTATTTAAACTAAAGT
* * * * * *
21617672 GTATGGCATGTGCATGATAGAAATG
66 GAATGACATGTACAAGACAAAAATG
* * **
21617697 ACTTTGTTTGTATTAAATTGTTTGGTTATTGTACATGACAGAAATGGATTTATTTGCACTAAAGT
1 AATTTGTTTGTATTAAATTGTTTGGTTATTGTACATGACAAAAATGGATTTATTTAAACTAAAGT
21617762 GAATGACATGTACAAGACAAAAATG
66 GAATGACATGTACAAGACAAAAATG
21617787 AATTTGTTTGTATTAAATTGTTT
1 AATTTGTTTGTATTAAATTGTTT
21617810 TTTGTATTGG
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 98 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (90 bp):
AATTTGTTTGTATTAAATTGTTTGGTTATTGTACATGACAAAAATGGATTTATTTAAACTAAAGT
GAATGACATGTACAAGACAAAAATG
Found at i:21617740 original size:46 final size:45
Alignment explanation
Indices: 21617608--21617809 Score: 158
Period size: 44 Copynumber: 4.5 Consensus size: 45
21617598 AAAGAAACAA
* * *
21617608 ATTTTTTTGTATTAAATTGTTTGGTTATTGTACTTGACAAAAATGG
1 ATTTGTTTGTATTAAATTGTTTGGTCA-TGTACATGACAAAAATGG
* ** * * * * *
21617654 ATTTCTTTAAATTAAAGTGTATGG-CATGTGCATGATAGAAAT-G
1 ATTTGTTTGTATTAAATTGTTTGGTCATGTACATGACAAAAATGG
* *
21617697 ACTTTGTTTGTATTAAATTGTTTGGTTATTGTACATGACAGAAATGG
1 A-TTTGTTTGTATTAAATTGTTTGGTCA-TGTACATGACAAAAATGG
* * * * ** * * *
21617744 ATTTATTTGCACTAAAGTGAAT-GACATGTACAAGACAAAAATGA
1 ATTTGTTTGTATTAAATTGTTTGGTCATGTACATGACAAAAATGG
21617788 ATTTGTTTGTATTAAATTGTTT
1 ATTTGTTTGTATTAAATTGTTT
21617810 TTTGTATTGG
Statistics
Matches: 117, Mismatches: 35, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
43 2 0.02
44 61 0.52
45 4 0.03
46 48 0.41
47 2 0.02
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (45 bp):
ATTTGTTTGTATTAAATTGTTTGGTCATGTACATGACAAAAATGG
Found at i:21619872 original size:34 final size:32
Alignment explanation
Indices: 21619811--21619874 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 32
21619801 TTAATATTAA
21619811 ATTAATATAATACTTATCAAGATAAATATTCT
1 ATTAATATAATACTTATCAAGATAAATATTCT
21619843 ATTAAT-TAATACTTATCTATAAGATAAATATT
1 ATTAATATAATACTTATC---AAGATAAATATT
21619875 AAATTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 11 0.38
32 6 0.21
34 12 0.41
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (32 bp):
ATTAATATAATACTTATCAAGATAAATATTCT
Found at i:21619881 original size:34 final size:32
Alignment explanation
Indices: 21619803--21619957 Score: 111
Period size: 32 Copynumber: 4.6 Consensus size: 32
21619793 TAATCACTTT
21619803 AATATTAAATTAATATAATACTTATCAAGATA
1 AATATTAAATTAATATAATACTTATCAAGATA
**
21619835 AATATTCTATTAAT-TAATACTTATCTATAAGATA
1 AATATTAAATTAATATAATACTTATC---AAGATA
* * *
21619869 AATATTAAATTAAATTTAATA-TTAAGAT-AATCACTTT
1 AATATTAAATT-AATATAATACTT---ATCAA-GA--TA
*
21619906 AATATTAAATTAATAAAATAC-TATCAAGATA
1 AATATTAAATTAATATAATACTTATCAAGATA
* *
21619937 AATATTACATTTAATTTAATA
1 AATATTA-AATTAATATAATA
21619958 TTAAAGTTTA
Statistics
Matches: 96, Mismatches: 13, Indels: 28
0.70 0.09 0.20
Matches are distributed among these distances:
31 19 0.20
32 22 0.23
33 3 0.03
34 19 0.20
35 6 0.06
36 13 0.14
37 12 0.12
38 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (32 bp):
AATATTAAATTAATATAATACTTATCAAGATA
Found at i:21619919 original size:20 final size:18
Alignment explanation
Indices: 21619869--21619920 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
21619859 CTATAAGATA
21619869 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
21619886 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
21619906 AATATTAAATTAATA
1 AATATTAAATTAATA
21619921 AAATACTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:21620306 original size:20 final size:20
Alignment explanation
Indices: 21620259--21620306 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
21620249 TCTGGTTCAA
*
21620259 CCAATTTTTGGGTCTCAGTC
1 CCAATTTTTGGGTCTCAGGC
* * * *
21620279 TCAGTTTTTGGTTCTTAGGC
1 CCAATTTTTGGGTCTCAGGC
21620299 CCAATTTT
1 CCAATTTT
21620307 CGATCTCAAG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.46
Consensus pattern (20 bp):
CCAATTTTTGGGTCTCAGGC
Found at i:21622492 original size:101 final size:101
Alignment explanation
Indices: 21622317--21622539 Score: 279
Period size: 101 Copynumber: 2.2 Consensus size: 101
21622307 ACACATGCAT
* * * * * * * *
21622317 TGCCAAGG-CCCAGCCATGGTCTTACATTCATAGTGCCATAACTCAGTTATGGTCTTATTGTCAG
1 TGCCATGGTCCCA-CCATGGTCCTAAATTCAAAGTGCCATAACCCAGTTATAGTCTTATTATCAA
* * * *
21622381 AATGCCATAGCCCAGCTATGGTCTTACTTATAAATAC
65 AATGCCATAGCCCAGCTATGATCTTACATAAAAACAC
*
21622418 TGCCATGGTCCCACCATGGTCCTAAATTCAAAGTGCCATAACCCAGTTATAGTCTT-TTCATTAA
1 TGCCATGGTCCCACCATGGTCCTAAATTCAAAGTGCCATAACCCAGTTATAGTCTTATT-ATCAA
*
21622482 AATGCCATAGCCCAGCTATGATCTTACATAAAAACAT
65 AATGCCATAGCCCAGCTATGATCTTACATAAAAACAC
*
21622519 TGCCATGGTCCAACCATGGTC
1 TGCCATGGTCCCACCATGGTC
21622540 TTATCCGTCA
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
100 2 0.02
101 99 0.94
102 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (101 bp):
TGCCATGGTCCCACCATGGTCCTAAATTCAAAGTGCCATAACCCAGTTATAGTCTTATTATCAAA
ATGCCATAGCCCAGCTATGATCTTACATAAAAACAC
Found at i:21623969 original size:21 final size:21
Alignment explanation
Indices: 21623943--21623982 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21623933 CAAAACAATG
**
21623943 TAGTTTTGTTTTTTAACTTAA
1 TAGTTTTGACTTTTAACTTAA
21623964 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
21623983 TGGTTAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:21624377 original size:19 final size:19
Alignment explanation
Indices: 21624341--21624396 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
21624331 ATTTTTTAAA
*
21624341 ATAAAAATTTTAGAATTTTT
1 ATAAATATTTT-GAATTTTT
21624361 ATAAATATTTTGAA-TTTT
1 ATAAATATTTTGAATTTTT
* *
21624379 AAAAATTATTTTCAATTT
1 ATAAA-TATTTTGAATTT
21624397 ATGAAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 8 0.26
19 11 0.35
20 12 0.39
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
ATAAATATTTTGAATTTTT
Found at i:21624378 original size:18 final size:18
Alignment explanation
Indices: 21624341--21624396 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
21624331 ATTTTTTAAA
*
21624341 ATAAAAATTTTAGAATTTTT
1 ATAAATATTTT-GAA-TTTT
21624361 ATAAATATTTTGAATTTT
1 ATAAATATTTTGAATTTT
* *
21624379 AAAAATTATTTTCAATTT
1 ATAAA-TATTTTGAATTT
21624397 ATGAAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.25
19 14 0.44
20 10 0.31
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
ATAAATATTTTGAATTTT
Found at i:21624405 original size:20 final size:19
Alignment explanation
Indices: 21624357--21624410 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
21624347 ATTTTAGAAT
* *
21624357 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTCAA
21624375 TTTTAAAAATTATTTTCAA
1 TTTTAAAAATTATTTTCAA
*
21624394 TTTATGAAAATTATTTT
1 TTT-TAAAAATTATTTT
21624411 GATTATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 8 0.26
19 11 0.35
20 12 0.39
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTCAA
Found at i:21627367 original size:26 final size:24
Alignment explanation
Indices: 21627338--21627396 Score: 57
Period size: 26 Copynumber: 2.3 Consensus size: 24
21627328 TGTTTAAATG
21627338 TTAATGAATATTTATGTTAGTTATA-C
1 TTAATGAATA-TTATG-T-GTTATAGC
*
21627364 TTAAATGATTATTATGTGTTATATGC
1 TT-AATGAATATTATGTGTTATA-GC
21627390 TTAATGA
1 TTAATGA
21627397 GATTAAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 6 0.21
25 6 0.21
26 10 0.34
27 7 0.24
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (24 bp):
TTAATGAATATTATGTGTTATAGC
Found at i:21629426 original size:21 final size:21
Alignment explanation
Indices: 21629368--21629428 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
21629358 GGGCGTTACA
*
21629368 CCAACTCACCAAGAA-ATAGCC
1 CCAACTCACCAAGAAGCT-GCC
* *
21629389 CCAACTCATCAACAAGCTGCC
1 CCAACTCACCAAGAAGCTGCC
*
21629410 CCAACTTACCAAGAAGCTG
1 CCAACTCACCAAGAAGCTG
21629429 TCTTAAGAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.38, C:0.38, G:0.11, T:0.13
Consensus pattern (21 bp):
CCAACTCACCAAGAAGCTGCC
Found at i:21633734 original size:3 final size:3
Alignment explanation
Indices: 21633720--21633789 Score: 76
Period size: 3 Copynumber: 24.7 Consensus size: 3
21633710 ACATCTCTAT
* * *
21633720 TTC TTC TT- TTC TTC TTC TTC TTT TTC -TC TTC TTC TTA TAC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
