Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 64 of 196
Found at i:18355285 original size:20 final size:18
Alignment explanation
Indices: 18355248--18355294 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
18355238 TTGAGAGGGT
18355248 TAAAAGCAAAGCAAGAGAAA
1 TAAAAGCAAAGCAAGAG--A
*
18355268 TAAAAGCATAG-AACGAGA
1 TAAAAGCAAAGCAA-GAGA
18355286 TAAAAGCAA
1 TAAAAGCAA
18355295 TGTGCATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 9 0.38
19 2 0.08
20 13 0.54
ACGTcount: A:0.62, C:0.11, G:0.19, T:0.09
Consensus pattern (18 bp):
TAAAAGCAAAGCAAGAGA
Found at i:18361095 original size:16 final size:17
Alignment explanation
Indices: 18361056--18361097 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
18361046 TGAAAAAGAG
*
18361056 ATTCTATTTTAATTTGT
1 ATTCAATTTTAATTTGT
*
18361073 -TTTAATTTTAATTT-T
1 ATTCAATTTTAATTTGT
18361088 ATTCAATTTT
1 ATTCAATTTT
18361098 CGTTTGCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTCAATTTTAATTTGT
Found at i:18364097 original size:33 final size:33
Alignment explanation
Indices: 18364055--18364121 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
18364045 TGGTTAAATG
18364055 TTTCAATTGTGGTGCCAATTAGGGCATAGTGGT
1 TTTCAATTGTGGTGCCAATTAGGGCATAGTGGT
*
18364088 TTTCAATTGTGGTGCCAATTAGGGCATATTGGT
1 TTTCAATTGTGGTGCCAATTAGGGCATAGTGGT
18364121 T
1 T
18364122 AGACACTTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.12, G:0.28, T:0.39
Consensus pattern (33 bp):
TTTCAATTGTGGTGCCAATTAGGGCATAGTGGT
Found at i:18375691 original size:115 final size:114
Alignment explanation
Indices: 18375558--18375800 Score: 371
Period size: 115 Copynumber: 2.1 Consensus size: 114
18375548 GTCAATTTGG
* **
18375558 TATCAATACCAATATACAGTATCGATACTTATCTTCAAAGATCGGTACTTTATAAAGGTATC-GA
1 TATCAATACCAATATACAGTATCGATACTTATCTCCAAAGATCAATACTTTATAAAGGTATCAG-
*
18375622 TACAGGTTGACTTGTCTCCAAATTTTTGAAAAAGGCTAAATGCCAAAATGA
65 TACAGGTTGACTTGTCTCCAAATTTTTG-AAAAGGCTAAATGCCAAAACGA
* *
18375673 TATCAATACCAATATACAGTATTGATATTTATCTCCAAAGATCAATACTTTATAAAGGTATCAGT
1 TATCAATACCAATATACAGTATCGATACTTATCTCCAAAGATCAATACTTTATAAAGGTATCAGT
* * *
18375738 ACAGGTTGGCTTGTGTCCAAATTTTTGAAATGGCTAAATGCCAAAACGA
66 ACAGGTTGACTTGTCTCCAAATTTTTGAAAAGGCTAAATGCCAAAACGA
18375787 TATCAATACGCAAT
1 TATCAATAC-CAAT
18375801 TTGGTATCGA
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
114 29 0.25
115 87 0.74
116 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (114 bp):
TATCAATACCAATATACAGTATCGATACTTATCTCCAAAGATCAATACTTTATAAAGGTATCAGT
ACAGGTTGACTTGTCTCCAAATTTTTGAAAAGGCTAAATGCCAAAACGA
Found at i:18376076 original size:20 final size:20
Alignment explanation
Indices: 18376051--18376124 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 20
18376041 CACGAAGTTG
18376051 TTAAATGAATTGATATTTGA
1 TTAAATGAATTGATATTTGA
* * *
18376071 TTAAATTAATTGAGAAGTTG-
1 TTAAATGAATTGA-TATTTGA
*
18376091 TTAAATGAATTGATTTTTGA
1 TTAAATGAATTGATATTTGA
*
18376111 TTAAATTAATTGAT
1 TTAAATGAATTGAT
18376125 GTGAATTGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.07
20 37 0.84
21 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
TTAAATGAATTGATATTTGA
Found at i:18376099 original size:40 final size:40
Alignment explanation
Indices: 18376044--18376123 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
18376034 TATCGTACAC
18376044 GAAGTTGTTAAATGAATTGATATTTGATTAAATTAATTGA
1 GAAGTTGTTAAATGAATTGATATTTGATTAAATTAATTGA
*
18376084 GAAGTTGTTAAATGAATTGATTTTTGATTAAATTAATTGA
1 GAAGTTGTTAAATGAATTGATATTTGATTAAATTAATTGA
18376124 TGTGAATTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (40 bp):
GAAGTTGTTAAATGAATTGATATTTGATTAAATTAATTGA
Found at i:18379442 original size:34 final size:35
Alignment explanation
Indices: 18379372--18379461 Score: 121
Period size: 33 Copynumber: 2.6 Consensus size: 35
18379362 TCAAAATCGA
*
18379372 CTCAAAAGAGGTTGGGATAGACCAGTCTATGCCAAC
1 CTCAAAA-AGGTTGGGATAGACCAGTCTAAGCCAAC
* *
18379408 CTCAAAAAGGTTGGGTTAGACC-GTCTAAGGCAAC
1 CTCAAAAAGGTTGGGATAGACCAGTCTAAGCCAAC
*
18379442 CT-TAAAAGGTTGGGATAGAC
1 CTCAAAAAGGTTGGGATAGAC
18379462 TTTCTTTGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
33 16 0.33
34 12 0.24
35 14 0.29
36 7 0.14
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (35 bp):
CTCAAAAAGGTTGGGATAGACCAGTCTAAGCCAAC
Found at i:18385781 original size:13 final size:13
Alignment explanation
Indices: 18385763--18385833 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
18385753 GTTGCTTTTG
18385763 AAAAGTACTGTGA
1 AAAAGTACTGTGA
* * **
18385776 AAAAGTATTTTTC
1 AAAAGTACTGTGA
*
18385789 AAAAGTATTGTGA
1 AAAAGTACTGTGA
*
18385802 AAAAGTACTTTTG-
1 AAAAGTAC-TGTGA
18385815 AAAAGTACTGTGA
1 AAAAGTACTGTGA
18385828 AAAAGT
1 AAAAGT
18385834 GTTTTTAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
12 3 0.07
13 40 0.87
14 3 0.07
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (13 bp):
AAAAGTACTGTGA
Found at i:18385787 original size:26 final size:26
Alignment explanation
Indices: 18385758--18385846 Score: 133
Period size: 26 Copynumber: 3.4 Consensus size: 26
18385748 GGCCAGTTGC
18385758 TTTTGAAAAGTACTGTGAAAAAGTAT
1 TTTTGAAAAGTACTGTGAAAAAGTAT
