Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 158 of 163
Found at i:44620981 original size:13 final size:13
Alignment explanation
Indices: 44620963--44620987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44620953 AGTATATATA
44620963 TATATATAAAATT
1 TATATATAAAATT
44620976 TATATATAAAAT
1 TATATATAAAAT
44620988 CAATGAAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATATAAAATT
Found at i:44623339 original size:19 final size:19
Alignment explanation
Indices: 44623301--44623340 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44623291 TATGTCTGTT
**
44623301 TTAATTTTTAATATTTATA
1 TTAATTTTTAATATAAATA
*
44623320 TTAATTTTTTATATAAATA
1 TTAATTTTTAATATAAATA
44623339 TT
1 TT
44623341 TAAAATTGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAATTTTTAATATAAATA
Found at i:44626837 original size:23 final size:23
Alignment explanation
Indices: 44626811--44626899 Score: 74
Period size: 23 Copynumber: 3.8 Consensus size: 23
44626801 AATTATTTTA
*
44626811 AGATTAAATTTAGATTTAAATTT
1 AGATTAAATTTAAATTTAAATTT
*
44626834 AGATT-TATTTCAAATTTAAATTT
1 AGATTAAATTT-AAATTTAAATTT
* *
44626857 AAATTTAAACTTTAAATTTGAATTT
1 AGA-TTAAA-TTTAAATTTAAATTT
* *
44626882 A-ATTTAAGTCTAAATTTA
1 AGA-TTAAATTTAAATTTA
44626900 TTTTAAATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
22 4 0.07
23 26 0.48
24 8 0.15
25 13 0.24
26 3 0.06
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (23 bp):
AGATTAAATTTAAATTTAAATTT
Found at i:44626843 original size:35 final size:36
Alignment explanation
Indices: 44626796--44626875 Score: 101
Period size: 35 Copynumber: 2.2 Consensus size: 36
44626786 ATCGGGCCCT
* * *
44626796 TTTAAAATTATTTTAAGA-TTAAATTTAGATTTAAA-
1 TTTAAATTTATTTCAA-ATTTAAATTTAAATTTAAAC
*
44626831 TTTAGATTTATTTCAAATTTAAATTTAAATTTAAAC
1 TTTAAATTTATTTCAAATTTAAATTTAAATTTAAAC
44626867 TTTAAATTT
1 TTTAAATTT
44626876 GAATTTAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
34 1 0.03
35 29 0.76
36 8 0.21
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (36 bp):
TTTAAATTTATTTCAAATTTAAATTTAAATTTAAAC
Found at i:44626850 original size:17 final size:16
Alignment explanation
Indices: 44626796--44626888 Score: 64
Period size: 17 Copynumber: 5.3 Consensus size: 16
44626786 ATCGGGCCCT
*
44626796 TTTAAAATTATTTTAAGA
1 TTTAAATTTA-TTTAA-A
44626814 -TTAAATTTAGATTTAAA
1 TTTAAATTT--ATTTAAA
*
44626831 TTTAGATTTATTTCAAA
1 TTTAAATTTATTT-AAA
44626848 TTTAAATTTAAATTTAAA
1 TTTAAATTT--ATTTAAA
44626866 CTTTAAATTTGAATTT-AA
1 -TTTAAATTT--ATTTAAA
44626884 TTTAA
1 TTTAA
44626889 GTCTAAATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
16 4 0.06
17 24 0.38
18 17 0.27
19 19 0.30
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:44626872 original size:7 final size:6
Alignment explanation
Indices: 44626814--44626912 Score: 98
Period size: 6 Copynumber: 16.8 Consensus size: 6
44626804 TATTTTAAGA
* *
44626814 TTAAAT TTAGAT TTAAAT TTAGAT TT--AT TTCAAAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT
* * * *
44626861 TTAAACT TTAAAT TTGAAT TT-AAT TTAAGT CTAAAT TT-ATT TTAAAT
1 TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
44626908 TTAAA
1 TTAAA
44626913 AATTATTATA
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
4 4 0.05
5 9 0.12
6 54 0.70
7 10 0.13
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (6 bp):
TTAAAT
Found at i:44628726 original size:29 final size:29
Alignment explanation
Indices: 44628679--44628988 Score: 136
Period size: 29 Copynumber: 10.7 Consensus size: 29
44628669 GTCCCCAAAC
*
44628679 TTTCCAAAATTCCATTTTTAACCTTAATT
1 TTTCCAAAATTCCATTTTTAACCCTAATT
* * * **
44628708 TTTCCAAAATTAC-TATTTTGACCCCAAAC
1 TTTCCAAAATTCCAT-TTTTAACCCTAATT
*
44628737 TTTCTAAAATTCCATTTTTAACCCTAATT
1 TTTCCAAAATTCCATTTTTAACCCTAATT
* * *
44628766 TTTCCAAAAATTACCA-TTTTACCCCCGAA-C
1 TTTCC-AAAATT-CCATTTTTA-ACCCTAATT
* *
44628796 TTTCCAAGATTCCATTTTTAA-CCTCGATT
1 TTTCCAAAATTCCATTTTTAACCCT-AATT
** * * **
44628825 TCACCAAAATTACCA-TTTTACCCCCAAAC
1 TTTCCAAAATT-CCATTTTTAACCCTAATT
**
44628854 TTTCCAAAA-TCTCATTTTTAACCCCGATT
1 TTTCCAAAATTC-CATTTTTAACCCTAATT
** * * **
44628883 TCACCAAAATTAC-TATTTTAACCCCAAAC
1 TTTCCAAAATTCCAT-TTTTAACCCTAATT
* **
44628912 TTT-CAAAAATCC-TATTTTAACCCCGATT
1 TTTCCAAAATTCCAT-TTTTAACCCTAATT
** * **
44628940 TCACCAAAAATTTCCA-TTTTACCCCTAAAC
1 TTTCC-AAAA-TTCCATTTTTAACCCTAATT
*
44628970 TTTCCAAAATTTCATTTTT
1 TTTCCAAAATTCCATTTTT
44628989 GACCTCGATT
Statistics
Matches: 203, Mismatches: 59, Indels: 38
0.68 0.20 0.13
Matches are distributed among these distances:
27 3 0.01
28 34 0.17
29 116 0.57
30 39 0.19
31 11 0.05
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (29 bp):
TTTCCAAAATTCCATTTTTAACCCTAATT
Found at i:44628765 original size:58 final size:57
Alignment explanation
Indices: 44628671--44629023 Score: 367
Period size: 58 Copynumber: 6.1 Consensus size: 57
44628661 GCTCTCTAGT
* * ** *
44628671 CCCCAAACTTTCCAAAATTCCATTTTTAACCTTAATTTTTCCAAAATTACTATTTTGA
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAATTACCATTTT-A
* * **
44628729 CCCCAAACTTTCTAAAATTCCATTTTTAACCCTAATTTTTCCAAAAATTACCATTTTA
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACC-AAAATTACCATTTTA
* *
44628787 CCCCCGAACTTTCCAAGATTCCATTTTTAA-CCTCGATTTCACCAAAATTACCATTTTA
1 -CCCCAAACTTTCCAAAATTCCATTTTTAACCCT-GATTTCACCAAAATTACCATTTTA
* *
44628845 CCCCCAAACTTTCCAAAA-TCTCATTTTTAACCCCGATTTCACCAAAATTACTATTTTAA
1 -CCCCAAACTTTCCAAAATTC-CATTTTTAACCCTGATTTCACCAAAATTACCATTTT-A
* * *
44628904 CCCCAAACTTT-CAAAAATCC-TATTTTAACCCCGATTTCACCAAAAATTTCCATTTTA
1 CCCCAAACTTTCCAAAATTCCAT-TTTTAACCCTGATTTCACC-AAAATTACCATTTTA
* * * *
44628961 CCCCTAAACTTTCCAAAATTTCATTTTTGA-CCTCGATTTTC-CTAAAAATTACCATTTTG
1 CCCC-AAACTTTCCAAAATTCCATTTTTAACCCT-GA-TTTCAC-CAAAATTACCATTTTA
44629020 CCCC
1 CCCC
44629024 CGCGCATCCA
Statistics
Matches: 258, Mismatches: 22, Indels: 29
0.83 0.07 0.09
Matches are distributed among these distances:
56 1 0.00
57 32 0.12
58 140 0.54
59 80 0.31
60 5 0.02
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.37
Consensus pattern (57 bp):
CCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAATTACCATTTTA
Found at i:44628836 original size:117 final size:116
Alignment explanation
Indices: 44628671--44629024 Score: 414
Period size: 117 Copynumber: 3.0 Consensus size: 116
44628661 GCTCTCTAGT
** ** *
44628671 CCCCAAACTTTCCAAAATTCCATTTTTAACCTTAATTTTTCCAAAATTACTATTTTGACCCCAAA
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAATTACCATTTT-ACCCCAAA
* *
44628736 CTTTCTAAAATTCCATTTTTAACCCTAATTTTTCCAAAAATTACCATTTTAC
65 CTTTCCAAAATTCCATTTTTAACCCTGATTTTTCCAAAAATTACCATTTTAC
* *
44628788 CCCCGAACTTTCCAAGATTCCATTTTTAACCTCGATTTCACCAAAATTACCATTTTACCCCCAAA
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAATTACCATTTTA-CCCCAAA
* ** * *
44628853 CTTTCCAAAA-TCTCATTTTTAACCCCGATTTCACC-AAAATTACTATTTTAA
65 CTTTCCAAAATTC-CATTTTTAACCCTGATTTTTCCAAAAATTACCATTTTAC
* * *
44628904 CCCCAAACTTT-CAAAAATCC-TATTTTAACCCCGATTTCACCAAAAATTTCCATTTTACCCCTA
1 CCCCAAACTTTCCAAAATTCCAT-TTTTAACCTCGATTTCACC-AAAATTACCATTTTACCCC-A
* * *
44628967 AACTTTCCAAAATTTCATTTTTGA-CCTCGA-TTTTCCTAAAAATTACCATTTTGC
63 AACTTTCCAAAATTCCATTTTTAACCCT-GATTTTTCC-AAAAATTACCATTTTAC
44629021 CCCC
1 CCCC
44629025 GCGCATCCAA
Statistics
Matches: 201, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
114 1 0.00
115 35 0.17
116 64 0.32
117 101 0.50
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.37
Consensus pattern (116 bp):
CCCCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAATTACCATTTTACCCCAAAC
TTTCCAAAATTCCATTTTTAACCCTGATTTTTCCAAAAATTACCATTTTAC
Found at i:44630541 original size:2 final size:2
Alignment explanation
Indices: 44630534--44630579 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
44630524 CGTGAAAACC
44630534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44630576 AT AT
1 AT AT
44630580 TAAGGTAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44643976 original size:24 final size:24
Alignment explanation
Indices: 44643948--44644022 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
44643938 AGAAACAATC
* * *
44643948 TTTCAGTTAAACTCCGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
*
44643972 TTTCAAATAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
*
44643996 TTTTAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
44644020 TTT
1 TTT
44644023 GAGTCAAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.12, G:0.09, T:0.53
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:44644031 original size:24 final size:24
Alignment explanation
Indices: 44643956--44644034 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
44643946 TCTTTCAGTT
* * *
44643956 AAACTCCGTTTAATTGTTTCAAAT-
1 AAACTCTGTTTATTTGTTT-GAATC
* *
44643980 AAACTCTGTTTATTTGTTTTAATT
1 AAACTCTGTTTATTTGTTTGAATC
*
44644004 AAACTCTGTTTATTTGTTTGAGTC