21633765 TTC TTC TTC TTT TTC -TC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
21633790 ATACTGCCCA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
2 8 0.15
3 47 0.85
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:21633739 original size:14 final size:14
Alignment explanation
Indices: 21633719--21633789 Score: 74
Period size: 14 Copynumber: 5.1 Consensus size: 14
21633709 GACATCTCTA
21633719 TTTCTTCTT-TTCT
1 TTTCTTCTTCTTCT
*
21633732 TCTTCTTCTTTTTCT
1 T-TTCTTCTTCTTCT
* * *
21633747 CTTCTTCTTATACT
1 TTTCTTCTTCTTCT
21633761 TTTCTTCTTCTTCT
1 TTTCTTCTTCTTCT
21633775 TTT-TCTCTTCTTCT
1 TTTCT-TCTTCTTCT
21633789 T
1 T
21633790 ATACTGCCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
13 2 0.04
14 43 0.88
15 4 0.08
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTCTTCTTCTTCT
Found at i:21633768 original size:34 final size:34
Alignment explanation
Indices: 21633725--21633794 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
21633715 TCTATTTCTT
21633725 CTTTTCTTCTTCTTCTTTTTCTCTTCTTCTTATA
1 CTTTTCTTCTTCTTCTTTTTCTCTTCTTCTTATA
21633759 CTTTTCTTCTTCTTCTTTTTCTCTTCTTCTTATA
1 CTTTTCTTCTTCTTCTTTTTCTCTTCTTCTTATA
21633793 CT
1 CT
21633795 GCCCAGCCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (34 bp):
CTTTTCTTCTTCTTCTTTTTCTCTTCTTCTTATA
Found at i:21634866 original size:61 final size:62
Alignment explanation
Indices: 21634783--21634901 Score: 136
Period size: 61 Copynumber: 1.9 Consensus size: 62
21634773 GGCTACATAG
* * *
21634783 TTTATAACAACCGATAAAAGATTTG-ATTGGTCTCTATTGACT-GACTCTCCTACATACACGA
1 TTTATAACAACCGAAAAAAGA-TTGAACTGGTCTCGATTGACTCGACTCTCCTACATACACGA
* * *
21634844 TTTATAACAATC-AAAAACAGATTGAACTGGTCTCGGTTGACTCGGACTCTGCTACATA
1 TTTATAACAACCGAAAAA-AGATTGAACTGGTCTCGATTGACTC-GACTCTCCTACATA
21634902 TAAGAGCATA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
60 7 0.15
61 28 0.58
63 13 0.27
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (62 bp):
TTTATAACAACCGAAAAAAGATTGAACTGGTCTCGATTGACTCGACTCTCCTACATACACGA
Found at i:21641234 original size:21 final size:21
Alignment explanation
Indices: 21641210--21641253 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21641200 GAATCTTTAG
*
21641210 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
21641231 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
21641252 TA
1 TA
21641254 ATTAGGCCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:21643869 original size:21 final size:21
Alignment explanation
Indices: 21643801--21643871 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
21643791 ATTTTTGTAA
* * *
21643801 TATACTTTTTTGTCATAATTT
1 TATAATTTTTTGTTAAAATTT
* * *
21643822 TAGAATTTTTTAAGATTTAAATAT
1 TATAATTTTTT--G-TTAAAATTT
21643846 TATAATTTTTTGTTAAAATTT
1 TATAATTTTTTGTTAAAATTT
21643867 TATAA
1 TATAA
21643872 ATACACATAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 21 0.55
22 1 0.03
23 1 0.03
24 15 0.39
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (21 bp):
TATAATTTTTTGTTAAAATTT
Found at i:21653149 original size:22 final size:22
Alignment explanation
Indices: 21653124--21653172 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
21653114 TTTTCTTGTT
*
21653124 ATTTT-CTACCTATTTTGCTACC
1 ATTTTACTA-CTATATTGCTACC
* *
21653146 ATTTTACTATTATATTGCTACT
1 ATTTTACTACTATATTGCTACC
21653168 ATTTT
1 ATTTT
21653173 GTTGTTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTTTACTACTATATTGCTACC
Found at i:21653244 original size:30 final size:30
Alignment explanation
Indices: 21653210--21653272 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21653200 ACTTATTTTA
21653210 TTGTTAATTTTGTTATTAGTTTAAAGACAT
1 TTGTTAATTTTGTTATTAGTTTAAAGACAT
* *
21653240 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTAGTTTAAAGACAT
21653270 TTG
1 TTG
21653273 CTTGTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTAGTTTAAAGACAT
Found at i:21653426 original size:12 final size:12
Alignment explanation
Indices: 21653396--21653428 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
21653386 TATATATTTC
21653396 AAAATT-ATATA
1 AAAATTAATATA
21653407 AAAA-TAATATA
1 AAAATTAATATA
21653418 AAAATTAATAT
1 AAAATTAATAT
21653429 GGACGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:21654756 original size:16 final size:16
Alignment explanation
Indices: 21654735--21654765 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21654725 CTATGCATGC
*
21654735 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
21654751 AAAATACAAAAGACA
1 AAAATACAAAAGACA
21654766 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:21655955 original size:26 final size:26
Alignment explanation
Indices: 21655926--21655999 Score: 105
Period size: 26 Copynumber: 2.8 Consensus size: 26
21655916 TCTCATCCCT
21655926 ATTTTACCCTTGGTAAAATTTTGACA
1 ATTTTACCCTTGGTAAAATTTTGACA
* *
21655952 ATTTTACCCTTGGTGAAATTTTTGACC
1 ATTTTACCCTTGGT-AAAATTTTGACA
21655979 ATTTTA-CCTCTGGTAAAATTT
1 ATTTTACCCT-TGGTAAAATTT
21656000 CTAGAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 23 0.53
27 20 0.47
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTTGGTAAAATTTTGACA
Found at i:21655997 original size:27 final size:27
Alignment explanation
Indices: 21655926--21655999 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
21655916 TCTCATCCCT
21655926 ATTTTACCCTTGGTAAAA-TTTTGACA
1 ATTTTACCCTTGGTAAAATTTTTGACA
* *
21655952 ATTTTACCCTTGGTGAAATTTTTGACC
1 ATTTTACCCTTGGTAAAATTTTTGACA
21655979 ATTTTA-CCTCTGGTAAAATTT
1 ATTTTACCCT-TGGTAAAATTT
21656000 CTAGAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTGGTAAAATTTTTGACA
Found at i:21658503 original size:93 final size:93
Alignment explanation
Indices: 21658391--21658562 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21658381 GCCCATAAGT
* *
21658391 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21658456 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
21658484 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21658549 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
21658563 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21658558 original size:46 final size:46
Alignment explanation
Indices: 21658383--21658558 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
21658373 TGTAACCCGC
* * *
21658383 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
21658429 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
21658479 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
21658522 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21658559 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:21675195 original size:15 final size:14
Alignment explanation
Indices: 21675163--21675242 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 14
21675153 GAGATTTGTT
* *
21675163 TTATTTTTTTTATC
1 TTATTATTTTTATA
21675177 TTATTATTTTTACTA
1 TTATTATTTTTA-TA
*
21675192 TTATTATTATTTCTCA
1 TTATTATT-TTTAT-A
* *
21675208 TGTATATATTATTATT
1 T-TAT-TATTTTTATA
*
21675224 TATATTATTATTATA
1 T-TATTATTTTTATA
21675239 TTAT
1 TTAT
21675243 ATATGGCCTC
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
14 14 0.26
15 20 0.38
16 9 0.17
17 6 0.11
18 4 0.08
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (14 bp):
TTATTATTTTTATA
Found at i:21675364 original size:12 final size:13
Alignment explanation
Indices: 21675317--21675369 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 13
21675307 TTCTGACTAC
*
21675317 TATTATTATATA-
1 TATTATTATGTAT
21675329 TA-TA-TATGTAT
1 TATTATTATGTAT
*
21675340 TATTGTT-TGTAT
1 TATTATTATGTAT
21675352 TATTATTAT-TAT
1 TATTATTATGTAT
21675364 TATTAT
1 TATTAT
21675370 CACCCCTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 23 0.68
13 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
TATTATTATGTAT
Found at i:21675666 original size:127 final size:121
Alignment explanation
Indices: 21675444--21675668 Score: 299
Period size: 127 Copynumber: 1.8 Consensus size: 121
21675434 TTATTTTTGC
* * *
21675444 TATTACTATTATTATTATATATTAGTGTATATTTTTATGTATATATATATTTATATATAGTATTG
1 TATTACTATTATTATTATATAGTAGTGTATATTTTTATATATATATATATTTATATATAGTATTA
* *
21675509 TTTTTTATTACTTTAATTTAATATTTTTATTATATTTGCTTTTTGTATTTCTATATT
66 TTATTTATTACTTTAA-TTAATATTCTTATTATATTTGCTTTTTGTATTTCTATATT
* *
21675566 TATTATTATTATTATTATATAGTAGTGTGTATTTCTATTATATACATATATATATTTATATATAG
