Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 60 of 253
Found at i:16817455 original size:30 final size:30
Alignment explanation
Indices: 16817425--16817481 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
16817415 CCACCCAACT
16817425 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
16817454 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
16817482 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:16820706 original size:93 final size:93
Alignment explanation
Indices: 16820594--16820765 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
16820584 GCCCATAAGT
* *
16820594 GAACTCGGACTCAACTCAACGAGCTAGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
16820659 CGAGCTCGGATGCCTAGTTAAATCTCTC
66 CGAGCTCGGATGCCTAGTTAAATCTCTC
* * * *
16820687 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
16820752 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
16820766 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTAAATCTCTC
Found at i:16820761 original size:46 final size:46
Alignment explanation
Indices: 16820586--16820761 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
16820576 TGTAACCCGC
* * * *
16820586 CCATAAGTGAACTCGGACTCAACTCAACGAGCTAGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * **
16820632 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTAAAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
16820682 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
16820725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
16820762 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
46 63 0.59
47 27 0.25
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:16820780 original size:46 final size:46
Alignment explanation
Indices: 16820637--16820780 Score: 113
Period size: 46 Copynumber: 3.1 Consensus size: 46
16820627 CGCATCCATA
* * *
16820637 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTAA-ATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---AATATC-CT
* **
16820686 --CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAAT--ATCC-T
16820729 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
16820776 AGTGA
1 AGTGA
16820781 CATGTCACTT
Statistics
Matches: 75, Mismatches: 9, Indels: 25
0.69 0.08 0.23
Matches are distributed among these distances:
42 1 0.01
43 5 0.07
46 34 0.45
47 28 0.37
48 4 0.05
50 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
Found at i:16831140 original size:11 final size:10
Alignment explanation
Indices: 16831117--16831159 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
16831107 GTACATCTGC
*
16831117 TCTTTTTTGT
1 TCTTTTTTTT
16831127 TCTTTTTGTTT
1 TCTTTTT-TTT
*
16831138 TCTTTTGTTT
1 TCTTTTTTTT
*
16831148 TCCTTTTTTT
1 TCTTTTTTTT
16831158 TC
1 TC
16831160 ATGAGCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:16831141 original size:21 final size:20
Alignment explanation
Indices: 16831117--16831159 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
16831107 GTACATCTGC
*
16831117 TCTTTT-TTGTTCTTTTTGTTT
1 TCTTTTGTT-TTCCTTTT-TTT
16831138 TCTTTTGTTTTCCTTTTTTT
1 TCTTTTGTTTTCCTTTTTTT
16831158 TC
1 TC
16831160 ATGAGCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 13 0.65
22 2 0.10
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (20 bp):
TCTTTTGTTTTCCTTTTTTT
Found at i:16833815 original size:20 final size:20
Alignment explanation
Indices: 16833778--16833815 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16833768 GAACTTCCTC
*
16833778 TCTCTCTTGAGCTACAACAG
1 TCTCTCTTGAACTACAACAG
16833798 TCTCATCTTGAACT-CAAC
1 TCTC-TCTTGAACTACAAC
16833816 CATATTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (20 bp):
TCTCTCTTGAACTACAACAG
Found at i:16843461 original size:127 final size:127
Alignment explanation
Indices: 16843235--16843489 Score: 510
Period size: 127 Copynumber: 2.0 Consensus size: 127
16843225 CTCACATATA
16843235 TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
1 TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
16843300 ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
66 ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
16843362 TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
1 TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
16843427 ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
66 ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
16843489 T
1 T
16843490 TAACACAAGG
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (127 bp):
TGACATAGGCATTTTCACCTATGCTTCTCATTTCACACTCATGATTCAATTCCAATCGATCTAAC
ATGCATAAGAATATATCACATACCTGGCCAACTTAATGCATTGAACAAATTCAATTGCCGAT
Found at i:16843744 original size:26 final size:26
Alignment explanation
Indices: 16843715--16843774 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
16843705 TCCCTTTGAA
* * *
16843715 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
16843741 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
16843769 TCATTC
1 TCATTC
16843775 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:16843760 original size:28 final size:28
Alignment explanation
Indices: 16843729--16843791 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
16843719 TCGATATTTT
16843729 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
16843757 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
16843785 GTACACT
1 GCACACT
16843792 GAGTACCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTCAATATCTC
Found at i:16846622 original size:49 final size:49
Alignment explanation
Indices: 16846550--16846643 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
16846540 TTGTGTTCTA
*
16846550 AGAAATCCAAAATTAATTCAAATGATTCTGAGTGAAGCTCACAGTTTTG
1 AGAAATCCAAAATTAATTCAAATGATTCTAAGTGAAGCTCACAGTTTTG
*
16846599 AGAAATCTAAAATTAATTCAAATGATTCTAAGTGAAGCTCACAGT
1 AGAAATCCAAAATTAATTCAAATGATTCTAAGTGAAGCTCACAGT
16846644 AGTCGTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (49 bp):
AGAAATCCAAAATTAATTCAAATGATTCTAAGTGAAGCTCACAGTTTTG
Found at i:16862780 original size:44 final size:44
Alignment explanation
Indices: 16862708--16862795 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
16862698 ATTACATGTA
* ** *
16862708 TCGCATCCATTATGAACCTTGACCAACTCCACGAGTTCGAATGC
1 TCGCATCCATAATGAACCCAGACCAACTCAACGAGTTCGAATGC
* * *
16862752 TCGCATCCATAATGAACCCAGACTAACTCAATGAGTTCGGATGC
1 TCGCATCCATAATGAACCCAGACCAACTCAACGAGTTCGAATGC
16862796 CTCATATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (44 bp):
TCGCATCCATAATGAACCCAGACCAACTCAACGAGTTCGAATGC
Found at i:16864918 original size:39 final size:40
Alignment explanation
Indices: 16864708--16864938 Score: 313
Period size: 40 Copynumber: 5.8 Consensus size: 40
16864698 GAATATAACT
* * *
16864708 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
16864748 ACTCGCACAATTGCCTTCGGGACTTAGCCCGAATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
16864788 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
16864828 ATTCGCACAAATGCCTTCGGGACTTAGCCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
16864868 ACTCGCCCAGATGCCTTCGGGACTTAGCCCGGA-TTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
16864907 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
16864939 TTTTCATCCA
Statistics
Matches: 173, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 34 0.20
40 137 0.79
41 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:16868538 original size:18 final size:18
Alignment explanation
Indices: 16868515--16868551 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16868505 GTTTTATGTC
* *
16868515 TGTTTATTTTTGTTTTTA
1 TGTTTATTTGTGTGTTTA
16868533 TGTTTATTTGTGTGTTTA
1 TGTTTATTTGTGTGTTTA
16868551 T
1 T
16868552 TTTTTATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.16, T:0.73
Consensus pattern (18 bp):
TGTTTATTTGTGTGTTTA
Found at i:16870631 original size:43 final size:44
Alignment explanation
Indices: 16870573--16870723 Score: 182
Period size: 43 Copynumber: 3.5 Consensus size: 44
16870563 GATTGCTGAG
* *
16870573 ATGTGAATACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
16870617 -TGTGATTACGTGTAAGACCATGTTTTGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
16870659 ATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCAACG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
16870702 GTGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
16870724 TTTGGGATAT
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 89 0.99
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:16873474 original size:10 final size:10
Alignment explanation
Indices: 16873446--16873475 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
16873436 TAGTTTTAAG
16873446 TTTAGTTTTC
1 TTTAGTTTTC
16873456 TTTAGGTTTTC
1 TTTA-GTTTTC
16873467 TTTAGTTTT
1 TTTAGTTTT
16873476 TCTCTGCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:16873970 original size:182 final size:181
Alignment explanation
Indices: 16873664--16874018 Score: 584
Period size: 182 Copynumber: 2.0 Consensus size: 181
16873654 TAGTTAAATT
* *
16873664 TATTTCAGTTTATTTTACTTCAAATGTGTTAAAGCTTGTTCCTTTTATGTTTCTTGCTTTAGATT
1 TATTTCAGTTTATTTTACGTCAAATATGTTAAAGCTTGTTCCTTTTATGTTTCTTGCTTTAGATT
*
16873729 TCTTTGTTAAATGCTTTTGGTTTCATGTTATTTAAGTTTTCTTGCTTAAAAATCTCAACTTTCAC
66 TCTTTGTTAAATGCTTTTGGTTTCATGTTATTTAAGTTTTCTTGCATAAAAATCTCAACTTTCAC
*
16873794 ATTTTTCGTAAGCTTTACTTTCATAGCTTCTTTGTTTCCTATTTTTGTATG
131 ATTTTTCGTAACCTTTACTTTCATAGCTTCTTTGTTTCCTATTTTTGTATG
* ** * * *
16873845 TATTTCAGTTTATTTTAGGTCAAATATGTTAAATTTTGTTCCTTTTATGTTTTTTTTCTTTATAT
1 TATTTCAGTTTATTTTACGTCAAATATGTTAAAGCTTGTTCCTTTTATG-TTTCTTGCTTTAGAT
*
16873910 TTCTTTGTTAAATGCTTTTGGTTTCATGTTATTTAAGTTTTCTTGCATAAAAGTCTCAACTTTCA
65 TTCTTTGTTAAATGCTTTTGGTTTCATGTTATTTAAGTTTTCTTGCATAAAAATCTCAACTTTCA
* *
16873975 CATTTTTCTTAACCTTTACTTTCATGGCTTCTTTGTTTCCTATT
130 CATTTTTCGTAACCTTTACTTTCATAGCTTCTTTGTTTCCTATT
16874019 GTTTTGTTTA
Statistics
Matches: 160, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
181 44 0.28
182 116 0.73
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.55
Consensus pattern (181 bp):
TATTTCAGTTTATTTTACGTCAAATATGTTAAAGCTTGTTCCTTTTATGTTTCTTGCTTTAGATT
TCTTTGTTAAATGCTTTTGGTTTCATGTTATTTAAGTTTTCTTGCATAAAAATCTCAACTTTCAC
ATTTTTCGTAACCTTTACTTTCATAGCTTCTTTGTTTCCTATTTTTGTATG
Found at i:16877201 original size:47 final size:47
Alignment explanation
Indices: 16877148--16878122 Score: 1639
Period size: 47 Copynumber: 20.6 Consensus size: 47
16877138 TATTTGAATA
16877148 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
16877195 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
16877244 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
16877291 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
16877340 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
16877387 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
16877434 AATGTGAAAGTGTTTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
16877483 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
16877530 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
16877577 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
16877624 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
16877673 -A-GTGAAAATGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
16877718 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
16877765 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
16877814 AATGTGAAAGTGTATATATTTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
16877861 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
16877908 AATGTGAAAGTGTAAATATGTGATAAGGTCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
16877955 AATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
16878002 AATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
16878049 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
16878096 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
16878123 TCCCGAGGGG
Statistics
Matches: 876, Mismatches: 40, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
45 35 0.04
46 1 0.00
47 622 0.71
48 1 0.00
49 217 0.25
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:16877406 original size:143 final size:141
Alignment explanation
Indices: 16877148--16878122 Score: 1639
Period size: 143 Copynumber: 6.9 Consensus size: 141
16877138 TATTTGAATA
16877148 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
16877213 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
16877278 GGCCAATGTGATG
129 GGCCGATGTGATG
16877291 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
16877356 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
16877421 GGCCGATGTGATG
129 GGCCGATGTGATG
*
16877434 AATGTGAAAGTGTTTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
16877499 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
16877564 GGCCGATGTGATG
129 GGCCGATGTGATG
*
16877577 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
16877642 TATGTGATAAGGCCTAATGGCCGATGTGATG-A-GTGAAAATGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
16877705 GGCCGATGTGATG
129 GGCCGATGTGATG
* *
16877718 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
16877783 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
16877848 AGCCGATGTGATG
129 GGCCGATGTGATG
*
16877861 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAAATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
16877926 TGTGATAAGGTCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
16877991 CCGATGTGATG
131 CCGATGTGATG
*
16878002 AATGTGAAAGTGTATATATGTGATAAGTCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
16878067 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
16878123 TCCCGAGGGG
Statistics
Matches: 793, Mismatches: 33, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
141 368 0.46
142 2 0.00
143 376 0.47
145 47 0.06
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATG
Found at i:16877671 original size:22 final size:22
Alignment explanation
Indices: 16877643--16877716 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
16877633 GTGTATATAT
16877643 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* ** ****
16877665 ATGTGATGAGTG-AAAATGTATAT
1 ATGTGATAAG-GCCTAATG-GCCG
16877688 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
16877710 ATGTGAT
1 ATGTGAT
16877717 GAATGTGAAA
Statistics
Matches: 35, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 21 0.60
23 14 0.40
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:16878342 original size:37 final size:37
Alignment explanation
Indices: 16878243--16878342 Score: 164
Period size: 37 Copynumber: 2.7 Consensus size: 37
16878233 GAGCTCTAAG
*
16878243 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAA
*
16878280 GACCCGATGACTACGTATGGAGATTTTGTCCGGGTAA
1 GACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAA
* *
16878317 GACCCGATAACTTCGTGTGGAGATTT
1 GACCCGATGACTACGTGTGGAGATTT
16878343 CGTCTGAGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
GACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAA
Found at i:16880561 original size:18 final size:18
Alignment explanation
Indices: 16880538--16880581 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
16880528 AAACATACGG
16880538 AGTAAGCTTTGAAAGCTT
1 AGTAAGCTTTGAAAGCTT
16880556 AGTAAGCTTTGAAAGCTT
1 AGTAAGCTTTGAAAGCTT
16880574 AGTAAGCT
1 AGTAAGCT
16880582 CGTATCTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (18 bp):
AGTAAGCTTTGAAAGCTT
Found at i:16880580 original size:9 final size:9
Alignment explanation
Indices: 16880538--16880581 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
16880528 AAACATACGG
16880538 AGTAAGCTT
1 AGTAAGCTT
* *
16880547 TGAAAGCTT
1 AGTAAGCTT
16880556 AGTAAGCTT
1 AGTAAGCTT
* *
16880565 TGAAAGCTT
1 AGTAAGCTT
16880574 AGTAAGCT
1 AGTAAGCT
16880582 CGTATCTTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (9 bp):
AGTAAGCTT
Found at i:16885769 original size:81 final size:80
Alignment explanation
Indices: 16885606--16885794 Score: 301
Period size: 81 Copynumber: 2.4 Consensus size: 80
16885596 GTCATTTTGC
* *
16885606 CACATAAGGGCAAAATTGTCATTTTATCACATAAGGGAAAATCGTTATTTTAACACATAAGGGCA
1 CACATAAGGGCAAAATAGTCATTTTACCACATAAGGGAAAATCGTTATTTTAACACATAAGGGCA
16885671 AAATCATCAATTTAA
66 AAATCATCAATTTAA
*
16885686 CACATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAA-C-TATCATTTTATCACATAAGG
1 CACATAAGGGCAAAATAGTCATTTTACCACATAAGGG-AAAATCGT-T-ATTTTAACACATAAGG
*
16885749 GCAAAATCGTCAATTTAA
63 GCAAAATCATCAATTTAA
16885767 CACATAAGGGCAAAATAGTCATTTTACC
1 CACATAAGGGCAAAATAGTCATTTTACC
16885795 CTATAGGGGT
Statistics
Matches: 102, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
79 1 0.01
80 37 0.36
81 64 0.63
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (80 bp):
CACATAAGGGCAAAATAGTCATTTTACCACATAAGGGAAAATCGTTATTTTAACACATAAGGGCA
AAATCATCAATTTAA
Found at i:16885792 original size:27 final size:27
Alignment explanation
Indices: 16885586--16885792 Score: 267
Period size: 27 Copynumber: 7.7 Consensus size: 27
16885576 CATCACATTG
* **
16885586 GGGCAAAACAGTCATTTTGCCACATAA
1 GGGCAAAATAGTCATTTTAACACATAA
* *
16885613 GGGCAAAATTGTCATTTTATCACATAA
1 GGGCAAAATAGTCATTTTAACACATAA
* *
16885640 GGG-AAAATCGTTATTTTAACACATAA
1 GGGCAAAATAGTCATTTTAACACATAA
*
16885666 GGGCAAAATCA-TCAATTTAACACATAA
1 GGGCAAAAT-AGTCATTTTAACACATAA
*
16885693 GGGCAAAATAGTCATTTTACCACATAA
1 GGGCAAAATAGTCATTTTAACACATAA
*
16885720 GGGCAAAACTA-TCATTTTATCACATAA
1 GGGCAAAA-TAGTCATTTTAACACATAA
* *
16885747 GGGCAAAATCGTCAATTTAACACATAA
1 GGGCAAAATAGTCATTTTAACACATAA
16885774 GGGCAAAATAGTCATTTTA
1 GGGCAAAATAGTCATTTTA
16885793 CCCTATAGGG
Statistics
Matches: 157, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
26 25 0.16
27 130 0.83
28 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTTAACACATAA
Found at i:16885814 original size:27 final size:26
Alignment explanation
Indices: 16885784--16886128 Score: 415
Period size: 27 Copynumber: 12.9 Consensus size: 26
16885774 GGGCAAAATA
16885784 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
16885811 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
16885838 GTCATCTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
16885865 GTCATTGTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
16885892 GTCATTGTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
16885919 GTCATTTTACCCTCTGTGGATATTTTG
1 GTCATTTTACCCTATG-GGGTATTTCG
16885946 GTCATTTTACCCTATTGGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTTCG
* *
16885973 GTCATCTTACCTTATGGGAGTA-TTCG
1 GTCATTTTACCCTATGGG-GTATTTCG
* * *
16885999 ATCATCTTACCCTATGGGGTTATTTCT
1 GTCATTTTACCCTATGGGG-TATTTCG
*
16886026 GTCTTTTTACCCTATGGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
* *
16886052 GTCATCTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
16886079 GTCATCTTACCCTAT-GGGCATTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
*
16886104 GTCATCTTACCCTATGGGGGTATTT
1 GTCATTTTACCCTAT-GGGGTATTT
16886129 TGATCACCAT
Statistics
Matches: 282, Mismatches: 28, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
25 24 0.09
26 46 0.16
27 210 0.74
28 2 0.01
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:16885865 original size:54 final size:53
Alignment explanation
Indices: 16885784--16886128 Score: 462
Period size: 54 Copynumber: 6.5 Consensus size: 53
16885774 GGGCAAAATA
* * *
16885784 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCA
1 GTCATCTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCG
*
16885838 GTCATCTTACCCTATGGGGGTATTTCGGTCATTGTACCCTATGGGGGTATTTCG
1 GTCATCTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCG
* * *
16885892 GTCAT-TGTACCCTATGGGGGTATTTCGGTCATTTTACCCTCTGTGGATATTTTG
1 GTCATCT-TACCCTATGGGGGTATTTCGGTCATTTTACCCTATG-GGGTATTTCG
* * * *
16885946 GTCATTTTACCCTATTGGGGTATTTCGGTCATCTTACCTTATGGGAGTA-TTCG
1 GTCATCTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGG-GTATTTCG
* * * *
16885999 ATCATCTTACCCTATGGGGTTATTTCTGTCTTTTTACCCTATGGGGTATTTCG
1 GTCATCTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCG
* * *
16886052 GTCATCTTACCCTATGGGGGTATTTCAGTCATCTTACCCTAT-GGGCATTTCG
1 GTCATCTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCG
16886104 GTCATCTTACCCTATGGGGGTATTT
1 GTCATCTTACCCTATGGGGGTATTT
16886129 TGATCACCAT
Statistics
Matches: 257, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
52 37 0.14
53 85 0.33
54 134 0.52
55 1 0.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (53 bp):
GTCATCTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCG
Found at i:16885869 original size:81 final size:81
Alignment explanation
Indices: 16885784--16886128 Score: 468
Period size: 81 Copynumber: 4.3 Consensus size: 81
16885774 GGGCAAAATA
* * *
16885784 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCAGTCATCTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATCTTACCCTATGGGGGTATTTCAGTCATCTTACC
16885849 CTATGGGGGTATTTCG
66 CTATGGGGGTATTTCG
* * *
16885865 GTCATTGTACCCTATGGGGGTATTTCGGTCAT-TGTACCCTATGGGGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATCT-TACCCTATGGGGGTATTTCAGTCATCTTAC
* * * *
16885929 CCTCTGTGGATATTTTG
65 CCTATGGGGGTATTTCG
* * *
16885946 GTCATTTTACCCTATTGGGGTATTTCGGTCATCTTACCTTATGGGAGTA-TTC-GATCATCTTAC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATCTTACCCTATGGGGGTATTTCAG-TCATCTTAC
* *
16886009 CCTATGGGGTTATTTCT
65 CCTATGGGGGTATTTCG
*
16886026 GTCTTTTTACCCTAT-GGGGTATTTCGGTCATCTTACCCTATGGGGGTATTTCAGTCATCTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATCTTACCCTATGGGGGTATTTCAGTCATCTTACC
*
16886090 CTAT--GGGCATTTCG
66 CTATGGGGGTATTTCG
*
16886104 GTCATCTTACCCTATGGGGGTATTT
1 GTCATTTTACCCTATGGGGGTATTT
16886129 TGATCACCAT
Statistics
Matches: 231, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
78 20 0.09
79 41 0.18