* * *
18385784 TTTTCAAAAGTATTGTGAAAAAGTAC
1 TTTTGAAAAGTACTGTGAAAAAGTAT
*
18385810 TTTTGAAAAGTACTGTGAAAAAGTGT
1 TTTTGAAAAGTACTGTGAAAAAGTAT
*
18385836 TTTTAAAAAGT
1 TTTTGAAAAGT
18385847 TTGGTTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (26 bp):
TTTTGAAAAGTACTGTGAAAAAGTAT
Found at i:18388711 original size:13 final size:13
Alignment explanation
Indices: 18388695--18388719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18388685 TTAAGATATA
18388695 TTATTATTTTTAG
1 TTATTATTTTTAG
18388708 TTATTATTTTTA
1 TTATTATTTTTA
18388720 ATTTATCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTATTTTTAG
Found at i:18390476 original size:12 final size:12
Alignment explanation
Indices: 18390459--18390483 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18390449 ACTTAGAGTG
18390459 TGTGATATAGTA
1 TGTGATATAGTA
18390471 TGTGATATAGTA
1 TGTGATATAGTA
18390483 T
1 T
18390484 TAATGAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TGTGATATAGTA
Found at i:18390531 original size:27 final size:27
Alignment explanation
Indices: 18390479--18390532 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
18390469 TATGTGATAT
*
18390479 AGTATTAATGAAATAATACATTTTATA
1 AGTATTAATGAAATAATACATATTATA
18390506 AGTATTAAT-ATAATAACTAC-TATTATA
1 AGTATTAATGA-AATAA-TACATATTATA
18390533 TTATAGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.04
27 20 0.83
28 3 0.12
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (27 bp):
AGTATTAATGAAATAATACATATTATA
Found at i:18393814 original size:22 final size:22
Alignment explanation
Indices: 18393765--18393808 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18393755 ATATATATTT
18393765 AAACCCAAACCCAATACCAACC
1 AAACCCAAACCCAATACCAACC
* *
18393787 AAACCCAAATCCTATACCAACC
1 AAACCCAAACCCAATACCAACC
18393809 TCACCCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.43, G:0.00, T:0.09
Consensus pattern (22 bp):
AAACCCAAACCCAATACCAACC
Found at i:18394481 original size:20 final size:20
Alignment explanation
Indices: 18394456--18394495 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18394446 ATTTTCTTTT
18394456 GTTTCTTCACCGAATATGGA
1 GTTTCTTCACCGAATATGGA
18394476 GTTTCTTCACCGAATATGGA
1 GTTTCTTCACCGAATATGGA
18394496 AGGAAAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (20 bp):
GTTTCTTCACCGAATATGGA
Found at i:18396255 original size:12 final size:12
Alignment explanation
Indices: 18396238--18396264 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18396228 TCAATTGCAC
18396238 CATTATAAGTGG
1 CATTATAAGTGG
18396250 CATTATAAGTGG
1 CATTATAAGTGG
18396262 CAT
1 CAT
18396265 ACCACCACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (12 bp):
CATTATAAGTGG
Found at i:18399039 original size:22 final size:22
Alignment explanation
Indices: 18398998--18399040 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18398988 ACACCAAAAC
* *
18398998 AGGCTTTTAGCGGCATTTTTTT
1 AGGCCTTTAGCGGCACTTTTTT
*
18399020 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCACTTTTT
18399041 AGCGCCGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCACTTTTTT
Found at i:18399208 original size:86 final size:85
Alignment explanation
Indices: 18399112--18399299 Score: 216
Period size: 86 Copynumber: 2.2 Consensus size: 85
18399102 ACATCGCTAA
* * * * *
18399112 CTTTTGCGGCGTTTATGAGAAAAAACGCCACTAAAGAACATGACCTTTAGCGGTGCTTT-GCCAC
1 CTTTAGCGGCGTTTA--ACAAAAAACGCCACTAAAGAACATGACCTTTAACGGCGCTTTACCCAC
* **
18399176 AAATGCCGCTAAAGAACATGAC
64 AAACGAAGCTAAAGAACATGAC
* * * * *
18399198 CTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGATCTTTAACGGCGCTTTACCCACA
1 CTTTAGCGGCG-TTTAACAAAAAACGCCACTAAAGAACATGACCTTTAACGGCGCTTTACCCACA
18399263 AACGAAGCTAAAGAACATGAC
65 AACGAAGCTAAAGAACATGAC
18399284 CTTTAGCGGCGGTTTA
1 CTTTAGCGGC-GTTTA
18399300 CCTACAAATG
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
85 34 0.40
86 47 0.55
87 5 0.06
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (85 bp):
CTTTAGCGGCGTTTAACAAAAAACGCCACTAAAGAACATGACCTTTAACGGCGCTTTACCCACAA
ACGAAGCTAAAGAACATGAC
Found at i:18399233 original size:43 final size:43
Alignment explanation
Indices: 18399134--18399317 Score: 253
Period size: 43 Copynumber: 4.3 Consensus size: 43
18399124 TTATGAGAAA
* * *
18399134 AAACGCCACTAAAGAACATGACCTTTAGCGGTGCTTT-GCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
*
18399176 AAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* *
18399219 AAACGCCGCTAAAGAACATGATCTTTAACGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
** * *
18399262 AAACGAAGCTAAAGAACATGACCTTTAGCGGCGGTTTACCTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
* *
18399305 AAATGCTGCTAAA
1 AAACGCCGCTAAA
18399318 AGTACGGTTA
Statistics
Matches: 125, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 34 0.27
43 91 0.73
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
Found at i:18399838 original size:22 final size:22
Alignment explanation
Indices: 18399810--18399852 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
18399800 GAGAGATGGG
18399810 AGTATAAGCAATCCTGTATTAT
1 AGTATAAGCAATCCTGTATTAT
18399832 AGTATAAGCAATCCTGTATTA
1 AGTATAAGCAATCCTGTATTA
