Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 112 of 206
Found at i:33492998 original size:22 final size:22
Alignment explanation
Indices: 33492957--33493015 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
33492947 TATAATATAA
* *
33492957 ATATTTTTTATTTATTTATATGT
1 ATATATTTT-TTTATCTATATGT
33492980 A-ATTATTTTTTTATCTATATGT
1 ATA-TATTTTTTTATCTATATGT
33493002 ATATATTTATTTTA
1 ATATATTT-TTTTA
33493016 GTATACATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (22 bp):
ATATATTTTTTTATCTATATGT
Found at i:33497262 original size:6 final size:6
Alignment explanation
Indices: 33497253--33497292 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
33497243 TAAAAGTGAT
33497253 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
33497293 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:33498583 original size:44 final size:45
Alignment explanation
Indices: 33498501--33498804 Score: 318
Period size: 44 Copynumber: 6.9 Consensus size: 45
33498491 GCAGATCAGT
* * * *
33498501 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* *
33498545 GAAGATA-CAAATCTTGTCTTCCTATATTAGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * * *
33498589 GAAGAAAGCAGATATTGTCTTCATTTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * *
33498633 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * *
33498677 GAAGAT-GCAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * *
33498720 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* *
33498765 GAAGAT-GCAGATCTTGTCTTCCCATACT-GTGGCGAAGTAG
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAG
33498805 NNNNNNNNNN
Statistics
Matches: 213, Mismatches: 41, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.00
43 65 0.31
44 112 0.53
45 35 0.16
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
Found at i:33498713 original size:87 final size:88
Alignment explanation
Indices: 33498535--33498785 Score: 389
Period size: 87 Copynumber: 2.9 Consensus size: 88
33498525 ATATTGGTAG
* * * * * * *
33498535 GAAGTGGATCGAAGATA-CAAATCTTGTCTTCCTATATTAGTGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG-ATGCA
*
33498599 GATATTGTCTTCATTTATTGGCGT
65 GATATTGTCTTCATGTATTGGCGT
*
33498623 GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAG
1 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAG
33498687 ATATTGTCTTCATGTATTGGCGT
66 ATATTGTCTTCATGTATTGGCGT
33498710 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAG
1 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAG
*
33498775 ATCTTGTCTTC
66 ATATTGTCTTC
33498786 CCATACTGTG
Statistics
Matches: 150, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
87 70 0.47
88 59 0.39
89 21 0.14
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (88 bp):
GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAG
ATATTGTCTTCATGTATTGGCGT
Found at i:33498759 original size:132 final size:132
Alignment explanation
Indices: 33498501--33498786 Score: 389
Period size: 132 Copynumber: 2.2 Consensus size: 132
33498491 GCAGATCAGT
*
33498501 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAAATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAAATATTGTCTTC
* * * * *
33498566 CTATATTAGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATTTATTGGCGTGAAGTAGA
66 ATATATTAGTGGCGAAGTAGATCGAAGAAAGCAGATACTGTCTTCATATATTGGAGCGAAGTAGA
33498631 TC
131 TC
* *
33498633 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATATTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAAATATTGTCTTC
* * * * * *
33498698 ATGTATT-G-GCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTG
66 ATATATTAGTG-GCGAAGTAGATCGAAGAAAGCAGATACTGTCTTCATATATTGG-AGCGAAGTA
33498761 GATC
129 GATC
* *
33498765 GAAGAT-GCAGATCTTGTCTTCC
1 GAAGATAGCAGGTCCTGTCTTCC
33498787 CATACTGTGG
Statistics
Matches: 136, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
130 1 0.01
131 52 0.38
132 83 0.61
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAAATATTGTCTTC
ATATATTAGTGGCGAAGTAGATCGAAGAAAGCAGATACTGTCTTCATATATTGGAGCGAAGTAGA
TC
Found at i:33498973 original size:44 final size:44
Alignment explanation
Indices: 33498912--33499049 Score: 147
Period size: 44 Copynumber: 3.1 Consensus size: 44
33498902 NNNCTGGTCT
*
33498912 GCAGTGGAATAGGTTGAAGATTG-AGAATTCTATCTCCCTGGGCA
1 GCAGTGGAATAGGTTGAAGATTGTAG-ATCCTATCTCCCTGGGCA
* * *
33498956 GTAGTGGAAT-GGATTGAAGATTGTAGGTCCTATCTCCCTGGTCA
1 GCAGTGGAATAGG-TTGAAGATTGTAGATCCTATCTCCCTGGGCA
* * * * *
33499000 GCAGTGGAATAAGTTGAAGATCGT-GAACCCTATCTCTCTGAGCA
1 GCAGTGGAATAGGTTGAAGATTGTAG-ATCCTATCTCCCTGGGCA
33499044 GCAGTG
1 GCAGTG
33499050 CAGTAGGTGG
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
43 3 0.04
44 72 0.92
45 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (44 bp):
GCAGTGGAATAGGTTGAAGATTGTAGATCCTATCTCCCTGGGCA
Found at i:33499592 original size:128 final size:129
Alignment explanation
Indices: 33499364--33499606 Score: 310
Period size: 128 Copynumber: 1.9 Consensus size: 129
33499354 ATGGCAAATT
* * * * * *
33499364 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAATAATCCTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGTAAATAATCCTATCTCCCTAAAGTTGCAGC
* * * *
33499429 GAAGCGGATTAAAACCTTGGGTCTTATCTCTCTGAAGTTTCAG-AGAGCAAAATGTATCTAGTC
66 GAAGCGGATTAAAACCATGGATCTTATCTCTCTGAAATTACAGTAGAGCAAAATGTATCTAGTC
* *
33499492 TTATCTCTCTAAAGTTGCAGTGGAACAGACTAAA-TAAACTAATCCTATCTCCCTAAAGTTGTAG
1 TTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGTAAA-TAATCCTATCTCCCTAAAGTTGCAG
* * * **
33499556 CGGAGTGGATTAGAATGATGGATCTTATCTCTCTGAAATTACAGTAGAGCA
65 CGAAGCGGATTAAAACCATGGATCTTATCTCTCTGAAATTACAGTAGAGCA
33499607 GATCGCATCA
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
127 3 0.03
128 87 0.91
129 6 0.06
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (129 bp):
TTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGTAAATAATCCTATCTCCCTAAAGTTGCAGC
GAAGCGGATTAAAACCATGGATCTTATCTCTCTGAAATTACAGTAGAGCAAAATGTATCTAGTC
Found at i:33499921 original size:19 final size:19
Alignment explanation
Indices: 33499897--33499971 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
33499887 AATCTTCGAG
33499897 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33499916 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33499935 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
33499956 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
33499972 AGTTATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33499943 original size:21 final size:21
Alignment explanation
Indices: 33499898--33499960 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
33499888 ATCTTCGAGG
33499898 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
33499917 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
33499938 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
33499959 AT
1 AT
33499961 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:33500525 original size:25 final size:25
Alignment explanation
Indices: 33500497--33500547 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
33500487 CTTTTTTCCA
33500497 TTTTCT-TTATTTTTTATTAATTAGT
1 TTTTCTATTATTTTTTA-TAATTAGT
* * *
33500522 TTTTTTATTCTTTTTTATATTTAGT
1 TTTTCTATTATTTTTTATAATTAGT
33500547 T
1 T
33500548 ATTTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTCTATTATTTTTTATAATTAGT
Found at i:33500526 original size:26 final size:26
Alignment explanation
Indices: 33500503--33500552 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
33500493 TCCATTTTCT
33500503 TTATTTTTTATTAATTAGTT-TTTTTA
1 TTATTTTTTA-TAATTAGTTATTTTTA
* *
33500529 TTCTTTTTTATATTTAGTTATTTT
1 TTATTTTTTATAATTAGTTATTTT
33500553 AAAAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (26 bp):
TTATTTTTTATAATTAGTTATTTTTA
Found at i:33500645 original size:22 final size:21
Alignment explanation
Indices: 33500620--33500673 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
33500610 ATATAAATAT
*
33500620 TTATTTATTTATTTATATGTAA
1 TTATTTATTTATCTATATGT-A
*
33500642 TTATTTTTTTATCTATATGTA
1 TTATTTATTTATCTATATGTA
33500663 TATATTTATTT
1 T-TATTTATTT
33500674 TAGTATACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
TTATTTATTTATCTATATGTA
Found at i:33518287 original size:15 final size:15
Alignment explanation
Indices: 33518267--33518297 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33518257 TGAAGAAGAA
*
33518267 CCACTAGTGAATGTC
1 CCACTAGTGAAAGTC
33518282 CCACTAGTGAAAGTC
1 CCACTAGTGAAAGTC
33518297 C
1 C
33518298 TTTGGCGTAT
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:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (15 bp):
CCACTAGTGAAAGTC
Found at i:33526927 original size:25 final size:25
Alignment explanation
Indices: 33526899--33526973 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
33526889 AACAACCTCT
33526899 CAAATTAGATAATCACGTAACTTAA
1 CAAATTAGATAATCACGTAACTTAA
* * **
33526924 CAAA-TCG-TCAA--AC--AACCTCT
1 CAAATTAGAT-AATCACGTAACTTAA
33526944 CAAATTAGATAATCACGTAACTTAA
1 CAAATTAGATAATCACGTAACTTAA
33526969 CAAAT
1 CAAAT
33526974 CATCCTAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
20 8 0.23
21 4 0.11
22 3 0.09
23 3 0.09
24 4 0.11
25 13 0.37
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.25
Consensus pattern (25 bp):
CAAATTAGATAATCACGTAACTTAA
Found at i:33526938 original size:45 final size:45
Alignment explanation
Indices: 33526889--33526974 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
33526879 CCTAAGCAAG
33526889 AACAACCTCTCAAATTAGATAATCACGTAACTTAACAAATCGTCA
1 AACAACCTCTCAAATTAGATAATCACGTAACTTAACAAATCGTCA
33526934 AACAACCTCTCAAATTAGATAATCACGTAACTTAACAAATC
1 AACAACCTCTCAAATTAGATAATCACGTAACTTAACAAATC
33526975 ATCCTAAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (45 bp):
AACAACCTCTCAAATTAGATAATCACGTAACTTAACAAATCGTCA
Found at i:33531836 original size:43 final size:43
Alignment explanation
Indices: 33531789--33531918 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 43
33531779 CATGGTCGTA
*
33531789 TCACTTTGCCGTGTGTCACACATGGCTGAGACACACACCTGTG
1 TCACTTTGCCGTGTGTCACACATGGCTGAGACACACACCCGTG
* * * *
33531832 TCACTTGGCTGTGTGTCACACATGACTGAGACATACACCCGTG
1 TCACTTTGCCGTGTGTCACACATGGCTGAGACACACACCCGTG
* * *
33531875 T--CTCTGCCCGTGTGTCACACACGGCTGAGACACACACCCATG
1 TCACTTTG-CCGTGTGTCACACATGGCTGAGACACACACCCGTG
33531917 TC
1 TC
33531919 TCTGCTCGTG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
41 3 0.04
42 31 0.42
43 39 0.53
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (43 bp):
TCACTTTGCCGTGTGTCACACATGGCTGAGACACACACCCGTG
Found at i:33531903 original size:42 final size:42