80 55 0.24
81 114 0.49
82 1 0.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.41
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATCTTACCCTATGGGGGTATTTCAGTCATCTTACC
CTATGGGGGTATTTCG
Found at i:16888375 original size:16 final size:15
Alignment explanation
Indices: 16888354--16888384 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
16888344 CTTCAAAGAC
16888354 ATTAAAAATACAAAAA
1 ATTAAAAATA-AAAAA
16888370 ATTAAAAATAAAAAA
1 ATTAAAAATAAAAAA
16888385 CGGGGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
ATTAAAAATAAAAAA
Found at i:16897111 original size:27 final size:27
Alignment explanation
Indices: 16897080--16897338 Score: 240
Period size: 27 Copynumber: 9.6 Consensus size: 27
16897070 TTAGTTTACC
** * **
16897080 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
16897107 AAATTACCAAAATA-CCCT-GCTTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* ** * *
16897133 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
16897160 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
16897187 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
16897214 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
16897241 AAATTACCAAAATACCCCT-GATTTATG
1 AAATTACCAAAATACCCCTAG-TTTGTA
** * **
16897268 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*** *
16897295 AAATTATTGAAATA-CCCTAGACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
*
16897322 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
16897339 TTGATTTACA
Statistics
Matches: 196, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
25 1 0.01
26 24 0.12
27 168 0.86
28 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:16897137 original size:53 final size:54
Alignment explanation
Indices: 16897080--16897284 Score: 270
Period size: 54 Copynumber: 3.8 Consensus size: 54
16897070 TTAGTTTACC
*
16897080 AAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATA-CCCT-GCTTTGTA
1 AAATTACCAAAATACCATTGGTTTATAAAATTACCAAAATACCCCTAG-TTTGTA
*
16897133 AAATTACTAAAATACCATTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCATTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
** * * *
16897187 AAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCATTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
** * * **
16897241 AAATTACCAAAATACCCCTGATTTATGAAATTACTGAAATACCC
1 AAATTACCAAAATACCATTGGTTTATAAAATTACCAAAATACCC
16897285 TCGACCTGTA
Statistics
Matches: 135, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
53 39 0.29
54 95 0.70
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCATTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:16897365 original size:81 final size:80
Alignment explanation
Indices: 16897080--16897393 Score: 219
Period size: 81 Copynumber: 3.9 Consensus size: 80
16897070 TTAGTTTACC
** * * * * *
16897080 AAATTACCAAAATACCATTGGTTTACA-AAATTACCAAAATACCCT-G-CTTTGTAAAATTACTA
1 AAATTACCAAAATACCCCTGATTTA-AGAAATTACCGAAATACCCTCGAC-CTGTAAAATTATTG
* * * *
16897142 AAATACCATTGGTTTATA
64 AAATACC-CTAGCTTGTA
* * * ** *
16897160 AAATTACCAAAATACCCCT-AGTTTGTA-AAATTACCAAAATACCC-CTAGTTTGTAAAATTATC
1 AAATTACCAAAATACCCCTGA-TTT-AAGAAATTACCGAAATACCCTCGA-CCTGTAAAATTATT
* *
16897222 AAAATACCCCTAGTTTGTA
63 GAAATA-CCCTAGCTTGTA
* *
16897241 AAATTACCAAAATACCCCTGATTTATGAAATTACTGAAATACCCTCGACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTGATTTAAGAAATTACCGAAATACCCTCGACCTGTAAAATTATTGAA
16897306 ATACCCTAGACTTGTA
66 ATACCCTAG-CTTGTA
* * *** ** ** *
16897322 AAATTACCAAAGTACCCTTGATTTACAG-AATTACCGTTTTACCCTCGATTTACAAAATTACTGA
1 AAATTACCAAAATACCCCTGATTTA-AGAAATTACCGAAATACCCTCGACCTGTAAAATTATTGA
16897386 AATACCCT
65 AATACCCT
16897394 TGTAGGGTAG
Statistics
Matches: 190, Mismatches: 33, Indels: 21
0.78 0.14 0.09
Matches are distributed among these distances:
80 44 0.23
81 140 0.74
82 6 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGATTTAAGAAATTACCGAAATACCCTCGACCTGTAAAATTATTGAA
ATACCCTAGCTTGTA
Found at i:16897391 original size:27 final size:27
Alignment explanation
Indices: 16897101--16897393 Score: 132
Period size: 27 Copynumber: 10.9 Consensus size: 27
16897091 ATACCATTGG
* ** *
16897101 TTTACAAAATTACCAAAATACCCT-GC
1 TTTATAAAATTACTGAAATACCCTCGA
* * * * *
16897127 TTTGTAAAATTACTAAAATACCATTGG
1 TTTATAAAATTACTGAAATACCCTCGA
** *
16897154 TTTATAAAATTACCAAAATACCC-CTA
1 TTTATAAAATTACTGAAATACCCTCGA
* ** *
16897180 GTTTGTAAAATTACCAAAATACCC-CTA
1 -TTTATAAAATTACTGAAATACCCTCGA
* * *
16897207 GTTTGTAAAATTA-TCAAAATACCC-CTA
1 -TTTATAAAATTACT-GAAATACCCTCGA
* **
16897234 GTTTGTAAAATTACCAAAATACCC-CTGA
1 -TTTATAAAATTACTGAAATACCCTC-GA
*
16897262 TTTATGAAATTACTGAAATACCCTCGA
1 TTTATAAAATTACTGAAATACCCTCGA
** * * *
16897289 CCTGTAAAATTATTGAAATACCCTAGA
1 TTTATAAAATTACTGAAATACCCTCGA
* * * *
16897316 CTTGTAAAATTAC-CAAAGTACCCTTGA
1 TTTATAAAATTACTGAAA-TACCCTCGA
* * * ***
16897343 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTATAAAATTACTGAAATACCCTCGA
*
16897370 TTTACAAAATTACTGAAATACCCT
1 TTTATAAAATTACTGAAATACCCT
16897394 TGTAGGGTAG
Statistics
Matches: 216, Mismatches: 43, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
26 23 0.11
27 191 0.88
28 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTATAAAATTACTGAAATACCCTCGA
Found at i:16897414 original size:27 final size:27
Alignment explanation
Indices: 16897384--16897595 Score: 248
Period size: 27 Copynumber: 7.9 Consensus size: 27
16897374 CAAAATTACT
16897384 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
16897411 GAAATACCCCTATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
16897438 AAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* ** * *
16897465 AAAATACCCCCGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
16897492 GAAATACCCTTGTATGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
16897519 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
16897546 GAAATACTCC-TGTAAGGTAGAATTACC
1 GAAATAC-CCTTGTAGGGTAGAAATACC
* *
16897573 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
16897596 TACCATTTTA
Statistics
Matches: 157, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
26 5 0.03
27 150 0.96
28 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Found at i:16897582 original size:81 final size:80
Alignment explanation
Indices: 16897377--16897600 Score: 306
Period size: 81 Copynumber: 2.8 Consensus size: 80
16897367 CGATTTACAA
* * *
16897377 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAAATACCAAAA
1 AATTACTGAAATACCC-TGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAA
16897442 TACCCTTGTAGGGTAG
65 TACCCTTGTAGGGTAG
* * * * *
16897458 AATTACTAAAATACCCCCGTAGGGTAGAATTATCGAAATACCCTTGTATGGTAGAAATACCGAAA
1 AATTACTGAAATA-CCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAA
16897523 TACCCTTGTAGGGTAG
65 TACCCTTGTAGGGTAG
* * *
16897539 AATTACTGAAATACTCCTGTAAGGTAGAATTACCGAGATACCCTTGTGGGGTA-AAATTACCA
1 AATTACTGAAATAC-CCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACCA
16897601 TTTTACCCCT
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 4 0.03
81 117 0.94
82 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (80 bp):
AATTACTGAAATACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAAT
ACCCTTGTAGGGTAG
Found at i:16897996 original size:27 final size:26
Alignment explanation
Indices: 16897956--16898015 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
16897946 ATATATATAT
* *
16897956 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
16897982 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
16898009 ATATCTG
1 ATATCTG
16898016 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:16898143 original size:6 final size:6
Alignment explanation
Indices: 16898134--16898206 Score: 78
Period size: 6 Copynumber: 11.8 Consensus size: 6
16898124 TTGCATTCAC
* *
16898134 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
16898184 ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
16898207 CATTTTCATT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
5 3 0.05
6 46 0.81
7 6 0.11
8 2 0.04
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:16898165 original size:25 final size:25
Alignment explanation
Indices: 16898137--16898201 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
16898127 CATTCACATT
*
16898137 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
16898162 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
16898187 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
16898202 ATTCTCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:16898169 original size:31 final size:28
Alignment explanation
Indices: 16898134--16898206 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 28
16898124 TTGCATTCAC
16898134 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTC---TACCTGATACTG
*
16898165 ATTCTGATTCTG--TC-ACCTGATTCTG
1 ATTCTGATTCTGATTCTACCTGATACTG
16898190 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
16898207 CATTTTCATT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
25 22 0.58
27 2 0.05
29 2 0.05
31 12 0.32
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.47
Consensus pattern (28 bp):
ATTCTGATTCTGATTCTACCTGATACTG
Found at i:16900846 original size:23 final size:23
Alignment explanation
Indices: 16900793--16900846 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
16900783 AAAAGAACAA
* *
16900793 AAAGAAAAAATAGCTAAAAAAAG
1 AAAGAAAAAAGAGCGAAAAAAAG
* * *
16900816 AAAGGAAAAAAGAGGGAAAAGAAT
1 AAA-GAAAAAAGAGCGAAAAAAAG
16900840 AAAGAAA
1 AAAGAAA
16900847 GTGAAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.06
Consensus pattern (23 bp):
AAAGAAAAAAGAGCGAAAAAAAG
Found at i:16900852 original size:29 final size:29
Alignment explanation
Indices: 16900810--16900877 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
16900800 AAATAGCTAA
* *
16900810 AAAAAGAAAG-GAAAAAAGA-GGGAAAAG
1 AAAAAGAAAGTGAAAAAAAATGAGAAAAG
*
16900837 AATAAAGAAAGTGAAAAAAAATGAGAGAAG
1 AA-AAAGAAAGTGAAAAAAAATGAGAAAAG
16900867 AAAAAGAAAGT
1 AAAAAGAAAGT
16900878 AAAGATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.06
28 8 0.23
29 17 0.49
30 8 0.23
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (29 bp):
AAAAAGAAAGTGAAAAAAAATGAGAAAAG
Found at i:16906466 original size:40 final size:40
Alignment explanation
Indices: 16906368--16906629 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
16906358 TCCTCGTTCA
* * * * *
16906368 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
16906407 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16906447 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16906487 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
16906526 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
16906566 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
16906606 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16906630 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 76 0.39