1 TATTACTATTATTATTATATAGTAGTGTATA-TT-T-TTATAT--ATATATATATTTATATATAG
*
21675631 TATTATTATTTACTTTACTTTAA-TATTATTCTTATTAT
61 TATTATTATTTA--TTACTTTAATTAATATTCTTATTAT
21675669 CATTATATCC
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
122 28 0.32
123 2 0.02
124 1 0.01
125 5 0.06
127 43 0.49
129 9 0.10
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (121 bp):
TATTACTATTATTATTATATAGTAGTGTATATTTTTATATATATATATATTTATATATAGTATTA
TTATTTATTACTTTAATTAATATTCTTATTATATTTGCTTTTTGTATTTCTATATT
Found at i:21678092 original size:19 final size:19
Alignment explanation
Indices: 21678070--21678116 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
21678060 CTTCCTTTCT
*
21678070 TTTGCATT-CATTCCATACA
1 TTTGCATTACATT-CAAACA
*
21678089 TTTGCATTACATTGAAACA
1 TTTGCATTACATTCAAACA
21678108 TTTGCATTA
1 TTTGCATTA
21678117 AACTTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCAAACA
Found at i:21686271 original size:44 final size:44
Alignment explanation
Indices: 21686138--21686286 Score: 158
Period size: 44 Copynumber: 3.4 Consensus size: 44
21686128 TCTTACCCTA
* * **
21686138 TAAGCAGTAGGGGAATAGATCGAAGGCAATGAGCTTTAACCCCC
1 TAAGCAGTAGGGTAACAGATCGAAGATAATGAGCTTTAACCCCC
* * * * * *
21686182 TAAGCAGTAGGGTAACA-AGCTGAAGTTCAT-AGATCTTATCACCC
1 TAAGCAGTAGGGTAACAGATC-GAAGATAATGAGCT-TTAACCCCC
* *
21686226 TAAGCAGTAGGGAAACAGATCGAAAATAATGAGCTTTAACCCCC
1 TAAGCAGTAGGGTAACAGATCGAAGATAATGAGCTTTAACCCCC
21686270 TAAGCAGTAGGGTAACA
1 TAAGCAGTAGGGTAACA
21686287 AGCCAAATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
43 5 0.06
44 73 0.88
45 5 0.06
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (44 bp):
TAAGCAGTAGGGTAACAGATCGAAGATAATGAGCTTTAACCCCC
Found at i:21686322 original size:43 final size:42
Alignment explanation
Indices: 21686173--21686327 Score: 150
Period size: 44 Copynumber: 3.6 Consensus size: 42
21686163 GCAATGAGCT
* * *
21686173 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGC-GAAATTTA-AGACC
* * * * * *
21686217 TTATCACCCTAAGCAGTAGGGAAACAGATCGAAA-ATAATGAGCT
1 TTAACCCCCTAAGCAGTAGGGTAACA-AGCGAAATTTAA-GA-CC
*
21686261 TTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCGAAATTTA-AGACC
*
21686304 TTAACCCCCTAAGTAGTAGGGTAA
1 TTAACCCCCTAAGCAGTAGGGTAA
21686328 TAGGCTGAAA
Statistics
Matches: 89, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 32 0.36
44 53 0.60
45 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCGAAATTTAAGACC
Found at i:21686509 original size:44 final size:44
Alignment explanation
Indices: 21686444--21686770 Score: 206
Period size: 44 Copynumber: 7.5 Consensus size: 44
21686434 AGATCTCAAC
* *
21686444 CCCCTAAGCAGTAAGGAAACAGATTGAAGATGATGAGTCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGATTGAAGATGATGAGTCTTAAA
** * * * * *
21686488 CCCCTAAGCAGTAGGGTAACAGGCT-AA-AT-TTACAGACCTCAAC
1 CCCCTAAGCAGTAGGGTAACAGATTGAAGATGAT-GAG-TCTTAAA
*
21686531 CCCCTAAGCAAG-AGGG-AAGCAGATTGAAAATGATGAGTCTTAAA
1 CCCCTAAGC-AGTAGGGTAA-CAGATTGAAGATGATGAGTCTTAAA
* * * * *
21686575 ACCCTAAGCAGTAGGGTAACAGACT-AA-AT-TTACAGATCTTAAC
1 CCCCTAAGCAGTAGGGTAACAGATTGAAGATGAT-GAG-TCTTAAA
* * * ** *
21686618 CCCCTAAGTAGTAGGGAAACAAATTGAAGGCGATGAGCCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGATTGAAGATGATGAGTCTTAAA
* ** * **
21686662 CCCCTAAGCAGTAGGGTAACAGGTTG-ATTTTACAAGATCTTAAA
1 CCCCTAAGCAGTAGGGTAACAGATTGAAGATGATGAG-TCTTAAA
* * * ** * *
21686706 CACCTAAGCAGTAGGGAAACAGA-TCAATGATGACAAGCCTTAAC
1 CCCCTAAGCAGTAGGGTAACAGATTGAA-GATGATGAGTCTTAAA
21686750 CCCCTAAGCAGTAGGGTAACA
1 CCCCTAAGCAGTAGGGTAACA
21686771 AGTTGAAAAT
Statistics
Matches: 212, Mismatches: 54, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
41 2 0.01
42 10 0.05
43 58 0.27
44 126 0.59
45 14 0.07
46 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (44 bp):
CCCCTAAGCAGTAGGGTAACAGATTGAAGATGATGAGTCTTAAA
Found at i:21686529 original size:87 final size:87
Alignment explanation
Indices: 21686428--21686770 Score: 438
Period size: 87 Copynumber: 3.9 Consensus size: 87
21686418 CAGATTGAAG
* *
21686428 ATTTACAGATCTCAACCCCCTAAGCAGTAAGGAAACAGATTGAAGATGATGAGTCTTAAACCCCT
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAGCCTTAAACCCCT
21686493 AAGCAGTAGGGTAACAGGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
* * * * *
21686515 ATTTACAGACCTCAACCCCCTAAGCAAG-AGGGAAGCAGATTGAAAATGATGAGTCTTAAAACCC
1 ATTTACAGATCTCAACCCCCTAAGC-AGTAGGGAAACAGATTGAAGATGATGAGCCTTAAACCCC
*
21686579 TAAGCAGTAGGGTAACAGACTAA
65 TAAGCAGTAGGGTAACAGGCTAA
* * * **
21686602 ATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAAATTGAAGGCGATGAGCCTTAAACCCCT
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAGCCTTAAACCCCT
* *
21686667 AAGCAGTAGGGTAACAGGTTGA
66 AAGCAGTAGGGTAACAGGCTAA
* * * * * ** *
21686689 TTTTACAAGATCTTAAACACCTAAGCAGTAGGGAAACAGA-TCAATGATGACAAGCCTTAACCCC
1 ATTTAC-AGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAA-GATGATGAGCCTTAAACCC
21686753 CTAAGCAGTAGGGTAACA
64 CTAAGCAGTAGGGTAACA
21686771 AGTTGAAAAT
Statistics
Matches: 222, Mismatches: 30, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
86 2 0.01
87 157 0.71
88 63 0.28
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (87 bp):
ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGATGAGCCTTAAACCCCT
AAGCAGTAGGGTAACAGGCTAA
Found at i:21687301 original size:13 final size:13
Alignment explanation
Indices: 21687285--21687344 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
21687275 ACCACCATTG
21687285 TTGGCCACCCACC
1 TTGGCCACCCACC
*
21687298 TTGGCCACCTA-C
1 TTGGCCACCCACC
*** ***
21687310 TCCACCACCCTTG
1 TTGGCCACCCACC
21687323 TTGGCCACCCACC
1 TTGGCCACCCACC
21687336 TTGGCCACC
1 TTGGCCACC
21687345 TAAACCACCC
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
12 7 0.21
13 26 0.79
ACGTcount: A:0.15, C:0.50, G:0.15, T:0.20
Consensus pattern (13 bp):
TTGGCCACCCACC
Found at i:21687316 original size:38 final size:38
Alignment explanation
Indices: 21687264--21687346 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
21687254 AACCCTAATC
*
21687264 CCACCTACTTCACCACCATTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCATTGTTGGCCACCCACCTTGG
*
21687302 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCATTGTTGGCCACCCACCTTGG
21687340 CCACCTA
1 CCACCTA
21687347 AACCACCCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.18, C:0.48, G:0.12, T:0.22
Consensus pattern (38 bp):
CCACCTACTCCACCACCATTGTTGGCCACCCACCTTGG
Found at i:21687771 original size:3 final size:3
Alignment explanation
Indices: 21687760--21687842 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
21687750 TTTTATTTTT
* *
21687760 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
21687803 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
21687843 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:21687817 original size:21 final size:18
Alignment explanation
Indices: 21687764--21687846 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
21687754 ATTTTTTTAT
* *
21687764 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
21687783 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
21687801 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
21687822 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
21687839 TTATATAT
1 TT-TATAT
21687847 GCCCTCTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.46
19 9 0.16
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:21689685 original size:16 final size:16
Alignment explanation
Indices: 21689664--21689722 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
21689654 TTTGGTTCAG
*
21689664 TGTAATGGAATAGGGT
1 TGTAATGGAATAGAGT
* **
21689680 TGTAATGAAATAGAAC
1 TGTAATGGAATAGAGT
21689696 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
*
21689712 TGTAATAGAAT
1 TGTAATGGAAT
21689723 TGTAATATCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:21690227 original size:10 final size:10
Alignment explanation
Indices: 21690204--21690240 Score: 60
Period size: 9 Copynumber: 3.9 Consensus size: 10
21690194 TCATGCCCCG
21690204 TTTTTAATGA
1 TTTTTAATGA
21690214 -TTTTAATGA
1 TTTTTAATGA
21690223 TTTTT-ATGA
1 TTTTTAATGA
21690232 TTTTTAATG
1 TTTTTAATG
21690241 GTTCATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (10 bp):
TTTTTAATGA
Found at i:21690228 original size:19 final size:19
Alignment explanation