18399853 AAATGAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (22 bp):
AGTATAAGCAATCCTGTATTAT
Found at i:18400267 original size:88 final size:85
Alignment explanation
Indices: 18400109--18400277 Score: 223
Period size: 88 Copynumber: 2.0 Consensus size: 85
18400099 ACTTTGATTC
* **
18400109 ATCCGATGATGCACTGTGTGTGTTAGTATATTTTTTTGGTATATCAGATGATACACTGTGTGTGA
1 ATCCGATGATGCACTCTGTGTGCCAGTATATTTTTTTGGTATATCAGATGATACACTGTGTGTGA
* *
18400174 CAGTATATTTGCTTCGGTAT
66 CAGTATAGTAGCTTCGGTAT
* * *
18400194 ATCCGATGATGCACTCTGTGTGCCAGTATAGTTTTCTTTGGTTTTATCTGATGATGCACTGTGTG
1 ATCCGATGATGCACTCTGTGTGCCAGTATA-TTTT-TTTGG-TATATCAGATGATACACTGTGTG
18400259 TG-CTAGTATAGTAGCTTCG
63 TGAC-AGTATAGTAGCTTCG
18400278 ACTTCATCTG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 27 0.38
86 4 0.06
87 6 0.08
88 35 0.49
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.41
Consensus pattern (85 bp):
ATCCGATGATGCACTCTGTGTGCCAGTATATTTTTTTGGTATATCAGATGATACACTGTGTGTGA
CAGTATAGTAGCTTCGGTAT
Found at i:18400270 original size:45 final size:43
Alignment explanation
Indices: 18400113--18400268 Score: 190
Period size: 43 Copynumber: 3.6 Consensus size: 43
18400103 TGATTCATCC
*
18400113 GATGATGCACTGTGTGTGTTAGTATATTTT-TTTGGTATATCA
1 GATGATGCACTGTGTGTGCTAGTATATTTTCTTTGGTATATCA
* * * *
18400155 GATGATACACTGTGTGTGAC-AGTATATTTGCTTCGGTATATCC
1 GATGATGCACTGTGTGTG-CTAGTATATTTTCTTTGGTATATCA
* * * *
18400198 GATGATGCACTCTGTGTGCCAGTATAGTTTTCTTTGGTTTTATCT
1 GATGATGCACTGTGTGTGCTAGTATA-TTTTCTTTGG-TATATCA
18400243 GATGATGCACTGTGTGTGCTAGTATA
1 GATGATGCACTGTGTGTGCTAGTATA
18400269 GTAGCTTCGA
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 27 0.28
43 32 0.33
44 8 0.08
45 29 0.30
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.42
Consensus pattern (43 bp):
GATGATGCACTGTGTGTGCTAGTATATTTTCTTTGGTATATCA
Found at i:18409237 original size:16 final size:16
Alignment explanation
Indices: 18409198--18409230 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18409188 AGTGAAATTT
18409198 AACTTAAA-TAATAAA
1 AACTTAAATTAATAAA
18409213 AACTTAAATTAATAAA
1 AACTTAAATTAATAAA
18409229 AA
1 AA
18409231 TATAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (16 bp):
AACTTAAATTAATAAA
Found at i:18420032 original size:12 final size:13
Alignment explanation
Indices: 18420015--18420047 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18420005 AATGTGAAAC
18420015 AGAAAGAAATTGA
1 AGAAAGAAATTGA
*
18420028 A-AAAGAAGTTGA
1 AGAAAGAAATTGA
18420040 AGAAAGAA
1 AGAAAGAA
18420048 GAGAAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (13 bp):
AGAAAGAAATTGA
Found at i:18430312 original size:40 final size:40
Alignment explanation
Indices: 18430245--18430324 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
18430235 GAATAGTACG
*
18430245 AATTTCATGCAAGAAACAAGGGATTCATGCAAGAAAACAC
1 AATTTCATGCAAGAAACAAGAGATTCATGCAAGAAAACAC
** *
18430285 AATTTCCATGCAAGAAGTAAGAG-TTCATGCAGGAAAACAC
1 AATTT-CATGCAAGAAACAAGAGATTCATGCAAGAAAACAC
18430325 GTAAAATGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 21 0.60
41 14 0.40
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (40 bp):
AATTTCATGCAAGAAACAAGAGATTCATGCAAGAAAACAC
Found at i:18431024 original size:60 final size:60
Alignment explanation
Indices: 18430931--18431047 Score: 225
Period size: 60 Copynumber: 1.9 Consensus size: 60
18430921 CTTTAAAAAT
18430931 ATTTTATGCATGCACTCAAGATAAAACATGATTCGACTTATATTCATAAAGTACCTAAAG
1 ATTTTATGCATGCACTCAAGATAAAACATGATTCGACTTATATTCATAAAGTACCTAAAG
*
18430991 ATTTTATGCATGCACTCAAGATAAAACATGATTCGACTTATATTCATAAATTACCTA
1 ATTTTATGCATGCACTCAAGATAAAACATGATTCGACTTATATTCATAAAGTACCTA
18431048 CCAATGTCAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (60 bp):
ATTTTATGCATGCACTCAAGATAAAACATGATTCGACTTATATTCATAAAGTACCTAAAG
Found at i:18431060 original size:60 final size:60
Alignment explanation
Indices: 18430936--18431061 Score: 200
Period size: 60 Copynumber: 2.1 Consensus size: 60
18430926 AAAATATTTT
* *
18430936 ATGCATGCACTCAAGATAAAACATGATTCGACTTATATTCATAAAGTACCTAAAGATTTT
1 ATGCATGCACTCAAGATAAAACATGATTCGACTTATATTCATAAAGTACCTAAAGATGTC
* *
18430996 ATGCATGCACTCAAGATAAAACATGATTCGACTTATATTCATAAATTACCTACCA-ATGTC
1 ATGCATGCACTCAAGATAAAACATGATTCGACTTATATTCATAAAGTACCTA-AAGATGTC
18431056 ATGCAT
1 ATGCAT
18431062 TTAAACAATG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 60 0.98
61 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (60 bp):
ATGCATGCACTCAAGATAAAACATGATTCGACTTATATTCATAAAGTACCTAAAGATGTC
Found at i:18433691 original size:50 final size:50
Alignment explanation
Indices: 18433561--18433754 Score: 167
Period size: 50 Copynumber: 3.7 Consensus size: 50
18433551 GGTAAAGAGA
* * * *
18433561 TCCCATGTAAAACCATGTCTGGGACATGGCATCGGCATCCTTAAGATCATG-AAAGG
1 TCCCCTGTAAGACCATGTCTGGGACATGGC-TTGGCA-CC----GA-CATGAAAACG
* *
18433617 TCCCCTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAA-G
1 TCCCCTGTAAGACCATGTCTGGGACATGGC-TTGGCACCGACATGAAAACG
* * * * *
18433667 TCCCCCGTAAGACCATGTTTGGGACATGGCATGAGCACTGACATGAAAACT
1 TCCCCTGTAAGACCATGTCTGGGACATGGCTTG-GCACCGACATGAAAACG
* *
18433718 TCCCATGTAAGATCATGTCTGGGACATGGCTTTGGCA