1 AAACTCTGTTTATTTGTTTGAATC
44644028 AAACTCT
1 AAACTCT
44644035 TATTAGTCTA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
23 3 0.06
24 45 0.94
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTGAATC
Found at i:44647473 original size:3 final size:3
Alignment explanation
Indices: 44647465--44647494 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
44647455 TGTCAGTAGC
44647465 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
44647495 TTATAATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44650972 original size:18 final size:17
Alignment explanation
Indices: 44650946--44650979 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44650936 CACTAACCTT
*
44650946 GAAATGAAAAGGAAAAAA
1 GAAAAGAAAA-GAAAAAA
44650964 GAAAAGAAAAGAAAAA
1 GAAAAGAAAAGAAAAA
44650980 GGCAGAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
GAAAAGAAAAGAAAAAA
Found at i:44653433 original size:59 final size:59
Alignment explanation
Indices: 44653362--44653478 Score: 198
Period size: 59 Copynumber: 2.0 Consensus size: 59
44653352 ATTCTGGATT
* * *
44653362 GCATCCCGAACAAAGTGACGATCCACTTCAATTGCAATATGCAACGCATATTGACTATA
1 GCATCCCGAACAAAGTGACGATCCACTTCAATTGCAATATACAACACAAATTGACTATA
*
44653421 GCATCCCGAACAAAGTGACGATCCACTTCAATTGTAATATACAACACAAATTGACTAT
1 GCATCCCGAACAAAGTGACGATCCACTTCAATTGCAATATACAACACAAATTGACTAT
44653479 GGCCTCAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.24
Consensus pattern (59 bp):
GCATCCCGAACAAAGTGACGATCCACTTCAATTGCAATATACAACACAAATTGACTATA
Found at i:44659556 original size:15 final size:15
Alignment explanation
Indices: 44659532--44659562 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44659522 CCATTAAACC
*
44659532 CTTTTTTTTTCTTTT
1 CTTTTATTTTCTTTT
44659547 CTTTTATTTTCTTTT
1 CTTTTATTTTCTTTT
44659562 C
1 C
44659563 ATGTGAACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTATTTTCTTTT
Found at i:44665618 original size:6 final size:6
Alignment explanation
Indices: 44665581--44665605 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44665571 TGTTTATTGT
44665581 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
44665606 TATTGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:44669410 original size:18 final size:19
Alignment explanation
Indices: 44669370--44669413 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
44669360 ATTTGCACAT
* *
44669370 TTTAATTTAAAGTAATTTT
1 TTTAATTAAAAGTAATTTA
*
44669389 TTTAATTAAAAGTGA-TTA
1 TTTAATTAAAAGTAATTTA
44669407 TTTAATT
1 TTTAATT
44669414 GAATCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTAATTAAAAGTAATTTA
Found at i:44679235 original size:32 final size:31
Alignment explanation
Indices: 44679168--44679243 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 31
44679158 CCGATAAGTT
* *
44679168 TAATTAA-TTAGTATGAGTTATCAAATTAAAT
1 TAATTAATTTA-TATGAATTATCAAATTAAAG
* *
44679199 TAATTAATTTATCATGAATTATTAAATTGAAG
1 TAATTAATTTAT-ATGAATTATCAAATTAAAG
*
44679231 TAATTAGTTTATA
1 TAATTAATTTATA
44679244 AGTTCATGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
31 9 0.24
32 29 0.76
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (31 bp):
TAATTAATTTATATGAATTATCAAATTAAAG
Found at i:44679420 original size:30 final size:29
Alignment explanation
Indices: 44679384--44679446 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
44679374 CATGTGAATT
*
44679384 TTAAAAT-TTTTTATTTAAATAATATTTTAA
1 TTAAAATATTTTTATTT-AATAA-ATTATAA
44679414 TTAAAATCATTTTTATTTAATAAATTATAA
1 TTAAAAT-ATTTTTATTTAATAAATTATAA
44679444 TTA
1 TTA
44679447 TATGTCCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 16 0.53
31 5 0.17
32 9 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
TTAAAATATTTTTATTTAATAAATTATAA
Found at i:44685596 original size:22 final size:22
Alignment explanation
Indices: 44685571--44685615 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
44685561 TATATTAGGC
*
44685571 AAATTAATTAATGATATAATAA
1 AAATTAATCAATGATATAATAA
44685593 AAATTAATCAATGATATAATAA
1 AAATTAATCAATGATATAATAA
44685615 A
1 A
44685616 TATTGGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (22 bp):
AAATTAATCAATGATATAATAA
Found at i:44686560 original size:12 final size:12
Alignment explanation
Indices: 44686543--44686569 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44686533 AAGCAAATGC
44686543 CAATTTAAAGGT
1 CAATTTAAAGGT
44686555 CAATTTAAAGGT
1 CAATTTAAAGGT
44686567 CAA
1 CAA
44686570 AATAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (12 bp):
CAATTTAAAGGT
Found at i:44696759 original size:162 final size:162
Alignment explanation
Indices: 44696492--44696813 Score: 527
Period size: 162 Copynumber: 2.0 Consensus size: 162
44696482 TTAAGTGAAC
* * *
44696492 GGATTTAAGTCAAAGGAATCAACGATATCGTATGAGGGTAACACACATATGACGAGGTCACTGGA
1 GGATTTAAGTCAAAGAAATCAACGATATCATATGAGGGTAACACACACATGACGAGGTCACTGGA
* *
44696557 CAAAACAACTGGATGAATTGCTTTCGTAAAGAGTATACAATAAGGAGTTTTCAATCATGATACTT
66 CAAAACAACTGGATGAATTGCTTTCGTAAAAAGTATACAATAACGAGTTTTCAATCATGATACTT
* * * *
44696622 CTTGTGGATTGAGTCCATGATTAAGTAATTAT
131 CTTGTGCATTGACTCAATGATTAAATAATTAT
* * *
44696654 GGATTTAAGTCAAAGAAATTAATGATATCATATGAGGGTAACACACACGTGACGAGGTCACTGGA
1 GGATTTAAGTCAAAGAAATCAACGATATCATATGAGGGTAACACACACATGACGAGGTCACTGGA
*
44696719 CAAAACAATTGGATGAATTGCTTTCGTAAAAAGTATACAATAACGAGTTTTCAATCATGATACTT
66 CAAAACAACTGGATGAATTGCTTTCGTAAAAAGTATACAATAACGAGTTTTCAATCATGATACTT
44696784 CTTGTGCATTGACTCAATGATTAAATAATT
131 CTTGTGCATTGACTCAATGATTAAATAATT
44696814 GTGAATTATC
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 147 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (162 bp):
GGATTTAAGTCAAAGAAATCAACGATATCATATGAGGGTAACACACACATGACGAGGTCACTGGA
CAAAACAACTGGATGAATTGCTTTCGTAAAAAGTATACAATAACGAGTTTTCAATCATGATACTT
CTTGTGCATTGACTCAATGATTAAATAATTAT
Found at i:44703048 original size:52 final size:52
Alignment explanation
Indices: 44702968--44703259 Score: 397
Period size: 52 Copynumber: 5.6 Consensus size: 52
44702958 ATAAATGCAA
*
44702968 AAGGTCCTATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
**
44703020 AAGGTCCGATGACTATGTGTCA-CTGTGAGTATATGAATTGTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATC-GTGAGTATATGAATCCTTTACGGATTAT
* * * *
44703072 AAGGTCCAATGACTATGTGTCACCGTGAGTGTATGAATCGTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* *** *
44703124 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTATAAATTAC
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * * * * *
44703176 GAGGTCTGATGGCTATGTGTCATCATTAGTATATGAATCCTTTTCGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
*
44703228 AAGGTCCGATGACAATGTGTCATCGTGAGTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTAT
44703260 TAAATGTGAA
Statistics
Matches: 207, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
51 1 0.00
52 205 0.99
53 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (52 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
Found at i:44707536 original size:3 final size:3
Alignment explanation
Indices: 44707528--44707552 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44707518 CATAAATCAA
44707528 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
44707553 ACAGCTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:44717313 original size:12 final size:13
Alignment explanation
Indices: 44717292--44717324 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
44717282 TTAAAACTAA
44717292 TAAAAT-AAAAAT
1 TAAAATAAAAAAT
44717304 T-AAATAAAAAAT
1 TAAAATAAAAAAT
44717316 TAAAATAAA
1 TAAAATAAA
44717325 TTTCTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 8 0.42
13 7 0.37
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAATAAAAAAT
Found at i:44728617 original size:2 final size:2
Alignment explanation
Indices: 44728612--44728639 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44728602 AATAAATAAA
44728612 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44728640 GGTAGACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44732660 original size:29 final size:29
Alignment explanation
Indices: 44732599--44732663 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
44732589 TTAAAATTTG
*
44732599 AAAAATAAAAAGATTAAATTTTTTAAATT
1 AAAAATAAAAAGATTAAATTTTTTAAATA
*
44732628 AAAAATATAAAA-ATTAAATTTTATT-TATA
1 AAAAATA-AAAAGATTAAATTTT-TTAAATA
44732657 AAAAATA
1 AAAAATA
44732664 CATAAACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAAATAAAAAGATTAAATTTTTTAAATA
Found at i:44737349 original size:7 final size:7
Alignment explanation
Indices: 44737337--44737361 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44737327 GTTAACTTTA
44737337 TTAATAT
1 TTAATAT
44737344 TTAATAT
1 TTAATAT
44737351 TTAATAT
1 TTAATAT
44737358 TTAA
1 TTAA
44737362 AATCATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAATAT
Found at i:44745683 original size:30 final size:30