Indices: 21690204--21690240 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
21690194 TCATGCCCCG
21690204 TTTTTAATGA-TTTTAATGA
1 TTTTT-ATGATTTTTAATGA
21690223 TTTTTATGATTTTTAATG
1 TTTTTATGATTTTTAATG
21690241 GTTCATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (19 bp):
TTTTTATGATTTTTAATGA
Found at i:21690531 original size:30 final size:30
Alignment explanation
Indices: 21690497--21690557 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
21690487 TTCCCGAGCC
*
21690497 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
21690527 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
21690557 T
1 T
21690558 GTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:21692603 original size:57 final size:60
Alignment explanation
Indices: 21692542--21692688 Score: 162
Period size: 54 Copynumber: 2.5 Consensus size: 60
21692532 TAATAGGATT
* **
21692542 ATTATTAAATATAATTTAATAAAAACAATAATACATAATTTAATCCTATT-TT-A-ATA-A
1 ATTATTAAATATAA-TTAATAAAAATAATAATACATAATTTAATAATATTCTTAATATACA
* * *
21692599 ATTATTAATTATAATT--TAACAATAATAATATATAATTTAATAATATTCTTAATATAGCA
1 ATTATTAAATATAATTAATAAAAATAATAATACATAATTTAATAATATTCTTAATATA-CA
21692658 ATTATTAAAATATAAATTAATAAAAATAATA
1 ATTATT-AAATAT-AATTAATAAAAATAATA
21692689 TATAATATTA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
54 26 0.36
55 2 0.03
56 3 0.04
57 16 0.22
59 7 0.10
60 5 0.07
61 4 0.05
63 10 0.14
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (60 bp):
ATTATTAAATATAATTAATAAAAATAATAATACATAATTTAATAATATTCTTAATATACA
Found at i:21692633 original size:21 final size:20
Alignment explanation
Indices: 21692604--21692643 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
21692594 AATAAATTAT
21692604 TAATTATAATTTAACAATAA
1 TAATTATAATTTAACAATAA
*
21692624 TAATATATAATTTAATAATA
1 TAAT-TATAATTTAACAATA
21692644 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTATAATTTAACAATAA
Found at i:21692690 original size:19 final size:21
Alignment explanation
Indices: 21692666--21692711 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
21692656 CAATTATTAA
*
21692666 AATATA-AAT-TAATAAAAAT
1 AATATATAATATAACAAAAAT
*
21692685 AATATATAATATTACAAAAAT
1 AATATATAATATAACAAAAAT
21692706 AATATA
1 AATATA
21692712 CAACCTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 3 0.13
21 14 0.61
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AATATATAATATAACAAAAAT
Found at i:21692844 original size:12 final size:12
Alignment explanation
Indices: 21692814--21692848 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
21692804 TCTATGTTAC
21692814 TTAAAGAATAAT
1 TTAAAGAATAAT
*
21692826 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
21692839 TTAAAGAATA
1 TTAAAGAATA
21692849 TCTTGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:21696275 original size:15 final size:15
Alignment explanation
Indices: 21696255--21696286 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21696245 CATTTCACTA
*
21696255 TTATGTTTTTTGTAT
1 TTATGTTTTTTATAT
21696270 TTATGTTTTTTATAT
1 TTATGTTTTTTATAT
21696285 TT
1 TT
21696287 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (15 bp):
TTATGTTTTTTATAT
Found at i:21698483 original size:40 final size:40
Alignment explanation
Indices: 21698403--21698620 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
21698393 ACCCAAGTTT
* * * * *
21698403 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGACATAACAACTCGCACAAATGC
* *
21698442 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGACATAACAACTCGCACAAATGC
*
21698482 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGACATAACAACTCGCACAAATGC
*
21698522 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGACATAACAACTCGCACAAATGC
*
21698562 CTTCGGGTCTTAACCCGGACATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGACATAACAACTCGCACAAATGC
*
21698602 CTTCGGGGCTTAGCCCGGA
1 CTTCGGGTCTTAGCCCGGA
21698621 TATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 152 0.93
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGACATAACAACTCGCACAAATGC
Found at i:21701436 original size:12 final size:12
Alignment explanation
Indices: 21701419--21701470 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
21701409 TTTTAATAAG
21701419 ATTTAATATTAA
1 ATTTAATATTAA
*
21701431 ATTTAATCTAATAA
1 ATTTAA--TATTAA
21701445 ATATTAA-ATTAA
1 AT-TTAATATTAA
21701457 ATTTTAATATTAA
1 A-TTTAATATTAA
21701470 A
1 A
21701471 GTGATTAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
12 15 0.45
13 7 0.21
14 7 0.21
15 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:21712817 original size:40 final size:40
Alignment explanation
Indices: 21712591--21712789 Score: 314
Period size: 40 Copynumber: 5.0 Consensus size: 40
21712581 TTCGAATGAT
*
21712591 ATCCGGACTAAGATCCGAAGGC-TTTGTGCTAAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAA
* *
21712631 ATCCGGACTAAGATCTGAAGGCAATTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
21712671 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
21712711 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
*
21712751 ATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 ATCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
21712790 TAACCGGGCT
Statistics
Matches: 150, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
39 1 0.01
40 140 0.93
41 9 0.06
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:21712824 original size:80 final size:80
Alignment explanation
Indices: 21712591--21712824 Score: 280
Period size: 80 Copynumber: 2.9 Consensus size: 80
21712581 TTCGAATGAT
* * * *
21712591 ATCCGGACTAAGATCCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGATCTGAAGGCAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGC-GAGCTACTAAATCCGGACTAAGATCCGAAGGCAT
**
21712655 TTGTGCGAGTTACTAA
65 TTGAACGAGTTACTAA
*
21712671 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATT
**
21712736 TGTGCGAGTTACTAA
66 TGAACGAGTTACTAA
* *
21712751 ATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGG
1 ATCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGG
*
21712812 TATTTGAACGAGT
62 CATTTGAACGAGT
21712825 AGCTATATCC
Statistics
Matches: 140, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
79 2 0.01
80 126 0.90
81 12 0.09
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATT
TGAACGAGTTACTAA
Found at i:21712831 original size:40 final size:40
Alignment explanation
Indices: 21712685--21712836 Score: 116
Period size: 40 Copynumber: 3.8 Consensus size: 40
21712675 GGACTAAGAT
** *
21712685 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
21712725 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
21712765 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
21712805 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
21712837 TTAAACTCCG
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 3 0.03
40 93 0.92
41 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:21712835 original size:120 final size:120
Alignment explanation
Indices: 21712589--21712836 Score: 310
Period size: 120 Copynumber: 2.1 Consensus size: 120
21712579 TCTTCGAATG
*
21712589 ATATCCGGACTAAGATCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCTGAAGGCA
1 ATATCCGGACTAAGATCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCA
* **
21712654 ATTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
66 ATTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACT
* *
21712709 AAATCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAG
1 ATATCCGGACTAAGATCCGAAGGC-TTTGTGCTAAGTTACTAAATCC-GGACTAAGAT-CCGAAG
* * * *
21712771 GCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAG-TAGCT
63 GCAATTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTTA-CT
21712829 ATATCCGG
1 ATATCCGG
21712837 TTAAACTCCG
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
119 4 0.04
120 95 0.86
121 12 0.11
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (120 bp):
ATATCCGGACTAAGATCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCA
ATTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACT
Found at i:21720868 original size:40 final size:40
Alignment explanation
Indices: 21720734--21720924 Score: 274
Period size: 38 Copynumber: 5.0 Consensus size: 40
21720724 TCGAATGATG
* *
21720734 TCCGGGCTAAG-TCCGAAGGC-TTTGTGCTAAGTTACT-AA