1 TCCCCTGTAAGACCATGTCTGGGACATGGC-TTGGCA
18433755 TGTTTTTACC
Statistics
Matches: 116, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
49 2 0.02
50 44 0.38
51 33 0.28
52 2 0.02
55 2 0.02
56 33 0.28
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCCTGTAAGACCATGTCTGGGACATGGCTTGGCACCGACATGAAAACG
Found at i:18442793 original size:15 final size:15
Alignment explanation
Indices: 18442773--18442805 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18442763 AACGCACATC
*
18442773 TTCTACTCTGTTCTG
1 TTCTACTCTGCTCTG
18442788 TTCTACTCTGCTCTG
1 TTCTACTCTGCTCTG
18442803 TTC
1 TTC
18442806 GGTTCTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.30, G:0.12, T:0.52
Consensus pattern (15 bp):
TTCTACTCTGCTCTG
Found at i:18445949 original size:15 final size:15
Alignment explanation
Indices: 18445931--18445963 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18445921 AACACACATC
*
18445931 TTCTACTCTGTTCTG
1 TTCTACTCTGCTCTG
18445946 TTCTACTCTGCTCTG
1 TTCTACTCTGCTCTG
18445961 TTC
1 TTC
18445964 GATTCTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.30, G:0.12, T:0.52
Consensus pattern (15 bp):
TTCTACTCTGCTCTG
Found at i:18452886 original size:136 final size:140
Alignment explanation
Indices: 18452667--18452954 Score: 467
Period size: 136 Copynumber: 2.0 Consensus size: 140
18452657 GAAGTGAAAT
18452667 ATTTATTTTAGCAACCTCAATCAACTTCTTCTAAATCAATTTTAATCTTTGATTATCTCAAACAC
1 ATTTATTTTAGCAACCTCAATCAACTTCTTCTAAATCAATTTTAATCTTTGATTATCTCAAACAC
*
18452732 AAAATAATAATAATG-ATA-ATA-ATA-ATATATATATCTATGTTTTTACATTTAAAGTTGAGAG
66 AAAATAATAATAATGAATATATATATATATATATATATATATGTTTTTACATTTAAAGTTGAGAG
18452793 AGGAAATGGG
131 AGGAAATGGG
18452803 ATTTATTTTAGCAACCTCAATCAACTTCTTCTAAATCAATTTTAATCTTTGATTATCTCAAACAC
1 ATTTATTTTAGCAACCTCAATCAACTTCTTCTAAATCAATTTTAATCTTTGATTATCTCAAACAC
18452868 AAAATAATAATAATGATAATATATATATATATATATATATATATATATATGTTTTTACATTTAAA
66 AAAATAATAATAATG-------A-ATATATATATATATATATATATATATGTTTTTACATTTAAA
18452933 GTTGAGAGAGGAAATGGG
123 GTTGAGAGAGGAAATGGG
18452951 ATTT
1 ATTT
18452955 GAAGGTAAAA
Statistics
Matches: 139, Mismatches: 1, Indels: 12
0.91 0.01 0.08
Matches are distributed among these distances:
136 80 0.58
145 3 0.02
146 3 0.02
147 3 0.02
148 50 0.36
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.40
Consensus pattern (140 bp):
ATTTATTTTAGCAACCTCAATCAACTTCTTCTAAATCAATTTTAATCTTTGATTATCTCAAACAC
AAAATAATAATAATGAATATATATATATATATATATATATATGTTTTTACATTTAAAGTTGAGAG
AGGAAATGGG
Found at i:18452893 original size:2 final size:2
Alignment explanation
Indices: 18452886--18452917 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18452876 AATAATGATA
18452886 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
18452918 GTTTTTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18459316 original size:53 final size:53
Alignment explanation
Indices: 18459243--18459359 Score: 191
Period size: 53 Copynumber: 2.2 Consensus size: 53
18459233 TGTTAAAATA
* * *
18459243 TTAAAAATAAAATAAAAATTTAAATAGTTAATTGAGATTCTTTAAATAATAGT
1 TTAAAAATAATATAAAAATTTAAATAGTTAATTGAAATTCTTTAAAGAATAGT
*
18459296 TTAAAAATAATATAATAATTTAAATAGTTAATTGAAATTCTTTAAAGAATAGT
1 TTAAAAATAATATAAAAATTTAAATAGTTAATTGAAATTCTTTAAAGAATAGT
18459349 TTAAAAA-AATA
1 TTAAAAATAATA
18459360 CTGTTAAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 4 0.07
53 56 0.93
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (53 bp):
TTAAAAATAATATAAAAATTTAAATAGTTAATTGAAATTCTTTAAAGAATAGT
Found at i:18460861 original size:12 final size:12
Alignment explanation
Indices: 18460844--18460869 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18460834 CAACACAGGC
18460844 TTTTAGCGGCGT
1 TTTTAGCGGCGT
18460856 TTTTAGCGGCGT
1 TTTTAGCGGCGT
18460868 TT
1 TT
18460870 GTTTTCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:18461212 original size:113 final size:112
Alignment explanation
Indices: 18460953--18461262 Score: 322
Period size: 113 Copynumber: 2.8 Consensus size: 112
18460943 GGCGATTTCC
* * * * * * *
18460953 AGAAAGCGCCGC-TAAAAACCTAAGCCCAACGACGCTGTTT-TCGGGGTTTCGGGGATTTTAGCG
1 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTCT-GAGCTTTTGGGGA-TATAGCG
* * * * * **
18461016 GTGTTTTCAAGAAAGCGCCCCAAAAGATTAGGGCTTTAGTGGCGTTTCTG
64 GCGTTTTTAAGAAAGCGCCGCTAATG-CGAGGGCTTTAGTGGCGTTTCTG
* * * *
18461066 AGAAAGCGCCGCAAACAAACTTAAGCCCAACGATGTCGTTTCCTGAGCTTTTGGGGATTTAGCGG
1 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTT-CTGAGCTTTTGGGGATATAGCGG
*
18461131 TGTTTTT-AGTAAAGCGCCGCTAATGCGAGGGCTTTAGTGGCGTTT-TG
65 CGTTTTTAAG-AAAGCGCCGCTAATGCGAGGGCTTTAGTGGCGTTTCTG
* * * * *
18461178 GGAAAGCGCCGCAAAAAAAACCTCAGCCCAACGATGCCGTTTTTGAGCTTTTGTGGATATAGTGG
1 AGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGATGCCGTTTCTGAGCTTTTGGGGATATAGCGG
18461243 CGTTTTTAAGAAAGCGCCGC
65 CGTTTTTAAGAAAGCGCCGC
18461263 AAAAAAACCT
Statistics
Matches: 166, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
112 48 0.29
113 59 0.36
114 48 0.29
115 10 0.06
116 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (112 bp):
AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTCTGAGCTTTTGGGGATATAGCGGC