Alignment explanation
Indices: 44745642--44745730 Score: 126
Period size: 30 Copynumber: 3.0 Consensus size: 30
44745632 GAATTCGGTT
*
44745642 AAATCAAAATTTCATGTATAAATTTACATA
1 AAATTAAAATTTCATGTATAAATTTACATA
**
44745672 AAATTAAAATTTCATGTATAAATTTGTATA
1 AAATTAAAATTTCATGTATAAATTTACATA
* *
44745702 AAATTAAAA-TTCATATATAAAATTACATA
1 AAATTAAAATTTCATGTATAAATTTACATA
44745731 TTAAATAAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
29 16 0.31
30 36 0.69
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (30 bp):
AAATTAAAATTTCATGTATAAATTTACATA
Found at i:44748226 original size:83 final size:82
Alignment explanation
Indices: 44748123--44748303 Score: 222
Period size: 83 Copynumber: 2.2 Consensus size: 82
44748113 CTGACGCCCA
* * * *
44748123 AAAAATAAAAAAAAATTCAATTCAATCCT-CTTATAAATAGAGAAACTATAAATTAATATAATGA
1 AAAAATGAAAAAAAATTCAATTCAAT-CTGCTTATAAATAAAGAAACTATAAACTAATATAATAA
* *
44748187 AATTACACTTTGA-TCCTT
65 AATT-CACTTTAACACCTT
* ** *
44748205 CAAAAATGAAAAAAAATTCAATTCAATCTGTTTATAAATAAAGAAGTTATAAACTAATATAGTAA
1 -AAAAATGAAAAAAAATTCAATTCAATCTGCTTATAAATAAAGAAACTATAAACTAATATAATAA
*
44748270 AATTCAGTTTAACACCTT
65 AATTCACTTTAACACCTT
44748288 AAAAATGAAAAAAAAT
1 AAAAATGAAAAAAAAT
44748304 ATATTTAATC
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
82 24 0.28
83 61 0.72
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (82 bp):
AAAAATGAAAAAAAATTCAATTCAATCTGCTTATAAATAAAGAAACTATAAACTAATATAATAAA
ATTCACTTTAACACCTT
Found at i:44749353 original size:3 final size:3
Alignment explanation
Indices: 44749338--44749371 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
44749328 CTCTGTTTAT
*
44749338 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
44749372 GCCTACTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:44759521 original size:14 final size:14
Alignment explanation
Indices: 44759490--44759528 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
44759480 ATCGTGAAGC
*
44759490 TTTTTAACTAAAAAT
1 TTTTTAAAT-AAAAT
*
44759505 TTTTTAAATAAATT
1 TTTTTAAATAAAAT
44759519 TTTTTAAATA
1 TTTTTAAATA
44759529 TTTTGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTTAAATAAAAT
Found at i:44759636 original size:16 final size:17
Alignment explanation
Indices: 44759604--44759636 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44759594 GATTAAAGAT
*
44759604 TAAATAAATAGAATGAG
1 TAAATAAATAAAATGAG
44759621 TAAATAAA-AAAATGAG
1 TAAATAAATAAAATGAG
44759637 GGATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (17 bp):
TAAATAAATAAAATGAG
Found at i:44761200 original size:24 final size:24
Alignment explanation
Indices: 44761154--44761200 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
44761144 CTAATAGACG
* * *
44761154 CATAAAACGCATCGTATAGCTAAA
1 CATAAAACACAACGTATAACTAAA
*
44761178 CATAAAACACAACGTTTAACTAA
1 CATAAAACACAACGTATAACTAA
44761201 TAGTACTCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (24 bp):
CATAAAACACAACGTATAACTAAA
Found at i:44764193 original size:18 final size:18
Alignment explanation
Indices: 44764170--44764205 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44764160 TTTACAATTA
44764170 ATGTAAAAATAAAGATTG
1 ATGTAAAAATAAAGATTG
* *
44764188 ATGTAAAATTAAATATTG
1 ATGTAAAAATAAAGATTG
44764206 TGACGTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (18 bp):
ATGTAAAAATAAAGATTG
Found at i:44766497 original size:30 final size:31
Alignment explanation
Indices: 44766458--44766525 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
44766448 TAGCACACTC
*
44766458 TAAATAAAAAATTAAATGACAAGTATG-TTTA
1 TAAA-AAAAAATTAAATGACAAATATGTTTTA
*
44766489 TAAAAAAAATTTAAATGACAAATATGTTTTA
1 TAAAAAAAAATTAAATGACAAATATGTTTTA
44766520 TAAAAA
1 TAAAAA
44766526 GCTCATACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 20 0.59
31 14 0.41
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.32
Consensus pattern (31 bp):
TAAAAAAAAATTAAATGACAAATATGTTTTA
Found at i:44766676 original size:31 final size:30
Alignment explanation
Indices: 44766636--44766708 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 30
44766626 AAATATCAAC
44766636 AATTTAATGATTTAAATAAAAATTTGTGAAT
1 AATTTAATGATTT-AATAAAAATTTGTGAAT
* * *
44766667 AATTCAATGACTTTAATAAAATTTTTTGAAT
1 AATTTAATGA-TTTAATAAAAATTTGTGAAT
44766698 AATTTAATGAT
1 AATTTAATGAT
44766709 CACTTCGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 1 0.03
31 33 0.89
32 3 0.08
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (30 bp):
AATTTAATGATTTAATAAAAATTTGTGAAT
Found at i:44773306 original size:31 final size:31
Alignment explanation
Indices: 44773236--44773308 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
44773226 GTTACAAATG
*
44773236 GTCATTGAATTATTCAAAAGTTTTCATATAA
1 GTCATTGAGTTATTCAAAAGTTTTCATATAA
* *
44773267 GTCATTGAGTTATTCGAAAGTTTTTAT-TAAA
1 GTCATTGAGTTATTCAAAAGTTTTCATAT-AA
44773298 GTCATTGAGTT
1 GTCATTGAGTT
44773309 GTTAAGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 1 0.03
31 37 0.97
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (31 bp):
GTCATTGAGTTATTCAAAAGTTTTCATATAA
Found at i:44778662 original size:31 final size:28
Alignment explanation
Indices: 44778627--44778706 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 28
44778617 ATTTTTTAAA
*
44778627 ATTTTGAAAATTCAAAAGAT-ATATAAAAGTT
1 ATTTTAAAAATT-AAAA-ATCAT-TAAAA-TT
44778658 ATTTTTAAAAATTAAAAATCATTAAAATT
1 A-TTTTAAAAATTAAAAATCATTAAAATT
*
44778687 ATTTAAAAAAGTATAAAAAT
1 ATTTTAAAAA-T-TAAAAAT
44778707 TACAAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
28 8 0.19
29 4 0.09
30 14 0.33
31 7 0.16
32 10 0.23
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (28 bp):
ATTTTAAAAATTAAAAATCATTAAAATT
Found at i:44778669 original size:32 final size:29
Alignment explanation
Indices: 44778628--44778690 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 29
44778618 TTTTTTAAAA
*
44778628 TTTTGAAAATTCAAAAGAT-ATATAAAAGTTAT
1 TTTTAAAAATT-AAAA-ATCAT-TAAAA-TTAT
44778660 TTTTAAAAATTAAAAATCATTAAAATTAT
1 TTTTAAAAATTAAAAATCATTAAAATTAT
44778689 TT
1 TT
44778691 AAAAAAGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 6 0.21
30 7 0.24
31 6 0.21
32 10 0.34
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (29 bp):
TTTTAAAAATTAAAAATCATTAAAATTAT
Found at i:44785757 original size:14 final size:14
Alignment explanation
Indices: 44785738--44785775 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
44785728 AACCCTTGCT
44785738 TGATAATGCCTGCA
1 TGATAATGCCTGCA
44785752 TGATAATGCCTGCA
1 TGATAATGCCTGCA
44785766 TGATAATGCC
1 TGATAATGCC
44785776 ACTGGAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (14 bp):
TGATAATGCCTGCA
Found at i:44796338 original size:18 final size:18
Alignment explanation
Indices: 44796306--44796358 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
44796296 TGGATCCATT
*
44796306 AAATAAATTTATTTTAT-A
1 AAAT-AATTTTTTTTATGA
*
44796324 AGAATTATTTTTTTTGATGA
1 A-AATAATTTTTTTT-ATGA
44796344 AAATAATTTTTTTTA
1 AAATAATTTTTTTTA
44796359 ATAATGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 10 0.34
19 17 0.59
20 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (18 bp):
AAATAATTTTTTTTATGA
Found at i:44803255 original size:25 final size:23
Alignment explanation
Indices: 44803227--44803375 Score: 110
Period size: 23 Copynumber: 6.4 Consensus size: 23
44803217 ACATGTCTAT
**
44803227 TGCTCTCTGTTATTAGCACTGCGTG
1 TGCTCTCTG--ATTAGCACTTTGTG
44803252 TGCTCTCTGATTAGCACTTTGTG
1 TGCTCTCTGATTAGCACTTTGTG
* *
44803275 TGCTATCTGATTAGTACTTTGTG
1 TGCTCTCTGATTAGCACTTTGTG
* * *
44803298 TACTCTCTGTTTAACA-TTGTGTG
1 TGCTCTCTGATTAGCACTT-TGTG
*
44803321 TGCTCTCT-ATTGCCCAGCAC-TTATG
1 TGCTCTCTGATT----AGCACTTTGTG
*
44803346 TGCTCTCTG-TTAGTACTTTG-G
1 TGCTCTCTGATTAGCACTTTGTG
*
44803367 TACTCTCTG
1 TGCTCTCTG
44803376 TTTGTTCTGT
Statistics
Matches: 100, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
21 13 0.13
22 6 0.06
23 55 0.55
25 22 0.22
26 4 0.04
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (23 bp):
TGCTCTCTGATTAGCACTTTGTG
Found at i:44819044 original size:26 final size:26
Alignment explanation
Indices: 44819011--44819071 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
44819001 CATTCATCGA
44819011 AATTCAAATTAATTTAAACTTAAAAC
1 AATTCAAATTAATTTAAACTTAAAAC
* * * *
44819037 GATTCAAAATAATTTAAACTTTAAAT
1 AATTCAAATTAATTTAAACTTAAAAC
44819063 AATTCAAAT
1 AATTCAAAT
44819072 ATGAAATGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (26 bp):
AATTCAAATTAATTTAAACTTAAAAC
Found at i:44819369 original size:23 final size:24
Alignment explanation
Indices: 44819343--44819389 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
44819333 GAAGTAAAGT
* *
44819343 GAAAAAGGTTTGAATAA-TAAATA
1 GAAAAAGGATTGAAAAATTAAATA
*
44819366 GAAAAATGATTGAAAAATTAAATA
1 GAAAAAGGATTGAAAAATTAAATA