1 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAA
21720772 TCCGGACTAAGATCC-AAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
21720810 TCC-GACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
21720849 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
21720888 TCCGGGA-TAAG-TCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
21720925 TAACGGGCTA
Statistics
Matches: 142, Mismatches: 3, Indels: 15
0.89 0.02 0.09
Matches are distributed among these distances:
37 18 0.13
38 56 0.39
39 32 0.23
40 36 0.25
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21720908 original size:78 final size:77
Alignment explanation
Indices: 21720734--21720924 Score: 275
Period size: 78 Copynumber: 2.5 Consensus size: 77
21720724 TCGAATGATG
* *
21720734 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTTACT-AATCCGGACTAAGATCCAAGGCATTGT
1 TCCGGGATAAGTCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCAAGGCATTGT
21720797 GCGAGTTACTAAA
65 GCGAGTTACTAAA
21720810 TCC--GACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGA-TAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCC-AAGGCA-T
21720873 TGTGCGAGTTACT-AA
62 TGTGCGAGTTACTAAA
*
21720888 TCCGGGATAAGTCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGGATAAGTCCGAAGGCATTTGTGCGAGTTACTA
21720925 TAACGGGCTA
Statistics
Matches: 104, Mismatches: 3, Indels: 14
0.86 0.02 0.12
Matches are distributed among these distances:
74 1 0.01
75 4 0.04
76 19 0.18
77 24 0.23
78 36 0.35
79 18 0.17
80 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (77 bp):
TCCGGGATAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCAAGGCATTGTG
CGAGTTACTAAA
Found at i:21720969 original size:78 final size:78
Alignment explanation
Indices: 21720734--21720958 Score: 227
Period size: 77 Copynumber: 2.9 Consensus size: 78
21720724 TCGAATGATG
* * * *
21720734 TCCGGGCTAAG-TCCGAAGGC-TTTGTGCTAAGTTACTAATCCGGACTAAGATCC-AAGGCATTG
1 TCCGGGATAAGATCCGAAGGCATTTGTGC-GAGCTACTAAACCGGACTAAGATCCGAAGGCATT-
21720796 TG--CGAGTTACTAAA
64 TGAACGAGTTACT-AA
*
21720810 TCC--GACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGA-TAAGATCCGAAGGCATTTGTGCGAGCTACTAAA-CCGGACTAAGATCCGAAGGCATT
**
21720873 TGTGCGAGTTACTAA
64 TGAACGAGTTACTAA
* * *
21720888 TCCGGGATAAG-TCCGAAGGCATTTGTGCGAGCTACTATAA-CGGGCTATG-TCCCGAAGGTATT
1 TCCGGGATAAGATCCGAAGGCATTTGTGCGAGCTACTA-AACCGGACTAAGAT-CCGAAGGCATT
21720950 TGAACGAGT
64 TGAACGAGT
21720959 AGCTATATCC
Statistics
Matches: 129, Mismatches: 9, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
74 1 0.01
75 4 0.03
76 22 0.17
77 47 0.36
78 38 0.29
79 15 0.12
80 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (78 bp):
TCCGGGATAAGATCCGAAGGCATTTGTGCGAGCTACTAAACCGGACTAAGATCCGAAGGCATTTG
AACGAGTTACTAA
Found at i:21720969 original size:117 final size:115
Alignment explanation
Indices: 21720734--21720958 Score: 271
Period size: 117 Copynumber: 1.9 Consensus size: 115
21720724 TCGAATGATG
*
21720734 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTTACTAATCCGGACTAAGATCCAAGGCATTGTGC
1 TCCGGACTAAGTCCGAAGGCTTTGTGCTAAGTTACTAATCCGGACTAAGATCCAAGGCATTGTGC
* **
21720799 GAGTTACTAAATCCGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 GAGCTACTAAATCCGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
*
21720849 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAATCCGGGA-TAAG-TCCGAAGGCATT
1 TCCGGACTAAG-TCCGAAGGC-TTTGTGCTAAGTTACTAATCC-GGACTAAGATCC-AAGGCA-T
* * * *
21720911 TGTGCGAGCTACTATAA-CGGGCTATG-TCCCGAAGGTATTTGAACGAGT
61 TGTGCGAGCTACTA-AATCCGACTAAGAT-CCGAAGGCATTTGAACGAGT
21720959 AGCTATATCC
Statistics
Matches: 94, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
115 13 0.14
116 32 0.34
117 47 0.50
118 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (115 bp):
TCCGGACTAAGTCCGAAGGCTTTGTGCTAAGTTACTAATCCGGACTAAGATCCAAGGCATTGTGC
GAGCTACTAAATCCGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:21728480 original size:40 final size:40
Alignment explanation
Indices: 21728256--21728452 Score: 303
Period size: 40 Copynumber: 5.0 Consensus size: 40
21728246 TCGAATGATG
* *
21728256 TCCGGGCTAAG-TCCGAAGGC-TTTGTGCTAAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAA
*
21728295 TCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
21728335 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
21728375 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
21728415 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
21728453 TAACCGGGCT
Statistics
Matches: 149, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 11 0.07
40 129 0.87
41 9 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21728494 original size:40 final size:40
Alignment explanation
Indices: 21728348--21728499 Score: 116
Period size: 40 Copynumber: 3.8 Consensus size: 40
21728338 GGACTAAGAT
** *
21728348 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
21728388 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
21728428 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
21728468 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
21728500 TTAAACTCCG
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 3 0.03
40 93 0.92
41 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:21728499 original size:80 final size:80
Alignment explanation
Indices: 21728256--21728487 Score: 269
Period size: 80 Copynumber: 2.9 Consensus size: 80
21728246 TCGAATGATG
* * * *
21728256 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAAT
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGCTACTAAATCCGGACTAAGATCCGAAGGCATT
**
21728319 TGTGCGAGTTACTAAA
65 TGAACGAGTTACTAAA
*
21728335 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCAT
**
21728398 TTGTGCGAGTTACTAAA
64 TTGAACGAGTTACTAAA
* * *
21728415 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTAT
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCAT
21728478 TTGAACGAGT
64 TTGAACGAGT
21728488 AGCTATATCC
Statistics
Matches: 137, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
78 2 0.01
79 9 0.07
80 114 0.83
81 12 0.09
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAA
Found at i:21728499 original size:120 final size:119
Alignment explanation
Indices: 21728256--21728487 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 119
21728246 TCGAATGATG
*
21728256 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTG
1 TCCGGACTAAGTCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTG
* **
21728321 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
*
21728375 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCA
1 TCCGGACTAAG-TCCGAAGGC-TTTGTGCTAAGTTACTAAATCC-GGACTAAGAT-CCGAAGGCA
* * * *
21728437 TTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGT
62 ATTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
21728488 AGCTATATCC
Statistics
Matches: 98, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
119 12 0.12
120 74 0.76
121 12 0.12
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (119 bp):
TCCGGACTAAGTCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTG
TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:21736448 original size:40 final size:40
Alignment explanation
Indices: 21736393--21736591 Score: 305
Period size: 40 Copynumber: 5.0 Consensus size: 40
21736383 TTCGAATGAT
*
21736393 ATCCGGACTAAGATCCGAAGGC-TTTGTGCTAAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAA
* *
21736433 ATCCGGACTAAGATCCAAAGGCAATTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
*
21736473 ATCCGAACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
21736513 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
*
21736553 ATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 ATCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
21736592 TAACCGGGCT
Statistics
Matches: 148, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 138 0.93
41 9 0.06
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:21736599 original size:40 final size:40
Alignment explanation
Indices: 21736407--21736619 Score: 226
Period size: 40 Copynumber: 5.3 Consensus size: 40
21736397 GGACTAAGAT
*
21736407 CCGAAGGC-TTTGTGCTAAGTTACTAAATCC-GGACTAAGAT-
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TC
* * *
21736447 CCAAAGGCAATTGTGCGAGTTACTAAATCC-GAACTAAGAT-