GTTTTTAAGAAAGCGCCGCTAATGCGAGGGCTTTAGTGGCGTTTCTG
Found at i:18461291 original size:72 final size:74
Alignment explanation
Indices: 18461165--18461335 Score: 215
Period size: 73 Copynumber: 2.4 Consensus size: 74
18461155 GCGAGGGCTT
* * * *
18461165 TAGTGGCG-TTTTGGGAAAGCGCCGCAAAAAAAACCTCAGCCCAACGATGCCGTTTT-TGAGCTT
1 TAGTGGCGTTTTTAGGAAAGCGCCGCAAAAAAAACCTAAACCCAACGACGCCGTTTTCTGAGCTT
*
18461228 TTGTGGATA
66 TTGGGGATA
* * * *
18461237 TAGTGGCGTTTTTAAGAAAGCGCCGC-AAAAAAACCTAAACCCAATGACGTCGTTTTCTGATCTT
1 TAGTGGCGTTTTTAGGAAAGCGCCGCAAAAAAAACCTAAACCCAACGACGCCGTTTTCTGAGCTT
*
18461301 TTGGGGATT
66 TTGGGGATA
18461310 TAGCT-GCGTTTTTAGGAAAGCGCCGC
1 TAG-TGGCGTTTTTAGGAAAGCGCCGC
18461336 TAATTCTCAG
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
72 33 0.39
73 51 0.60
74 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (74 bp):
TAGTGGCGTTTTTAGGAAAGCGCCGCAAAAAAAACCTAAACCCAACGACGCCGTTTTCTGAGCTT
TTGGGGATA
Found at i:18461291 original size:185 final size:188
Alignment explanation
Indices: 18461052--18461446 Score: 490
Period size: 185 Copynumber: 2.1 Consensus size: 188
18461042 ATTAGGGCTT
* * * * *
18461052 TAGTGGCGTTTCTGAGAAAGCGCCGCAAACAAACTTAAGCCCAACGATGTCGTTTCCTGAGCTTT
1 TAGTGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAACCCAACGACGTCGTTTCCTGAGCTTT
* * * ** **
18461117 TGGGGATTTAGCGGTGTTTTTAGTAAAGCGCCGCTAATGC-GAGGGCTTTAGTGGCG-TTTTGGG
66 TGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGAA
* * * * *
18461180 AAAGCGCCGCAAAAAAAACCTCAGCCCAACGATGCCGTTTT-TGAGCTTTTGTGGATA
131 AAAGCACCGCAAAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTTTTGGGGATA
* * * *
18461237 TAGTGGCGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAATGACGTCGTTTTCTGATCTTT
1 TAGTGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAACCCAACGACGTCGTTTCCTGAGCTTT
* *
18461302 TGGGGATTTAGCTGCGTTTTTAGGAAAGCGCCGCTAATTCTCAGGGCTTTAACGGCGTTTTTGAA
66 TGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGAA
* * * * * *
18461367 AAAGCACCGTAAAAAAAACCTAAGCATAACGGCGCCGTTTTCTGATCTTTTGGGGCTT
131 AAAGCACCGCAAAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTTTTGGGGATA
* *
18461425 TAGCGGCGTTTTTGGGAAAGCG
1 TAGTGGCGTTTTTGAGAAAGCG
18461447 TCGCTAATGC
Statistics
Matches: 175, Mismatches: 32, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
185 92 0.53
186 13 0.07
187 39 0.22
188 31 0.18
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (188 bp):
TAGTGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAACCCAACGACGTCGTTTCCTGAGCTTT
TGGGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCTTTAACGGCGTTTTTGAA
AAAGCACCGCAAAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTTTTGGGGATA
Found at i:18461474 original size:10 final size:10
Alignment explanation
Indices: 18461459--18461483 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18461449 GCTAATGCTC
18461459 AAATAGTTTA
1 AAATAGTTTA
18461469 AAATAGTTTA
1 AAATAGTTTA
18461479 AAATA
1 AAATA
18461484 TTTGTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAATAGTTTA
Found at i:18461493 original size:12 final size:12
Alignment explanation
Indices: 18461476--18461506 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
18461466 TTAAAATAGT
18461476 TTAAAATATTTG
1 TTAAAATATTTG
18461488 TTAAAATATTTG
1 TTAAAATATTTG
18461500 TTAAAAT
1 TTAAAAT
18461507 GAAAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (12 bp):
TTAAAATATTTG
Found at i:18461710 original size:22 final size:22
Alignment explanation
Indices: 18461676--18461743 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
18461666 TAGTGTGTAA
18461676 GGGTTA-GGAGCTTATGGTTTAG
1 GGGTTATGG-GCTTATGGTTTAG
** * *
18461698 GGGTTATGGGCTTGGGGTCTAT
1 GGGTTATGGGCTTATGGTTTAG
*
18461720 AGGTTAAT-GGCTTATGGTTTAG
1 GGGTT-ATGGGCTTATGGTTTAG
18461742 GG
1 GG
18461744 TTTAATCAAG
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
22 30 0.88
23 4 0.12
ACGTcount: A:0.16, C:0.06, G:0.41, T:0.37
Consensus pattern (22 bp):
GGGTTATGGGCTTATGGTTTAG
Found at i:18461779 original size:8 final size:8
Alignment explanation
Indices: 18461763--18461828 Score: 59
Period size: 8 Copynumber: 8.5 Consensus size: 8
18461753 GAGTTTATGA
*
18461763 TTTAGGGG
1 TTTAAGGG
18461771 TTTAAGGG
1 TTTAAGGG
* *
18461779 TTT-ATGC
1 TTTAAGGG
18461786 TTT-AGAGG
1 TTTAAG-GG
18461794 TTTAA-GG
1 TTTAAGGG
18461801 TTTAGAGGG
1 TTTA-AGGG
18461810 TTTAA-GG
1 TTTAAGGG
18461817 TTTAAGGG
1 TTTAAGGG
18461825 TTTA
1 TTTA
18461829 GGTTATCGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
7 19 0.40
8 22 0.46
9 7 0.15
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (8 bp):
TTTAAGGG
Found at i:18461789 original size:15 final size:15
Alignment explanation
Indices: 18461769--18461832 Score: 78
Period size: 15 Copynumber: 4.3 Consensus size: 15
18461759 ATGATTTAGG
*
18461769 GGTTTAAGGGTTTAT
1 GGTTTAAGGGTTTAA
*
18461784 GCTTT-AGAGGTTTAA
1 GGTTTAAG-GGTTTAA
18461799 GGTTTAGAGGGTTTAA
1 GGTTTA-AGGGTTTAA
18461815 GGTTTAAGGGTTT-A
1 GGTTTAAGGGTTTAA
18461829 GGTT
1 GGTT
18461833 ATCGTCTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.16
15 21 0.49
16 13 0.30
17 2 0.05
ACGTcount: A:0.22, C:0.02, G:0.34, T:0.42