40 112 0.57
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16906577 original size:79 final size:78
Alignment explanation
Indices: 16906368--16906629 Score: 319
Period size: 79 Copynumber: 3.3 Consensus size: 78
16906358 TCCTCGTTCA
* * * * *
16906368 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTC-GGACTTAACCCGGATT
*
16906433 TAACAACTCGCACG
65 TAATAACTCGCACG
* *
16906447 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGACTTAACCCGGATT
16906512 TAATAACTCGCACG
65 TAATAACTCGCACG
* * *
16906526 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGATCTTAATCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGA-CTTAACCCGGAT
* * * *
16906591 ATATTCACTTAGCAC-
64 TTAATAAC-TCGCACG
* *
16906606 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16906630 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 108 0.68
80 47 0.29
81 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (78 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGACTTAACCCGGATTT
AATAACTCGCACG
Found at i:16913983 original size:40 final size:40
Alignment explanation
Indices: 16913885--16914147 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
16913875 TCCTCGTTCA
* * * * *
16913885 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
16913924 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16913964 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16914004 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
16914044 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
16914084 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
16914124 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16914148 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16930202 original size:79 final size:77
Alignment explanation
Indices: 16930101--16930322 Score: 277
Period size: 79 Copynumber: 2.8 Consensus size: 77
16930091 GCTACTCGTT
* * *
16930101 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGG-CTTAGCCCAG-TATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGA
16930166 ATTTAGTAACTCGCA
64 A-TTAGTAACTCGCA
* *
16930181 CCAATGCCTTCGGGCTTAGCCCAGAATTAGTAACTTGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCAGTA-TAGTAACTTGCACAAATGCCTTCGGGACTTAGCCC-GA
16930245 ATTAGTAACTCGCA
64 ATTAGTAACTCGCA
* * * *
16930259 CAAATGCCTTCGGATCTTAGTCTAGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCAG-TATAGTAACTT-GCACAAATGCCTTCGGGACTTAGCCCG
16930323 GACATCATTC
Statistics
Matches: 125, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
78 33 0.26
79 63 0.50
80 29 0.23
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCAGTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGAAT
TAGTAACTCGCA
Found at i:16930226 original size:39 final size:39
Alignment explanation
Indices: 16930101--16930322 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 39
16930091 GCTACTCGTT
* **
16930101 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAT-TAGTAACTTGCA
* *
16930141 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAA-TTAGTAACTTGCA
*
16930181 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCC-GAATTAGTAACTTGCA
*
16930220 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GAATTAGTAACTTGCA
* * *
16930259 CAAATGCCTTC-GGATCTTAG-TCTAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGA-AT-TAGTAACTT-GCA
16930300 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
16930323 GACATCATTC
Statistics
Matches: 156, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
38 3 0.02
39 69 0.44
40 72 0.46
41 12 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGAATTAGTAACTTGCA
Found at i:16943240 original size:21 final size:21
Alignment explanation
Indices: 16943216--16943255 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16943206 GCCTAATATG
*
16943216 TGAATTGGATTGAATTGAGTA
1 TGAATTGGATTAAATTGAGTA
*
16943237 TGAATTGTATTAAATTGAG
1 TGAATTGGATTAAATTGAG
16943256 CTAAATTTAC
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:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (21 bp):
TGAATTGGATTAAATTGAGTA
Found at i:16948524 original size:12 final size:12
Alignment explanation
Indices: 16948507--16948532 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16948497 ATGTAAGCGA
16948507 TTTTGATGATTT
1 TTTTGATGATTT
16948519 TTTTGATGATTT
1 TTTTGATGATTT
16948531 TT
1 TT
16948533 ACATTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (12 bp):
TTTTGATGATTT
Found at i:16955633 original size:12 final size:12
Alignment explanation
Indices: 16955616--16955640 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16955606 ATGTAAGTGA
16955616 TCTTGATGATTT
1 TCTTGATGATTT
16955628 TCTTGATGATTT
1 TCTTGATGATTT
16955640 T
1 T
16955641 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:16956542 original size:48 final size:47
Alignment explanation
Indices: 16956451--16956570 Score: 143
Period size: 48 Copynumber: 2.5 Consensus size: 47
16956441 GAGTTGTGCT
* *
16956451 AGTGTAAGACATGTCTGGGACATGCATCAGCATGCATAAATGAGAGCC
1 AGTGTAAGACATGTCTGAGACATGCATCAGCA-GCAGAAATGAGAGCC
* * *
16956499 AGTGTAAGACCATGTCTGAGACATGACATCGGCA-CAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGAGACATG-CATCAGCAGCAGAAATGAGAGCC
* *
16956547 AGAGTAAGACATGTCTAAGACATG
1 AGTGTAAGACATGTCTGAGACATG
16956571 TTTGGGACAT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
47 14 0.22
48 28 0.44
49 14 0.22
50 7 0.11
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGAGACATGCATCAGCAGCAGAAATGAGAGCC
Found at i:16956702 original size:198 final size:198
Alignment explanation
Indices: 16956364--16956730 Score: 590
Period size: 198 Copynumber: 1.9 Consensus size: 198
16956354 TGTGCCAGAG
*
16956364 TAAGACATGTCTGGGACATCCATCAGCCTCAACAGAGATAGCCAGTGTAAGATGTGTCTAGGACA
1 TAAGACATGTCTGGGACATCCATCAGCCTCAACAGAGATAGCCAGTGTAAAATGTGTCTAGGACA
* * *
16956429 TGCATCGGCTAAGAGTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATAAATGA
66 CGCATCGGCTAAGAGTTGTCCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGA
16956494 GAGCCAGTGTAAGACCATGTCTGAGACATGACATCGGCACAGAGATGAGTGCCAGAGTAAGACAT
131 GAGCCAGTGTAAGACCATGTCTGAGACATGACATCGGCACAGAGATGAGTGCCAGAGTAAGACAT
16956559 GTC
196 GTC
* * * *
16956562 TAAGACATGTTTGGGACATTCATCGGCCTCAACAGAGATAGCCAGTGTAAAATGTGTCTGGGACA
1 TAAGACATGTCTGGGACATCCATCAGCCTCAACAGAGATAGCCAGTGTAAAATGTGTCTAGGACA
* * * * *
16956627 CGCATCGGCTAAGAGTTGTCCTATTGTAAGACATGTTTGGGACATGCATCAGGACGTATATATGA
66 CGCATCGGCTAAGAGTTGTCCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGA
* * *
16956692 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCA
131 GAGCCAGTGTAAGACCATGTCTGAGACATGACATCGGCA
16956731 ATATATACCA
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
198 153 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (198 bp):
TAAGACATGTCTGGGACATCCATCAGCCTCAACAGAGATAGCCAGTGTAAAATGTGTCTAGGACA
CGCATCGGCTAAGAGTTGTCCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGA
GAGCCAGTGTAAGACCATGTCTGAGACATGACATCGGCACAGAGATGAGTGCCAGAGTAAGACAT
GTC
Found at i:16958126 original size:16 final size:16
Alignment explanation
Indices: 16958098--16958168 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
16958088 GTTTGGTTTA
* *
16958098 CTGTAATGAAATAGGG
1 CTGTAATGGAATAGAG
*
16958114 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
16958130 CTATAATGGAGTAGAG
1 CTGTAATGGAATAGAG
* *
16958146 TTGTACTGGAATAGAG
1 CTGTAATGGAATAGAG
16958162 CTGTAAT
1 CTGTAAT
16958169 CAGTAATTCA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:16958236 original size:44 final size:46
Alignment explanation
Indices: 16958154--16958242 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
16958144 AGTTGTACTG
*
16958154 GAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATT
1 GAATAGAGCTGTAATCAGTAATTCAATTATTTGGTTGAATGGAATT
*
16958200 GAATAGAGCTGTAAT-AG-AATTC-TTCTATTTGGTTGAATGGAAT
1 GAATAGAGCTGTAATCAGTAATTCAAT-TATTTGGTTGAATGGAAT
16958243 AGATGTTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.03
44 22 0.55
45 2 0.05
46 15 0.38
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (46 bp):
GAATAGAGCTGTAATCAGTAATTCAATTATTTGGTTGAATGGAATT
Found at i:16969723 original size:21 final size:21
Alignment explanation
Indices: 16969660--16969725 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
16969650 TCTTTTATTT
* * *
16969660 ATTATAACTATTATATTATATC
1 ATTATAATTATTATATTTTA-A
*
16969682 ATTATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
16969703 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
16969724 AT
1 AT
16969726 ATTAAGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
20 2 0.05
21 19 0.50
22 17 0.45
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Found at i:16971469 original size:53 final size:54
Alignment explanation
Indices: 16971392--16971589 Score: 179
Period size: 53 Copynumber: 3.7 Consensus size: 54
16971382 TTTTTAAACC
* *
16971392 TACCATTG-CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACT
* * * * * * * * **
16971444 CACCATTGTCATGCCTTGGCATGGTCTTGCATGGGATCGTTGCCTTATCGTAGTT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AACT
* * * * * *
16971499 TATCAATGCCATGTCTTGACATGGT-TTACATGATTTCCTTGCCTTGTAAAACT
1 TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACT
*
16971552 TACCAATGCCATGCCTTGGCATGGTCTTA-ATTGGTATC
1 TACCAATGCCATGCCTTGACATGGTCTTACA-TGGTATC
16971590 ATTAAACTCT
Statistics
Matches: 112, Mismatches: 29, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
52 7 0.06
53 59 0.53
54 25 0.22
55 21 0.19
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (54 bp):
TACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACT
Found at i:16977027 original size:68 final size:67
Alignment explanation
Indices: 16976955--16977104 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
16976945 CATCATGTGT
* * * *
16976955 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
16977017 ATGTAG
62 ATGTAG
** * *
16977023 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
16977088 AG
66 AG
16977090 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
16977105 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:16977060 original size:64 final size:64
Alignment explanation
Indices: 16976979--16977162 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
16976969 AGACATTATG
* *
16976979 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
16977043 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
16977108 AA
63 AA
* * * *
16977110 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
16977163 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:16982282 original size:21 final size:21
Alignment explanation
Indices: 16982258--16982300 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16982248 ATCTAACAAT
16982258 TTCAGCAATGTACAATTCAAC
1 TTCAGCAATGTACAATTCAAC
16982279 TTCAGCAATGTACAATTCAAC
1 TTCAGCAATGTACAATTCAAC
16982300 T
1 T