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA-TAAG-TC
21736487 CCGAAGGCATTTGTGCGAGTTACTAAATCC-GGACTAAGAT-
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGA-TAAG-TC
21736527 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGATAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGATAAGTC
* * *
21736567 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
*
21736607 CCGAAGGTATTTG
1 CCGAAGGCATTTG
21736620 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 146 0.92
41 11 0.07
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGATAAGTC
Found at i:21736626 original size:80 final size:80
Alignment explanation
Indices: 21736393--21736626 Score: 262
Period size: 80 Copynumber: 2.9 Consensus size: 80
21736383 TTCGAATGAT
* * * * *
21736393 ATCCGGACTAAGATCCGAAGGC-TTTGTGCTAAGTTACTAAATCCGGACTAAGATCCAAAGGCAA
1 ATCCGAACTAAGATCCGAAGGCATTTGTGC-GAGCTACTAAATCCGGACTAAGATCCGAAGGCAT
**
21736457 TTGTGCGAGTTACTAA
65 TTGAACGAGTTACTAA
*
21736473 ATCCGAACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 ATCCGAACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATT
**
21736538 TGTGCGAGTTACTAA
66 TGAACGAGTTACTAA
* * *
21736553 ATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGG
1 ATCC-GAACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGG
*
21736614 TATTTGAACGAGT
62 CATTTGAACGAGT
21736627 AGCTATATCC
Statistics
Matches: 138, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
79 2 0.01
80 125 0.91
81 11 0.08
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (80 bp):
ATCCGAACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATT
TGAACGAGTTACTAA
Found at i:21736626 original size:120 final size:120
Alignment explanation
Indices: 21736393--21736626 Score: 298
Period size: 120 Copynumber: 1.9 Consensus size: 120
21736383 TTCGAATGAT
21736393 ATCCGGACTAAGATCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCAAAGGCAAT
1 ATCCGGACTAAGATCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCAAAGGCAAT
* **
21736458 TGTGCGAGTTACTAAATCCGAACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
66 TGTGCGAGCTACTAAATCCGAACTAAGATCCGAAGGCATTTGAACGAGTTACTAA
* *
21736513 ATCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGC
1 ATCCGGACTAAGATCCGAAGGC-TTTGTGCTAAGTTACTAAATCC-GGACTAAGAT-CCAAAGGC
* ** * *
21736575 ATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGT
63 AATTGTGCGAGCTACTA-AATCCGAACTAAGAT-CCGAAGGCATTTGAACGAGT
21736627 AGCTATATCC
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
119 2 0.02
120 85 0.86
121 12 0.12
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (120 bp):
ATCCGGACTAAGATCCGAAGGCTTTGTGCTAAGTTACTAAATCCGGACTAAGATCCAAAGGCAAT
TGTGCGAGCTACTAAATCCGAACTAAGATCCGAAGGCATTTGAACGAGTTACTAA
Found at i:21749283 original size:27 final size:27
Alignment explanation
Indices: 21749253--21749393 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
21749243 GTGACGAAAT
21749253 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
21749280 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
21749307 CACCAGAT-CAGATAATTATGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
21749334 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
21749361 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
21749388 CACCAG
1 CACCAG
21749394 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 10 0.10
27 86 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:21749394 original size:54 final size:54
Alignment explanation
Indices: 21749253--21749396 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
21749243 GTGACGAAAT
* *
21749253 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
21749307 CACCAGATCAGATAATTATGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
21749361 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
21749397 GCTTCCTCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:21753581 original size:166 final size:166
Alignment explanation
Indices: 21753305--21753636 Score: 637
Period size: 166 Copynumber: 2.0 Consensus size: 166
21753295 CATACAAACG
21753305 GTACTCCTTTCCTTATGAGTTTTGTCAAAGGTGCTGCCATCACAGAAAAACCTTCCACAGACCTT
1 GTACTCCTTTCCTTATGAGTTTTGTCAAAGGTGCTGCCATCACAGAAAAACCTTCCACAGACCTT
21753370 CTGTAGTATCCTGCCAGTCCTAGGAAACTCCGTATTTCCGACACTGACCTAGGCGGCTTCCACTC
66 CTGTAGTATCCTGCCAGTCCTAGGAAACTCCGTATTTCCGACACTGACCTAGGCGGCTTCCACTC
21753435 TAAAATCGCTTCAATTTTCCGAGGGTCCACCTTAAT
131 TAAAATCGCTTCAATTTTCCGAGGGTCCACCTTAAT
*
21753471 GTACTCCTTTCCTTATGAGTTTTGTCAAAGGTGCTGCCATCATAGAAAAACCTTCCACAGACCTT
1 GTACTCCTTTCCTTATGAGTTTTGTCAAAGGTGCTGCCATCACAGAAAAACCTTCCACAGACCTT
*
21753536 CTGTAGTATCCTGCCAGTCCTAGGAAACTCCGTATTTCTGACACTGACCTAGGCGGCTTCCACTC
66 CTGTAGTATCCTGCCAGTCCTAGGAAACTCCGTATTTCCGACACTGACCTAGGCGGCTTCCACTC
*
21753601 TAAAATTGCTTCAATTTTCCGAGGGTCCACCTTAAT
131 TAAAATCGCTTCAATTTTCCGAGGGTCCACCTTAAT
21753637 CCCCTCAGCA
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 163 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (166 bp):
GTACTCCTTTCCTTATGAGTTTTGTCAAAGGTGCTGCCATCACAGAAAAACCTTCCACAGACCTT
CTGTAGTATCCTGCCAGTCCTAGGAAACTCCGTATTTCCGACACTGACCTAGGCGGCTTCCACTC
TAAAATCGCTTCAATTTTCCGAGGGTCCACCTTAAT
Found at i:21756411 original size:27 final size:27
Alignment explanation
Indices: 21756369--21756501 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
21756359 GTCACTAGAT
21756369 ACAGATAT-TGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * * *
21756395 ACAAATATATGTAGCAGAGCTACTAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * *
21756422 TCAGATA-ATTGTGGCATAGCCACCAGG
1 ACAGATATA-TGTGGCAGAGCCACCAGA
21756449 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
21756476 TCAGATA-ATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
21756502 GACGCTTCCT
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
26 9 0.10
27 77 0.89
28 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:21756444 original size:54 final size:54
Alignment explanation
Indices: 21756361--21756501 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
21756351 GTGACGAAGT
*
21756361 CACTAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAAATATATGTAGCAGAGC
1 CACTAGAT-CAGATAATTGTGGCATAGCCACCAGAACAAATATATGTAGCAGAGC
* * * *
21756415 TACTAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACTAGATCAGATAATTGTGGCATAGCCACCAGAACAAATATATGTAGCAGAGC
*
21756469 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACTAGATCAGATAATTGTGGCATAGCCACCAG
21756502 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (54 bp):
CACTAGATCAGATAATTGTGGCATAGCCACCAGAACAAATATATGTAGCAGAGC
Found at i:21758128 original size:26 final size:26
Alignment explanation
Indices: 21758098--21758205 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
21758088 TGAAATTCCC
21758098 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21758124 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
21758150 ATCCTGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
21758176 ATCATGGAACATTTACCTAGCCCATT
1 ATCATGGAACATTTACCTAACCCATT
21758202 ATCA
1 ATCA
21758206 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21759448 original size:18 final size:18
Alignment explanation
Indices: 21759419--21759467 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
21759409 CCAATTTGGA
21759419 CGTGTGGG-CCATACGAG
1 CGTGTGGGCCCATACGAG
*
21759436 TGTGTGGGCCCATACGAG
1 CGTGTGGGCCCATACGAG
* *
21759454 CATGTAGGCCCATA
1 CGTGTGGGCCCATA
21759468 ATTCCAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.20
Consensus pattern (18 bp):
CGTGTGGGCCCATACGAG
Found at i:21760840 original size:10 final size:10
Alignment explanation
Indices: 21760825--21760849 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21760815 AATATACACA
21760825 TACCAAAATT
1 TACCAAAATT
21760835 TACCAAAATT
1 TACCAAAATT
21760845 TACCA
1 TACCA
21760850 TTTCATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (10 bp):
TACCAAAATT
Found at i:21761546 original size:43 final size:43
Alignment explanation
Indices: 21761476--21761632 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
21761466 AGCTCATATA
* * * *
21761476 ATGCCAACGTCCTAAACATGGTTTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
* * *
21761519 ATGCC-ACTGTCCTAGACAG-GGTCTTACATGAAATTAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
* *