44819390 ATTATATTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.26
Consensus pattern (24 bp):
GAAAAAGGATTGAAAAATTAAATA
Found at i:44822849 original size:19 final size:20
Alignment explanation
Indices: 44822811--44822850 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
44822801 TATTACGTTT
*
44822811 TAATCATTTTTGTTACGAAG
1 TAATCATTTCTGTTACGAAG
*
44822831 TAATCA-TTCTGTTATGAAG
1 TAATCATTTCTGTTACGAAG
44822850 T
1 T
44822851 TTTGTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
TAATCATTTCTGTTACGAAG
Found at i:44835534 original size:3 final size:3
Alignment explanation
Indices: 44835528--44835569 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
44835518 TGAAACTCCC
* *
44835528 TCT TCT TCT TCT TCT TCT TCT TCGT T-T TCT TCC TCC TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT
44835570 ACTCTAGACC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:44843206 original size:31 final size:31
Alignment explanation
Indices: 44843148--44843208 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
44843138 GTTTTCAGGT
** *
44843148 TTCATGTACGAGTGTTAGAGTCGCTTCCTTG
1 TTCATGTACGAGTGCCAAAGTCGCTTCCTTG
* *
44843179 TTCATGTATGAGTGCCAAAGTCTCTTCCTT
1 TTCATGTACGAGTGCCAAAGTCGCTTCCTT
44843209 AAGTTTGGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (31 bp):
TTCATGTACGAGTGCCAAAGTCGCTTCCTTG
Found at i:44847264 original size:21 final size:22
Alignment explanation
Indices: 44847224--44847264 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
44847214 AGTCACCCTC
*
44847224 TTATTTAAATTAATATATATAT
1 TTATTTAAATTAAAATATATAT
44847246 TTATTTAAA-TAAAATATAT
1 TTATTTAAATTAAAATATAT
44847265 TTTCAATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATTTAAATTAAAATATATAT
Found at i:44849220 original size:23 final size:25
Alignment explanation
Indices: 44849194--44849239 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44849184 CCAATTAAGG
44849194 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
44849217 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
44849240 TGGATCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:44850355 original size:31 final size:31
Alignment explanation
Indices: 44850320--44850379 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
44850310 CAACCTAGTA
44850320 ACTTAAAT-AAAAATTTTAGAATAATTCAATG
1 ACTTAAATGAAAAATTTTA-AATAATTCAATG
*
44850351 ACTTAAATGAAAATTTTTAAATAATTCAA
1 ACTTAAATGAAAAATTTTAAATAATTCAA
44850380 CGATCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.37
Consensus pattern (31 bp):
ACTTAAATGAAAAATTTTAAATAATTCAATG
Found at i:44855238 original size:22 final size:22
Alignment explanation
Indices: 44855212--44855267 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
44855202 TAATTGATAT
44855212 AAATATTATTATTAGTATAAAA
1 AAATATTATTATTAGTATAAAA
* * *
44855234 AAATATAAATT-TAAGTATAATA
1 AAATAT-TATTATTAGTATAAAA
44855256 AAATA-TATTATT
1 AAATATTATTATT
44855268 TTTTATTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 20 0.74
23 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
AAATATTATTATTAGTATAAAA
Found at i:44861158 original size:187 final size:187
Alignment explanation
Indices: 44860912--44861289 Score: 747
Period size: 187 Copynumber: 2.0 Consensus size: 187
44860902 GAATGTATGT
44860912 GCAGATCATAGCCCTGAAACTGTATTATAATCAGTTCTCATCCCATTTTCTGTTCTTTTTGATAT
1 GCAGATCATAGCCCTGAAACTGTATTATAATCAGTTCTCATCCCATTTTCTGTTCTTTTTGATAT
44860977 GTTCATTATTCAACAATGTAATTTGCTAATAAAAATGCACATAGATGAGAGAAGCCAAAGAGTGC
66 GTTCATTATTCAACAATGTAATTTGCTAATAAAAATGCACATAGATGAGAGAAGCCAAAGAGTGC
44861042 ATTGCTACATTTGATTCACAGAGTTCTTGCAAAGTCACTTTTGCAAACATTGTTAGA
131 ATTGCTACATTTGATTCACAGAGTTCTTGCAAAGTCACTTTTGCAAACATTGTTAGA
*
44861099 GCAGATCATAGCCCTGAAACTGTATTATGATCAGTTCTCATCCCATTTTCTGTTCTTTTTGATAT
1 GCAGATCATAGCCCTGAAACTGTATTATAATCAGTTCTCATCCCATTTTCTGTTCTTTTTGATAT
44861164 GTTCATTATTCAACAATGTAATTTGCTAATAAAAATGCACATAGATGAGAGAAGCCAAAGAGTGC
66 GTTCATTATTCAACAATGTAATTTGCTAATAAAAATGCACATAGATGAGAGAAGCCAAAGAGTGC
44861229 ATTGCTACATTTGATTCACAGAGTTCTTGCAAAGTCACTTTTGCAAACATTGTTAGA
131 ATTGCTACATTTGATTCACAGAGTTCTTGCAAAGTCACTTTTGCAAACATTGTTAGA
44861286 GCAG
1 GCAG
44861290 CAAGCAAGCC
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
187 190 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (187 bp):
GCAGATCATAGCCCTGAAACTGTATTATAATCAGTTCTCATCCCATTTTCTGTTCTTTTTGATAT
GTTCATTATTCAACAATGTAATTTGCTAATAAAAATGCACATAGATGAGAGAAGCCAAAGAGTGC
ATTGCTACATTTGATTCACAGAGTTCTTGCAAAGTCACTTTTGCAAACATTGTTAGA
Found at i:44865037 original size:17 final size:17
Alignment explanation
Indices: 44865017--44865050 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44865007 ATTCAAAAAA
*
44865017 AATTATTAAAATCATTG
1 AATTATTAAAACCATTG
*
44865034 AATTGTTAAAACCATTG
1 AATTATTAAAACCATTG
44865051 TTATATGACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (17 bp):
AATTATTAAAACCATTG
Found at i:44889402 original size:26 final size:26
Alignment explanation
Indices: 44889359--44889408 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
44889349 TTTTTATTTT
*
44889359 GTTTTAAACCATAAATATAGATGAAG
1 GTTTTAAACAATAAATATAGATGAAG
* * *
44889385 GTTTTACACAATATATATTGATGA
1 GTTTTAAACAATAAATATAGATGA
44889409 CTTAAAAGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (26 bp):
GTTTTAAACAATAAATATAGATGAAG
Found at i:44889535 original size:2 final size:2
Alignment explanation
Indices: 44889528--44889556 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44889518 GTGAAGCCAA
44889528 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
44889557 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:44889561 original size:2 final size:2
Alignment explanation
Indices: 44889556--44889580 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44889546 TCTCTCTCTC
44889556 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
44889581 GAAATATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44896142 original size:42 final size:41
Alignment explanation
Indices: 44896096--44896223 Score: 175
Period size: 42 Copynumber: 3.0 Consensus size: 41
44896086 GATTGAGCTT
* * *
44896096 CAGTATTCAGTTTGTCCCTCGAGAGCCTGGGTGATTGAAATG
1 CAGTA-TCGGTTTGTCCTTGGAGAGCCTGGGTGATTGAAATG
44896138 CAGTATCTGGTTTGTCCTTGGAGAGCCTGGGTGATTGAAATG
1 CAGTATC-GGTTTGTCCTTGGAGAGCCTGGGTGATTGAAATG
* * *
44896180 CAGTATCGGATTTGTCCTTGGAGAGCCTAGGTGGTTCAAATG
1 CAGTATCGG-TTTGTCCTTGGAGAGCCTGGGTGATTGAAATG
44896222 CA
1 CA
44896224 CCATTGGATT
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
41 4 0.05
42 74 0.95
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.31
Consensus pattern (41 bp):
CAGTATCGGTTTGTCCTTGGAGAGCCTGGGTGATTGAAATG
Found at i:44896248 original size:42 final size:42
Alignment explanation
Indices: 44896106--44896248 Score: 126
Period size: 42 Copynumber: 3.4 Consensus size: 42
44896096 CAGTATTCAG
* * * * **
44896106 TTTGTCCCTCGAGAGCCTGGGTGATTGAAATGCAGTATCTGG-
1 TTTGTCCATGGAGAGCCTAGGTGATTCAAATGCACCATC-GGA
* * * **
44896148 TTTGTCCTTGGAGAGCCTGGGTGATTGAAATGCAGTATCGGA
1 TTTGTCCATGGAGAGCCTAGGTGATTCAAATGCACCATCGGA
* * *
44896190 TTTGTCCTTGGAGAGCCTAGGTGGTTCAAATGCACCATTGGA
1 TTTGTCCATGGAGAGCCTAGGTGATTCAAATGCACCATCGGA
* *
44896232 TTTGTTCATGGGGAGCC
1 TTTGTCCATGGAGAGCC
44896249 GAGGGGATCG
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 2 0.02
42 87 0.98
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (42 bp):
TTTGTCCATGGAGAGCCTAGGTGATTCAAATGCACCATCGGA
Found at i:44901878 original size:5 final size:6
Alignment explanation
Indices: 44901853--44901877 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44901843 TACTTAATTG
44901853 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
44901878 GGTCATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:44906171 original size:13 final size:16
Alignment explanation
Indices: 44906128--44906174 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
44906118 TTTTTAAAAG
*
44906128 ATATTTTAAT-TAATA
1 ATATTATAATATAATA
44906143 ATATTATAATATAATA
1 ATATTATAATATAATA
44906159 ATATTTATAAATATAA
1 ATA-TTAT-AATATAA
44906175 AAGAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 9 0.32
16 8 0.29
17 4 0.14
18 7 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTATAATATAATA
Found at i:44911664 original size:23 final size:24
Alignment explanation
Indices: 44911621--44911668 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
44911611 GAAATTGAAT
*
44911621 AAAAATAAAGTATGAATTGAGTTA
1 AAAAATAAAGTATGAAATGAGTTA
44911645 AAAAATAAA-TAAT-AAATGAGTTA
1 AAAAATAAAGT-ATGAAATGAGTTA
44911668 A
1 A
44911669 TTAGGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.27
Consensus pattern (24 bp):
AAAAATAAAGTATGAAATGAGTTA
Found at i:44915261 original size:24 final size:24
Alignment explanation
Indices: 44915234--44915282 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