Consensus pattern (15 bp):
GGTTTAAGGGTTTAA
Found at i:18461789 original size:23 final size:22
Alignment explanation
Indices: 18461755--18461804 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
18461745 TTAATCAAGA
*
18461755 GTTTATGATTTAGGGGTTTAAGG
1 GTTTATGATTTAGAGGTTTAA-G
*
18461778 GTTTATGCTTTAGAGGTTTAAG
1 GTTTATGATTTAGAGGTTTAAG
18461800 GTTTA
1 GTTTA
18461805 GAGGGTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (22 bp):
GTTTATGATTTAGAGGTTTAAG
Found at i:18461801 original size:7 final size:7
Alignment explanation
Indices: 18461769--18461832 Score: 58
Period size: 7 Copynumber: 8.6 Consensus size: 7
18461759 ATGATTTAGG
18461769 GGTTTAA
1 GGTTTAA
*
18461776 GGGTTTAT
1 -GGTTTAA
*
18461784 GCTTTAGA
1 GGTTTA-A
18461792 GGTTTAA
1 GGTTTAA
18461799 GGTTTAGA
1 GGTTTA-A
18461807 GGGTTTAA
1 -GGTTTAA
18461815 GGTTTAA
1 GGTTTAA
18461822 GGGTTT-A
1 -GGTTTAA
18461829 GGTT
1 GGTT
18461833 ATCGTCTTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
6 4 0.08
7 20 0.42
8 18 0.38
9 6 0.12
ACGTcount: A:0.22, C:0.02, G:0.34, T:0.42
Consensus pattern (7 bp):
GGTTTAA
Found at i:18461904 original size:42 final size:42
Alignment explanation
Indices: 18461823--18461905 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
18461813 AAGGTTTAAG
* *
18461823 GGTTTAGGTTATCGTCTTAGGGTCTAAGAGTTATTGGTTTAC
1 GGTTTAGGTTATAGTCTTAGGGTCTAAGAGTTATGGGTTTAC
* *
18461865 GGTTTAGTGTTTATAGT-TTAGGGTGTAAG-TTTATGGGTTTA
1 GGTTTAG-G-TTATAGTCTTAGGGTCTAAGAGTTATGGGTTTA
18461906 AGTATGCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 17 0.49
43 12 0.34
44 6 0.17
ACGTcount: A:0.19, C:0.05, G:0.30, T:0.46
Consensus pattern (42 bp):
GGTTTAGGTTATAGTCTTAGGGTCTAAGAGTTATGGGTTTAC
Found at i:18461945 original size:28 final size:26
Alignment explanation
Indices: 18461913--18462002 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 26
18461903 TTAAGTATGC
18461913 AGTTTATGATTTAGTGTTAAGAGTTTAG
1 AGTTTATG-TTTAGTGTT-AGAGTTTAG
* * * *
18461941 TGTTTATGGTTTAGGGTGTAGGGTGTAG
1 AGTTTAT-GTTTAGTGT-TAGAGTTTAG
* *
18461969 GGTTTATTGTTTATTGTTTAGAGTTTAG
1 AGTTTA-TGTTTAGTG-TTAGAGTTTAG
18461997 AGTTTA
1 AGTTTA
18462003 GCTAGTAGCT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
28 44 0.92
29 4 0.08
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (26 bp):
AGTTTATGTTTAGTGTTAGAGTTTAG
Found at i:18462003 original size:14 final size:14
Alignment explanation
Indices: 18461866--18462003 Score: 61
Period size: 14 Copynumber: 9.9 Consensus size: 14
18461856 TTGGTTTACG
* *
18461866 GTTTAGTGTTTATA
1 GTTTAGGGTTTAGA
*
18461880 GTTTAGGGTGTA-A
1 GTTTAGGGTTTAGA
18461893 GTTTATGGGTTTA-A
1 GTTTA-GGGTTTAGA
* *
18461907 GTAT-GCAGTTTATGA
1 GTTTAG-GGTTTA-GA
* *
18461922 -TTTAGTGTTAAGA
1 GTTTAGGGTTTAGA
*
18461935 GTTTAGTGTTTATG-
1 GTTTAGGGTTTA-GA
* *
18461949 GTTTAGGGTGTAGG
1 GTTTAGGGTTTAGA
* **
18461963 GTGTAGGGTTTATT
1 GTTTAGGGTTTAGA
**
18461977 GTTTATTGTTTAGA
1 GTTTAGGGTTTAGA
*
18461991 GTTTAGAGTTTAG
1 GTTTAGGGTTTAG
18462004 CTAGTAGCTT
Statistics
Matches: 94, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
12 1 0.01
13 14 0.15
14 76 0.81
15 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:18462203 original size:103 final size:103
Alignment explanation
Indices: 18461985--18462203 Score: 384
Period size: 103 Copynumber: 2.1 Consensus size: 103
18461975 TTGTTTATTG
* * * *
18461985 TTTAGAGTTTAGAGTTTAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGG
1 TTTAGGGTTTAGGGTTTAGCTAGTAGCTTAAAGTTTAAGGATTAATACGGGCATAGGGTATATGG
18462050 GTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATAT
66 GTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATAT
*
18462088 TTTAAGGTTTAGGGTTTAGCTAGTAGCTTAAAGTTTAAGGATTAATACGGGCATAGGGTATATGG
1 TTTAGGGTTTAGGGTTTAGCTAGTAGCTTAAAGTTTAAGGATTAATACGGGCATAGGGTATATGG
*
18462153 GTTAAGAGGGCATATGGTTTAGGGTTTAAATTTTATAT
66 GTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATAT
18462191 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
18462204 ATTATGGTAA
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.28, C:0.05, G:0.29, T:0.38
Consensus pattern (103 bp):
TTTAGGGTTTAGGGTTTAGCTAGTAGCTTAAAGTTTAAGGATTAATACGGGCATAGGGTATATGG
GTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATAT
Found at i:18462237 original size:103 final size:102
Alignment explanation
Indices: 18462024--18462227 Score: 277
Period size: 103 Copynumber: 2.0 Consensus size: 102
18462014 AGAGTTTAGG
18462024 GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATATT
1 GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATATT
* * ** ** *
18462089 TTAAGGTTTAGGGTTTAGCTAGTAGCTTAAAGTTTAAG
66 TTAAGGTTTAGGATTTAGCTAG-AACACAAAGTAAAAA
*
18462127 GATTAATACGGGCATAGGGTATATGGGTTAAGAGGGCATATGGTTTAGGGTTTAAATTTTATATT
1 GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATATT
* * *
18462192 TTAGGGTTTAGGA-TTATGGTA-AACACAAGGTAAAAA
66 TTAAGGTTTAGGATTTA-GCTAGAACACAAAGTAAAAA
18462228 TATGTTAATA
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
101 8 0.09
102 3 0.03
103 78 0.88
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (102 bp):
GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTTAAATTTTATATT
TTAAGGTTTAGGATTTAGCTAGAACACAAAGTAAAAA
Found at i:18462737 original size:116 final size:114
Alignment explanation
Indices: 18462445--18462743 Score: 309
Period size: 116 Copynumber: 2.6 Consensus size: 114
18462435 TTAGTTTCCA
* * *
18462445 TTTTAGTGGTGTTTCTTC-ATAAACGCCGCAATTATGTTTTAAGTCTTTGCTAAACACTGTCG-T
1 TTTTAGTGGCGTTT-TTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
* *** ** *
18462508 TTTAAATTGCGTTTTAGTGGCGTTTTCTCTTATGTACCGCAAAATTTCGG
65 TTTATATTGCGTTTTAGTGGCGTTTTCTCTTAAACACCGCAAAAGGTAGG
* * * *
18462558 TTTTTGTGGCGTTTTT-ATGATAAAAGCCGCAGTTATGTTTTAAGTATTTGCTAAACGCAGTCGT
1 TTTTAGTGGCGTTTTTCA--ATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGT
* * * *
18462622 TTTTATTTTGCGTTATTAGTGGCGTTTT-TCGTTAAACGCCGCAATAGGTATG
64 TTTTATATTGCGTT-TTAGTGGCGTTTTCTC-TTAAACACCGCAAAAGGTAGG
* * * * *
18462674 TTTTAGTGGCGTTTTGTCAATAAACGCCACAAATATGTTTTAAGTGTTTGCTAAACGGTGTCGTA
1 TTTTAGTGGCGTTTT-TCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
18462739 TTTAT
65 TTTAT
18462744 CTGCCATTTT
Statistics
Matches: 151, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
112 2 0.01
113 12 0.08
114 39 0.26
115 14 0.09
116 82 0.54
117 1 0.01
118 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (114 bp):
TTTTAGTGGCGTTTTTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTTT
TTATATTGCGTTTTAGTGGCGTTTTCTCTTAAACACCGCAAAAGGTAGG
Found at i:18462929 original size:25 final size:25
Alignment explanation
Indices: 18462862--18462930 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
18462852 CCCCACTCAG
*
18462862 ATTTCCCCAATTTCA-TTT-CCCTA
1 ATTTCCCCAATTTCATTTTCCCCCA
*
18462885 ATTTCCCAAATATT--TCTTTCCCCCA
1 ATTTCCCCAAT-TTCAT-TTTCCCCCA
18462910 ATTTCCCCAATTTCATTTTCC
1 ATTTCCCCAATTTCATTTTCC
18462931 GAAATCCCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 10 0.27
24 7 0.19
25 19 0.51
26 1 0.03
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTTCCCCAATTTCATTTTCCCCCA
Found at i:18465145 original size:9 final size:9
Alignment explanation
Indices: 18465100--18465296 Score: 101
Period size: 9 Copynumber: 20.4 Consensus size: 9
18465090 CTTATATATA
*
18465100 AACTTGCAT
1 AACTTACAT
18465109 AACTTACTCAGT
1 AACTTA--CA-T
*
18465121 AACATA-AT
1 AACTTACAT
*
18465129 ATCTTACAT
1 AACTTACAT
18465138 AACTTACAT
1 AACTTACAT
* *
18465147 AAATTAAAT
1 AACTTACAT
18465156 AACTTACAT
1 AACTTACAT
*
18465165 AACTTACAA
1 AACTTACAT
* *
18465174 AAATTAAAT
1 AACTTACAT
18465183 AACTTACATATT
1 AACTTAC--A-T
18465195 AACTTACAT
1 AACTTACAT
* *
18465204 AAGTTATCTAC
1 AACTTA-C-AT
*
18465215 AAGCTTATATAT
1 AA-C-T-TACAT
*
18465227 AAACTTGCAT
1 -AACTTACAT
18465237 AACTTACAT
1 AACTTACAT
*
18465246 AA-TAACAT
1 AACTTACAT
18465254 AATATCTTACAT
1 -A-A-CTTACAT
18465266 AACTTACAT
1 AACTTACAT
*
18465275 AAATTACAT
1 AACTTACAT
* *
18465284 AAATTAAAT
1 AACTTACAT
18465293 AACT
1 AACT
18465297 GGCGTTTTAA
Statistics
Matches: 143, Mismatches: 28, Indels: 34
0.70 0.14 0.17
Matches are distributed among these distances:
8 10 0.07
9 92 0.64
10 7 0.05
11 8 0.06
12 21 0.15
13 3 0.02
14 2 0.01
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:18465163 original size:27 final size:27
Alignment explanation
Indices: 18465126--18465296 Score: 122
Period size: 27 Copynumber: 6.3 Consensus size: 27
18465116 TCAGTAACAT
*
18465126 AATATCTTACATAACTTACATAAATTA
1 AATAACTTACATAACTTACATAAATTA
*
18465153 AATAACTTACATAACTTACAAAAATTA
1 AATAACTTACATAACTTACATAAATTA
*
18465180 AATAACTTACATATTAACTTACATAAGTT-
1 AATAACTTAC--A-TAACTTACATAAATTA
* * *
18465209 -AT--C-TACA-AGCTTATATATAAACTTG
1 AATAACTTACATAAC-T-TACATAAA-TTA
* *
18465234 CATAACTTACATAA-TAACATAATATCTTA
1 AATAACTTACATAACTTACATAA-A--TTA
* *
18465263 CATAACTTACATAAATTACATAAATTA
1 AATAACTTACATAACTTACATAAATTA
18465290 AATAACT
1 AATAACT
18465297 GGCGTTTTAA
Statistics
Matches: 116, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
21 2 0.02
22 1 0.01
23 7 0.06
24 2 0.02
25 3 0.03
26 3 0.03
27 49 0.42
28 5 0.04
29 23 0.20
30 21 0.18
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.35
Consensus pattern (27 bp):
AATAACTTACATAACTTACATAAATTA
Found at i:18465295 original size:128 final size:128
Alignment explanation
Indices: 18465056--18465296 Score: 430
Period size: 128 Copynumber: 1.9 Consensus size: 128
18465046 GGTTTACATT
*
18465056 ACTTACATATTAACTTACATAAGTTATCTACAAGCTTATATATAAACTTGCATAACTTACTCAGT
1 ACTTACATATTAACTTACATAAGTTATCTACAAGCTTATATATAAACTTGCATAACTTACTCAAT
* *
18465121 AACATAATATCTTACATAACTTACATAAATTAAATAACTTACATAACTTACAAAAATTAAATA
66 AACATAATATCTTACATAACTTACATAAATTAAATAAATTAAATAACTTACAAAAATTAAATA
18465184 ACTTACATATTAACTTACATAAGTTATCTACAAGCTTATATATAAACTTGCATAACTTACAT-AA
1 ACTTACATATTAACTTACATAAGTTATCTACAAGCTTATATATAAACTTGCATAACTTAC-TCAA
*
18465248 TAACATAATATCTTACATAACTTACATAAATTACATAAATTAAATAACT
65 TAACATAATATCTTACATAACTTACATAAATTAAATAAATTAAATAACT
18465297 GGCGTTTTAA
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
128 107 0.99
129 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (128 bp):
ACTTACATATTAACTTACATAAGTTATCTACAAGCTTATATATAAACTTGCATAACTTACTCAAT