21761561 ATGCCAATGTCCCAGACGTGGTCTTACATGTAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AATATCG
21761605 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
21761633 CGATATCACA
Statistics
Matches: 96, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 38 0.40
44 30 0.31
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:21784621 original size:46 final size:47
Alignment explanation
Indices: 21784568--21784760 Score: 132
Period size: 46 Copynumber: 4.1 Consensus size: 47
21784558 AGATATAGTT
21784568 TTACACTGACTATCATCTCGTA-GCCGAT-GCATGTCCCAGACATGTC
1 TTACACTGACTATCATCTCG-AGGCCGATAGCATGTCCCAGACATGTC
* * * *
21784614 TTACACTGGCT-TACGTCTCGAGGCCGATAG-ATGTCTCGGACATGTC
1 TTACACTGACTAT-CATCTCGAGGCCGATAGCATGTCCCAGACATGTC
* * * *
21784660 TTACACT-AGC-ACTCGTCTCGATGCCGATACCATGTCCCAAACATGGTC
1 TTACACTGA-CTA-TCATCTCGAGGCCGATAGCATGTCCCAGACAT-GTC
** * * * * * *
21784708 TTTTACAGGCTCTTATAAT-GTGGCCGAT-GCATGTCCCAGACATGTC
1 TTACACTGACTATCAT-CTCGAGGCCGATAGCATGTCCCAGACATGTC
21784754 TTACACT
1 TTACACT
21784761 AGCCCACAAT
Statistics
Matches: 111, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
45 2 0.02
46 66 0.59
47 25 0.23
48 17 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
TTACACTGACTATCATCTCGAGGCCGATAGCATGTCCCAGACATGTC
Found at i:21793122 original size:40 final size:40
Alignment explanation
Indices: 21793023--21793217 Score: 205
Period size: 40 Copynumber: 4.8 Consensus size: 40
21793013 TTCGAATGGT
** * *
21793023 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAA
* * * *
21793064 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CTAA
*
21793105 AT-CGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAA
* * *
21793144 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-A
* * * *
21793185 A-CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGT
21793218 CGCTATATCC
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 5 0.04
40 93 0.70
41 34 0.26
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAA
Found at i:21793165 original size:80 final size:81
Alignment explanation
Indices: 21793026--21793208 Score: 233
Period size: 80 Copynumber: 2.3 Consensus size: 81
21793016 GAATGGTATC
** * *
21793026 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTTAATTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCAATTGTGCTAAGTGACTAAATCCGGGCTAATTCCCGAAGGCAATTG
21793091 TGCGAGTTACCAAAAT
66 TGCGAGTTACCAAAAT
* * *
21793107 CGGGTTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAATCCGGGCTAATTCCCGAAGGCAATTG
1 CGGGCTAAGTCCCGAAGGCAATTGTGCTAAGTGACTAAATCCGGGCTAATTCCCGAAGGCAATTG
* * * * *
21793171 TGCGAATCACTATAAC
66 TGCGAGTTACCAAAAT
* *
21793187 CGGGCTATGTCCCGAAGACAAT
1 CGGGCTAAGTCCCGAAGGCAAT
21793209 CGAGCGAGTC
Statistics
Matches: 87, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 63 0.72
81 24 0.28
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCAATTGTGCTAAGTGACTAAATCCGGGCTAATTCCCGAAGGCAATTG
TGCGAGTTACCAAAAT
Found at i:21793237 original size:80 final size:80
Alignment explanation
Indices: 21793059--21793243 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 80
21793049 GTGCTAAGTG
* * * * *
21793059 ACTAAATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAAATCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* * * *
21793124 GCAATTGTGCGAGTT
66 ACAATCGAGCGAGTC
* * * *
21793139 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
21793204 ACAATCGAGCGAGTC
66 ACAATCGAGCGAGTC
* *
21793219 GCTATATCC-GGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTT-AATTCCCGAAGG
21793244 TACGTGATTC
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 10 0.11
80 78 0.89
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (80 bp):
ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:21805391 original size:15 final size:16
Alignment explanation
Indices: 21805365--21805394 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21805355 TTTTTCTTGC
21805365 TTTTAGATCATATATA
1 TTTTAGATCATATATA
21805381 TTTTA-ATCATATAT
1 TTTTAGATCATATAT
21805395 GAGACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:21807304 original size:46 final size:45
Alignment explanation
Indices: 21807237--21807403 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 45
21807227 CGCCCCTAAG
21807237 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTT-GCATCCATAAA
* * *
21807283 TGAACTCGGACTCAACTCAACGAGTTCGGTTGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTGCATCCATAAA
* * * * *
21807330 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTGCATCCATAAA
21807376 TGAACTCGGACTCAACTCAACGAGCTCG
1 TGAACTCGGACTCAACTCAACGAGCTCG
21807404 AATGCTCAAC
Statistics
Matches: 102, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 54 0.53
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCATCCATAAA
Found at i:21809104 original size:16 final size:16
Alignment explanation
Indices: 21809083--21809115 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21809073 TTCTCAGAGT
21809083 ATACTAATAATAACAC
1 ATACTAATAATAACAC
21809099 ATACTAATAATAACAC
1 ATACTAATAATAACAC
21809115 A
1 A
21809116 CTTAAATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (16 bp):
ATACTAATAATAACAC
Found at i:21812765 original size:7 final size:7
Alignment explanation
Indices: 21812755--21812805 Score: 84
Period size: 7 Copynumber: 7.0 Consensus size: 7
21812745 TAAAATATTA
21812755 AATTTTT
1 AATTTTT
21812762 AATTTTT
1 AATTTTT
21812769 AAGTTTTT
1 AA-TTTTT
21812777 AATTTTT
1 AATTTTT
21812784 AATTTTT
1 AATTTTT
21812791 AATTTTT
1 AATTTTT
21812798 AAATTTTT
1 -AATTTTT
21812806 TTGAAGATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
7 28 0.67
8 14 0.33
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:21812775 original size:15 final size:15
Alignment explanation
Indices: 21812752--21812805 Score: 92
Period size: 15 Copynumber: 3.7 Consensus size: 15
21812742 GACTAAAATA
21812752 TTAAATTTTTAATTT
1 TTAAATTTTTAATTT
*
21812767 TTAAGTTTTTAATTT
1 TTAAATTTTTAATTT
21812782 TT-AATTTTTAATTT
1 TTAAATTTTTAATTT
21812796 TTAAATTTTT
1 TTAAATTTTT
21812806 TTGAAGATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.36
15 23 0.64
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTAAATTTTTAATTT
Found at i:21812781 original size:22 final size:22
Alignment explanation
Indices: 21812752--21812805 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
21812742 GACTAAAATA
21812752 TTAAATTTTTAATTTTTAAGTTT
1 TTAAATTTTTAATTTTTAA-TTT
21812775 TT-AATTTTTAATTTTTAATTT
1 TTAAATTTTTAATTTTTAATTT
21812796 TTAAATTTTT
1 TTAAATTTTT
21812806 TTGAAGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.17
22 23 0.77
23 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTAAATTTTTAATTTTTAATTT
Found at i:21813674 original size:21 final size:22
Alignment explanation
Indices: 21813622--21813676 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
21813612 CCCTAAAAAT
21813622 TAAATCATAAACCCCAAACCCC
1 TAAATCATAAACCCCAAACCCC
* *
21813644 --AATCCCTAAACCTC-AACCCC
1 TAAAT-CATAAACCCCAAACCCC
21813664 TAAATCATAAACC
1 TAAATCATAAACC
21813677 ATAAATCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
20 9 0.33
21 15 0.56
22 3 0.11
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (22 bp):
TAAATCATAAACCCCAAACCCC
Found at i:21813713 original size:14 final size:14
Alignment explanation
Indices: 21813664--21813715 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
21813654 CCTCAACCCC
*
21813664 TAAATCATAAACCA
1 TAAATCTTAAACCA
*
21813678 TAAATCTTAGACCA
1 TAAATCTTAAACCA
* *
21813692 TAAA-CTTACACCC
1 TAAATCTTAAACCA
21813705 TAAATCTTAAA
1 TAAATCTTAAA
21813716 TATTTATTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (14 bp):
TAAATCTTAAACCA
Found at i:21813919 original size:21 final size:21
Alignment explanation
Indices: 21813874--21813931 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
21813864 CATAACTATA
*
21813874 AAACATTAAAC-CTTAAACCAC
1 AAACTTTAAACTC-TAAACCAC
21813895 AAACTTTAAACTCTAAACC-C
1 AAACTTTAAACTCTAAACCAC
**
21813915 TAAACTCAAAACTCTAA
1 -AAACTTTAAACTCTAA
21813932 TCACAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACTTTAAACTCTAAACCAC
Found at i:21814196 original size:40 final size:40
Alignment explanation
Indices: 21814136--21814286 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