16982301 AACTTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (21 bp):
TTCAGCAATGTACAATTCAAC
Found at i:16988024 original size:35 final size:35
Alignment explanation
Indices: 16987973--16988106 Score: 112
Period size: 35 Copynumber: 3.8 Consensus size: 35
16987963 AGGTAAGTAT
* *
16987973 ATGTGAGGTTACATTGAACTTGTATATTCGGTTAC
1 ATGTGAGATTATATTGAACTTGTATATTCGGTTAC
** * *
16988008 ATGTGAGATTATATTGAGTTTGTATATTCAG--CC
1 ATGTGAGATTATATTGAACTTGTATATTCGGTTAC
* * * * *
16988041 ATATGAGATGTTTTATTGAACTTGAACATTAGGTTAC
1 ATGTGAGA--TTATATTGAACTTGTATATTCGGTTAC
*
16988078 ATGTGATGA-TATATTGAACTTATATATTC
1 ATGTGA-GATTATATTGAACTTGTATATTC
16988107 AGTATAATGA
Statistics
Matches: 73, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
33 8 0.11
35 57 0.78
37 6 0.08
38 2 0.03
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (35 bp):
ATGTGAGATTATATTGAACTTGTATATTCGGTTAC
Found at i:16992895 original size:27 final size:26
Alignment explanation
Indices: 16992856--16992936 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
16992846 AGCATGGCTG
* *
16992856 CCAGAACTGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
16992882 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
16992909 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
16992936 C
1 C
16992937 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.12
27 42 0.88
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:16993447 original size:27 final size:28
Alignment explanation
Indices: 16993385--16993448 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
16993375 CATTCACTTG
*
16993385 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
16993413 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
16993439 CCCACAAGGG
1 CCCACAAGGG
16993449 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:16993458 original size:27 final size:27
Alignment explanation
Indices: 16993428--16993758 Score: 380
Period size: 27 Copynumber: 12.3 Consensus size: 27
16993418 AGGGCAAAAT
* * *
16993428 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
16993455 GGTAATTCTACCCCACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16993482 AGTAATTCTACCC--CATAGAGGTATTTC
1 GGTAATTCTACCCTACA-AG-GGTATTTC
* *
16993509 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
16993536 GGTAATTCTACCTTACAGGGGCATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16993563 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
16993590 GATAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16993617 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16993644 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
16993671 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16993698 GGTAATTCTACCCTA-TAGTGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
16993725 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16993752 AGTAATT
1 GGTAATT
16993759 TTACAAATCG
Statistics
Matches: 265, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
25 2 0.01
26 3 0.01
27 255 0.96
28 3 0.01
29 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:16993772 original size:27 final size:27
Alignment explanation
Indices: 16993742--16993921 Score: 183
Period size: 27 Copynumber: 6.7 Consensus size: 27
16993732 CTACCCTACA
16993742 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
16993769 AGGGTATTTCAGTAATTTTACAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
16993796 AGGGTATTTC-GATAATTTTACAAATTG
1 AGGGTATTTCAG-TAATTTTACAAATCG
16993823 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * * *
16993849 ACGATTTTTC-GATAATTTTATAAACCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * *
16993876 GGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* *
16993902 GGGGTATTTTAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
16993922 GTAAACTAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.03
26 37 0.29
27 83 0.64
28 5 0.04
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:16993800 original size:54 final size:54
Alignment explanation
Indices: 16993742--16993910 Score: 202
Period size: 54 Copynumber: 3.2 Consensus size: 54
16993732 CTACCCTACA
16993742 AGGGTATTTC-AGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTG
1 AGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTG
* *
16993796 AGGGTATTTCGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAATC-G
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTG
* * * * * * *
16993849 ACGATTTTTCGATAATTTTATAAACCGGGGGTACTTT-GGTAATTTTAC-AACTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAAACTG
*
16993902 GGGGTATTT
1 AGGGTATTT
16993911 TAGTAATTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 43 0.44
54 51 0.53
55 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTG
Found at i:16993812 original size:81 final size:79
Alignment explanation
Indices: 16993484--16993849 Score: 239
Period size: 81 Copynumber: 4.5 Consensus size: 79
16993474 GGTATTTTAG
* ** *
16993484 TAATTCTACCC--CATAGAGGTATTTCAGTAATTCTACCCTAC-AGGGGTATTTCGGTAATTCTA
1 TAATTCTACCCTACA-AG-GGTATTTCAGTAATTTTACAAT-CGA-GGGTATTTCAGTAATTCTA
* *
16993546 C-CTTACAGGGGCATTTC-A
62 CAC-TAGA-GGGTATTTCGA
* * ** *
16993564 GTAATTCTACCCTACAGGGGTATTTC-GATAATTCTACCTTAC-AGGGGTATTTTAGTAATTCTA
1 -TAATTCTACCCTACAAGGGTATTTCAG-TAATTTTACAAT-CGA-GGGTATTTCAGTAATTCTA
* *
16993627 CCCTACAGGGGTATTTCGA
62 CACTAGA-GGGTATTTCGA
* * * ** * * *
16993646 TATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAT-CGAGGGTATTTCAGTAATTCTACAC
* *
16993711 TATAGTGGTATTT-TA
65 TAGAG-GGTATTTCGA
*
16993726 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACA
1 -TAATTCTACCCTACAAGGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCAGTAATTCTAC-
16993791 AACT-GAGGGTATTTCGA
63 -ACTAGAGGGTATTTCGA
* ** **
16993808 TAATTTTA-CAAATTGAGGGTATTTCAGTAATTTTACAATCGA
1 TAATTCTACCCTA-CAAGGGTATTTCAGTAATTTTACAATCGA
16993850 CGATTTTTCG
Statistics
Matches: 243, Mismatches: 28, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
80 11 0.05
81 219 0.90
82 9 0.04
83 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (79 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAATCGAGGGTATTTCAGTAATTCTACACT
AGAGGGTATTTCGA
Found at i:16995668 original size:39 final size:39
Alignment explanation
Indices: 16995590--16995708 Score: 175
Period size: 39 Copynumber: 3.0 Consensus size: 39
16995580 ACCAATTTTT
* * * * *
16995590 AGCACAAAGCCTGCAGGACTTTAAGCCCGGATATATTTCC
1 AGCACATAGCCTGC-GGACCTCAAGTCCGGATATGTTTCC
16995630 AGCACATAGCCTGCGGACCTCAAGTCCGGATATGTTTCC
1 AGCACATAGCCTGCGGACCTCAAGTCCGGATATGTTTCC
*
16995669 AGCACGTAGCCTGCGGACCTCAAGTCCGGATATGTTTCC
1 AGCACATAGCCTGCGGACCTCAAGTCCGGATATGTTTCC
16995708 A
1 A
16995709 AGTATCATGC
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 60 0.82
40 13 0.18
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCTCAAGTCCGGATATGTTTCC
Found at i:16999869 original size:27 final size:27
Alignment explanation
Indices: 16999839--17000134 Score: 324
Period size: 27 Copynumber: 11.0 Consensus size: 27
16999829 GGGGCAAAAT
* * * *
16999839 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
16999866 GGTAATTCTACTCC-ACAGGGGTATTTC
1 GGTAATTCTAC-CCTACAGGGGTATTTC
* * *
16999893 AGTAATTCTACCCCATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
16999920 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
16999947 GATAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
16999974 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
17000001 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
17000028 TGTAGTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
17000055 TGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *** *
17000082 TGTAATTCTACCCTATACTAGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
17000109 AGTAATTCTACCCTACAAGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
17000135 TAGTAATTTT
Statistics
Matches: 234, Mismatches: 33, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 230 0.98
28 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:17000156 original size:27 final size:27
Alignment explanation
Indices: 17000126--17000310 Score: 139
Period size: 27 Copynumber: 6.9 Consensus size: 27
17000116 CTACCCTACA
17000126 AGGGTATTTTAGTAATTTTATAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
* * *
17000153 AGGGCATTTCAGTAATTTTGCAT-ACT-G
1 AGGGTATTTTAGTAATTTT--ATAAATCG
* ** * * *
17000180 AGGGTATGTCGGTAATTTTACAAGTCA
1 AGGGTATTTTAGTAATTTTATAAATCG
17000207 AGGGTATTTTAGTAATTTTA-AAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
* *
17000233 ATGGTATTTT-GATAATTTTATAAACCG
1 AGGGTATTTTAG-TAATTTTATAAATCG
* * * * *
17000260 -GGTGTACTTTGGTAATTTTACAACTTG
1 AGG-GTATTTTAGTAATTTTATAAATCG
17000287 -GGGTATTTTAGTAATTTTAGTAAA
1 AGGGTATTTTAGTAATTTTA-TAAA
17000311 CTAAAGTATT
Statistics
Matches: 123, Mismatches: 26, Indels: 18
0.74 0.16 0.11
Matches are distributed among these distances:
25 2 0.02
26 39 0.32
27 77 0.63
28 3 0.02
29 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTATAAATCG
Found at i:17000184 original size:54 final size:51
Alignment explanation
Indices: 17000126--17000310 Score: 142
Period size: 53 Copynumber: 3.5 Consensus size: 51
17000116 CTACCCTACA
*
17000126 AGGGTATTTTAGTAATTTTATAAATCGAGGGCATTTCAGTAATTTTGCATACTG
1 AGGGTATTTTAGTAATTTTATAAATCGAGGGTATTT-AGTAATTTT-CA-ACTG
* ** * * * * *
17000180 AGGGTATGTCGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTAAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCGAGGGTA-TTTAGTAATTTTCAACT-G
* * *
17000233 ATGGTATTTT-GATAATTTTATAAACCG-GGTGTACTTTGGTAATTTTACAACTTG
1 AGGGTATTTTAG-TAATTTTATAAATCGAGG-GTA-TTTAGTAATTTT-CAAC-TG
17000287 -GGGTATTTTAGTAATTTTAGTAAA
1 AGGGTATTTTAGTAATTTTA-TAAA
17000311 CTAAAGTATT
Statistics
Matches: 102, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
52 5 0.05
53 50 0.49
54 43 0.42
55 4 0.04
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (51 bp):
AGGGTATTTTAGTAATTTTATAAATCGAGGGTATTTAGTAATTTTCAACTG
Found at i:17000277 original size:80 final size:81
Alignment explanation
Indices: 17000124--17000310 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 81
17000114 TTCTACCCTA
* * *
17000124 CAAGGGTATTTTAGTAATTTTATAAATCGAGGGCATTTCAGTAATTTTGCATACTGAGGGTATGT
1 CAAGGGTATTTTAGTAATTTTATAAATCGAGGGCATTTCAGTAATTTTACAAACCGAGGGTATGT
*
17000189 CGGTAATTTTACAAGT
66 CGGTAATTTTACAACT
* * * *
17000205 CAAGGGTATTTTAGTAATTTTA-AAATCGATGGTATTT-TGATAATTTTATAAACCG-GGTGTAC
1 CAAGGGTATTTTAGTAATTTTATAAATCGAGGGCATTTCAG-TAATTTTACAAACCGAGG-GTA-
*
17000267 T-TTGGTAATTTTACAACT
63 TGTCGGTAATTTTACAACT
**
17000285 -TGGGGTATTTTAGTAATTTTAGTAAA
1 CAAGGGTATTTTAGTAATTTTA-TAAA
17000311 CTAAAGTATT
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
79 22 0.24
80 42 0.47
81 26 0.29
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
CAAGGGTATTTTAGTAATTTTATAAATCGAGGGCATTTCAGTAATTTTACAAACCGAGGGTATGT