Alignment explanation
Indices: 33531797--33531930 Score: 178
Period size: 42 Copynumber: 3.2 Consensus size: 42
33531787 TATCACTTTG
* * *
33531797 CCGTGTGTCACACATGGCTGAGACACACACCTGTGTCACTTGG
1 CCGTGTGTCACACATGGCTGAGACACACACCCGTGTCTC-TGC
* * *
33531840 CTGTGTGTCACACATGACTGAGACATACACCCGTGTCTCTGC
1 CCGTGTGTCACACATGGCTGAGACACACACCCGTGTCTCTGC
* *
33531882 CCGTGTGTCACACACGGCTGAGACACACACCCATGTCTCTGC
1 CCGTGTGTCACACATGGCTGAGACACACACCCGTGTCTCTGC
*
33531924 TCGTGTG
1 CCGTGTG
33531931 GATGAAAATA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 45 0.57
43 34 0.43
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (42 bp):
CCGTGTGTCACACATGGCTGAGACACACACCCGTGTCTCTGC
Found at i:33541189 original size:26 final size:26
Alignment explanation
Indices: 33541137--33541189 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
33541127 CACCAATATC
* *
33541137 GCAGCATAGCTGCCAATAGTAATAAT
1 GCAGCAGAGCTGCCAATAGTAAGAAT
* *
33541163 GCAGCAGAGCTGCCAGTAGTCAGAAT
1 GCAGCAGAGCTGCCAATAGTAAGAAT
33541189 G
1 G
33541190 GCTAAAAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (26 bp):
GCAGCAGAGCTGCCAATAGTAAGAAT
Found at i:33541237 original size:22 final size:22
Alignment explanation
Indices: 33541183--33541247 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
33541173 TGCCAGTAGT
*
33541183 CAGAATGGCTAAAAGCTGTAAA
1 CAGAATGGCTAAAAGCTATAAA
* * *
33541205 CAGGATAGCTATAAGCTATAAA
1 CAGAATGGCTAAAAGCTATAAA
* * *
33541227 TAGAATGGCTACAAGCCATAA
1 CAGAATGGCTAAAAGCTATAA
33541248 GTACAGTAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (22 bp):
CAGAATGGCTAAAAGCTATAAA
Found at i:33541294 original size:32 final size:32
Alignment explanation
Indices: 33541239--33541409 Score: 227
Period size: 32 Copynumber: 5.4 Consensus size: 32
33541229 GAATGGCTAC
* *
33541239 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
33541270 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
33541302 CAGCCATCAGTAACAGTAATATGATCAGCACC
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
33541334 AAGCCATCAGTAACGGTAATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
33541366 AAGCCATCAGTAACGGTAATATGATCGGCATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
33541398 AAGCCATTAGTA
1 AAGCCATCAGTA
33541410 GTATCGCAGT
Statistics
Matches: 122, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
31 10 0.08
32 112 0.92
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:33541655 original size:27 final size:27
Alignment explanation
Indices: 33541617--33542065 Score: 592
Period size: 27 Copynumber: 16.6 Consensus size: 27
33541607 CCACTAGGGC
* *
33541617 ATTACGGTTATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
33541644 ATTACGGTTATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
** * * *
33541671 ATTACAATCATTATACCCTACAGTGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
33541698 ATTACAGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
33541725 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
**
33541752 ATTACGACCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
**
33541779 ATTACAGACCATTTTACCCTACAGGGGT
1 ATTAC-GGTCATTTTACCCTACAGGGGT
*
33541807 ATTACAGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
33541834 ATTACAGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
33541861 ATTCCGGTCATTTTACCGTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
33541888 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
** * *
33541915 ATTATAGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
33541942 ATTACGATCATTTTACCCTACATGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
33541969 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
33541996 ATTACGGTCATTTTACCCTACGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
**
33542023 ATTACGGTCATTTGGCCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
33542050 ATTACGGTTATTTTAC
1 ATTACGGTCATTTTAC
33542066 AAATATTGGG
Statistics
Matches: 376, Mismatches: 45, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
27 349 0.93
28 27 0.07
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:33544109 original size:43 final size:43
Alignment explanation
Indices: 33544056--33544216 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 43
33544046 TTCGAGGTGT
* *
33544056 GATTTCGTGTAATACCATGTCTGGGACATTGGCATCGATATGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
* * *
33544099 GATTACGTGTAAGGCCATGTCTAGGACGTTGGCATCG-TAT-A
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
* * ** *
33544140 TGATT-TGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATGT
1 -GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
* * * *
33544183 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT
33544217 TGTATGTGAT
Statistics
Matches: 94, Mismatches: 20, Indels: 9
0.76 0.16 0.07
Matches are distributed among these distances:
41 26 0.28
42 18 0.19
43 50 0.53
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
Found at i:33545372 original size:18 final size:18
Alignment explanation
Indices: 33545351--33545387 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33545341 GGAGGACATT
33545351 GATATGATTGAATTTGAA
1 GATATGATTGAATTTGAA
33545369 GATATGATTGAATTTGAA
1 GATATGATTGAATTTGAA
33545387 G
1 G
33545388 CACGGTTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (18 bp):
GATATGATTGAATTTGAA
Found at i:33547276 original size:24 final size:24
Alignment explanation
Indices: 33547232--33547278 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
33547222 ACGAGCTCAA
* *
33547232 AATCGGTATGCTCTTACGAGCTGT
1 AATCGGTAAGCTCCTACGAGCTGT
33547256 AATCGGTAAGCTCCT-CTGAGCTG
1 AATCGGTAAGCTCCTAC-GAGCTG
33547279 AATAATGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (24 bp):
AATCGGTAAGCTCCTACGAGCTGT
Found at i:33558246 original size:23 final size:23
Alignment explanation
Indices: 33558219--33558294 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
33558209 AGTGTTATTG
33558219 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
33558242 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
33558265 AACAGTGGTAGCCTT-GGCTACAT
1 ATCAGTGGTAG-CTTCGGCTACAT
33558288 ATCAGTG
1 ATCAGTG
33558295 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 45 0.94
24 3 0.06
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:33564586 original size:51 final size:51
Alignment explanation
Indices: 33564506--33564693 Score: 206
Period size: 51 Copynumber: 3.7 Consensus size: 51
33564496 TATCGCTGAA
* * * *
33564506 CACGTGTGTAGTACTATGGGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* *
33564557 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-TTGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGATAAA--TATTGGT
* * * *
33564608 CACGTGTGTAGTACTATA-TGGAGGCTACTATGTGGACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTA-AGTGAAGGCTACTACGTGTACCGATAAATA-TTGGT
*
33564658 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTA
33564694 TCGAATGATA
Statistics
Matches: 116, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
50 38 0.33
51 76 0.66
52 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGATAAATATTGGT
Found at i:33564693 original size:101 final size:102
Alignment explanation
Indices: 33564506--33564698 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 102
33564496 TATCGCTGAA
* * *
33564506 CACGTGTGTAGTACTATGGGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGGGAAGGCTACTACGTGGACCGATAAATAATGATCACATGTGTAGTAC
*
33564571 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTACGTGTACCGAAAAGCTTTGGT
* * * *
33564608 CACGTGTGTAGTACTATATGG-AGGCTACTATGTGGACCG-TAAA-ACTTGATCACGTGTGTAGT
1 CACGTGTGTAGTACTAT-GGGAAGGCTACTACGTGGACCGATAAATA-ATGATCACATGTGTAGT
* *
33564670 ACTATGTGAAGGCTACTACGTGTATCGAA
64 ACTAAGTGAAGGCTACTACGTGTACCGAA
33564699 TGATAATAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
100 1 0.01
101 44 0.56
102 32 0.41
103 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGGGAAGGCTACTACGTGGACCGATAAATAATGATCACATGTGTAGTAC
TAAGTGAAGGCTACTACGTGTACCGAAAAGCTTTGGT
Found at i:33570093 original size:50 final size:50
Alignment explanation
Indices: 33569929--33570116 Score: 218
Period size: 51 Copynumber: 3.7 Consensus size: 50
33569919 TATCGATGAA
* * *
33569929 CACGTGTGTAGTACTATGGGAAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGGT
* * * * *
33569980 CACATGTGTAGTCCTAAGTGAAGGATACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TTGGT
* * * *
33570031 CATGTGTGTAGTACTATGTGGAGGCTACTACGTGGACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGT
33570081 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
33570117 TCGAATGATA
Statistics
Matches: 113, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 37 0.33
51 68 0.60
52 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGT
Found at i:33579507 original size:25 final size:25
Alignment explanation
Indices: 33579473--33579520 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
33579463 TTTAAAGGGG
*
33579473 GTAAGACATTTTGCATGAATTTTTA
1 GTAAGACATTTCGCATGAATTTTTA
33579498 GTAAGACATTTCGCATGAATTTT
1 GTAAGACATTTCGCATGAATTTT
33579521 AAAGCATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (25 bp):
GTAAGACATTTCGCATGAATTTTTA
Found at i:33588505 original size:16 final size:15
Alignment explanation
Indices: 33588478--33588511 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
33588468 ATAACTAGTA
*
33588478 TATAATTATATTTAT
1 TATAATTATATTAAT
33588493 TATAATATATATTAAT
1 TATAAT-TATATTAAT
33588509 TAT
1 TAT
33588512 TATCAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:33590803 original size:48 final size:48
Alignment explanation
Indices: 33590751--33590844 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
33590741 TAATCGGTCA
*
33590751 GTTAACCAAATTTTTTCGGTCCGGGGTCGGTTAATTATTTTTTGATCG
1 GTTAACCAAATTTTTTCGGTCCAGGGTCGGTTAATTATTTTTTGATCG
33590799 GTTAACCAAATTTTTTCGGTCCAGGGTCGGTTAATTATTTTTTGAT
1 GTTAACCAAATTTTTTCGGTCCAGGGTCGGTTAATTATTTTTTGAT
33590845 TTTTCGGTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.45
Consensus pattern (48 bp):
GTTAACCAAATTTTTTCGGTCCAGGGTCGGTTAATTATTTTTTGATCG
Found at i:33590995 original size:18 final size:18
Alignment explanation
Indices: 33590962--33591014 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
33590952 ATTCACCTAA
*
33590962 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
33590981 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
33590999 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