44915224 ACCTTAACAT
44915234 TTATATCTTTTA-TT-AATTTAATCC
1 TTAT-TCTTTTAGTTAAATTT-ATCC
44915258 TTATTCTTTTAGTTAAATTTATCC
1 TTATTCTTTTAGTTAAATTTATCC
44915282 T
1 T
44915283 CAATTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.30
24 11 0.48
25 5 0.22
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATTCTTTTAGTTAAATTTATCC
Found at i:44915448 original size:18 final size:18
Alignment explanation
Indices: 44915425--44915460 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
44915415 TTATGAACTT
*
44915425 TATATATATTAAGTTTTA
1 TATATATATAAAGTTTTA
44915443 TATATATATAAAGTTTTA
1 TATATATATAAAGTTTTA
44915461 AATTATTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
TATATATATAAAGTTTTA
Found at i:44916991 original size:17 final size:18
Alignment explanation
Indices: 44916961--44916998 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
44916951 TTGCGCATTG
44916961 TGTAATTTAGTCTTT-TT
1 TGTAATTTAGTCTTTCTT
**
44916978 TGTAATTTTTTCTTTCTT
1 TGTAATTTAGTCTTTCTT
44916996 TGT
1 TGT
44916999 GACCCTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.13, C:0.08, G:0.11, T:0.68
Consensus pattern (18 bp):
TGTAATTTAGTCTTTCTT
Found at i:44921238 original size:23 final size:27
Alignment explanation
Indices: 44921212--44921268 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
44921202 TTAATTTAAC
44921212 ATATAAA-ATTTT-AA-TAA-TATTTT
1 ATATAAATATTTTAAATTAATTATTTT
*
44921235 ATATAAATATTTTAAATTAATTGTTTT
1 ATATAAATATTTTAAATTAATTATTTT
44921262 ATATAAA
1 ATATAAA
44921269 CATATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 7 0.24
24 5 0.17
25 2 0.07
26 3 0.10
27 12 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
ATATAAATATTTTAAATTAATTATTTT
Found at i:44921245 original size:13 final size:13
Alignment explanation
Indices: 44921212--44921268 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
44921202 TTAATTTAAC
44921212 ATATAAA-ATTTT
1 ATATAAATATTTT
44921224 A-AT-AATATTTT
1 ATATAAATATTTT
44921235 ATATAAATATTTT
1 ATATAAATATTTT
* * *
44921248 AAATTAATTGTTTT
1 ATA-TAAATATTTT
44921262 ATATAAA
1 ATATAAA
44921269 CATATAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
10 2 0.06
11 8 0.22
12 3 0.08
13 13 0.36
14 10 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
ATATAAATATTTT
Found at i:44923393 original size:45 final size:45
Alignment explanation
Indices: 44923327--44923415 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
44923317 TGAGAATCAT
* *
44923327 ATAATGAAATATCTAACAGAACCCAACAATGTGAGAATAAAGTCG
1 ATAAGGAAATATCTAACAGAACCCAACAATATGAGAATAAAGTCG
* *
44923372 ATAAGGAATTATCTAATAGAACCCAACAATATGAGAATAAAGTC
1 ATAAGGAAATATCTAACAGAACCCAACAATATGAGAATAAAGTC
44923416 TCTAAAACCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (45 bp):
ATAAGGAAATATCTAACAGAACCCAACAATATGAGAATAAAGTCG
Found at i:44924070 original size:57 final size:57
Alignment explanation
Indices: 44924007--44924117 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
44923997 CTTATTTGAG
* *
44924007 TAACCATTGTAATTAATGGATCATACCGAATTAATTGTAATTAGAGCACTCCAATCA
1 TAACCATTGTAATTAAGGGATCACACCGAATTAATTGTAATTAGAGCACTCCAATCA
* *
44924064 TAACCATTGTAATTAGGGGGTCACACCGAATTAATTGTAATTAGAGCACTCCAA
1 TAACCATTGTAATTAAGGGATCACACCGAATTAATTGTAATTAGAGCACTCCAA
44924118 ACACACTTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (57 bp):
TAACCATTGTAATTAAGGGATCACACCGAATTAATTGTAATTAGAGCACTCCAATCA
Found at i:44936540 original size:15 final size:15
Alignment explanation
Indices: 44936520--44936559 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
44936510 TGATGAGGAG
44936520 GAGGGAGAGGAAAGC
1 GAGGGAGAGGAAAGC
*
44936535 GAGGGAGAGGAAAGT
1 GAGGGAGAGGAAAGC
*
44936550 GAAGGAGAGG
1 GAGGGAGAGG
44936560 GAGAGGAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.40, C:0.03, G:0.55, T:0.03
Consensus pattern (15 bp):
GAGGGAGAGGAAAGC
Found at i:44936574 original size:21 final size:21
Alignment explanation
Indices: 44936519--44936575 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
44936509 GTGATGAGGA
* *
44936519 GGAG-GGAGA-GGAAAGCGAG
1 GGAGAGGAGAGGGAAGGAGAG
* *
44936538 GGAGAGGAAAGTGAAGGAGAG
1 GGAGAGGAGAGGGAAGGAGAG
44936559 GGAGAGGAGAGGGAAGG
1 GGAGAGGAGAGGGAAGG
44936576 GATGAAGAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 22 0.73
ACGTcount: A:0.39, C:0.02, G:0.58, T:0.02
Consensus pattern (21 bp):
GGAGAGGAGAGGGAAGGAGAG
Found at i:44942681 original size:3 final size:3
Alignment explanation
Indices: 44942675--44942706 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
44942665 AAACAAAATT
44942675 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
44942707 TTGCATGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44944162 original size:6 final size:6
Alignment explanation
Indices: 44944127--44944161 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
44944117 AATTATTTTA
* *
44944127 TGCCAA TGCCAC TGCCAC TGCCAC TGCCAT TGCCA
1 TGCCAC TGCCAC TGCCAC TGCCAC TGCCAC TGCCA
44944162 TCATCTCTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.20
Consensus pattern (6 bp):
TGCCAC
Found at i:44947558 original size:5 final size:5
Alignment explanation
Indices: 44947550--44947580 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
44947540 TATATAATTC
44947550 GATTT GATTT GATTT GATTT GATTT GATTT G
1 GATTT GATTT GATTT GATTT GATTT GATTT G
44947581 TAAAATGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (5 bp):
GATTT
Found at i:44949022 original size:23 final size:24
Alignment explanation
Indices: 44948991--44949047 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
44948981 GAATGAAAAT
*
44948991 AATAATATTTTATA-ACATATTAA
1 AATATTATTTTATACACATATTAA
* *
44949014 AATATTATTTTTGTACATATATTAA
1 AATATTA-TTTTATACACATATTAA
44949039 AATATTATT
1 AATATTATT
44949048 ATTTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.21
24 8 0.28
25 15 0.52
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
AATATTATTTTATACACATATTAA
Found at i:44957267 original size:2 final size:2
Alignment explanation
Indices: 44957260--44957297 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
44957250 ATGGGTTTGT
44957260 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
44957298 CGTGCATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:44959663 original size:210 final size:210
Alignment explanation
Indices: 44958812--44959651 Score: 1254
Period size: 210 Copynumber: 4.0 Consensus size: 210
44958802 CAATCTATAA
* * *
44958812 TTGAATCCCCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCATGAGTTTACCTGATTCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCACGAGTTTACCTGATCCA
* *
44958877 GTTCCCTCAGC-GAATTTTGCCAGTGAGCAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTG
66 GTTTCCTCA-CAGAATTTTGCCAGTGAACAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTG
* * * * * *
44958941 ACAATTTATCCCGTTCTGGTTTATACACGAGTGATGGAATTCATAAAAAATCACAAGTGGAATCA
130 ACAATTTATCCTGTACTGATTTATACACGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCT
* *
44959006 GTCATCAGTAATCCGT
195 GTCATCAGTGATCCAT
* * * *
44959022 TTGAATCCTCTGCCTCATCCAACATCATTGT-AAGCGATGAGATCTCCACGATTTTACCTGATTC
1 TTGAATCCTCTGCCTCATCCAATATCATT-TCAAGCAATGAGATCTCCACGAGTTTACCTGATCC
* *
44959086 AGTTTCCTCGCAGAATTTTGCCAGTGAACATATGTTGCAAATCTCAGGGAAATCTTCTGATCCTG
65 AGTTTCCTCACAGAATTTTGCCAGTGAACAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTG
* *
44959151 ACAATTTACCCTGTACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCT
130 ACAATTTATCCTGTACTGATTTATACACGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCT
*
44959216 GTCATCAATGATCCAT
195 GTCATCAGTGATCCAT
* * * *
44959232 TTGAATCCTCTGCCTCATCCAATATCATTGCAAGCAGTGGGATCTCCACAAGTTTACCTGATCCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCACGAGTTTACCTGATCCA
* *
44959297 GTTTCCTCACAGAATTTTGCCAGTGAGCAGATGTTGCAAATCTCGGGGAAATCTTCTGATCCTGA
66 GTTTCCTCACAGAATTTTGCCAGTGAACAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
* * * *
44959362 CAATTTATCCTATACTGATTTATGCATGAGTGATGAAATTCATAAAAATTCACATGTGGAATCTG
131 CAATTTATCCTGTACTGATTTATACACGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCTG
44959427 TCATCAGTGATCCAT
196 TCATCAGTGATCCAT
*
44959442 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGGGATCTCCACGAGTTTACCTGATCCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCACGAGTTTACCTGATCCA
* * *
44959507 GTTTCCTCACAGAATTTTTCCAGTGAACATATGTTGCAAAACTCAGGGAAATCTTCTGATCCTGA
66 GTTTCCTCACAGAATTTTGCCAGTGAACAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
* * * * *
44959572 CAATTTA-CCATGTACTGATTTATGCACAAGTGATGAAATTCATAACATTTCACAATTGGAATCT
131 CAATTTATCC-TGTACTGATTTATACACGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCT
*
44959636 GTCATCAGTCATCCAT
195 GTCATCAGTGATCCAT
44959652 CATCATCCTC
Statistics
Matches: 573, Mismatches: 53, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