CGGTAATTTTACAACT
Found at i:17002734 original size:98 final size:98
Alignment explanation
Indices: 17002563--17002801 Score: 343
Period size: 98 Copynumber: 2.4 Consensus size: 98
17002553 CGTGGCACAA
* * * * * *
17002563 AGCCATCGATAACAGGTCTATAATCGGCACGAAGCCCACAATATCGATACGAAGCCCACAGTGAC
1 AGCCATTGATAACGGGTCTATAATCAGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
* *
17002628 GGCACACAGCCTTCTGTAACATGATCGGAACTC
66 GGCACACAGCCTTCGGTAACACGATCGGAACTC
* *
17002661 AGCCATTGGTAACGGGTCTATAATCAGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAT
1 AGCCATTGATAACGGGTCTATAATCAGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
** *
17002726 GGTGCACAGCCTTCGGTAACACGATCGGCACTC
66 GGCACACAGCCTTCGGTAACACGATCGGAACTC
* *
17002759 AGCCATTGATAACGTGTCTATAATCAGCACCAAGCCTACAATA
1 AGCCATTGATAACGGGTCTATAATCAGCACGAAGCCTACAATA
17002802 ACGGCACACA
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 125 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (98 bp):
AGCCATTGATAACGGGTCTATAATCAGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
GGCACACAGCCTTCGGTAACACGATCGGAACTC
Found at i:17003181 original size:27 final size:27
Alignment explanation
Indices: 17003151--17003372 Score: 293
Period size: 27 Copynumber: 8.2 Consensus size: 27
17003141 GGGCAAAATG
* *
17003151 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
17003178 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
17003205 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
17003232 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
17003259 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
17003286 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
17003313 GTAATTCTACCCTA-TAGTGGTATTTTA
1 GTAATTCTACCCTACAAG-GGTATTTCA
*
17003340 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
17003367 GTAATT
1 GTAATT
17003373 TTATAAATCG
Statistics
Matches: 176, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 2 0.01
27 172 0.98
28 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:17003387 original size:81 final size:79
Alignment explanation
Indices: 17003151--17003399 Score: 257
Period size: 81 Copynumber: 3.1 Consensus size: 79
17003141 GGGCAAAATG
* * * *
17003151 GTAATTTTACCCCACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA--
* *
17003216 TTA-CAGGGGTATTTTA
64 TAATCA-GGGTATTTCA
* * **
17003232 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATA
* *
17003297 CTACAAGGGTATTTCG
66 AT-C-AGGGTATTTCA
* * * ** *
17003313 GTAATTCTACCCTATAGTGGTATTTTAGTAATTCTACCCTACAAGGGTATTTTAGTAATTTTATA
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTAT-
17003378 AATCGAGGGTATTTCA
65 AATC-AGGGTATTTCA
*
17003394 ATAATT
1 GTAATT
17003400 TTGCAAACTG
Statistics
Matches: 139, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
81 137 0.99
82 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (79 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATA
ATCAGGGTATTTCA
Found at i:17003389 original size:54 final size:53
Alignment explanation
Indices: 17003167--17003453 Score: 242
Period size: 54 Copynumber: 5.3 Consensus size: 53
17003157 TTACCCCACA
* * **
17003167 AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC-CTTAC
1 AGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAAT-C
* * **
17003220 AGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTAC-CCTAC
1 A-GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTT-TACAAAT-C
* * **
17003274 AAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAT-
1 -AGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTA-CAAATC
* ** *
17003328 AGTGGTATTTTAGTAATTCTACCCTACAAGGGTATTTTAGTAATTTTATAAATC
1 AG-GGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAATC
* ** ** * *
17003382 GAGGGTATTTCAATAATT-TTGCAAACTGAGGGTATTTCGATAATTTTACAAATC
1 -AGGGTATTTCAGTAATTCTACCCTAC-AAGGGTATTTCGGTAATTTTACAAATC
17003436 GAGGGTATTTCAGTAATT
1 -AGGGTATTTCAGTAATT
17003454 TTACAATCGA
Statistics
Matches: 195, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
53 12 0.06
54 175 0.90
55 7 0.04
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (53 bp):
AGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACAAATC
Found at i:17003468 original size:26 final size:27
Alignment explanation
Indices: 17003356--17003535 Score: 167
Period size: 27 Copynumber: 6.7 Consensus size: 27
17003346 CTACCCTACA
* *
17003356 AGGGTATTTTAGTAATTTTATAAATC-G
1 AGGGTATTTCAGTAATTTTA-CAATCTG
* * *
17003383 AGGGTATTTCAATAATTTTGCAAACTG
1 AGGGTATTTCAGTAATTTTACAATCTG
17003410 AGGGTATTTC-GATAATTTTACAAATC-G
1 AGGGTATTTCAG-TAATTTTAC-AATCTG
17003437 AGGGTATTTCAGTAATTTTACAATC-G
1 AGGGTATTTCAGTAATTTTACAATCTG
* * *
17003463 ACGGTATTTC-GATAATTTTATAAACTG
1 AGGGTATTTCAG-TAATTTTACAATCTG
* *
17003490 GGGGTACTTT-GGTAATTTTACAA-CTG
1 AGGGTA-TTTCAGTAATTTTACAATCTG
*
17003516 GGGGTATTTCAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
17003536 GTAAACTAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.03
26 46 0.36
27 71 0.55
28 8 0.06
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAATCTG
Found at i:17003495 original size:53 final size:53
Alignment explanation
Indices: 17003368--17003540 Score: 201
Period size: 53 Copynumber: 3.2 Consensus size: 53
17003358 GGTATTTTAG
* *
17003368 TAATTTTATAAATCGAGGGTATTTCAATAATTTTGCAAACTGAGGGTATTTCGA
1 TAATTTTATAAATCGAGGGTATTTCAGTAATTTTAC-AACTGAGGGTATTTCGA
* *
17003422 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAA-TCGACGGTATTTCGA
1 TAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAACT-GAGGGTATTTCGA
* * *
17003475 TAATTTTATAAA-CTGGGGGTACTTT-GGTAATTTTACAACTGGGGGTATTTC-A
1 TAATTTTATAAATC-GAGGGTA-TTTCAGTAATTTTACAACTGAGGGTATTTCGA
17003527 GTAATTTTAGTAAA
1 -TAATTTTA-TAAA
17003541 CTAAAGCATT
Statistics
Matches: 104, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
52 3 0.03
53 60 0.58
54 41 0.39
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
TAATTTTATAAATCGAGGGTATTTCAGTAATTTTACAACTGAGGGTATTTCGA
Found at i:17008052 original size:35 final size:35
Alignment explanation
Indices: 17008010--17008218 Score: 213
Period size: 35 Copynumber: 6.0 Consensus size: 35
17008000 ATAGGTAAGG
17008010 ACATGTGAGGTTATATTGAACTTGTATATTCGGCT
1 ACATGTGAGGTTATATTGAACTTGTATATTCGGCT
* * * **
17008045 GCATGTGAGGTTATATTGAACTTGTGTATTTGATT
1 ACATGTGAGGTTATATTGAACTTGTATATTCGGCT
* *
17008080 ACATGTGAGCTTATATTGAACTTGTATA-TCTGGTT
1 ACATGTGAGGTTATATTGAACTTGTATATTC-GGCT
* * *
17008115 ACATGTGAGATTATATTGAATTTGTATATTCGGCC
1 ACATGTGAGGTTATATTGAACTTGTATATTCGGCT
* * * * * * * *
17008150 ATATGAGATGTTTTATTGAACTTGAACATTAGGTT
1 ACATGTGAGGTTATATTGAACTTGTATATTCGGCT
* * *
17008185 ACATGTGATGATATATTGAACTTATATATTCGGC
1 ACATGTGAGGTTATATTGAACTTGTATATTCGGC
17008219 CATATGAAAT
Statistics
Matches: 138, Mismatches: 34, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
34 1 0.01
35 135 0.98
36 2 0.01
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.42
Consensus pattern (35 bp):
ACATGTGAGGTTATATTGAACTTGTATATTCGGCT
Found at i:17008167 original size:105 final size:104
Alignment explanation
Indices: 17008010--17008213 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 104
17008000 ATAGGTAAGG
* * ***
17008010 ACATGTGAGGTTATATTGAACTTGTATATTCGGCTGCATGTGAGGTTATATTGAACTTGTGTATT
1 ACATGTGAGATTATATTGAACTTGTATATTCGGC-GCATATGAGGTTATATTGAACTTGAACATT
* * *
17008075 TGATTACATGTGA-GCTTATATTGAACTTGTATATCTGGTT
65 AGATTACATGTGATG-ATATATTGAACTTATATATCTGGTT
* *
17008115 ACATGTGAGATTATATTGAATTTGTATATTCGGC-CATATGAGATGTTTTATTGAACTTGAACAT
1 ACATGTGAGATTATATTGAACTTGTATATTCGGCGCATATGAG--GTTATATTGAACTTGAACAT
*
17008179 TAGGTTACATGTGATGATATATTGAACTTATATAT
64 TAGATTACATGTGATGATATATTGAACTTATATAT
17008214 TCGGCCATAT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
103 7 0.08
105 77 0.91
106 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (104 bp):
ACATGTGAGATTATATTGAACTTGTATATTCGGCGCATATGAGGTTATATTGAACTTGAACATTA
GATTACATGTGATGATATATTGAACTTATATATCTGGTT
Found at i:17020866 original size:48 final size:48
Alignment explanation
Indices: 17020742--17021016 Score: 390
Period size: 48 Copynumber: 5.8 Consensus size: 48
17020732 ACCATGCTGA
* * *
17020742 ATGTGCCTGTGTAAGACCGTGTCTGCGACATGGAATCGGCGATGA-AT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
17020789 ATGTACCTGTGTAAGACTATGTCTAGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
17020837 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
17020885 ATGTGCATGTGCAAGACCATGTCTAGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
17020933 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGGTGATGT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
17020981 ATATGCCCGTGTAAGACTATGTCTGGGACATGGCAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCAT
17021017 TGGTACTTTA
Statistics
Matches: 202, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 0.19
48 163 0.81
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:17029074 original size:48 final size:48
Alignment explanation
Indices: 17029001--17029324 Score: 497
Period size: 48 Copynumber: 6.8 Consensus size: 48
17028991 ACCGTGCTGA
*
17029001 ATGTGCCTGTGTAAGACCATATCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
*
17029049 ATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * ** * *
17029097 GTGTGCCAGTGTAAGACCATGTCTAAGATATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
17029145 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
17029193 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
17029241 ATGTGCCTTTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* ** * *
17029289 GTG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
17029325 TGGTACTTTA
Statistics
Matches: 253, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 2 0.01
48 251 0.99
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:17031188 original size:22 final size:23
Alignment explanation
Indices: 17031163--17031208 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
17031153 GTGTTGTCGA
17031163 CACATGGGCGTGT-CCCTGTTTC
1 CACATGGGCGTGTACCCTGTTTC
17031185 CACATGGGCGTGTAGCCCTGTTTC
1 CACATGGGCGTGTA-CCCTGTTTC
17031209 ATGAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 13 0.59
24 9 0.41
ACGTcount: A:0.11, C:0.30, G:0.28, T:0.30
Consensus pattern (23 bp):
CACATGGGCGTGTACCCTGTTTC
Found at i:17034182 original size:93 final size:93
Alignment explanation
Indices: 17034055--17034225 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
17034045 CCCATAAGCA
* * * * *
17034055 AACTCAGACTCAACTCAATGAGCTGGGGCGTTCGCATCCATAAGTGAACTCGGACTCAAGTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
17034120 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
* *
17034148 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
17034213 GAGTTCGGATGCC
66 GAGCTCGGATGCC
17034226 CAAATATCCA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCG
Found at i:17034216 original size:46 final size:46
Alignment explanation
Indices: 17034046--17034221 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
17034036 TGTAACCCGC
** * * * * *
17034046 CCATAAGCAAACTCAGACTCAACTCAATGAGCTGGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
17034092 CCATAAGTGAACTCGGACTCAAGTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
17034138 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
17034185 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
17034222 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 64 0.62
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:17036698 original size:12 final size:12
Alignment explanation
Indices: 17036662--17036700 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17036652 AAAACCGAAT
17036662 AAAGAAATCCAAG
1 AAAGAAATCC-AG
* *
17036675 ATAGAAACCCAG
1 AAAGAAATCCAG
17036687 AAAGAAATCCAG
1 AAAGAAATCCAG
17036699 AA
1 AA
17036701 TAAAGAGATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.59, C:0.18, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAGAAATCCAG
Found at i:17036703 original size:40 final size:40
Alignment explanation
Indices: 17036649--17036727 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
17036639 CAAAGATAAC
17036649 AAGAAAACCGAATAAAGAAATCCAAGAT-AGAAACCCAGA
1 AAGAAAACCGAATAAAGAAATCCAAGATAAGAAACCCAGA
* * *
17036688 AAGAAATCCAGAATAAAGAGATCCAGGATAAAGAAACCCA
1 AAGAAAACC-GAATAAAGAAATCCAAGAT-AAGAAACCCA
17036728 AGATACGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 8 0.24
40 17 0.50
42 9 0.26
ACGTcount: A:0.57, C:0.18, G:0.16, T:0.09
Consensus pattern (40 bp):
AAGAAAACCGAATAAAGAAATCCAAGATAAGAAACCCAGA
Found at i:17036732 original size:15 final size:15
Alignment explanation
Indices: 17036660--17036732 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 15
17036650 AGAAAACCGA
17036660 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
17036675 AT--AGAAA-CCCAG
1 ATAAAGAAATCCAAG
17036687 --AAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
17036699 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
17036715 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
17036730 ATA
1 ATA
17036733 CGATACTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
12 11 0.24
13 7 0.16
15 26 0.58
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.11
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:17043564 original size:22 final size:21
Alignment explanation
Indices: 17043526--17043567 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17043516 TAAATTCTAT
* *
17043526 ATATTTATATGTTTGAATTGG
1 ATATTTATATATGTGAATTGG
17043547 ATATTGTATATATGTGAATTG
1 ATATT-TATATATGTGAATTG
17043568 TATAAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (21 bp):
ATATTTATATATGTGAATTGG
Found at i:17043918 original size:26 final size:26
Alignment explanation
Indices: 17043844--17043918 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
17043834 ATAGCTTTTA
*
17043844 TGAGCGTCCCAA-TATATGGCTCTTCG
1 TGAGCTTCCCAATTA-ATGGCTCTTCG
* * *
17043870 TGAGCTTCCCAATTAAAGACTCTTTG
1 TGAGCTTCCCAATTAATGGCTCTTCG
**
17043896 TGAGCTTCCTGATTAATGGCTCT
1 TGAGCTTCCCAATTAATGGCTCT
17043919 CAAGATCTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 38 0.95
27 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
TGAGCTTCCCAATTAATGGCTCTTCG
Found at i:17044035 original size:24 final size:23
Alignment explanation
Indices: 17044008--17044056 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
17043998 TTATCCGTTA
*
17044008 ATGGCTCGCATGAGCTTCCTGATT
1 ATGGCTCGCATGAACTTCCT-ATT
**
17044032 ATGGCTCTTATGAACTTCCTATT
1 ATGGCTCGCATGAACTTCCTATT
17044055 AT
1 AT
17044057 ATAGCCCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.39
Consensus pattern (23 bp):
ATGGCTCGCATGAACTTCCTATT
Found at i:17044113 original size:25 final size:25
Alignment explanation
Indices: 17044004--17044114 Score: 91
Period size: 25 Copynumber: 4.5 Consensus size: 25
17043994 AGAGTTATCC
*
17044004 GTTA-ATGGCTCGCATGAGCTTCCT
1 GTTATATGGCTCGTATGAGCTTCCT
* * *
17044028 GAT-TATGGCTCTTATGAACTTCCT
1 GTTATATGGCTCGTATGAGCTTCCT
* * * * * *
17044052 ATTATATAGCCCGGATAAGCTTCCC
1 GTTATATGGCTCGTATGAGCTTCCT
** *
17044077 GTTATACAGCTCATATGAGCTTCCT
1 GTTATATGGCTCGTATGAGCTTCCT
17044102 GTTATATGGCTCG
1 GTTATATGGCTCG
17044115 AGAGAGGGTT
Statistics
Matches: 62, Mismatches: 23, Indels: 3
0.70 0.26 0.03
Matches are distributed among these distances:
24 20 0.32
25 42 0.68
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (25 bp):
GTTATATGGCTCGTATGAGCTTCCT
Found at i:17051334 original size:31 final size:31
Alignment explanation
Indices: 17051296--17051359 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
17051286 CCTTTTCATA
17051296 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
17051327 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
17051358 TT
1 TT
17051360 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:17051599 original size:24 final size:24
Alignment explanation
Indices: 17051553--17051647 Score: 113
Period size: 24 Copynumber: 4.0 Consensus size: 24
17051543 GTTTTATCAT
*
17051553 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
17051578 ATAGCTGGGGCAAAACCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
17051602 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
17051625 ATAACTCGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
17051648 TCACTTCCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
23 22 0.37
24 28 0.47
25 10 0.17
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:17051628 original size:23 final size:23
Alignment explanation
Indices: 17051574--17051646 Score: 101
Period size: 23 Copynumber: 3.1 Consensus size: 23
17051564 CCTAGCCTCT
* * *
17051574 TTTAATAGCTGGGGCAAAACCCC
1 TTTAATAACTGGGGCATAAGCCC
17051597 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
17051621 TTTAATAACTCGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17051644 TTT
1 TTT
17051647 TTCACTTCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 25 0.56
24 20 0.44
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:17051722 original size:20 final size:20
Alignment explanation
Indices: 17051697--17051763 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
17051687 TTATGATTAC
17051697 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
17051717 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17051737 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17051757 ACCATGT
1 ATCATGT
17051764 CTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17051728 original size:11 final size:11
Alignment explanation
Indices: 17051697--17051752 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17051687 TTATGATTAC
17051697 ATCATGTGCAT
1 ATCATGTGCAT
*
17051708 ATCA--TACAT
1 ATCATGTGCAT
17051717 ATCATGTGCAT
1 ATCATGTGCAT
*
17051728 ATCA--TACAT
1 ATCATGTGCAT
*
17051737 GTCATGTGCAT
1 ATCATGTGCAT
17051748 ATCAT
1 ATCAT
17051753 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:17051832 original size:25 final size:25
Alignment explanation
Indices: 17051800--17051847 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17051790 ATACATAAAC
* * *
17051800 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17051825 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17051848 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17059399 original size:31 final size:30
Alignment explanation
Indices: 17059357--17059420 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
17059347 CCTTTTCATA
*
17059357 TTTTATATTTCATAACACTGAGCCGAAGCC
1 TTTTATATTTCATAACACTGAGACGAAGCC
** *
17059387 TTTTCATATTTCATATTACTGGGACGAAGCC
1 TTTT-ATATTTCATAACACTGAGACGAAGCC
17059418 TTT
1 TTT
17059421 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (30 bp):
TTTTATATTTCATAACACTGAGACGAAGCC
Found at i:17059678 original size:23 final size:23
Alignment explanation
Indices: 17059635--17059752 Score: 184
Period size: 23 Copynumber: 5.1 Consensus size: 23
17059625 CCTATCCTCT
* *
17059635 TTTAATAACTCGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17059658 TTTTAATAACT-GGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
17059681 TTTAATAACTGGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
17059704 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17059727 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
17059750 TTT
1 TTT
17059753 TTCACTTCTC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
22 10 0.11
23 68 0.77
24 10 0.11
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:17059827 original size:20 final size:20
Alignment explanation
Indices: 17059802--17059868 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
17059792 TTATGATTAC
17059802 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
17059822 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17059842 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
17059862 ACCATGT
1 ATCATGT
17059869 CTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17059833 original size:11 final size:11
Alignment explanation
Indices: 17059802--17059857 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17059792 TTATGATTAC
17059802 ATCATGTGCAT
1 ATCATGTGCAT
*
17059813 ATCA--TACAT
1 ATCATGTGCAT
17059822 ATCATGTGCAT
1 ATCATGTGCAT
*
17059833 ATCA--TACAT
1 ATCATGTGCAT
*
17059842 GTCATGTGCAT
1 ATCATGTGCAT
17059853 ATCAT
1 ATCAT
17059858 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:17059937 original size:25 final size:25
Alignment explanation
Indices: 17059905--17059952 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17059895 ATACATAAAC
* * *
17059905 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
17059930 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
17059953 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:17062392 original size:26 final size:26
Alignment explanation
Indices: 17062355--17062412 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
17062345 CCCGATATAT
*
17062355 GGCTCTTCGTGAGCTTCCTAATTAAA
1 GGCTCTTCGTGAGCTCCCTAATTAAA
* *
17062381 GGCTCTTTGTGAGCTCCCTGATTAAA
1 GGCTCTTCGTGAGCTCCCTAATTAAA
*
17062407 CGCTCT
1 GGCTCT
17062413 CAGGAGCTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTCCCTAATTAAA
Found at i:17062424 original size:26 final size:27
Alignment explanation
Indices: 17062363--17062424 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
17062353 ATGGCTCTTC
* **
17062363 GTGAGCTT-CCTAATTAAAGGCTCTTT
1 GTGAGCTTCCCTAATTAAACGCTCTCA
*
17062389 GTGAGC-TCCCTGATTAAACGCTCTCA
1 GTGAGCTTCCCTAATTAAACGCTCTCA
17062415 G-GAGCTTCCC
1 GTGAGCTTCCC
17062425 GGTATGGCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (27 bp):
GTGAGCTTCCCTAATTAAACGCTCTCA
Found at i:17062517 original size:24 final size:24
Alignment explanation
Indices: 17062490--17062608 Score: 78