33591015 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:33591126 original size:9 final size:9
Alignment explanation
Indices: 33591112--33591178 Score: 107
Period size: 9 Copynumber: 7.4 Consensus size: 9
33591102 GTAGTGATTC
*
33591112 AATTCGATT
1 AATTCGGTT
33591121 AATTCGGTT
1 AATTCGGTT
33591130 AATTCGGTT
1 AATTCGGTT
33591139 AATTCGGTT
1 AATTCGGTT
*
33591148 AATTCGGGT
1 AATTCGGTT
*
33591157 AATCCGGTT
1 AATTCGGTT
33591166 AATTCGGTT
1 AATTCGGTT
33591175 AATT
1 AATT
33591179 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:33596525 original size:26 final size:26
Alignment explanation
Indices: 33596487--33596648 Score: 175
Period size: 26 Copynumber: 6.2 Consensus size: 26
33596477 AAAATTATTA
*
33596487 AAATTACTGAAATACCCTTAATGGGT
1 AAATTACTAAAATACCCTTAATGGGT
* *
33596513 AAATTACTAAAATACCCCTAATGAGT
1 AAATTACTAAAATACCCTTAATGGGT
* *
33596539 AAATTATTAAAATACCCTTGATGGGT
1 AAATTACTAAAATACCCTTAATGGGT
** *
33596565 AAATTACCGAAATACCCTTGATGGGT
1 AAATTACTAAAATACCCTTAATGGGT
*
33596591 AAATTAC-AGAAATA-CATCTAATGGGT
1 AAATTACTA-AAATACCCT-TAATGGGT
* ** *
33596617 AAATTACTGAAATACCCTCGATGGAT
1 AAATTACTAAAATACCCTTAATGGGT
33596643 AAATTA
1 AAATTA
33596649 TCGAAATACC
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.02
26 110 0.96
27 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (26 bp):
AAATTACTAAAATACCCTTAATGGGT
Found at i:33596619 original size:78 final size:78
Alignment explanation
Indices: 33596487--33596659 Score: 240
Period size: 78 Copynumber: 2.2 Consensus size: 78
33596477 AAAATTATTA
* * *
33596487 AAATTACTGAAATACCCTTAATGGGTAAATTACTAAAATACCCCTAATGAGTAAATTATTAAAAT
1 AAATTACCGAAATACCCTTAATGGGTAAATTACTAAAATACACCTAATGAGTAAATTACTAAAAT
* *
33596552 ACCCTTGATGGGT
66 ACCCTCGATGGAT
* * * *
33596565 AAATTACCGAAATACCCTTGATGGGTAAATTAC-AGAAATACATCTAATGGGTAAATTACTGAAA
1 AAATTACCGAAATACCCTTAATGGGTAAATTACTA-AAATACACCTAATGAGTAAATTACTAAAA
33596629 TACCCTCGATGGAT
65 TACCCTCGATGGAT
*
33596643 AAATTATCGAAATACCC
1 AAATTACCGAAATACCC
33596660 CCAAAGGGTC
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
77 1 0.01
78 83 0.99
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (78 bp):
AAATTACCGAAATACCCTTAATGGGTAAATTACTAAAATACACCTAATGAGTAAATTACTAAAAT
ACCCTCGATGGAT
Found at i:33596634 original size:52 final size:53
Alignment explanation
Indices: 33596487--33596659 Score: 203
Period size: 52 Copynumber: 3.3 Consensus size: 53
33596477 AAAATTATTA
* * * * *
33596487 AAATTA-CTGAAATACCCTTAATGGGTAAATTACTAAAATACCCCTAATGAGT
1 AAATTATCAGAAATACCCTTAATGGGTAAATTACTGAAATACCCTTGATGGGT
* * *
33596539 AAATTATTA-AAATACCCTTGATGGGTAAATTACCGAAATACCCTTGATGGGT
1 AAATTATCAGAAATACCCTTAATGGGTAAATTACTGAAATACCCTTGATGGGT
* * *
33596591 AAATTA-CAGAAATA-CATCTAATGGGTAAATTACTGAAATACCCTCGATGGAT
1 AAATTATCAGAAATACCCT-TAATGGGTAAATTACTGAAATACCCTTGATGGGT
33596643 AAATTATC-GAAATACCC
1 AAATTATCAGAAATACCC
33596660 CCAAAGGGTC
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
51 3 0.03
52 96 0.95
53 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (53 bp):
AAATTATCAGAAATACCCTTAATGGGTAAATTACTGAAATACCCTTGATGGGT
Found at i:33600944 original size:11 final size:11
Alignment explanation
Indices: 33600928--33600980 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
33600918 CTTCATTCAT
33600928 CATCCCTCAAG
1 CATCCCTCAAG
*
33600939 CATCCCTGAAG
1 CATCCCTCAAG
* * *
33600950 CAGCCCCCAAT
1 CATCCCTCAAG
*
33600961 CATCCCTCAAT
1 CATCCCTCAAG
*
33600972 CATTCCTCA
1 CATCCCTCA
33600981 TTCATTCTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.26, C:0.45, G:0.08, T:0.21
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:33619996 original size:31 final size:30
Alignment explanation
Indices: 33619956--33620016 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
33619946 TCAAGTTTCC
*
33619956 ATATACATGTAACATCCATAT-CATGTATTT
1 ATATACATGTAAAAT-CATATCCATGTATTT
*
33619986 ATATATCATGTAAAATCATTTCCATGTATTT
1 ATATA-CATGTAAAATCATATCCATGTATTT
33620017 CATGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.43
Consensus pattern (30 bp):
ATATACATGTAAAATCATATCCATGTATTT
Found at i:33620189 original size:25 final size:25
Alignment explanation
Indices: 33620160--33620209 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
33620150 ATCCTGTATA
*
33620160 GGTATGCT-TATACGAGCTGTAAATC
1 GGTATGCTCTAT-CGAACTGTAAATC
*
33620185 GGTATGCTCTCTCGAACTGTAAATC
1 GGTATGCTCTATCGAACTGTAAATC
33620210 AGTAAGCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (25 bp):
GGTATGCTCTATCGAACTGTAAATC
Found at i:33634815 original size:21 final size:23
Alignment explanation
Indices: 33634791--33634838 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
33634781 TCATATTTAA
* *
33634791 AAAAATTCTAATTTTC-AA-AAT
1 AAAAATTATAATATTCTAATAAT
33634812 AAAAATTATAATATTCTAATAAT
1 AAAAATTATAATATTCTAATAAT
33634835 AAAA
1 AAAA
33634839 TTCATTAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
22 2 0.09
23 7 0.30
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATTATAATATTCTAATAAT
Found at i:33634913 original size:20 final size:21
Alignment explanation
Indices: 33634876--33634925 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
33634866 TTGATAAATT
33634876 TTACAAATATAATTTTATTTA
1 TTACAAATATAATTTTATTTA
*
33634897 TTACAAA-ATATTTTTATTTA
1 TTACAAATATAATTTTATTTA
*
33634917 ATA-AAATAT
1 TTACAAATAT
33634926 GAATAATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 16 0.62
21 7 0.27
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
TTACAAATATAATTTTATTTA
Found at i:33642876 original size:22 final size:21
Alignment explanation
Indices: 33642837--33642877 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33642827 ATCAAATAGT
**
33642837 TCAATTCACATCCCATCATTC
1 TCAATTCACATCAAATCATTC
33642858 TCAATTCAACATCAAATCAT
1 TCAATTC-ACATCAAATCAT
33642878 CATTTCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (21 bp):
TCAATTCACATCAAATCATTC
Found at i:33645064 original size:13 final size:13
Alignment explanation
Indices: 33645029--33645085 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 13
33645019 TCTACATGGT
*
33645029 TCGCACATTTAGC
1 TCGCACATTGAGC
* *
33645042 TTGCATATTGAGC
1 TCGCACATTGAGC
*
33645055 TCGCACATTGGGC
1 TCGCACATTGAGC
* **
33645068 TCACGTATTGAGC
1 TCGCACATTGAGC
33645081 TCGCA
1 TCGCA
33645086 TGACGCTAAG
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (13 bp):
TCGCACATTGAGC
Found at i:33649229 original size:72 final size:73
Alignment explanation
Indices: 33649086--33649233 Score: 235
Period size: 72 Copynumber: 2.0 Consensus size: 73
33649076 ATGACACTCA
* * *
33649086 AGAATTTTGAAAACAATTATTCCCTAGGTTATTCAGAACTTACAAGGAAAAAACTACTTGGTCAA
1 AGAATTTCGAAAACAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
33649151 TATTATTG
66 TATTATTG
* * *
33649159 AGAATTTCGAAAATAATTATTCCCTAGGTTGTT-AGAACCTATAAGGAAAAAACTACTTGGTAAA
1 AGAATTTCGAAAACAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
33649223 TATTATTG
66 TATTATTG
33649231 AGA
1 AGA
33649234 TGGCGTTGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 39 0.57
73 30 0.43
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (73 bp):
AGAATTTCGAAAACAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
TATTATTG
Found at i:33651217 original size:22 final size:22
Alignment explanation
Indices: 33651189--33651233 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
33651179 ACGAGCTCAA
33651189 TCAAAAAGAGGCATTTTGACAT
1 TCAAAAAGAGGCATTTTGACAT
*
33651211 TCAAAAAGAGGTATTTTGACAT
1 TCAAAAAGAGGCATTTTGACAT
33651233 T
1 T
33651234 GAAGTACCCA
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:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (22 bp):
TCAAAAAGAGGCATTTTGACAT
Found at i:33651962 original size:30 final size:27
Alignment explanation
Indices: 33651900--33651970 Score: 72
Period size: 30 Copynumber: 2.5 Consensus size: 27
33651890 ATATTCTATT
*
33651900 ATATATTTTTAAATAATTTAAAATCACC
1 ATAT-TTTTTAAATAATTTAAAATCACA
33651928 ATATTTTTCTAAATAATTTTTAAAAAT-ACA
1 ATATTTTT-TAAATAA--TTT-AAAATCACA
*
33651958 ATATTTTATAAAT
1 ATATTTTTTAAAT
33651971 TTTTGTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
27 4 0.11
28 11 0.30
29 5 0.14
30 12 0.32
31 5 0.14
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (27 bp):
ATATTTTTTAAATAATTTAAAATCACA
Found at i:33672302 original size:29 final size:29
Alignment explanation
Indices: 33672228--33672331 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
33672218 CACCATTGGT
* *
33672228 ACATAGTACTTGATAAATATAACACCGGC
1 ACATAGTACTTGATAACTGTAACACCGGC
* * * * *
33672257 ATAGT-GTGCCTGGTAACTGTAACACCGGT
1 ACA-TAGTACTTGATAACTGTAACACCGGC
* *
33672286 ACAAAGTACTTGATAACTGTAATCACCGAC
1 ACATAGTACTTGATAACTGTAA-CACCGGC
*
33672316 ACATAGTGCTTGATAA
1 ACATAGTACTTGATAA
33672332 ACCCTAATGA
Statistics
Matches: 56, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
29 36 0.64
30 20 0.36
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (29 bp):
ACATAGTACTTGATAACTGTAACACCGGC
Found at i:33672328 original size:30 final size:29
Alignment explanation
Indices: 33672270--33672331 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
33672260 GTGTGCCTGG
**
33672270 TAACTGTAACACCGGTACAAAGTACTTGA
1 TAACTGTAACACCGACACAAAGTACTTGA
* *
33672299 TAACTGTAATCACCGACACATAGTGCTTGA
1 TAACTGTAA-CACCGACACAAAGTACTTGA
33672329 TAA
1 TAA
33672332 ACCCTAATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (29 bp):
TAACTGTAACACCGACACAAAGTACTTGA
Found at i:33672417 original size:52 final size:52
Alignment explanation
Indices: 33672355--33672461 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
33672345 GTCATTTATA
*
33672355 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCTTT
1 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCCTT
33672407 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCCTT
1 TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCCTT
33672459 TCC
1 TCC
33672462 ATTCTTTTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (52 bp):
TCCTAGCTATCCACTGAGTTCACATGGACCCTGTATCTCGTATTCAATCCTT
Found at i:33675743 original size:50 final size:50
Alignment explanation
Indices: 33675625--33675867 Score: 315
Period size: 50 Copynumber: 4.8 Consensus size: 50
33675615 GATAATAACA
* * * ** * *
33675625 TGCCAAAGCCATGTCCCAGACATGGTTTTACATGGGATGTTCTCATATTGG
1 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
33675676 TTCCCATGCCATGTCTCAGACATGGTCTTACAAGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
33675726 TGGCAACGTCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
33675776 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGCACCTCTCATCTCGG
1 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
33675826 TGCCAACGCCATGTCGCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCT
33675868 TTACCCAAAT
Statistics
Matches: 166, Mismatches: 26, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 135 0.81
51 31 0.19
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:33680267 original size:5 final size:5
Alignment explanation
Indices: 33680257--33680292 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
33680247 ATGTTTGAAA
33680257 AAAAT AAAAT AAAAT AAAAT AAATAT ATAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT A-AAAT AAAA
33680293 GTATATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 21 0.72
6 6 0.21
7 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:33684914 original size:22 final size:22
Alignment explanation
Indices: 33684889--33684934 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
33684879 GTTTTGCAAT
33684889 TACAATTGTATAAAATTTTATA
1 TACAATTGTATAAAATTTTATA
33684911 TACAATTGTATAAAATTTTATA
1 TACAATTGTATAAAATTTTATA
33684933 TA
1 TA
33684935 ACACCATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (22 bp):
TACAATTGTATAAAATTTTATA
Found at i:33684948 original size:15 final size:15
Alignment explanation
Indices: 33684925--33684962 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
33684915 ATTGTATAAA
*
33684925 ATTTTATATAACACC
1 ATTTAATATAACACC
33684940 ATTTAATATAACACC
1 ATTTAATATAACACC
33684955 ATTTAATA
1 ATTTAATA
33684963 ACCAAATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTAATATAACACC
Found at i:33687345 original size:43 final size:42
Alignment explanation
Indices: 33687234--33687362 Score: 132
Period size: 43 Copynumber: 3.0 Consensus size: 42
33687224 AAAACTCGTA
* * * *
33687234 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCATATAT
1 CAATG-CAACGTCCCAGACGTGGTCTTACACGTAAACACAAAT
* * **
33687277 CAATGCCACTGTCCTAGACAAGGTCTTACACGTAAACACAAAT
1 CAATGCAAC-GTCCCAGACGTGGTCTTACACGTAAACACAAAT
* * *
33687320 CGATGCTAACGTCCCAAACGTGGTCTTACACGAAAACACAAAT
1 CAATGC-AACGTCCCAGACGTGGTCTTACACGTAAACACAAAT
33687363 AAAAAATCAC
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 3 0.04
43 64 0.93
44 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (42 bp):
CAATGCAACGTCCCAGACGTGGTCTTACACGTAAACACAAAT
Found at i:33698635 original size:3 final size:3
Alignment explanation
Indices: 33698627--33698692 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
33698617 GCAAAAATAC
33698627 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33698675 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
33698693 CAAATTACAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:33700226 original size:17 final size:17
Alignment explanation
Indices: 33700204--33700236 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33700194 CGTCAGGTGC
33700204 GGTACAATGACCAAAAA
1 GGTACAATGACCAAAAA
*
33700221 GGTACAATGCCCAAAA
1 GGTACAATGACCAAAA
33700237 GTCAATAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (17 bp):
GGTACAATGACCAAAAA
Found at i:33704240 original size:2 final size:2
Alignment explanation
Indices: 33704233--33704268 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
33704223 TCAAGAGTAA
33704233 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
33704269 TCTTCGTCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33704480 original size:35 final size:35
Alignment explanation
Indices: 33704441--33704512 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
33704431 TGTTTTATAA
* *
33704441 ATTATACATA-TTTTTATTTTAAATTTAATAAACTC
1 ATTATA-ATATTTTTTATTTCAAATGTAATAAACTC
* *
33704476 ATTATATTATTTTTTATTTCGAATGTAATAAACTC
1 ATTATAATATTTTTTATTTCAAATGTAATAAACTC
33704511 AT
1 AT
33704513 CATATCAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.06
35 30 0.94
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (35 bp):
ATTATAATATTTTTTATTTCAAATGTAATAAACTC
Found at i:33704696 original size:24 final size:21
Alignment explanation
Indices: 33704669--33704711 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 21
33704659 TGATTTAATT
33704669 TAATTTATTTCTATTTTATTATTA
1 TAATTT-TTT-TATTTT-TTATTA
33704693 TAATTTTTTTATTTTTTAT
1 TAATTTTTTTATTTTTTAT
33704712 CAATTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 3 0.16
24 6 0.32
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (21 bp):
TAATTTTTTTATTTTTTATTA
Found at i:33704926 original size:54 final size:54
Alignment explanation
Indices: 33704851--33704956 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
33704841 TTAAAGACGC
* *
33704851 ATAGACTTAATGAGATTTATTTAAATCTTTTCAAGCATTTCAATTAAAATTTAG
1 ATAGACATAATGAGATATATTTAAATCTTTTCAAGCATTTCAATTAAAATTTAG
33704905 ATAGACATAATGAGATATATTTAAATCTTTTCAAGCATTTCAATTAAAATTT
1 ATAGACATAATGAGATATATTTAAATCTTTTCAAGCATTTCAATTAAAATTT
33704957 TATTTATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (54 bp):
ATAGACATAATGAGATATATTTAAATCTTTTCAAGCATTTCAATTAAAATTTAG
Found at i:33709560 original size:111 final size:111
Alignment explanation
Indices: 33709373--33709578 Score: 331
Period size: 111 Copynumber: 1.9 Consensus size: 111
33709363 AATTCTGCAT
* *
33709373 TGGGTAAATCCATCTAGACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTGTCTAT
1 TGGGTAAATCCACCTAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTGTCTAT
33709438 TTGAGCAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
66 TTGAGCAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
* * ***
33709484 TGGGTAAATCCACCTAAACTTACCGTAACACATATGTTCGCAGAGAGTGAAGGTGAACTGTCTAT
1 TGGGTAAATCCACCTAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTGTCTAT
**
33709549 TTGAGTGAAGTGTATTGTATGCGTGTTGCT
66 TTGAGCAAAGTGTATTGTATGCGTGTTGCT
33709579 AATATTCATA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 86 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (111 bp):
TGGGTAAATCCACCTAAACTTACCATAACACATACGTTCGCAGAGAGTGAAAACGAACTGTCTAT
TTGAGCAAAGTGTATTGTATGCGTGTTGCTTAGTATAAATTTGTAG
Found at i:33710301 original size:15 final size:15
Alignment explanation
Indices: 33710281--33710310 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33710271 TGTATTTTAG
*
33710281 CATATGTATTAAAAT
1 CATATGTAATAAAAT
33710296 CATATGTAATAAAAT
1 CATATGTAATAAAAT
33710311 ATCATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (15 bp):
CATATGTAATAAAAT
Found at i:33710532 original size:11 final size:11
Alignment explanation
Indices: 33710513--33710559 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
33710503 TTTTAAAAAT
33710513 AAAAA-TATAA
1 AAAAATTATAA
33710523 AAAAATTATAA
1 AAAAATTATAA
33710534 AAAAATTATAA
1 AAAAATTATAA
33710545 AAAAA-TA-AA
1 AAAAATTATAA
33710554 AAAAAT
1 AAAAAT
33710560 AAATCTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
9 7 0.20
10 7 0.20
11 21 0.60
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:33710555 original size:9 final size:9
Alignment explanation
Indices: 33710507--33710562 Score: 60
Period size: 9 Copynumber: 6.0 Consensus size: 9
33710497 ATTTTATTTT
33710507 AAAAAT-AA
1 AAAAATAAA
*
33710515 AAATATAAA
1 AAAAATAAA
33710524 AAAATTATAAA
1 AAAA--ATAAA
*
33710535 AAAATTATAA
1 AAAAATA-AA
33710545 AAAAATAAA
1 AAAAATAAA
33710554 AAAAATAAA
1 AAAAATAAA
33710563 TCTAAATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 5 0.12
9 18 0.45
10 8 0.20
11 9 0.22
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAATAAA
Found at i:33711953 original size:28 final size:26
Alignment explanation
Indices: 33711922--33711975 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 26
33711912 ATATTACTTA
33711922 TAAAATATTATTATTTTAAGTAAAATAT
1 TAAAATATTATTATTTTAA--AAAATAT
*
33711950 TAAATTATTATTATTTTAAAAAATAT
1 TAAAATATTATTATTTTAAAAAATAT
33711976 AATTCAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.28
28 18 0.72
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TAAAATATTATTATTTTAAAAAATAT
Found at i:33712619 original size:21 final size:22
Alignment explanation
Indices: 33712579--33712619 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33712569 TATTGCACCT
*
33712579 TAAAAAATTTATTATTAATTAA
1 TAAAAAATTTATTATAAATTAA
*
33712601 TAAAAATTTTA-TATAAATT
1 TAAAAAATTTATTATAAATT
33712620 GAAATTCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAAAATTTATTATAAATTAA
Found at i:33718786 original size:21 final size:21
Alignment explanation
Indices: 33718760--33718820 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
33718750 GGGTACATGA
33718760 GCGTGTGGAATG-GCCACACGG
1 GCGTGTGGAA-GAGCCACACGG
*
33718781 GCGTGTGGGAGAGCCACACGG
1 GCGTGTGGAAGAGCCACACGG
** *
33718802 ATGTGTGGTAGAGCCACAC
1 GCGTGTGGAAGAGCCACAC
33718821 AGCCGTATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.21, C:0.23, G:0.41, T:0.15
Consensus pattern (21 bp):
GCGTGTGGAAGAGCCACACGG
Found at i:33724232 original size:27 final size:27
Alignment explanation
Indices: 33724202--33724256 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
33724192 ATTTACAAGA
* *
33724202 TTAGCATAAATGTTAATTAAATTTTAG
1 TTAGCATAAAGGTTAATTAAAATTTAG
*
33724229 TTAGTATAAAGGTTAATTAAAATTTAG
1 TTAGCATAAAGGTTAATTAAAATTTAG
33724256 T
1 T
33724257 CCCTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.44
Consensus pattern (27 bp):
TTAGCATAAAGGTTAATTAAAATTTAG
Found at i:33725966 original size:54 final size:54
Alignment explanation
Indices: 33725903--33726295 Score: 380
Period size: 54 Copynumber: 7.3 Consensus size: 54
33725893 TATGGTCTGT
* * * *
33725903 TGATTTACGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGTGGCCCAT
1 TGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCCAC
* * * *
33725957 TGATTTACGATCACAACCTTTTACTTATGGGATTTTACGAATCTCACGGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCCAC
* * * * * * *
33726011 TGATTTACAATCATGACATTTTACATACGAGATTTAACGAATCTCGCAGTCCAC
1 TGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCCAC
* * * * * * *
33726065 TGATTTATGATCACAACCTTTTAGTTACGAGATTTTATGAATCTTGCGGTCCGC
1 TGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCCAC
* * * *
33726119 TGATTTACGA-AATGACCTTTTACTTACGAGATTTTACGAATCTCGCGAT-CAGC
1 TGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCCA-C
** * * **
33726172 TGATTTAAAATCACGACCTTTTACTTACAGGATTTTATGAATCTCTTGGT-CAGC
1 TGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCCA-C
* * * * * *
33726226 TGATTTACAATCACGACCTTCTACTTACATGG-TTTTATGAATCTCGCGGTTCAT
1 TGATTTACGATCACGACCTTTTACTTAC-GGGATTTTACGAATCTCGCGGTCCAC
*
33726280 TGATTTATGATCACGA
1 TGATTTACGATCACGA
33726296 TCTTCTGCAT
Statistics
Matches: 279, Mismatches: 56, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