209 3 0.01
210 569 0.99
211 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (210 bp):
TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCACGAGTTTACCTGATCCA
GTTTCCTCACAGAATTTTGCCAGTGAACAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
CAATTTATCCTGTACTGATTTATACACGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCTG
TCATCAGTGATCCAT
Found at i:44978599 original size:15 final size:15
Alignment explanation
Indices: 44978550--44978600 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
44978540 TTATCTCAAA
*
44978550 TTATATTTTAGTCAC
1 TTATGTTTTAGTCAC
* *
44978565 TTATGTTTGAAAT-A-
1 TTATGTTT-TAGTCAC
44978579 TTATGTTTTAGTCAC
1 TTATGTTTTAGTCAC
44978594 TTATGTT
1 TTATGTT
44978601 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.55
Consensus pattern (15 bp):
TTATGTTTTAGTCAC
Found at i:44979988 original size:23 final size:23
Alignment explanation
Indices: 44979962--44980007 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44979952 AGTTTCGAAT
**
44979962 TTCGAATTATTCAAATCGAGTTA
1 TTCGAATTAAACAAATCGAGTTA
* *
44979985 TTCGAGTTAAACGAATCGAGTTA
1 TTCGAATTAAACAAATCGAGTTA
44980008 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (23 bp):
TTCGAATTAAACAAATCGAGTTA
Found at i:44980263 original size:34 final size:34
Alignment explanation
Indices: 44980220--44980292 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 34
44980210 AAACTAAACT
44980220 CAAATATTTTTAATTTTTTACCTTTTATC-TTACC
1 CAAATATTTTTAATTTTTTACCTTTTA-CATTACC
*
44980254 CAAATATTTTTAATTTTTTATCTTTTACATTACC
1 CAAATATTTTTAATTTTTTACCTTTTACATTACC
44980288 CAAAT
1 CAAAT
44980293 GTTGACTTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
33 1 0.03
34 36 0.97
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.53
Consensus pattern (34 bp):
CAAATATTTTTAATTTTTTACCTTTTACATTACC
Found at i:44982116 original size:17 final size:17
Alignment explanation
Indices: 44982094--44982126 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44982084 AACTGGACCT
44982094 AAGAAAA-ATAACCCAAC
1 AAGAAAAGA-AACCCAAC
44982111 AAGAAAAGAAACCCAA
1 AAGAAAAGAAACCCAA
44982127 AATCTTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.67, C:0.21, G:0.09, T:0.03
Consensus pattern (17 bp):
AAGAAAAGAAACCCAAC
Found at i:44992991 original size:2 final size:2
Alignment explanation
Indices: 44992984--44993062 Score: 140
Period size: 2 Copynumber: 39.5 Consensus size: 2
44992974 CGGGACTTAG
44992984 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
44993026 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44993063 TATGCTGATG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45004472 original size:4 final size:4
Alignment explanation
Indices: 45004463--45004489 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
45004453 TGAATGAGAT
45004463 CAAA CAAA CAAA CAAA CAAA CAAA CAA
1 CAAA CAAA CAAA CAAA CAAA CAAA CAA
45004490 GCACTGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (4 bp):
CAAA
Found at i:45017077 original size:18 final size:17
Alignment explanation
Indices: 45017035--45017077 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
45017025 GTTTTAAGTT
*
45017035 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
45017052 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
45017070 TATAATTT
1 TATAATTT
45017078 AAAACACATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:45018861 original size:43 final size:43
Alignment explanation
Indices: 45018808--45019058 Score: 306
Period size: 43 Copynumber: 5.8 Consensus size: 43
45018798 ATAGAATATA
* *
45018808 GTCTTTAGCGGCGCTTTTACTACAAACGCTGCTAAAGAATATG
1 GTCTTTAGCGGCGCTTTTACTACAAACGCCGCTAAAGAACATG
*
45018851 GTCTTTAGCGGCGCTTTTACTACAAACGCCGTTAAAGAACATG
1 GTCTTTAGCGGCGCTTTTACTACAAACGCCGCTAAAGAACATG
* * * *
45018894 GTCTTTAGCGGTGCTTTT-TTCACAAACGCCGTTAAAGAATATG
1 GTCTTTAGCGGCGCTTTTACT-ACAAACGCCGCTAAAGAACATG
* * * * *
45018937 ATCTTTAGGGGTGCTTTTACCACAAACGCCGCTAAAGAGCATG
1 GTCTTTAGCGGCGCTTTTACTACAAACGCCGCTAAAGAACATG
* * *
45018980 ATCTTTAACGGCGCTTTTACTACAAACGGCGCTAAAGAACATG
1 GTCTTTAGCGGCGCTTTTACTACAAACGCCGCTAAAGAACATG
** * * *
45019023 GTCTTTAGCGGCATTTTTCCCAAAAACGCCGCTAAA
1 GTCTTTAGCGGCGCTTTTACTACAAACGCCGCTAAA
45019059 ATTTAACAGC
Statistics
Matches: 179, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 178 0.99
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
GTCTTTAGCGGCGCTTTTACTACAAACGCCGCTAAAGAACATG
Found at i:45019030 original size:129 final size:129
Alignment explanation
Indices: 45018800--45019033 Score: 362
Period size: 129 Copynumber: 1.8 Consensus size: 129
45018790 TGATGTTTAT
* * * * *
45018800 AGAATATAGTCTTTAGCGGCGCTTTTACTACAAACGCTGCTAAAGAATATGGTCTTTAGCGGCGC
1 AGAATATAGTCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACATGATCTTTAACGGCGC
*
45018865 TTTTACTACAAACGCCGTTAAAGAACATGGTCTTTAGCGGTGCTTTTTTCACAAACGCCGTTAA
66 TTTTACTACAAACGCCGCTAAAGAACATGGTCTTTAGCGGTGCTTTTTTCACAAACGCCGTTAA
* * *
45018929 AGAATAT-GATCTTTAGGGGTGCTTTTACCACAAACGCCGCTAAAGAGCATGATCTTTAACGGCG
1 AGAATATAG-TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACATGATCTTTAACGGCG
*
45018993 CTTTTACTACAAACGGCGCTAAAGAACATGGTCTTTAGCGG
65 CTTTTACTACAAACGCCGCTAAAGAACATGGTCTTTAGCGG
45019034 CATTTTTCCC
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
128 1 0.01
129 93 0.99
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (129 bp):
AGAATATAGTCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACATGATCTTTAACGGCGC
TTTTACTACAAACGCCGCTAAAGAACATGGTCTTTAGCGGTGCTTTTTTCACAAACGCCGTTAA
Found at i:45019722 original size:69 final size:69
Alignment explanation
Indices: 45019611--45019791 Score: 362
Period size: 69 Copynumber: 2.6 Consensus size: 69
45019601 AGCAAATATA
45019611 TATTTGACAATTTACAGAAAATAAAAGATGTTCAAACTTTTGAACTCCTCTGGATCCCAACATAC
1 TATTTGACAATTTACAGAAAATAAAAGATGTTCAAACTTTTGAACTCCTCTGGATCCCAACATAC
45019676 ATAC
66 ATAC
45019680 TATTTGACAATTTACAGAAAATAAAAGATGTTCAAACTTTTGAACTCCTCTGGATCCCAACATAC
1 TATTTGACAATTTACAGAAAATAAAAGATGTTCAAACTTTTGAACTCCTCTGGATCCCAACATAC
45019745 ATAC
66 ATAC
45019749 TATTTGACAATTTACAGAAAATAAAAGATGTTCAAACTTTTGA
1 TATTTGACAATTTACAGAAAATAAAAGATGTTCAAACTTTTGA
45019792 GTATGGTTCT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 112 1.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (69 bp):
TATTTGACAATTTACAGAAAATAAAAGATGTTCAAACTTTTGAACTCCTCTGGATCCCAACATAC
ATAC
Found at i:45022745 original size:41 final size:41
Alignment explanation
Indices: 45022700--45022890 Score: 186
Period size: 41 Copynumber: 4.7 Consensus size: 41
45022690 TAAATAAATT
* *
45022700 ACCTTTAGCGGCGCTTTTTAATAAACGTCGCTAATACTCTG
1 ACCTTTAGCGGCGCTTTCTAATAAACGCCGCTAATACTCTG
* * * * * * * *
45022741 ACCTTTAGTGACGCTTTTTTATAAACGCTGCTAGTGCTCTA
1 ACCTTTAGCGGCGCTTTCTAATAAACGCCGCTAATACTCTG
* * ** * *
45022782 ACCTTTAGCAGTGCTTTCCCATAAACGCCGTTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCTAATAAACGCCGCTAATACTCTG
* * *
45022823 ACCTTTAGCGGCGCTTCCTAA-AAACGCCGTTAATATTCTG
1 ACCTTTAGCGGCGCTTTCTAATAAACGCCGCTAATACTCTG
* *
45022863 ACATTTAGCGGCGCTTTCTCATAAACGC
1 ACCTTTAGCGGCGCTTTCTAATAAACGC
45022891 TGTTATTGCT
Statistics
Matches: 120, Mismatches: 29, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
40 35 0.29
41 85 0.71
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (41 bp):
ACCTTTAGCGGCGCTTTCTAATAAACGCCGCTAATACTCTG
Found at i:45022914 original size:40 final size:41
Alignment explanation
Indices: 45022700--45022914 Score: 164
Period size: 41 Copynumber: 5.3 Consensus size: 41
45022690 TAAATAAATT
* * * * * * *
45022700 ACCTTTAGCGGCGCTTTTTAATAAACGTCGCTAATACTCTG
1 ACCTTTAGCGGCGCTTTCTCATAAACGCCGTTATTGCTCTA
* * * * * * *
45022741 ACCTTTAGTGACGCTTTTTTATAAACGCTGCTAGTGCTCTA
1 ACCTTTAGCGGCGCTTTCTCATAAACGCCGTTATTGCTCTA
* * * * *
45022782 ACCTTTAGCAGTGCTTTCCCATAAACGCCGTTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCTCATAAACGCCGTTATTGCTCTA
* * * ** *
45022823 ACCTTTAGCGGCGCTTCCT-AAAAACGCCGTTAATATTCTG
1 ACCTTTAGCGGCGCTTTCTCATAAACGCCGTTATTGCTCTA
* *
45022863 ACATTTAGCGGCGCTTTCTCATAAACGCTGTTATTGCT-TA
1 ACCTTTAGCGGCGCTTTCTCATAAACGCCGTTATTGCTCTA
*
45022903 ACCTTTTGCGGC
1 ACCTTTAGCGGC
45022915 ATTTATGGAA
Statistics
Matches: 137, Mismatches: 36, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
40 46 0.34
41 91 0.66
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (41 bp):
ACCTTTAGCGGCGCTTTCTCATAAACGCCGTTATTGCTCTA
Found at i:45024023 original size:14 final size:14
Alignment explanation
Indices: 45023975--45024024 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
45023965 CTTGTTGGGT
*
45023975 TCTTAAAATCTTAAA
1 TCTTAAACT-TTAAA
*
45023990 TCTTAAACTATAAA
1 TCTTAAACTTTAAA
*
45024004 CCTTAAACTTTAAA
1 TCTTAAACTTTAAA
*
45024018 TGTTAAA
1 TCTTAAA
45024025 TTCTAAACGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 21 0.72