21814126 TTTGTGGCAT
* *
21814136 TTTTTGAAAAGCACCACTAATGCTCGATCTATT-GCGGTGA
1 TTTTTAAAAAGCGCCACTAATGCTCGATCT-TTAGCGGTGA
* *
21814176 TTTTTAAAAAGCGCCGCTAATGCTCGATCTTTAGCGGTGT
1 TTTTTAAAAAGCGCCACTAATGCTCGATCTTTAGCGGTGA
** * * *
21814216 TTTTTGGAAAGCGCCGCTAATGCTTGATCTTTAGCGG-CA
1 TTTTTAAAAAGCGCCACTAATGCTCGATCTTTAGCGGTGA
* *
21814255 TTTTTCAGAAAGCGCCACTAATTCTCGATCTT
1 TTTTT-AAAAAGCGCCACTAATGCTCGATCTT
21814287 CCACTAATGC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
39 7 0.07
40 89 0.93
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (40 bp):
TTTTTAAAAAGCGCCACTAATGCTCGATCTTTAGCGGTGA
Found at i:21814268 original size:80 final size:80
Alignment explanation
Indices: 21814135--21814286 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
21814125 TTTTGTGGCA
* *
21814135 TTTTTTGAAAAGCACCACTAATGCTCGATCTATTGCGGTGATTTTTAAAAAGCGCCGCTAATGCT
1 TTTTTTGAAAAGCACCACTAATGCTCGATCTATTGCGGTCATTTTTAAAAAGCGCCACTAATGCT
21814200 CGATCTTTAGCGGTG
66 CGATCTTTAGCGGTG
* * * * * *
21814215 TTTTTTGGAAAGCGCCGCTAATGCTTGATCT-TTAGCGG-CATTTTTCAGAAAGCGCCACTAATT
1 TTTTTTGAAAAGCACCACTAATGCTCGATCTATT-GCGGTCATTTTT-AAAAAGCGCCACTAATG
21814278 CTCGATCTT
64 CTCGATCTT
21814287 CCACTAATGC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 8 0.13
80 54 0.87
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (80 bp):
TTTTTTGAAAAGCACCACTAATGCTCGATCTATTGCGGTCATTTTTAAAAAGCGCCACTAATGCT
CGATCTTTAGCGGTG
Found at i:21814292 original size:18 final size:18
Alignment explanation
Indices: 21814269--21814304 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21814259 TCAGAAAGCG
*
21814269 CCACTAATTCTCGATCTT
1 CCACTAATGCTCGATCTT
*
21814287 CCACTAATGCTTGATCTT
1 CCACTAATGCTCGATCTT
21814305 TAGTTGCGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.31, G:0.08, T:0.39
Consensus pattern (18 bp):
CCACTAATGCTCGATCTT
Found at i:21814324 original size:58 final size:58
Alignment explanation
Indices: 21814232--21814399 Score: 173
Period size: 56 Copynumber: 2.9 Consensus size: 58
21814222 GAAAGCGCCG
* *
21814232 CTAATGCTTGATCTTTAGCGGCATTTTTCA-GAAAGCGCCACTAATTCTCGATCTTCCA
1 CTAATGCTTGATCTTTAGCGGC-GTTTTCAGGAAAGCGCCACTAATTCTCGATCTGCCA
** ** **** * *
21814290 CTAATGCTTGATCTTTAGTTGCGTTTTCAGGAAAGCGCTGCTAA-TGAAAAAC-GCCG
1 CTAATGCTTGATCTTTAGCGGCGTTTTCAGGAAAGCGCCACTAATTCTCGATCTGCCA
*
21814346 CTAATGCTTGATCTTTAGCGGCGTTTTTC-GAAAAGCGCCACTAATTCTCGATCT
1 CTAATGCTTGATCTTTAGCGGCG-TTTTCAGGAAAGCGCCACTAATTCTCGATCT
21814400 ATTGCGGCGT
Statistics
Matches: 84, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
56 35 0.42
57 17 0.20
58 32 0.38
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (58 bp):
CTAATGCTTGATCTTTAGCGGCGTTTTCAGGAAAGCGCCACTAATTCTCGATCTGCCA
Found at i:21814390 original size:40 final size:40
Alignment explanation
Indices: 21814335--21814429 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
21814325 CGCTGCTAAT
* *
21814335 GAAAAACGCCGCTAATGCTTGATCT-TTAGCGGCGTTTTTC
1 GAAAAACGCCACTAATGCTCGATCTATT-GCGGCGTTTTTC
* *
21814375 GAAAAGCGCCACTAATTCTCGATCTATTGCGGCGTTTGTTTC
1 GAAAAACGCCACTAATGCTCGATCTATTGCGGCG-TT-TTTC
*
21814417 -ATAAACGCCACTA
1 GAAAAACGCCACTA
21814430 TAGCTCTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
40 27 0.59
41 15 0.33
42 4 0.09
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (40 bp):
GAAAAACGCCACTAATGCTCGATCTATTGCGGCGTTTTTC
Found at i:21818487 original size:80 final size:80
Alignment explanation
Indices: 21818403--21818551 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
21818393 TATGGTAACC
* * * *
21818403 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
21818467 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
21818483 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
21818548 CCGG
66 CCGG
21818552 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:21818493 original size:40 final size:38
Alignment explanation
Indices: 21818444--21818551 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
21818434 ATCACGATTT
*
21818444 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
21818484 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
21818524 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
21818552 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:21826605 original size:80 final size:80
Alignment explanation
Indices: 21826521--21826669 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
21826511 TATGGTAACC
* * * *
21826521 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
21826585 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
21826601 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
21826666 CCGG
66 CCGG
21826670 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:21826611 original size:40 final size:38
Alignment explanation
Indices: 21826562--21826669 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
21826552 ATCACGATTT
*
21826562 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
21826602 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
21826642 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
21826670 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:21829464 original size:19 final size:20
Alignment explanation
Indices: 21829433--21829479 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
21829423 TATGATAAAG
21829433 TTTAAAAATTTATTA-AAAAA
1 TTTAAAAATTTA-TACAAAAA
*
21829453 TTTAAAAA-TTATACAAAAT
1 TTTAAAAATTTATACAAAAA
21829472 TTTAAAAA
1 TTTAAAAA
21829480 ATAAACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
20 8 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAAAAATTTATACAAAAA
Found at i:21829487 original size:19 final size:19
Alignment explanation
Indices: 21829448--21829488 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
21829438 AAATTTATTA
* *
21829448 AAAAATTTAAAAATTATAC
1 AAAAATTTAAAAAATAAAC
*
21829467 AAAATTTTAAAAAATAAAC
1 AAAAATTTAAAAAATAAAC
21829486 AAA
1 AAA
21829489 TAATACTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATTTAAAAAATAAAC
Found at i:21829489 original size:28 final size:29
Alignment explanation
Indices: 21829445--21829499 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
21829435 TAAAAATTTA
* *
21829445 TTAAAAAATTTAAAAATTATAC-AAAATT
1 TTAAAAAATTAAAAAATAATACTAAAATT
21829473 TTAAAAAA-TAAACAAATAATACTAAAA
1 TTAAAAAATTAAA-AAATAATACTAAAA
21829500 AGAACTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.13
28 16 0.70
29 4 0.17
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (29 bp):
TTAAAAAATTAAAAAATAATACTAAAATT
Found at i:21830463 original size:5 final size:5
Alignment explanation
Indices: 21830453--21830477 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21830443 CAAATGTACT
21830453 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
21830478 AACCATTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:21859616 original size:22 final size:21
Alignment explanation
Indices: 21859581--21859656 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
21859571 AAAAGGTATC
* *
21859581 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
21859602 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
21859625 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
21859644 TGC-AATCATATCT
1 TACAAATCATATCT
21859657 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:21859673 original size:35 final size:37
Alignment explanation
Indices: 21859610--21859707 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
21859600 ATTACAAAAT
21859610 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
21859646 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
21859681 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
21859708 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:21859715 original size:17 final size:19
Alignment explanation
Indices: 21859617--21859707 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
21859607 AATCATATCT
21859617 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21859636 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
21859654 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
21859671 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21859690 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
21859708 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Done.