52 1 0.00
53 41 0.15
54 233 0.84
55 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (54 bp):
TGATTTACGATCACGACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCCAC
Found at i:33726288 original size:215 final size:216
Alignment explanation
Indices: 33725903--33726293 Score: 500
Period size: 215 Copynumber: 1.8 Consensus size: 216
33725893 TATGGTCTGT
* * * * * * **
33725903 TGATTTACGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGTGGCCCATTGATTTACGAT
1 TGATTTACGATAACGACCTTTTACTTACGAGATTTTACGAATCTCGTCGACCACTGATTTAAAAT
** * * *
33725968 CACAACCTTTTACTTATGGGATTTTACGAATCTCACGGTCCGCTGATTTACAATCATGACATTTT
66 CACAACCTTTTACTTACAGGATTTTACGAATCTCACGGTCAGCTGATTTACAATCACGACATTCT
33726033 ACATACGAGATTTAACGAATCTCGCAGTCCACTGATTTATGATCACAACCTTTTAGTTACGAGAT
131 ACATACGAGATTTAACGAATCTCGCAGTCCACTGATTTATGATCACAACCTTTTAGTTACGAGAT
33726098 TTTATGAATCTTGCGGTCCGC
196 TTTATGAATCTTGCGGTCCGC
* *
33726119 TGATTTACGA-AATGACCTTTTACTTACGAGATTTTACGAATCTCG-CGATCAGCTGATTTAAAA
1 TGATTTACGATAACGACCTTTTACTTACGAGATTTTACGAATCTCGTCGACCA-CTGATTTAAAA
* * ** *
33726182 TCACGACCTTTTACTTACAGGATTTTATGAATCTCTTGGTCAGCTGATTTACAATCACGACCTTC
65 TCACAACCTTTTACTTACAGGATTTTACGAATCTCACGGTCAGCTGATTTACAATCACGACATTC
* * * * * * *
33726247 TACTTAC-ATGGTTTTATGAATCTCGCGGTTCATTGATTTATGATCAC
130 TACATACGA-GATTTAACGAATCTCGCAGTCCACTGATTTATGATCAC
33726294 GATCTTCTGC
Statistics
Matches: 146, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
214 4 0.03
215 132 0.90
216 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (216 bp):
TGATTTACGATAACGACCTTTTACTTACGAGATTTTACGAATCTCGTCGACCACTGATTTAAAAT
CACAACCTTTTACTTACAGGATTTTACGAATCTCACGGTCAGCTGATTTACAATCACGACATTCT
ACATACGAGATTTAACGAATCTCGCAGTCCACTGATTTATGATCACAACCTTTTAGTTACGAGAT
TTTATGAATCTTGCGGTCCGC
Found at i:33726295 original size:108 final size:107
Alignment explanation
Indices: 33725903--33726293 Score: 432
Period size: 108 Copynumber: 3.6 Consensus size: 107
33725893 TATGGTCTGT
* * * * * * *
33725903 TGATTTACGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGTGGCCCATTGATTTACGAT
1 TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
* * *
33725968 CACAACCTTTTACTTATGGGATTTTACGAATCTCACGGTCCGC
66 CACAACCTTTTACTTA-CGGATTTTATGAATCTCTCGGTCCGC
* * * * *
33726011 TGATTTACAATCATGACATTTTACATACGAGATTTAACGAATCTCGCAGTCCACTGATTTATGAT
1 TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
*
33726076 CACAACCTTTTAGTTACGAGATTTTATGAATCT-TGCGGTCCGC
66 CACAACCTTTTACTTACG-GATTTTATGAATCTCT-CGGTCCGC
* * **
33726119 TGATTTACGAA--ATGACCTTTTACTTACGAGATTTTACGAATCTCGCGAT-CAGCTGATTTAAA
1 TGATTTAC-AATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCA-CTGATTTATG
* * *
33726181 ATCACGACCTTTTACTTACAGGATTTTATGAATCTCTTGGTCAGC
64 ATCACAACCTTTTACTTAC-GGATTTTATGAATCTCTCGGTCCGC
* * * * *
33726226 TGATTTACAATCACGACCTTCTACTTAC-ATGGTTTTATGAATCTCGCGGTTCATTGATTTATGA
1 TGATTTACAATCACGACCTTTTACTTACGA-GATTTTACGAATCTCGCGGTCCACTGATTTATGA
33726290 TCAC
65 TCAC
33726294 GATCTTCTGC
Statistics
Matches: 238, Mismatches: 35, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
106 4 0.02
107 88 0.37
108 142 0.60
109 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (107 bp):
TGATTTACAATCACGACCTTTTACTTACGAGATTTTACGAATCTCGCGGTCCACTGATTTATGAT
CACAACCTTTTACTTACGGATTTTATGAATCTCTCGGTCCGC
Found at i:33726358 original size:23 final size:23
Alignment explanation
Indices: 33726331--33726506 Score: 153
Period size: 23 Copynumber: 7.6 Consensus size: 23
33726321 TCTTATGTAT
33726331 TACAATACAGTTCGTAGAAATTC
1 TACAATACAGTTCGTAGAAATTC
33726354 TACAATACAGTTCGTAGAAATTC
1 TACAATACAGTTCGTAGAAATTC
* * *
33726377 TACAATACAATTCATAG-TATTGC
1 TACAATACAGTTCGTAGAAATT-C
* * *
33726400 TATAAATACAGTTCGTTGTAATTC
1 TA-CAATACAGTTCGTAGAAATTC
* * *
33726424 TACAACACAATTC--ACAATATTTC
1 TACAATACAGTTCGTAGAA-A-TTC
* ** *
33726447 TATAAATACAGTTCACAGTAATTC
1 TA-CAATACAGTTCGTAGAAATTC
*
33726471 TACAATACAGTTCGT-GACATTC
1 TACAATACAGTTCGTAGAAATTC
33726493 TACAATACAGTTCG
1 TACAATACAGTTCG
33726507 CAACATTTTT
Statistics
Matches: 121, Mismatches: 24, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
21 1 0.01
22 23 0.19
23 64 0.53
24 27 0.22
25 4 0.03
26 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (23 bp):
TACAATACAGTTCGTAGAAATTC
Found at i:33726412 original size:47 final size:47
Alignment explanation
Indices: 33726357--33726479 Score: 174
Period size: 47 Copynumber: 2.6 Consensus size: 47
33726347 GAAATTCTAC
* * *
33726357 AATACAGTTCGTAGAAATTCTACAATACAATTCATAGTATTGCTATA
1 AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
* * *
33726404 AATACAGTTCGTTGTAATTCTACAACACAATTCACAATATTTCTATA
1 AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
**
33726451 AATACAGTTCACAGTAATTCTACAATACA
1 AATACAGTTCGTAGTAATTCTACAATACA
33726480 GTTCGTGACA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (47 bp):
AATACAGTTCGTAGTAATTCTACAATACAATTCACAATATTGCTATA
Found at i:33726423 original size:70 final size:70
Alignment explanation
Indices: 33726334--33726532 Score: 178
Period size: 70 Copynumber: 2.9 Consensus size: 70
33726324 TATGTATTAC
* * * *
33726334 AATACAGTTCGTAGAAATTCTACAATACAGTTCGTAGAA-A-TTCTA-CAATACAATTCATAGT-
1 AATACAGTTCGTTG-AATTCTACAATACAGTTCG-ACAATATTTCTATAAATACAATTCACAGTA
33726395 ATTGCTATA
64 ATT-CTA-A
* * *
33726404 AATACAGTTCGTTGTAATTCTACAACACAATTC-ACAATATTTCTATAAATACAGTTCACAGTAA
1 AATACAGTTCGTTG-AATTCTACAATACAGTTCGACAATATTTCTATAAATACAATTCACAGTAA
*
33726468 TTCTAC
65 TTCTAA
* * * * *
33726474 AATACAGTTCG-TGACATTCTACAATACAGTTCG-CAACATTTTTGTAAATATAGTTCACA
1 AATACAGTTCGTTGA-ATTCTACAATACAGTTCGACAATATTTCTATAAATACAATTCACA
33726533 AAATATTCTA
Statistics
Matches: 108, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
68 4 0.04
69 40 0.37
70 45 0.42
71 16 0.15
72 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (70 bp):
AATACAGTTCGTTGAATTCTACAATACAGTTCGACAATATTTCTATAAATACAATTCACAGTAAT
TCTAA
Found at i:33726528 original size:24 final size:24
Alignment explanation
Indices: 33726496--33726605 Score: 114
Period size: 24 Copynumber: 4.6 Consensus size: 24
33726486 GACATTCTAC
*
33726496 AATACAGTTCGCAACATTTTTGTA
1 AATACAGTTCGCAACATTTCTGTA
* * * *
33726520 AATATAGTTCACAAAATATTCTAT-
1 AATACAGTTCGCAACAT-TTCTGTA
* * *
33726544 AATATAGTTCGCGACATTTCTATA
1 AATACAGTTCGCAACATTTCTGTA
* *
33726568 AATACAGTTCGTAGCATTTCTGTA
1 AATACAGTTCGCAACATTTCTGTA
33726592 AATACAGTTCGCAA
1 AATACAGTTCGCAA
33726606 TATTCTACAA
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
23 6 0.09
24 59 0.86
25 4 0.06
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (24 bp):
AATACAGTTCGCAACATTTCTGTA
Found at i:33726592 original size:72 final size:69
Alignment explanation
Indices: 33726442--33726615 Score: 197
Period size: 72 Copynumber: 2.5 Consensus size: 69
33726432 AATTCACAAT
* ** * *
33726442 ATTTCTATAAATACAGTTCACAGTAATTCTACAATACAGTTCGTGACATTCTACAATACAGTTCG
1 ATTTCTGTAAATACAGTTCACAAAAATTCTACAATACAGTTCGCGACATTCTAAAATACAGTTCG
33726507 CAAC
66 CAAC
* * * *
33726511 ATTTTTGTAAATATAGTTCACAAAATATTCTATAATATAGTTCGCGACATTTCTATAAATACAGT
1 ATTTCTGTAAATACAGTTCACAAAA-ATTCTACAATACAGTTCGCGACA-TTCTA-AAATACAGT
* *
33726576 TCGTAGC
63 TCGCAAC
* *
33726583 ATTTCTGTAAATACAGTTCGC-AATATTCTACAA
1 ATTTCTGTAAATACAGTTCACAAAAATTCTACAA
33726616 CATGGTTCGT
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
69 20 0.23
70 28 0.33
71 7 0.08
72 31 0.36
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (69 bp):
ATTTCTGTAAATACAGTTCACAAAAATTCTACAATACAGTTCGCGACATTCTAAAATACAGTTCG
CAAC
Found at i:33730520 original size:41 final size:41
Alignment explanation
Indices: 33730469--33730651 Score: 165
Period size: 41 Copynumber: 4.5 Consensus size: 41
33730459 TTTAAACAGA
* **
33730469 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCAG
1 TTCACCGGCACTT-AGCCTGATAGGCTTATAGCCTAATTCAG
* * *
33730510 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
* * * * *
33730551 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAG
* * * * * *
33730592 TTCACCGGCATTTAGCCTGCTAGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAG
33730633 TTCACCGGCACTTAGCCTG
1 TTCACCGGCACTTAGCCTG
33730652 CTAGACGTAT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 125 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
Found at i:33730652 original size:41 final size:41
Alignment explanation
Indices: 33730504--33730665 Score: 254
Period size: 41 Copynumber: 4.0 Consensus size: 41
33730494 TTATAGTTTA
* * * *
33730504 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-G
*
33730545 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
*
33730586 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
33730627 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
33730666 TGAATAATTT
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 112 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
Found at i:33734471 original size:3 final size:3
Alignment explanation
Indices: 33734465--33734528 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
33734455 CTTATATCTT
* * *
33734465 TAA TAA TAA TAA TAA TAC TTA TAA TATT TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* *
33734510 TAA T-A CAA TAA TAA AAA TA
1 TAA TAA TAA TAA TAA TAA TA
33734529 TGTTTAACAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 3 0.06
3 43 0.90
4 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:33734472 original size:27 final size:28
Alignment explanation
Indices: 33734442--33734508 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 28
33734432 AAATATGTTG
*
33734442 AATAATAATAATACTTAT-ATCTTTAAT
1 AATAATAATAATACTTATAATATTTAAT
33734469 AATAATAATAATACTTATAATATTTAAT
1 AATAATAATAATACTTATAATATTTAAT
33734497 AATAATAA-AATA
1 AATAATAATAATA
33734509 ATAATACAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (28 bp):
AATAATAATAATACTTATAATATTTAAT
Found at i:33734510 original size:11 final size:11
Alignment explanation
Indices: 33734494--33734523 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33734484 TATAATATTT
33734494 AATAATAATAA
1 AATAATAATAA
*
33734505 AATAATAATAC
1 AATAATAATAA
33734516 AATAATAA
1 AATAATAA
33734524 AAATATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAATAATAA
Found at i:33734521 original size:25 final size:25
Alignment explanation
Indices: 33734466--33734528 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
33734456 TTATATCTTT
* *
33734466 AATAATAATAATAATACTTATAATA
1 AATAATAATAATAATAATAATAATA
**
33734491 TTTAATAATAATAA-AATAATAATA
1 AATAATAATAATAATAATAATAATA
*
33734515 CAATAATAAAAATA