15 8 0.28
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (14 bp):
TCTTAAACTTTAAA
Found at i:45024536 original size:13 final size:14
Alignment explanation
Indices: 45024499--45024533 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
45024489 TTATTTCATT
45024499 AAAAATAATTTTTA
1 AAAAATAATTTTTA
*
45024513 GAAAATAATTTTTA
1 AAAAATAATTTTTA
45024527 AAAAATA
1 AAAAATA
45024534 TTTGTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:45027170 original size:17 final size:17
Alignment explanation
Indices: 45027148--45027187 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
45027138 TTAATTTTAC
*
45027148 TTTTTTTTGATAAATGA
1 TTTTTTTTGATAAATCA
*
45027165 TTTTTTTTGATAATTCA
1 TTTTTTTTGATAAATCA
45027182 TTTTTT
1 TTTTTT
45027188 ATCAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.68
Consensus pattern (17 bp):
TTTTTTTTGATAAATCA
Found at i:45031023 original size:64 final size:64
Alignment explanation
Indices: 45030940--45031363 Score: 298
Period size: 64 Copynumber: 6.6 Consensus size: 64
45030930 CTATCTGCAT
* *
45030940 ACAACGGTGGCTTTCGTTTGTTATGCGTTTGGGTGTATAGGGTTTCATTGCTTTCTCATTGAAG
1 ACAACAGTGGCTTTCGTTTGTTATGCTTTTGGGTGTATAGGGTTTCATTGCTTTCTCATTGAAG
* * * * * ** * *
45031004 ACAACAGTGGTCTTT-GTTTGTAATGCTTTTGAGTGTGTGGGGTTTGCTCTTTTTTTTTTATTTG
1 ACAACAGTGG-CTTTCGTTTGTTATGCTTTTGGGTGTATAGGGTTT-C-ATTGCTTTCTCA-TTG
*
45031068 CAG
62 AAG
* * * * * *
45031071 ACAACAGTGGCTTTCGTTTGTAATTATGCTTTTGGGTGT-TTGGGGTTAACTCCTTT-TTATTGG
1 ACAACAGTGGCTTTCGTTTG---TTATGCTTTTGGGTGTATAGGGTTTCATTGCTTTCTCATT-G
*
45031134 CAG
62 AAG
* *
45031137 ACAACAGTGGCTTTCGTTTGTTACT-CCTTTGGGTGTTTAGGGTTTCATTGCTTTCTCATTGAA-
1 ACAACAGTGGCTTTCGTTTGTTA-TGCTTTTGGGTGTATAGGGTTTCATTGCTTTCTCATTGAAG
* * * * * * *
45031200 AGCAACAGCGGTCTTT-GGTTG-TATTGCTTTTGAGTGTTTGGGGTTT-ACTCT-CTTTTTTATT
1 A-CAACAGTGG-CTTTCGTTTGTTA-TGCTTTTGGGTGTATAGGGTTTCA-T-TGCTTTCTCA-T
* *
45031261 TGCAT
60 TGAAG
* *
45031266 AC-ACAGTGGCTTTCCTTTGTCATGCTTTTGGGTG-ATAGGGTTTCATTGCTTTCTCATTGAAG
1 ACAACAGTGGCTTTCGTTTGTTATGCTTTTGGGTGTATAGGGTTTCATTGCTTTCTCATTGAAG
* *
45031328 GCAACAGTGGTCTTT-GTTTG-TATTGCTTTTCGGTGT
1 ACAACAGTGG-CTTTCGTTTGTTA-TGCTTTTGGGTGT
45031364 GGCCTGGTGG
Statistics
Matches: 280, Mismatches: 53, Indels: 54
0.72 0.14 0.14
Matches are distributed among these distances:
62 7 0.03
63 58 0.21
64 110 0.39
65 22 0.08
66 39 0.14
67 24 0.09
69 6 0.02
70 14 0.05
ACGTcount: A:0.15, C:0.14, G:0.25, T:0.46
Consensus pattern (64 bp):
ACAACAGTGGCTTTCGTTTGTTATGCTTTTGGGTGTATAGGGTTTCATTGCTTTCTCATTGAAG
Found at i:45031311 original size:127 final size:127
Alignment explanation
Indices: 45031097--45031357 Score: 375
Period size: 127 Copynumber: 2.1 Consensus size: 127
45031087 TTTGTAATTA
* * *
45031097 TGCTTTTGGGTGTTTGGGGTTAACTCCTTTTTATTGGCAGACAACAGTGGCTTTCGTTTGTTACT
1 TGCTTTTGAGTGTTTGGGGTTAACTCCTTTTTATTGGCAGACAACAGTGGCTTTCCTTTGTCACT
*
45031162 CCTTTGGGTGTTTAGGGTTTCATTGCTTTCTCATTGAAAGCAACAGCGGTCTTTGGTTGTAT
66 CCTTTGGGTGTATAGGGTTTCATTGCTTTCTCATTGAAAGCAACAGCGGTCTTTGGTTGTAT
* * *
45031224 TGCTTTTGAGTGTTTGGGGTTTACTCTCTTTTTTATTTGCATAC-ACAGTGGCTTTCCTTTGTCA
1 TGCTTTTGAGTGTTTGGGGTTAACTC-C-TTTTTATTGGCAGACAACAGTGGCTTTCCTTTGTCA
* * * *
45031288 -TGCTTTTGGGTG-ATAGGGTTTCATTGCTTTCTCATTGAAGGCAACAGTGGTCTTTGTTTGTAT
64 CT-CCTTTGGGTGTATAGGGTTTCATTGCTTTCTCATTGAAAGCAACAGCGGTCTTTGGTTGTAT
45031351 TGCTTTT
1 TGCTTTT
45031358 CGGTGTGGCC
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
127 79 0.66
128 28 0.23
129 13 0.11
ACGTcount: A:0.14, C:0.15, G:0.25, T:0.46
Consensus pattern (127 bp):
TGCTTTTGAGTGTTTGGGGTTAACTCCTTTTTATTGGCAGACAACAGTGGCTTTCCTTTGTCACT
CCTTTGGGTGTATAGGGTTTCATTGCTTTCTCATTGAAAGCAACAGCGGTCTTTGGTTGTAT
Found at i:45034006 original size:56 final size:55
Alignment explanation
Indices: 45033924--45034035 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 55
45033914 ATTGTTTTCC
*
45033924 CAAATTTTTCCAGACTTTCTCTCTTTCCAAACACCCATTTTCTCTCATTATTTTTT
1 CAAATTTTTCCAAACTTTCTCTCTTTCCAAACACCCATTTTCTCTCATT-TTTTTT
* * *
45033980 CAAA-TTTTCTCAAACTTTCTTTCTTTCCAAACGCTCATTTTCTCTCATTTTTTTT
1 CAAATTTTTC-CAAACTTTCTCTCTTTCCAAACACCCATTTTCTCTCATTTTTTTT
45034035 C
1 C
45034036 TTTCTTCCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
55 12 0.24
56 39 0.76
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.50
Consensus pattern (55 bp):
CAAATTTTTCCAAACTTTCTCTCTTTCCAAACACCCATTTTCTCTCATTTTTTTT
Found at i:45040326 original size:8 final size:8
Alignment explanation
Indices: 45040315--45040352 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
45040305 TAATCTTTTA
45040315 AAAATTAT
1 AAAATTAT
*
45040323 AAAAATAT
1 AAAATTAT
45040331 -AAATTAT
1 AAAATTAT
*
45040338 TAAATTAT
1 AAAATTAT
45040346 AAAATTA
1 AAAATTA
45040353 CATTTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:45041026 original size:20 final size:20
Alignment explanation
Indices: 45040983--45041025 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
45040973 AAATAATCTT
*
45040983 AAAATTTTAAAATGTTTATA
1 AAAATTCTAAAATGTTTATA
45041003 AAAATTCTAAAAT-TTTATA
1 AAAATTCTAAAATGTTTATA
45041022 AAAA
1 AAAA
45041026 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAATTCTAAAATGTTTATA
Found at i:45041183 original size:2 final size:2
Alignment explanation
Indices: 45041176--45041221 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
45041166 TTTACTTCAA
45041176 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45041218 AT AT
1 AT AT
45041222 GATCTAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45044151 original size:3 final size:3
Alignment explanation
Indices: 45044143--45044170 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45044133 CTTTAATGAA
45044143 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45044171 TTAAACAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45050926 original size:2 final size:2
Alignment explanation
Indices: 45050919--45050946 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45050909 TACGTTGTTG
45050919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45050947 TTCCTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45062450 original size:212 final size:212
Alignment explanation
Indices: 45061990--45062573 Score: 859
Period size: 212 Copynumber: 2.7 Consensus size: 212
45061980 CTCTCAGAAG
* * *
45061990 CAGCGGCTTTGCCTTCCTGGTTTTTCTTACTAGTCTGCTCTCCTTTATTTAGGGTCGAATCAAAA
1 CAGCGGCTTTGCATTCCTGGTTTTTCTTACTAGTCTTCTCTCCTTTATTTAGGGTAGAATCAAAA
* *
45062055 TCAAAATCATCCAACCTGCAACAAATACAATGTACAGGCTAATAAATAAATAAAAATGAATGTGA
66 TCAAAATCATCCAACCTGCAACAGATACAATGTACAGGCTAACAAAT-AA-AAAAATGAATGTGA
* * * * *
45062120 AGTTGACTTATGCATCCAGCAAACAATTTTAAAGCAAACGCTTGAATATGAGATGATTGAAAAAT
129 AGTTGAC-TATGCATCCAGCAAACAATTTCAAAGCAAAAGATTAAACATGAGATGATTGAAAAAT
* *
45062185 AAAAGTATTATCCACTCACT
193 AAAAGAACTATCCACTCACT
* ** * *
45062205 CAGCGGCTTTACATTCCTTATTTTTCTTACTAGTCTTATCTCCTTTATTTAGGGTTGAATCAAAA
1 CAGCGGCTTTGCATTCCTGGTTTTTCTTACTAGTCTTCTCTCCTTTATTTAGGGTAGAATCAAAA
45062270 TCAAAATCATCCAACCTGCAACAGATACAATGTACAGGCTAACAAAT-AAAAAATGAATGTGAAG
66 TCAAAATCATCCAACCTGCAACAGATACAATGTACAGGCTAACAAATAAAAAAATGAATGTGAAG
** *
45062334 TTGACT-TGCACGTCCAGTGATCAATTTCAAAGCAAAAGATTAAACATGAGATGATTGAAAAATA
131 TTGACTATGCA--TCCAGCAAACAATTTCAAAGCAAAAGATTAAACATGAGATGATTGAAAAATA
45062398 AAAGAACTATCCACTCACT
194 AAAGAACTATCCACTCACT
* * *
45062417 CAGCGGCTTTGCTTTCCTGGTTTTTCTTACTAGTCTTCTCTCCTTTATTCAGGGCAGAATCAAAA
1 CAGCGGCTTTGCATTCCTGGTTTTTCTTACTAGTCTTCTCTCCTTTATTTAGGGTAGAATCAAAA
45062482 TCAAAATCATCCAACCTGCAACAGATACAATGTACAGGCTAACAAATAAAAAAAT-AACTGTGAA
66 TCAAAATCATCCAACCTGCAACAGATACAATGTACAGGCTAACAAATAAAAAAATGAA-TGTGAA
**
45062546 GTTGACTCATGCATCCAAAAAACAATTT
130 GTTGACT-ATGCATCCAGCAAACAATTT
45062574 TAAAACATGA
Statistics
Matches: 332, Mismatches: 31, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
210 4 0.01
211 1 0.00
212 188 0.57
213 32 0.10
215 107 0.32
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (212 bp):
CAGCGGCTTTGCATTCCTGGTTTTTCTTACTAGTCTTCTCTCCTTTATTTAGGGTAGAATCAAAA
TCAAAATCATCCAACCTGCAACAGATACAATGTACAGGCTAACAAATAAAAAAATGAATGTGAAG
TTGACTATGCATCCAGCAAACAATTTCAAAGCAAAAGATTAAACATGAGATGATTGAAAAATAAA
AGAACTATCCACTCACT
Found at i:45070433 original size:17 final size:17
Alignment explanation
Indices: 45070411--45070451 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
45070401 AAATTGAAAA
45070411 GAAGATTATGTTTATTT
1 GAAGATTATGTTTATTT
45070428 GAAGATTATGTTTATTT
1 GAAGATTATGTTTATTT
45070445 GAAGATT
1 GAAGATT
45070452 GTGCAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (17 bp):
GAAGATTATGTTTATTT
Found at i:45074303 original size:31 final size:29
Alignment explanation
Indices: 45074264--45074336 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 29
45074254 ATAATAGCAC
*
45074264 AAAAAATATAT-TTGTTTTTTCATTTAAAGT
1 AAAAAATATATAAT-TTTTTTC-TTTAAAGT