Period size: 25 Copynumber: 4.8 Consensus size: 24
17062480 GGCTCTTCAA
* *
17062490 AGCTACCCATTAATGGTTCGTATG
1 AGCTTCCCATTAATGGCTCGTATG
*
17062514 AGCTTCCCGATT-ATGGCTCTTATG
1 AGCTTCCC-ATTAATGGCTCGTATG
* * * *
17062538 AGCTTCCCATTATATAGCCCGGATA
1 AGCTTCCCATTA-ATGGCTCGTATG
* * **
17062563 AGCTTCCCGTTATATAGCTCACATG
1 AGCTTCCCATTA-ATGGCTCGTATG
**
17062588 AGCTTCCTGTTATATGGCTCG
1 AGCTTCCCATTA-ATGGCTCG
17062609 AGAGAGGGCT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
23 3 0.04
24 25 0.33
25 48 0.63
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (24 bp):
AGCTTCCCATTAATGGCTCGTATG
Found at i:17062591 original size:25 final size:25
Alignment explanation
Indices: 17062511--17062607 Score: 88
Period size: 25 Copynumber: 3.9 Consensus size: 25
17062501 AATGGTTCGT
* * **
17062511 ATGAGCTTCCCGAT-TATGGCTCTT
1 ATGAGCTTCCCGTTATATAGCTCAC
* * **
17062535 ATGAGCTTCCCATTATATAGCCCGG
1 ATGAGCTTCCCGTTATATAGCTCAC
*
17062560 ATAAGCTTCCCGTTATATAGCTCAC
1 ATGAGCTTCCCGTTATATAGCTCAC
* *
17062585 ATGAGCTTCCTGTTATATGGCTC
1 ATGAGCTTCCCGTTATATAGCTC
17062608 GAGAGAGGGC
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
24 12 0.21
25 46 0.79
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCTCAC
Found at i:17068085 original size:26 final size:26
Alignment explanation
Indices: 17068048--17068130 Score: 98
Period size: 26 Copynumber: 3.2 Consensus size: 26
17068038 GCAGCTCTGG
17068048 AGAGCC-ATTAATCAGGAAGCTCACAA
1 AGAGCCTA-TAATCAGGAAGCTCACAA
* *
17068074 AGAGCCTATAATCGGGAAGCTCACGA
1 AGAGCCTATAATCAGGAAGCTCACAA
* *
17068100 AGAGCCATATAA-CAAGACGCTCACAA
1 AGAGCC-TATAATCAGGAAGCTCACAA
17068126 AGAGC
1 AGAGC
17068131 TACGGTATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 43 0.88
27 6 0.12
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.13
Consensus pattern (26 bp):
AGAGCCTATAATCAGGAAGCTCACAA
Found at i:17068558 original size:21 final size:20
Alignment explanation
Indices: 17068530--17068569 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
17068520 AATCTATTCG
17068530 AATAAATTTA-ACATCAATTT
1 AATAAATTTATAC-TCAATTT
17068550 AATACAATTTATACTCAATT
1 AATA-AATTTATACTCAATT
17068570 CAGTTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAAATTTATACTCAATTT
Found at i:17072265 original size:84 final size:84
Alignment explanation
Indices: 17072115--17072283 Score: 311
Period size: 84 Copynumber: 2.0 Consensus size: 84
17072105 AACAAACTTT
**
17072115 CATTACAAGTTAGTCATATAATATTTTTTTATTTTTTTAAAACAACCAAACTAACATGTTTCGTT
1 CATTACAAGTTAGTCATATAATATTTTTTTATTTTTTTAAAACAACCAAACTAACACATTTCGTT
17072180 ATTCCATATATCTTGCTAA
66 ATTCCATATATCTTGCTAA
*
17072199 CATTACAAGTTAGTCATATAATATTTTTTTATTTTTTTAAAACAACCAAACTAACACATTTTGTT
1 CATTACAAGTTAGTCATATAATATTTTTTTATTTTTTTAAAACAACCAAACTAACACATTTCGTT
17072264 ATTCCATATATCTTGCTAA
66 ATTCCATATATCTTGCTAA
17072283 C
1 C
17072284 TCAATATAAA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (84 bp):
CATTACAAGTTAGTCATATAATATTTTTTTATTTTTTTAAAACAACCAAACTAACACATTTCGTT
ATTCCATATATCTTGCTAA
Found at i:17075830 original size:40 final size:40
Alignment explanation
Indices: 17075629--17075816 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
17075619 TATTCGGATG
* *
17075629 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
17075669 A-ATTCCGGGCTAAG-CTCGAAGGCATTTGTGTGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
17075708 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
17075748 ATAACTGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
17075788 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
17075817 AGCAAGTAGC
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 34 0.26
40 97 0.74
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:17075830 original size:80 final size:80
Alignment explanation
Indices: 17075629--17075839 Score: 263
Period size: 80 Copynumber: 2.7 Consensus size: 80
17075619 TATTCGGATG
* * *
17075629 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAGCTCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATATACCGGGCTAAGCCCGAAGGC
* *
17075692 ATTTGTGTGAGTTACT
65 ACTTGTGCGAGTTACT
* * * *
17075708 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTA-CTATA-ACTGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATACCGGGCTAAG-CCCGAAGG
17075771 CACTTGTGCGAGTTACT
64 CACTTGTGCGAGTTACT
*
17075788 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATAT-CC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATACCGGGCTAA
17075840 ATTCCGAAGG
Statistics
Matches: 113, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
79 52 0.46
80 61 0.54
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATACCGGGCTAAGCCCGAAGGCA
CTTGTGCGAGTTACT
Found at i:17077653 original size:43 final size:43
Alignment explanation
Indices: 17077572--17077657 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
17077562 ATATCGTACA
*
17077572 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCATATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGCAATCATATATCG
*
17077615 ATGCC-ACTGTCCTAGACATGGTCTTAC-TCGCACA-CATATATCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACAT-GCA-ATCATATATCG
17077658 GAGTCACATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGCAATCATATATCG
Found at i:17077694 original size:56 final size:56
Alignment explanation
Indices: 17077633--17077787 Score: 274
Period size: 56 Copynumber: 2.8 Consensus size: 56
17077623 GTCCTAGACA
17077633 TGGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACG
1 TGGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACG
* * *
17077689 TGGTCTTACTCGTACACATATATCGAAGTCACATATCGATGCCAACGTATAAAATG
1 TGGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACG
*
17077745 TGGTCTTACTCGCACACATATATCGGAATCACATATCGATGCC
1 TGGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCC
17077788 TCATATACAT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 93 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (56 bp):
TGGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACG
Found at i:17079769 original size:37 final size:37
Alignment explanation
Indices: 17079700--17079839 Score: 133
Period size: 37 Copynumber: 3.9 Consensus size: 37
17079690 GATATTGAGT
* * * * * *
17079700 TTTTGATATTTTGATTCACTTATTATATATGCTAATA
1 TTTTGTTATTTTGATTCGCATGTTAAACATGCTAATA
17079737 TTTTGTTATTTTGATTCGCATGTTAAACATGCT-AT-
1 TTTTGTTATTTTGATTCGCATGTTAAACATGCTAATA
* * * * * * *
17079772 TATTCTAATTTTGACTCGCATGTTAAGCATGCCATTA
1 TTTTGTTATTTTGATTCGCATGTTAAACATGCTAATA
*
17079809 TTTT-TTATTATGATTCGCATGTTAAACATGC
1 TTTTGTTATTTTGATTCGCATGTTAAACATGC
17079840 CACTGTGTTA
Statistics
Matches: 83, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
35 27 0.33
36 26 0.31
37 30 0.36
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (37 bp):
TTTTGTTATTTTGATTCGCATGTTAAACATGCTAATA
Found at i:17079791 original size:35 final size:36
Alignment explanation
Indices: 17079744--17079841 Score: 135
Period size: 35 Copynumber: 2.8 Consensus size: 36
17079734 ATATTTTGTT
*
17079744 ATTTTGATTCGCATGTTAAACATGCTATTA-TTCTA
1 ATTTTGATTCGCATGTTAAACATGCCATTATTTCTA
* * * *
17079779 ATTTTGACTCGCATGTTAAGCATGCCATTATTTTTT
1 ATTTTGATTCGCATGTTAAACATGCCATTATTTCTA
*
17079815 ATTATGATTCGCATGTTAAACATGCCA
1 ATTTTGATTCGCATGTTAAACATGCCA
17079842 CTGTGTTAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
35 27 0.50
36 27 0.50
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (36 bp):
ATTTTGATTCGCATGTTAAACATGCCATTATTTCTA
Found at i:17079833 original size:36 final size:36
Alignment explanation
Indices: 17079735--17079841 Score: 144
Period size: 36 Copynumber: 3.0 Consensus size: 36
17079725 TATATGCTAA
*
17079735 TATTTTGTTATTTTGATTCGCATGTTAAACATGCTAT
1 TATTTT-TTATTTTGATTCGCATGTTAAACATGCCAT
* * * *
17079772 TA-TTCTAATTTTGACTCGCATGTTAAGCATGCCAT
1 TATTTTTTATTTTGATTCGCATGTTAAACATGCCAT
*
17079807 TATTTTTTATTATGATTCGCATGTTAAACATGCCA
1 TATTTTTTATTTTGATTCGCATGTTAAACATGCCA
17079842 CTGTGTTAAG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
35 28 0.47
36 29 0.49
37 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (36 bp):
TATTTTTTATTTTGATTCGCATGTTAAACATGCCAT
Found at i:17086405 original size:27 final size:26
Alignment explanation
Indices: 17086300--17086411 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
17086290 AGGAAGCGTC
* **
17086300 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
17086327 CTAGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
17086354 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
17086382 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
17086408 CTGG
1 CTGG
17086412 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.67
28 17 0.23
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:17086406 original size:54 final size:54
Alignment explanation
Indices: 17086300--17086411 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
17086290 AGGAAGCGTC
* *
17086300 CTGGTGGCTATGCCACAATTATCTAATCTAGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTAGTGACTCTGCCACATATATCTGTT
* * * * *
17086354 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-AATCTAGTGACTCTGCCACATATATCTGTT
17086408 CTGG
1 CTGG
17086412 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTAGTGACTCTGCCACATATATCTGTT
Found at i:17087501 original size:11 final size:10
Alignment explanation
Indices: 17087473--17087506 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
17087463 AGCCTGTAAG
17087473 TATTCTGAAT
1 TATTCTGAAT
*
17087483 TTTTCTGAAT
1 TATTCTGAAT
17087493 ATATTCTGAAT
1 -TATTCTGAAT
17087504 TAT
1 TAT
17087507 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:17094185 original size:27 final size:27
Alignment explanation
Indices: 17094145--17094256 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
17094135 AGGAAGTGTC
*
17094145 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
17094172 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* * *
17094199 TTGGTGGCTCTGCCACGATTAACTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
17094227 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
17094253 CTGG
1 CTGG
17094257 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.11
27 46 0.65
28 17 0.24
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:17094251 original size:54 final size:54
Alignment explanation
Indices: 17094146--17094252 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
17094136 GGAAGTGTCC
* * *
17094146 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTT
1 TGGTGGCTATGCCACAATTAACTGATCTGGTGACTCTGCCACATATATCTGTTT
* * *
17094200 TGGTGGCTCTGCCACGATTAACTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAATTAACTG-ATCTGGTGACTCTGCCACATATATCTGTT
17094253 CTGGCAGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 28 0.61
55 18 0.39
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTAACTGATCTGGTGACTCTGCCACATATATCTGTTT
Done.