1 -AATAATAATAATA
33734529 TGTTTAACAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (25 bp):
AATAATAATAATAATAATAATAATA
Found at i:33734738 original size:3 final size:3
Alignment explanation
Indices: 33734724--33734785 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
33734714 AGCCAACTCC
*
33734724 TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33734772 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
33734786 TGTTATTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33735226 original size:93 final size:94
Alignment explanation
Indices: 33735113--33735286 Score: 244
Period size: 93 Copynumber: 1.9 Consensus size: 94
33735103 CTGTGTTACG
* * *
33735113 TAATTAATGGAAGCAATAAAAA-ACATTGCTAAATCAACCAAAATGCTGAATGTTAGG-TATTTA
1 TAATTAATGGAAGCAATAAAAAGA-ATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTA
*
33735176 TGGGGAATTATATATTAAAGCTTTGATACA
65 TGGGGAATTATAAATTAAAGCTTTGATACA
** * * *
33735206 TAATTAATGTCAGGAATAAAAAGAATTGTTAAAGCAACCAAATTACAGAATGTTAGGATATTTAT
1 TAATTAATGGAAGCAATAAAAAGAATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTAT
33735271 GGGGAATTATAAATTA
66 GGGGAATTATAAATTA
33735287 TTCATACGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
93 47 0.67
94 23 0.33
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (94 bp):
TAATTAATGGAAGCAATAAAAAGAATTGCTAAAGCAACCAAAATACAGAATGTTAGGATATTTAT
GGGGAATTATAAATTAAAGCTTTGATACA
Found at i:33736180 original size:14 final size:14
Alignment explanation
Indices: 33736147--33736181 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
33736137 AGTGTTGTGA
*
33736147 AAAAAGTACTTTAG
1 AAAAATTACTTTAG
*
33736161 AAAAATTACTTTTG
1 AAAAATTACTTTAG
33736175 AAAAATT
1 AAAAATT
33736182 CGATAGTGTT
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:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (14 bp):
AAAAATTACTTTAG
Found at i:33744414 original size:3 final size:3
Alignment explanation
Indices: 33744406--33744478 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
33744396 CTTTGATTCA
33744406 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33744454 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
33744479 TATTGGAAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33744965 original size:17 final size:16
Alignment explanation
Indices: 33744943--33745156 Score: 123
Period size: 17 Copynumber: 12.5 Consensus size: 16
33744933 GAATTTTTTC
33744943 TTTTGAAAACACGAGAA-
1 TTTTG-AAACACGA-AAT
*
33744960 TTTTG-AACTAC-AATT
1 TTTTGAAAC-ACGAAAT
33744975 TTTTTGAAAACACGAAAAT
1 T-TTTG-AAACACG-AAAT
*
33744994 TTTTGAGACACGAAA-
1 TTTTGAAACACGAAAT
*
33745009 ATTTGAAAACAC-AAAT
1 TTTTG-AAACACGAAAT
* * *
33745025 TTTTGATACATGAATTT
1 TTTTGAAACACGAA-AT
*
33745042 TTTTAAAACACGAAAAT
1 TTTTGAAACACG-AAAT
33745059 TTTTGAAAACACGAAAAT
1 TTTTG-AAACACG-AAAT
33745077 TTTTGAAACACGAGAAT
1 TTTTGAAACACGA-AAT
33745094 TTTTGAAACACGGGAAATTT
1 TTTTGAAACAC--GAAA--T
* *
33745114 TTTTGAAAACACTAAAAA
1 TTTTG-AAACAC-GAAAT
* *
33745132 TTTCGAAACACCGGAAT
1 TTTTGAAACA-CGAAAT
33745149 TTTTGAAA
1 TTTTGAAA
33745157 ACATGAAGAT
Statistics
Matches: 155, Mismatches: 22, Indels: 40
0.71 0.10 0.18
Matches are distributed among these distances:
14 1 0.01
15 16 0.10
16 21 0.14
17 63 0.41
18 33 0.21
19 6 0.04
20 9 0.06
21 6 0.04
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (16 bp):
TTTTGAAACACGAAAT
Found at i:33744998 original size:18 final size:18
Alignment explanation
Indices: 33744975--33745216 Score: 161
Period size: 17 Copynumber: 13.9 Consensus size: 18
33744965 AACTACAATT
33744975 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
33744993 TTTTTG-AGACACGAAAA
1 TTTTTGAAAACACGAAAA
33745010 --TTTGAAAACAC--AAA
1 TTTTTGAAAACACGAAAA
* * *
33745024 TTTTTG-ATACATG-AAT
1 TTTTTGAAAACACGAAAA
*
33745040 TTTTTTAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
33745058 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
33745076 TTTTTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
33745093 TTTTTG-AAACACGGGAAATT
1 TTTTTGAAAACAC--GAAA-A
*
33745113 TTTTTGAAAACACTAAAA
1 TTTTTGAAAACACGAAAA
* * *
33745131 ATTTCG-AAACACCG-GAA
1 TTTTTGAAAACA-CGAAAA
* *
33745148 TTTTTGAAAACATGAAGA
1 TTTTTGAAAACACGAAAA
* * *
33745166 TTTAT-AAAATATC-AGAA
1 TTTTTGAAAACA-CGAAAA
* * *
33745183 TTTTTGAAAACATGAGGAT
1 TTTTTGAAAACACGA-AAA
33745202 TTTTTG-AAACACGAA
1 TTTTTGAAAACACGAA
33745217 TTTTTCGATT
Statistics
Matches: 172, Mismatches: 35, Indels: 35
0.71 0.14 0.14
Matches are distributed among these distances:
14 3 0.02
15 8 0.05
16 16 0.09
17 60 0.35
18 59 0.34
19 14 0.08
20 6 0.03
21 6 0.03
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:33745207 original size:19 final size:17
Alignment explanation
Indices: 33745147--33745210 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
33745137 AAACACCGGA
33745147 ATTTTTGAAAACATGAAG
1 ATTTTTGAAAACATG-AG
* * *
33745165 ATTTAT-AAAATATCAG
1 ATTTTTGAAAACATGAG
33745181 AATTTTTGAAAACATGAGG
1 -ATTTTTGAAAACATGA-G
33745200 ATTTTTTGAAA
1 A-TTTTTGAAA
33745211 CACGAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
16 2 0.06
17 11 0.31
18 13 0.36
19 10 0.28
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.38
Consensus pattern (17 bp):
ATTTTTGAAAACATGAG
Found at i:33745535 original size:16 final size:16
Alignment explanation
Indices: 33745499--33745541 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
33745489 TACCTTGTTT
*
33745499 ATTAAAAT-AATTTAA
1 ATTAAAATAAAATTAA
*
33745514 AATAAAATAAAATTAA
1 ATTAAAATAAAATTAA
*
33745530 ATTAAATTAAAA
1 ATTAAAATAAAA
33745542 ATATAGATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAAAATAAAATTAA
Found at i:33745749 original size:20 final size:21
Alignment explanation
Indices: 33745724--33745779 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
33745714 TTGGGCCCTT
33745724 TTTTTTCTTTTTT-TCTTCCC
1 TTTTTTCTTTTTTCTCTTCCC
**
33745744 TTTTTTCTTTTCTTCTCTTTTC
1 TTTTTTCTTTT-TTCTCTTCCC
33745766 -TTTTTCTTTTTTCT
1 TTTTTTCTTTTTTCT
33745780 ACTGGGCTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.47
21 12 0.38
22 5 0.16
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTCTTTTTTCTCTTCCC
Found at i:33745756 original size:17 final size:16
Alignment explanation
Indices: 33745733--33745773 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
33745723 TTTTTTTCTT
*
33745733 TTTTTCTTCCCTTTTT
1 TTTTTCTTCCCTTTTC
*
33745749 TCTTTTCTTCTCTTTTC
1 T-TTTTCTTCCCTTTTC
33745766 TTTTTCTT
1 TTTTTCTT
33745774 TTTTCTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTTCCCTTTTC
Found at i:33745817 original size:17 final size:17
Alignment explanation
Indices: 33745778--33745828 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
33745768 TTTCTTTTTT
*
33745778 CTACTGGG-CTGTTGGG
1 CTACTGGGCCTGCTGGG
*
33745794 CGAACTGGGCCTGCTGGG
1 C-TACTGGGCCTGCTGGG
33745812 CTACTGCAGGCCTGCTG
1 CTACTG--GGCCTGCTG
33745829 CTGATGGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 1 0.04
17 10 0.36
18 8 0.29
19 9 0.32
ACGTcount: A:0.10, C:0.27, G:0.39, T:0.24
Consensus pattern (17 bp):
CTACTGGGCCTGCTGGG
Found at i:33745867 original size:19 final size:19
Alignment explanation
Indices: 33745833--33745869 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33745823 CTGCTGCTGA
*
33745833 TGGCCTGCTGATTTGGGCC
1 TGGCCTGCTGAGTTGGGCC
*
33745852 TGGCCTGCTGCGTTGGGC
1 TGGCCTGCTGAGTTGGGC
33745870 TGCTGCTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.27, G:0.41, T:0.30
Consensus pattern (19 bp):
TGGCCTGCTGAGTTGGGCC
Found at i:33746058 original size:11 final size:11
Alignment explanation
Indices: 33746042--33746069 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
33746032 TCCTTCTTTC
33746042 TTCTTCCCCTT
1 TTCTTCCCCTT
33746053 TTCTTCCCCTT
1 TTCTTCCCCTT
33746064 TTCTTC
1 TTCTTC
33746070 TTTCTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (11 bp):
TTCTTCCCCTT
Found at i:33746075 original size:7 final size:7
Alignment explanation
Indices: 33746063--33746108 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
33746053 TTCTTCCCCT
33746063 TTTCTTC
1 TTTCTTC
*
33746070 TTTCTTT
1 TTTCTTC
33746077 TTTCTTC
1 TTTCTTC
33746084 --T-TTC
1 TTTCTTC
33746088 TTTCTTC
1 TTTCTTC
33746095 TTTCTTC
1 TTTCTTC
33746102 TTTCTTC
1 TTTCTTC
33746109 CTTACTTCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 3 0.09
5 1 0.03
6 1 0.03
7 29 0.85
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTCTTC
Found at i:33746076 original size:4 final size:4
Alignment explanation
Indices: 33746063--33746121 Score: 56
Period size: 4 Copynumber: 16.0 Consensus size: 4
33746053 TTCTTCCCCT
33746063 TTTC -TTC TTTC TTT- TTTC -TTC TTTC TTTC -TTC TTTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
* * *
33746106 TTCC TTAC TTCC TTTC
1 TTTC TTTC TTTC TTTC
33746122 CCGATCAGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
3 15 0.33
4 31 0.67
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:33746637 original size:30 final size:29
Alignment explanation
Indices: 33746603--33746699 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 29
33746593 GGCCAAAACA
*
33746603 TAATTTTAAGAAAGTTTAAGGGTTAAAATG
1 TAATTTTAA-AAAGTTTAAGGGTTGAAATG
* *
33746633 TAATTTTGAAAAATTTTAGGGGTTGAAATG
1 TAATTTT-AAAAAGTTTAAGGGTTGAAATG
* *
33746663 TAATTTCAAAAAAAG-TTAAGGGTCGAAATG
1 TAATTT--TAAAAAGTTTAAGGGTTGAAATG
*
33746693 CAATTTT
1 TAATTTT
33746700 TTTAAAAACA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
30 48 0.87
31 7 0.13
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (29 bp):
TAATTTTAAAAAGTTTAAGGGTTGAAATG
Found at i:33746984 original size:76 final size:78
Alignment explanation
Indices: 33746916--33747794 Score: 914
Period size: 79 Copynumber: 11.3 Consensus size: 78
33746906 TGAGTTGACC
* * * * *
33746916 TTTGAAAAATAGAAATT-GAAAAATACATCGGTATGTGACCTGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
33746980 TATGAGTTGA-TT
66 TATGAGTTGATTT
* * ** * *
33746992 TTTGAAAAA-A-AAATT-AAAAAATACCTCAGTATGTGACTGGAAGCTCAACTCACCTCTAGCAA
1 TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
*
33747054 TATAAGTTGA-TT
66 TATGAGTTGATTT
* * * * * * *
33747066 TTTGAAAAGCAGAAATT-GAAAAATACCTTGGTATGTGACCCGAGACTCAACTCACTTGTCGCAA
1 TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
33747130 TATGAGTTGATTT
66 TATGAGTTGATTT
* *
33747143 TTTGAAGAGCAAAAAAAAAATTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTC
1 TTT---GA--AAAACAGAAATTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTC
33747208 TCGCAATATGAGTTGATTTT
60 TCGCAATATGAGTTGA-TTT
* *