*
45074294 AAAATAATATATAATTTTTTTCTTTTAAGT
1 AAAA-AATATATAATTTTTTTCTTTAAAGT
45074324 AAAAAATATATAA
1 AAAAAATATATAA
45074337 CTTATTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 9 0.23
30 15 0.38
31 14 0.36
32 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (29 bp):
AAAAAATATATAATTTTTTTCTTTAAAGT
Found at i:45074324 original size:30 final size:30
Alignment explanation
Indices: 45074278--45074360 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
45074268 AATATATTTG
*
45074278 TTTTTTCATTTAAAGTAAAATAATATATAA-T
1 TTTTTTC-TTTTAAGTAAAA-AATATATAACT
45074309 TTTTTTCTTTTAAGTAAAAAATATATAACT
1 TTTTTTCTTTTAAGTAAAAAATATATAACT
*
45074339 TATTTAAT-TTTTAAGTAAAAAA
1 T-TTT-TTCTTTTAAGTAAAAAA
45074361 AATTAAATGC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
29 9 0.19
30 13 0.28
31 24 0.51
32 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (30 bp):
TTTTTTCTTTTAAGTAAAAAATATATAACT
Found at i:45074351 original size:31 final size:29
Alignment explanation
Indices: 45074264--45074360 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 29
45074254 ATAATAGCAC
* * *
45074264 AAAAAATATAT-TTGTTTTTTCATTTAAAGT
1 AAAAAATATATAAT-TTTTATC-TTTTAAGT
*
45074294 AAAATAATATATAATTTTTTTCTTTTAAGT
1 AAAA-AATATATAATTTTTATCTTTTAAGT
45074324 AAAAAATATATAACTTATTTAAT-TTTTAAGT
1 AAAAAATATATAA-TT-TTT-ATCTTTTAAGT
45074355 AAAAAA
1 AAAAAA
45074361 AATTAAATGC
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
29 9 0.15
30 17 0.29
31 31 0.53
32 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (29 bp):
AAAAAATATATAATTTTTATCTTTTAAGT
Found at i:45075291 original size:18 final size:18
Alignment explanation
Indices: 45075251--45075293 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
45075241 ATTCAAGGTG
45075251 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
45075269 CAATTAA-TTAAATTTGTT
1 TAATTAATTTAAAATT-TT
45075287 TAATTAA
1 TAATTAA
45075294 AAATCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:45079619 original size:17 final size:18
Alignment explanation
Indices: 45079599--45079642 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
45079589 ATAAAAATAT
45079599 AAATTTAAAAATAA-AAA
1 AAATTTAAAAATAATAAA
**
45079616 AAATGAAAAAATAATAAA
1 AAATTTAAAAATAATAAA
45079634 AAA-TTAAAA
1 AAATTTAAAA
45079643 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATTTAAAAATAATAAA
Found at i:45080091 original size:15 final size:15
Alignment explanation
Indices: 45080068--45080119 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
45080058 ATTTACATTA
*
45080068 ATTAAATATATAAAT
1 ATTATATATATAAAT
45080083 ATTATATATATATATAT
1 ATTATATATATA-A-AT
* *
45080100 ATTATATTTATAGAT
1 ATTATATATATAAAT
45080115 ATTAT
1 ATTAT
45080120 CAATCAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 18 0.56
16 1 0.03
17 13 0.41
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTATATATATAAAT
Found at i:45080095 original size:17 final size:17
Alignment explanation
Indices: 45080073--45080119 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
45080063 CATTAATTAA
45080073 ATATATAAATATTATAT
1 ATATATAAATATTATAT
*
45080090 ATATATATATATTATAT
1 ATATATAAATATTATAT
*
45080107 -T-TATAGATATTAT
1 ATATATAAATATTAT
45080120 CAATCAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 11 0.39
16 1 0.04
17 16 0.57
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATATATAAATATTATAT
Found at i:45081040 original size:17 final size:19
Alignment explanation
Indices: 45081015--45081050 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
45081005 TAATATAAAA
45081015 TTATATATTTTT-AATAAT
1 TTATATATTTTTAAATAAT
45081033 TTAT-TATTTTTAAATAAT
1 TTATATATTTTTAAATAAT
45081051 GAAACGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATATATTTTTAAATAAT
Found at i:45082281 original size:15 final size:15
Alignment explanation
Indices: 45082238--45082275 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
45082228 AATTGCTAAA
*
45082238 TTTTTCAAA-TTTAT
1 TTTTTAAAAGTTTAT
*
45082252 TTTTTATAAGTTTAT
1 TTTTTAAAAGTTTAT
45082267 TTTTTAAAA
1 TTTTTAAAA
45082276 AGTTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TTTTTAAAAGTTTAT
Found at i:45083083 original size:39 final size:38
Alignment explanation
Indices: 45083020--45083093 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
45083010 AGTGATAAAA
*
45083020 AAAAATCATAATTAAATGATTATTAATATAATTTATCT
1 AAAAATCATAATTAAATGAGTATTAATATAATTTATCT
* *
45083058 AAAAATCAATAATTGAGTGAGTATTAATATAATTTA
1 AAAAATC-ATAATTAAATGAGTATTAATATAATTTA
45083094 GAGTAAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 7 0.22
39 25 0.78
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (38 bp):
AAAAATCATAATTAAATGAGTATTAATATAATTTATCT
Found at i:45083708 original size:2 final size:2
Alignment explanation
Indices: 45083701--45083725 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45083691 TAAAAATTAA
45083701 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
45083726 AAATTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45084260 original size:85 final size:85
Alignment explanation
Indices: 45084117--45084285 Score: 259
Period size: 85 Copynumber: 2.0 Consensus size: 85
45084107 TTATTTACAG
* * * *
45084117 TTAGTGTAAAAGCAACGATAACAATTAGATTAAATATTATAGCGTGAAATAAAAAATAAGTTAAA
1 TTAGTGTAAAAGCAACGATAAAAATTAAATTAAATATTATAACGTGAAATAAAAAATAAATTAAA
* *
45084182 TGTATTGCATTGTATCGCAA
66 TGCATTGCACTGTATCGCAA
*
45084202 TTAGTGTAAAAAG-AACGATAAAAATTAAATTAAATATTATAACGTGAGATAAAAAATAAATTAA
1 TTAGTGT-AAAAGCAACGATAAAAATTAAATTAAATATTATAACGTGAAATAAAAAATAAATTAA
45084266 ATGCATTGCACTGTATCGCA
65 ATGCATTGCACTGTATCGCA
45084286 TCCCACCGTC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
85 71 0.93
86 5 0.07
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (85 bp):
TTAGTGTAAAAGCAACGATAAAAATTAAATTAAATATTATAACGTGAAATAAAAAATAAATTAAA
TGCATTGCACTGTATCGCAA
Found at i:45090310 original size:41 final size:40
Alignment explanation
Indices: 45090288--45090372 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 40
45090278 AAAGATATTT
*
45090288 AACAAAAGTAACCATTCATCTAAAGATAAAAATTACCTCTA
1 AACAAAAGTAACCATTCATCTAAAGATAAAAAATA-CTCTA
*
45090329 AACAAAAGTAACCATTCATCTAAAGATAAAAATTACCTCTA
1 AACAAAAGTAACCATTCATCTAAAGATAAAAAATA-CTCTA
45090370 AAC
1 AAC
45090373 GGCATGCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.24
Consensus pattern (40 bp):
AACAAAAGTAACCATTCATCTAAAGATAAAAAATACTCTA
Found at i:45090318 original size:24 final size:24
Alignment explanation
Indices: 45090291--45090359 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
45090281 GATATTTAAC
45090291 AAAAGTAACCATTCATCTAAAGAT
1 AAAAGTAACCATTCATCTAAAGAT
* * *
45090315 AAAAATTA-C---C-TCT-AA-AC
1 AAAAGTAACCATTCATCTAAAGAT
45090332 AAAAGTAACCATTCATCTAAAGAT
1 AAAAGTAACCATTCATCTAAAGAT
45090356 AAAA
1 AAAA
45090360 ATTACCTCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
17 7 0.22
18 3 0.09
19 3 0.09
20 1 0.03
21 1 0.03
22 3 0.09
23 3 0.09
24 11 0.34
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (24 bp):
AAAAGTAACCATTCATCTAAAGAT
Found at i:45090330 original size:19 final size:19
Alignment explanation
Indices: 45090306--45090371 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
45090296 TAACCATTCA
45090306 TCTAAAGATAAAAATTACC
1 TCTAAAGATAAAAATTACC
* * *
45090325 TCTAAACAAAAGTAACCATT-CA
1 TCTAAAGATAA--AA--ATTACC
45090347 TCTAAAGATAAAAATTACC
1 TCTAAAGATAAAAATTACC
45090366 TCTAAA
1 TCTAAA
45090372 CGGCATGCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
18 3 0.08
19 16 0.44
20 2 0.06
21 2 0.06
22 10 0.28
23 3 0.08
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.26
Consensus pattern (19 bp):
TCTAAAGATAAAAATTACC
Found at i:45100996 original size:16 final size:17
Alignment explanation
Indices: 45100975--45101012 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
45100965 GAACTTTATA
*
45100975 ATTTTTTATTTTTAAAT
1 ATTTTTAATTTTTAAAT
*
45100992 ATTTTTAATTTTTAATT
1 ATTTTTAATTTTTAAAT
45101009 ATTT
1 ATTT
45101013 ATTGACGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTAATTTTTAAAT
Found at i:45101236 original size:31 final size:30
Alignment explanation
Indices: 45101128--45101240 Score: 99
Period size: 31 Copynumber: 3.7 Consensus size: 30
45101118 AATGATCAAA
* *
45101128 CTTTTCAAAATGATCATATAAGGACCTAAC
1 CTTTTCAAAATGCTCAAATAAGGACCTAAC
* * *
45101158 CTTTAT-AAAAGTTCTTAAATGAA--AGCTAAAC
1 CTTT-TCAAAA-TGCTCAAAT-AAGGACCT-AAC
*
45101189 C-TTTCAAAATGGTCAAATAAGGACCTAAC
1 CTTTTCAAAATGCTCAAATAAGGACCTAAC
45101218 CTTTTCGAAAATGCTCAAATAAG
1 CTTTTC-AAAATGCTCAAATAAG
45101241 ATATTGTAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
28 2 0.03
29 11 0.17
30 24 0.38
31 25 0.39
32 2 0.03
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.29
Consensus pattern (30 bp):
CTTTTCAAAATGCTCAAATAAGGACCTAAC
Done.