33747228 TTTGAAAAACAAAAATTAAAAAAATACCTCGGCGTGTGACCCGAGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCC--GAGGCTCAACTCACCTCTCGC
33747293 AATATGAGTTGA-TT
64 AATATGAGTTGATTT
* ** *
33747307 ATTGAAAAAACAGAAATTTAAAAGAAATACCTTAGCATGTG-TCCGAGGCTCAACTCACCTCTCG
1 TTTG-AAAAACAGAAA-TTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG
*
33747371 TAATATGAGTTGA-TT
63 CAATATGAGTTGATTT
* * **
33747386 TTTGAAAAACA-AATTTAAAAGAAATACCTCGGCATATG-TTCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
**
33747449 ATATGAGTCAATTTT
65 ATATGAGTTGA-TTT
* ** * *
33747464 TTTGAAAAATAGAAATTAAAAAAAATACCTCGGCATGTG-TTCGAGGTTCAACTCACCTCTCGTA
1 TTTGAAAAACAGAAATT-AAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
33747528 ATATGAGTTGATTT
65 ATATGAGTTGATTT
** ** * * *
33747542 TTTTTAAAACAGAAATTAAAAAAAATATTTTGGCGTGCGACCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATT-AAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
33747607 ATATGAGTTGATTTT
65 ATATGAGTTGA-TTT
* * *
33747622 TTTGAAAAATAGAAATT--AAAAATACCTCAGC--GTAACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
33747683 TATGAGTTGATCTT
66 TATGAGTTGAT-TT
*** * * * * * * *
33747697 TTTGAAAAGTGGAAATT--GAAAATACCTCAGCGTGCGGCCCAAGGCTCAACTCACCTCTCGCAT
1 TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
33747760 TATGAGTTGATTT
66 TATGAGTTGATTT
* *
33747773 TTTGAAAAACATAAATTGAAAA
1 TTTGAAAAACAGAAATTAAAAA
33747795 TATAATTCTT
Statistics
Matches: 688, Mismatches: 88, Indels: 52
0.83 0.11 0.06
Matches are distributed among these distances:
74 65 0.09
75 70 0.10
76 128 0.19
77 53 0.08
78 55 0.08
79 146 0.21
80 48 0.07
81 41 0.06
82 25 0.04
83 2 0.00
84 49 0.07
85 6 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (78 bp):
TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTT
Found at i:33747490 original size:155 final size:157
Alignment explanation
Indices: 33746916--33747781 Score: 903
Period size: 155 Copynumber: 5.6 Consensus size: 157
33746906 TGAGTTGACC
* * * * *
33746916 TTTGAAAAATAGAAATT-GAAAAATACATCGGTATGTGACCTGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
* ** *
33746980 TATGAGTTGA--TTTTTGAAAAA-A-AAATT--AAAAAATACCTCAGTATGTGACTGGAAGCTCA
66 TATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAAATACCTCAGCATGTG-CCCGAGGCTCA
* *
33747039 ACTCACCTCTAGCAATATAAGTTGA-TT
130 ACTCACCTCTCGCAATATGAGTTGATTT
* * * * * * *
33747066 TTTGAAAAGCAGAAATT-GAAAAATACCTTGGTATGTGACCCGAGACTCAACTCACTTGTCGCAA
1 TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
* * * * *
33747130 TATGAGTTGATTTTTTGAAGAGCAAAAAAAAAATTAAAAGAAATACCTCGGCATGTGACCCGAGG
66 TATGAGTTGATTTTTT--TGA--AAAATAGAAATTAAAAAAAATACCTCAGCATGTG-CCCGAGG
33747195 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
126 CTCAACTCACCTCTCGCAATATGAGTTGA-TTT
* *
33747228 TTTGAAAAACAAAAATTAAAAAAATACCTCGGCGTGTGACCCGAGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCC--GAGGCTCAACTCACCTCTCGC
* * * * *
33747293 AATATGAGTTGA--TTATTGAAAAAACAGAAATTTAAAAGAAATACCTTAGCATGTGTCCGAGGC
64 AATATGAGTTGATTTTTTTG-AAAAATAGAAA-TTAAAAAAAATACCTCAGCATGTGCCCGAGGC
*
33747356 TCAACTCACCTCTCGTAATATGAGTTGA-TT
127 TCAACTCACCTCTCGCAATATGAGTTGATTT
* * **
33747386 TTTGAAAAACA-AATTTAAAAGAAATACCTCGGCATATG-TTCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTAAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
** * ** *
33747449 ATATGAGTCAATTTTTTTGAAAAATAGAAATTAAAAAAAATACCTCGGCATGTGTTCGAGGTTCA
65 ATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAAATACCTCAGCATGTGCCCGAGGCTCA
*
33747514 ACTCACCTCTCGTAATATGAGTTGATTT
130 ACTCACCTCTCGCAATATGAGTTGATTT
** ** * * *
33747542 TTTTTAAAACAGAAATTAAAAAAAATATTTTGGCGTGCGACCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATT-AAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
*
33747607 ATATGAGTTGATTTTTTTGAAAAATAGAAATT---AAAAATACCTCAGC--GTAACCCGAGGCTC
65 ATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAAATACCTCAGCATGT-GCCCGAGGCTC
33747667 AACTCACCTCTCGCAATATGAGTTGATCTT
129 AACTCACCTCTCGCAATATGAGTTGAT-TT
*** * * * * * * *
33747697 TTTGAAAAGTGGAAATT--GAAAATACCTCAGCGTGCGGCCCAAGGCTCAACTCACCTCTCGCAT
1 TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
33747760 TATGAGTTGA-TTTTTTGAAAAA
66 TATGAGTTGATTTTTTTGAAAAA
33747782 CATAAATTGA
Statistics
Matches: 610, Mismatches: 80, Indels: 51
0.82 0.11 0.07
Matches are distributed among these distances:
150 66 0.11
151 12 0.02
152 52 0.09
153 2 0.00
154 35 0.06
155 113 0.19
156 25 0.04
157 30 0.05
158 90 0.15
160 91 0.15
161 23 0.04
162 18 0.03
163 23 0.04
165 30 0.05
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (157 bp):
TTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAAATACCTCAGCATGTGCCCGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTT
Found at i:33747598 original size:234 final size:234
Alignment explanation
Indices: 33746957--33747794 Score: 923
Period size: 234 Copynumber: 3.6 Consensus size: 234
33746947 TATGTGACCT
33746957 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAA-A-AAATTAAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAATACCT
* ** * * * * *
33747018 CAGTATGTGACTGGAAGCTCAACTCACCTCTAGCAATATAAGTTGA-TTTTTGAAAAGCAGAAAT
66 CAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAAT
* * * * *
33747082 T--GAAAAATACCTTGGTATGTGACCCGAGACTCAACTCACTTGTCGCAATATGAGTTGATTTTT
131 TAAAAAAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
33747145 TGAAGAGCAAAAAAAAAATTAAAAGAAATACCTCGGCATGTGACCC
196 T-----G-AAAAAAAAAATTAAAAGAAATACCTCGGCATATG-CCC
* *
33747191 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAAAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATT-AAAAAATACC
* * * **
33747256 TCGGCGTGTGACCCGAGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTGAAAAAACAGA
65 TCAGCATGTGACCC--GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGA
* * * *
33747321 AATTTAAAAGAAATACCTTAGCATGTG-TCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-
128 AA-TTAAAAAAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * **
33747384 TTTTTGAAAAACAAATTTAAAAGAAATACCTCGGCATATGTTC
192 TTTTTGAAAAAAAAAATTAAAAGAAATACCTCGGCATATGCCC
**
33747427 GAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAAAATAGAAATTAAAAAAAATAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATT--AAAAAATAC
* ** * * *
33747492 CTCGGCATGTG-TTCGAGGTTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTAAAACAGAA
64 CTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAA
** * *
33747556 ATTAAAAAAAATATTTTGGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
129 ATTAAAAAAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
* * * *
33747621 TTTTGAAAAATAGAAATT--AA-AAATACCTCAGCGTA-ACCC
193 TTTTGAAAAA-AAAAATTAAAAGAAATACCTCGGCATATGCCC
* * * *
33747660 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTTTGAAAAGTGGAAATT-GAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAATACCT
* * * * * * *
33747724 CAGCGTGCGGCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACATAAAT
66 CAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAAT
*
33747789 TGAAAA
131 TAAAAA
33747795 TATAATTCTT
Statistics
Matches: 513, Mismatches: 74, Indels: 37
0.82 0.12 0.06
Matches are distributed among these distances:
230 15 0.03
231 51 0.10
233 68 0.13
234 125 0.24
235 2 0.00
236 74 0.14
237 56 0.11
238 6 0.01
239 19 0.04
241 30 0.06
242 13 0.03
243 7 0.01
244 31 0.06
245 16 0.03
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (234 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAATACCT
CAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAAT
TAAAAAAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TGAAAAAAAAAATTAAAAGAAATACCTCGGCATATGCCC
Found at i:33748676 original size:29 final size:31
Alignment explanation
Indices: 33748644--33748706 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
33748634 TTCATCTTGA
33748644 TTTTTATTTTTCTTTT-CTT-TTCTTTTTTG
1 TTTTTATTTTTCTTTTACTTATTCTTTTTTG
* * * *
33748673 TTTTTGTTTTTGTTTTATTTATTTTTTTTTG
1 TTTTTATTTTTCTTTTACTTATTCTTTTTTG
33748704 TTT
1 TTT
33748707 CCTTTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 14 0.50
30 2 0.07
31 12 0.43
ACGTcount: A:0.05, C:0.05, G:0.06, T:0.84
Consensus pattern (31 bp):
TTTTTATTTTTCTTTTACTTATTCTTTTTTG
Found at i:33750537 original size:18 final size:19
Alignment explanation
Indices: 33750502--33750537 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33750492 CGAATCTATT
33750502 AATTAAACACGAAACAGAA
1 AATTAAACACGAAACAGAA
*
33750521 AATTAAA-ACGCAACAGA
1 AATTAAACACGAAACAGA
33750538 TCACAACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.61, C:0.17, G:0.11, T:0.11
Consensus pattern (19 bp):
AATTAAACACGAAACAGAA
Found at i:33750872 original size:107 final size:107
Alignment explanation
Indices: 33750686--33751014 Score: 640
Period size: 107 Copynumber: 3.1 Consensus size: 107
33750676 AAACACAATA
*
33750686 AAAGAATTGAAATAAGTTAGATAAAGAAAACGGCACAAGCAGAATTTAAAAGAAAGAATGACCAG
1 AAAGATTTGAAATAAGTTAGATAAAGAAAACGGCACAAGCAGAATTTAAAAGAAAGAATGACCAG
33750751 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
66 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
*
33750793 AAAGATTTGAAATAAGTTAGATAAAGAAAATGGCACAAGCAGAATTTAAAAGAAAGAATGACCAG
1 AAAGATTTGAAATAAGTTAGATAAAGAAAACGGCACAAGCAGAATTTAAAAGAAAGAATGACCAG
33750858 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
66 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
33750900 AAAGATTTGAAATAAGTTAGATAAAGAAAACGGCACAAGCAGAATTTAAAAGAAAGAATGACCAG
1 AAAGATTTGAAATAAGTTAGATAAAGAAAACGGCACAAGCAGAATTTAAAAGAAAGAATGACCAG
33750965 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
66 CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
33751007 AAAGATTT
1 AAAGATTT
33751015 CACAACTCCC
Statistics
Matches: 219, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 219 1.00
ACGTcount: A:0.52, C:0.12, G:0.19, T:0.17
Consensus pattern (107 bp):
AAAGATTTGAAATAAGTTAGATAAAGAAAACGGCACAAGCAGAATTTAAAAGAAAGAATGACCAG
CAAGAAATAAAAGATAAAGTCCTAAGAAGCCTTGAAATCCCG
Found at i:33753222 original size:8 final size:8
Alignment explanation
Indices: 33753209--33753237 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
33753199 TTTCTTGATC
33753209 CTTCTTAG
1 CTTCTTAG
33753217 CTTCTTAG
1 CTTCTTAG
33753225 CTTCTTAG
1 CTTCTTAG
33753233 CTTCT
1 CTTCT
33753238 GTTGAACAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.28, G:0.10, T:0.52
Consensus pattern (8 bp):
CTTCTTAG
Found at i:33758815 original size:16 final size:16
Alignment explanation
Indices: 33758794--33758826 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33758784 TAACAAAACA
33758794 GAAGGACGGATCCAAG
1 GAAGGACGGATCCAAG
33758810 GAAGGACGGATCCAAG
1 GAAGGACGGATCCAAG
33758826 G
1 G
33758827 TGCCCTCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.39, T:0.06
Consensus pattern (16 bp):
GAAGGACGGATCCAAG
Found at i:33759674 original size:11 final size:11
Alignment explanation
Indices: 33759658--33759682 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33759648 GCTTGGGAAG
33759658 ATCAGAGGTGT
1 ATCAGAGGTGT
33759669 ATCAGAGGTGT
1 ATCAGAGGTGT
33759680 ATC
1 ATC
33759683 CTTCCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (11 bp):
ATCAGAGGTGT
Found at i:33761219 original size:18 final size:18
Alignment explanation
Indices: 33761196--33761421 Score: 177
Period size: 17 Copynumber: 12.8 Consensus size: 18
33761186 AACTACAATT
33761196 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
33761214 TTTTTG-AGACACGAAAA
1 TTTTTGAAAACACGAAAA
33761231 --TTTGAAAACAC-AAAA
1 TTTTTGAAAACACGAAAA
*
33761246 -TTTTG-AAACACGAAATTG
1 TTTTTGAAAACACGAAA--A
*
33761264 TTTTTTAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
33761282 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
33761300 TTTTTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
33761317 TTTTTG-AAACACGGGAAATT
1 TTTTTGAAAACAC--GAAA-A
*
33761337 TTTTTGAAAACACTAAAA
1 TTTTTGAAAACACGAAAA
* * * * *
33761355 ATTTCG-AAACA-TAGGAG
1 TTTTTGAAAACACGA-AAA
*
33761372 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* * * *
33761390 TTCTT-AAAATACCAGAA
1 TTTTTGAAAACACGAAAA
33761407 TTTTTGAAAACACGA
1 TTTTTGAAAACACGA
33761422 GGATTTTTTG
Statistics
Matches: 164, Mismatches: 29, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
15 14 0.09
16 14 0.09
17 54 0.33
18 49 0.30
19 11 0.07
20 16 0.10
21 6 0.04
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:33761304 original size:35 final size:34
Alignment explanation
Indices: 33761196--33761447 Score: 163
Period size: 35 Copynumber: 7.2 Consensus size: 34
33761186 AACTACAATT
*
33761196 TTTTTGAAAACACGAAAATTTTTGAGACACGAAAA
1 TTTTT-AAAACACGAAAATTTTTGAAACACGAAAA
* *
33761231 -TTTGAAAACAC-AAAA-TTTTGAAACACGAAATTGT
1 TTTTTAAAACACGAAAATTTTTGAAACACGAAA---A
33761265 TTTTTAAAACACGAAAATTTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAATTTTTG-AAACACGAAAA
* * *
33761300 TTTTTGAAACACGAGAATTTTTGAAACACGGGAAATT
1 TTTTTAAAACACGAAAATTTTTGAAACAC--GAAA-A
* * * * * *
33761337 TTTTTGAAAACACTAAAAATTTCGAAACA-TAGGAG
1 TTTTT-AAAACACGAAAATTTTTGAAACACGA-AAA
* * * * * *
33761372 TTTTTGAAAACACGAAGATTCTTAAAATACCAGAA
1 TTTTT-AAAACACGAAAATTTTTGAAACACGAAAA
* * *
33761407 TTTTTGAAAACACGAGGATTTTTTGAAACAC-AAAT
1 TTTTT-AAAACACGA-AAATTTTTGAAACACGAAAA
33761442 TTTTTA
1 TTTTTA
33761448 TTTTTTTTAA
Statistics
Matches: 170, Mismatches: 33, Indels: 29
0.73 0.14 0.12
Matches are distributed among these distances:
31 14 0.08
32 4 0.02
33 7 0.04
34 10 0.06
35 78 0.46
36 19 0.11
37 10 0.06
38 28 0.16
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (34 bp):
TTTTTAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:33761341 original size:55 final size:50
Alignment explanation
Indices: 33761197--33761446 Score: 159
Period size: 55 Copynumber: 4.8 Consensus size: 50
33761187 ACTACAATTT
* * *
33761197 TTTTGAAAACACGAAAATTTTTGAGACACGAAAA--TTTGAAAACACAAAA
1 TTTTG-AAACACGAAATTTTTTAAAACACGAAAATTTTTGAAAACACAAAA
33761246 TTTTGAAACACGAAATTGTTTTTTAAAACACGAAAATTTTTGAAAACACGAAAA
1 TTTTGAAACACGAAA---TTTTTTAAAACACGAAAATTTTTGAAAACAC-AAAA
* *
33761300 TTTTTGAAACACGAGAA-TTTTTGAAACACGGGAAATTTTTTTGAAAACACTAAAAA
1 -TTTTGAAACACGA-AATTTTTTAAAACAC--GAAA-ATTTTTGAAAACAC--AAAA
* * * * * * * * *
33761356 TTTCGAAACATAGGAGTTTTTGAAAACACGAAGATTCTT-AAAATACCAGAAT
1 TTTTGAAACA-CGAAATTTTTTAAAACACGAAAATTTTTGAAAACA-CA-AAA
* * *
33761408 TTTTGAAAACACGAGGATTTTTTGAAACAC-AAATTTTTT
1 TTTTG-AAACACGA-AATTTTTTAAAACACGAAAATTTTT
33761447 ATTTTTTTTA
Statistics
Matches: 156, Mismatches: 27, Indels: 33
0.72 0.12 0.15
Matches are distributed among these distances:
48 10 0.06
49 5 0.03
51 16 0.10
52 29 0.19
53 32 0.21
54 11 0.07
55 36 0.23
56 17 0.11
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (50 bp):
TTTTGAAACACGAAATTTTTTAAAACACGAAAATTTTTGAAAACACAAAA
Found at i:33761427 original size:18 final size:18
Alignment explanation
Indices: 33761164--33761445 Score: 147
Period size: 17 Copynumber: 16.2 Consensus size: 18
33761154 GAATTTTTTC
33761164 TTTTGAAAACACGAGAA-
1 TTTTGAAAACACGAGAAT
*
33761181 TTTTG--AACTAC-A-ATTT
1 TTTTGAAAAC-ACGAGA-AT
*
33761197 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAGAAT
*
33761215 TTTTG-AGACACGA-AA-
1 TTTTGAAAACACGAGAAT
* *
33761230 ATTTGAAAACAC-A-AAA
1 TTTTGAAAACACGAGAAT
33761246 TTTTG-AAACACGA-AATTGT
1 TTTTGAAAACACGAGAA---T
* *
33761265 TTTTTAAAACACGAAAAT
1 TTTTGAAAACACGAGAAT
*
33761283 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAGAAT
33761301 TTTTG-AAACACGAGAAT
1 TTTTGAAAACACGAGAAT
*
33761318 TTTTG-AAACACGGGAAATTT
1 TTTTGAAAACACGAG-AA--T
* * *
33761338 TTTTGAAAACACTAAAAA
1 TTTTGAAAACACGAGAAT
* * *
33761356 TTTCG-AAACA-TAGGAGT
1 TTTTGAAAACACGA-GAAT
33761373 TTTTGAAAACACGA-AGAT
1 TTTTGAAAACACGAGA-AT
* * *
33761391 TCTT-AAAATACCAGAAT
1 TTTTGAAAACACGAGAAT
*
33761408 TTTTGAAAACACGAGGATT
1 TTTTGAAAACACGA-GAAT
33761427 TTTTG-AAACAC-A-AAT
1 TTTTGAAAACACGAGAAT
33761442 TTTT
1 TTTT
33761446 TATTTTTTTT
Statistics
Matches: 209, Mismatches: 30, Indels: 54
0.71 0.10 0.18
Matches are distributed among these distances:
14 1 0.00
15 23 0.11
16 23 0.11
17 62 0.30
18 62 0.30
19 14 0.07
20 16 0.08
21 8 0.04
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTGAAAACACGAGAAT
Found at i:33761960 original size:7 final size:7
Alignment explanation
Indices: 33761948--33762013 Score: 57
Period size: 7 Copynumber: 9.6 Consensus size: 7
33761938 CTTGGGCCCC
33761948 TTCTTTT
1 TTCTTTT
33761955 TTCTTTT
1 TTCTTTT
33761962 TTC-TTT
1 TTCTTTT
*
33761968 TT-TTCT
1 TTCTTTT
* *
33761974 TCCATTT
1 TTCTTTT
33761981 TTCTTTTT
1 TTC-TTTT
*
33761989 CTTCTCTT
1 -TTCTTTT
33761997 TTC-TTT
1 TTCTTTT
33762003 TTCTTTT
1 TTCTTTT
33762010 TTCT
1 TTCT
33762014 GCTGGGCTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
6 13 0.28
7 24 0.52
8 6 0.13
9 3 0.07
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (7 bp):
TTCTTTT
Found at i:33761968 original size:6 final size:6
Alignment explanation
Indices: 33761952--33762010 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
33761942 GGCCCCTTCT
* *
33761952 TTTTTC TTTTTTC TTTTT- TTCTTCC ATTTTTC TTTTTC -TTCTC -TTTTC
1 TTTTTC -TTTTTC TTTTTC TT-TTTC -TTTTTC TTTTTC TTTTTC TTTTTC
33762000 TTTTTC TTTTT
1 TTTTTC TTTTT
33762011 TCTGCTGGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
5 10 0.23
6 23 0.52
7 9 0.20
8 2 0.05
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:33762253 original size:7 final size:7
Alignment explanation
Indices: 33762241--33762302 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
33762231 TAAAAAAATA
33762241 TTTTCTT
1 TTTTCTT
33762248 TTTTCTT
1 TTTTCTT
33762255 TTTTC-T
1 TTTTCTT
*
33762261 TTTCCTT
1 TTTTCTT
*
33762268 CTTTCTT
1 TTTTCTT
* * **
33762275 CTTCCCC
1 TTTTCTT
33762282 TTTTCTT
1 TTTTCTT
*
33762289 CTTTCTT
1 TTTTCTT
33762296 TTTTCTT
1 TTTTCTT
33762303 CCTTACTTCC
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
6 5 0.12
7 37 0.88
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTCTT
Found at i:33762260 original size:14 final size:14
Alignment explanation
Indices: 33762241--33762303 Score: 65
Period size: 14 Copynumber: 4.6 Consensus size: 14
33762231 TAAAAAAATA
* *
33762241 TTTTCTTTTTTCTT
1 TTTTCTTCTTCCTT
33762255 TTTTCTT-TTCCTT
1 TTTTCTTCTTCCTT
* **
33762268 CTTTCTTCTTCCCC
1 TTTTCTTCTTCCTT
*
33762282 TTTTCTTCTTTCTT
1 TTTTCTTCTTCCTT
33762296 TTTTCTTC
1 TTTTCTTC
33762304 CTTACTTCCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
13 11 0.28
14 29 0.73
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCTTCTTCCTT
Found at i:33762438 original size:25 final size:24
Alignment explanation
Indices: 33762409--33762456 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
33762399 GTCCCTTTCC
33762409 CTCTTTTTCTCCTTTTTCTTCTTTG
1 CTCTTTTTCTCCTTTTT-TTCTTTG
*
33762434 CTCTTTTTCTTCTTTTTTTCTTT
1 CTCTTTTTCTCCTTTTTTTCTTT
33762457 TTGCTTGCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (24 bp):
CTCTTTTTCTCCTTTTTTTCTTTG
Found at i:33762454 original size:8 final size:9
Alignment explanation
Indices: 33762410--33762458 Score: 59
Period size: 8 Copynumber: 5.8 Consensus size: 9
33762400 TCCCTTTCCC
33762410 TCTTTTTCT
1 TCTTTTTCT
*
33762419 CCTTTTTCT
1 TCTTTTTCT
*
33762428 TC-TTTGC-
1 TCTTTTTCT
33762435 TCTTTTTCT
1 TCTTTTTCT
33762444 TCTTTTT-T
1 TCTTTTTCT
33762452 TCTTTTT
1 TCTTTTT
33762459 GCTTGCGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
7 2 0.06
8 16 0.47
9 16 0.47
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:33763804 original size:17 final size:18
Alignment explanation
Indices: 33763777--33763810 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33763767 TAATAATTTA
33763777 TTTTGAAATAAAATAAAG
1 TTTTGAAATAAAATAAAG
*
33763795 TTTT-AAATAATATAAA
1 TTTTGAAATAAAATAAA
33763811 ATTATAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TTTTGAAATAAAATAAAG
Found at i:33768740 original size:42 final size:42
Alignment explanation
Indices: 33768692--33768848 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 42
33768682 CATGTTTTAC
* **
33768692 TTTCCGTTCAGCTCTTTGGAGCTTCTGTTTAATTCATATGAG
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCATATGAG
* * *
33768734 TTTCCGTTAAGCTCTTTTGAGCTTCTGTTTAACCCCTATGGG
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCATATGAG
* * * *
33768776 TTTCTGTTCAGCT-TTTATGAGCTTCTGTTCAACCCTTATGGG
1 TTTCCGTTCAGCTCTTT-TGAGCTTCTGTTTAACCCATATGAG
** * * **
33768818 TTTTTGTTTAGCTGTCATGAGCTTCTGTTTA
1 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTA
33768849 GCCTCTAGGC
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 3 0.03
42 94 0.96
43 1 0.01
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCATATGAG
Found at i:33768794 original size:21 final size:21
Alignment explanation
Indices: 33768770--33768830 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
33768760 GTTTAACCCC
*
33768770 TATGGGTTTCTGTTCAGCTTT
1 TATGGGTTTCTGTTCAGCTCT
* * * *
33768791 TATGAGCTTCTGTTCAACCCT
1 TATGGGTTTCTGTTCAGCTCT
* *
33768812 TATGGGTTTTTGTTTAGCT
1 TATGGGTTTCTGTTCAGCT
33768831 GTCATGAGCT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.49
Consensus pattern (21 bp):
TATGGGTTTCTGTTCAGCTCT
Done.