AACATAATATCTTACATAACTTACATAAATTAAATAAATTAAATAACTTACAAAAATTAAATA
Found at i:18467170 original size:21 final size:21
Alignment explanation
Indices: 18467144--18467193 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
18467134 CTACAACTTA
*
18467144 AAGCAGAGG-TGGCAGCGAGGG
1 AAGCAGAGGCT-GCAGCGAGAG
18467165 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
18467186 AAGCAGAG
1 AAGCAGAG
18467194 CTGAGCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.34, C:0.16, G:0.46, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:18467636 original size:78 final size:79
Alignment explanation
Indices: 18467527--18467683 Score: 208
Period size: 78 Copynumber: 2.0 Consensus size: 79
18467517 CCGCTAAAGA
* * * *
18467527 ATAGAAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTA-AAAAAAACGCCGCAAAAGA
1 ATAGAAAAAAACGCCACTAAAGACAATGTTCTTTAGAGGCGCTCAGAAAAAAACGCCGCAAAAGA
18467591 ACATGGTCTTTAGC
66 ACATGGTCTTTAGC
* * * * *
18467605 ATAGAAAAAAACGCTATTAAAGACCATGTTCTTTAGAGGCGCTCAGAAAAAAACGTCGCTAAAGA
1 ATAGAAAAAAACGCCACTAAAGACAATGTTCTTTAGAGGCGCTCAGAAAAAAACGCCGCAAAAGA
* *
18467670 CCATGTTCTTTAGC
66 ACATGGTCTTTAGC
18467684 GGCGCTTAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
78 38 0.57
79 29 0.43
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (79 bp):
ATAGAAAAAAACGCCACTAAAGACAATGTTCTTTAGAGGCGCTCAGAAAAAAACGCCGCAAAAGA
ACATGGTCTTTAGC
Found at i:18467725 original size:42 final size:43
Alignment explanation
Indices: 18467529--18467727 Score: 204
Period size: 42 Copynumber: 4.9 Consensus size: 43
18467519 GCTAAAGAAT
18467529 AGAAAAAAACGCCGCTAAAGATA-ATGTTCTTTAGCGGCGCTT-
1 AGAAAAAAACGCCGCTAAAGA-ACATGTTCTTTAGCGGCGCTTA
* * *
18467571 A-AAAAAAACGCCGCAAAAGAACATGGTCTTTA-----GCAT-
1 AGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
*** * * *
18467607 AGAAAAAAACGCTATTAAAGACCATGTTCTTTAGAGGCGC-TC
1 AGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
* *
18467649 AGAAAAAAACGTCGCTAAAGACCATGTTCTTTAGCGGCGCTTA
1 AGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
*
18467692 AG-AAAAAACGCCGCTAAAGAACATGATCTTTAGCGG
1 AGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGG
18467728 TGTTTTTCTC
Statistics
Matches: 130, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
36 4 0.03
37 25 0.19
40 1 0.01
41 28 0.22
42 69 0.53
43 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (43 bp):
AGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
Found at i:18467751 original size:42 final size:42
Alignment explanation
Indices: 18467700--18467818 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
18467690 TAAGAAAAAA
* * *
18467700 CGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTCTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTATAAG
* * * *
18467742 CGCCTCTAAAGAACATGGTTTTTAACGGCGTTTTTTTATAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTATAAG
18467784 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
18467819 GTTTGTGCGC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTATAAG
Found at i:18467751 original size:84 final size:84
Alignment explanation
Indices: 18467663--18467818 Score: 197
Period size: 84 Copynumber: 1.9 Consensus size: 84
18467653 AAAAACGTCG
* *
18467663 CTAAAGACCAT-GTTCTTTAGCGGCGCTTAAGAAAAAACGCCGCTAAAGAACATGATCTTTAGCG
1 CTAAAGAACATGGTT-TTTAACGGCGCTTAAGAAAAAACGCCGCTAAAGAACATGATCTTTAGCG
*
18467727 GTGTTTTTCTCTAAGCGCCT
65 GCGTTTTTCTCTAAGCGCCT
* **** * * *
18467747 CTAAAGAACATGGTTTTTAACGGCGTTTTTTTATAAGCGCCGCTAAAGAACATGGTCTTTAGCGG
1 CTAAAGAACATGGTTTTTAACGGCGCTTAAGAAAAAACGCCGCTAAAGAACATGATCTTTAGCGG
18467812 CGTTTTT
66 CGTTTTT
18467819 GTTTGTGCGC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 57 0.95
85 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (84 bp):
CTAAAGAACATGGTTTTTAACGGCGCTTAAGAAAAAACGCCGCTAAAGAACATGATCTTTAGCGG
CGTTTTTCTCTAAGCGCCT
Found at i:18468273 original size:21 final size:19
Alignment explanation
Indices: 18468248--18468288 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
18468238 AAGGTTAATG
18468248 ACCAAATTTAACTAAAAAATA
1 ACCAAA-TTAAC-AAAAAATA
18468269 ACCAAATTAACAAAAAATA
1 ACCAAATTAACAAAAAATA
18468288 A
1 A
18468289 AATCTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.20
Consensus pattern (19 bp):
ACCAAATTAACAAAAAATA
Found at i:18471041 original size:54 final size:54
Alignment explanation
Indices: 18470923--18471045 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
18470913 TGTCACATGG
* *
18470923 CCGTGTGACTCAAGTTAGAGAGTTACACGGGCTGAAACACGACCTAACACATGC
1 CCGTGTGACTCAAGTTAGAGAGTTACACGGGCTGAAACAAGACCTAACACAAGC
* * * *
18470977 CTGTGTGACTCAAGTTAGAGAGTTACATGGTCT-AGCACATAG-CCTAACACAAGC
1 CCGTGTGACTCAAGTTAGAGAGTTACACGGGCTGA-AACA-AGACCTAACACAAGC
*
18471031 CCGTGCGACTCAAGT
1 CCGTGTGACTCAAGT
18471046 CAAAGAGCTG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.02
54 57 0.97
55 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (54 bp):
CCGTGTGACTCAAGTTAGAGAGTTACACGGGCTGAAACAAGACCTAACACAAGC
Found at i:18471063 original size:54 final size:54
Alignment explanation
Indices: 18470965--18471069 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 54
18470955 TGAAACACGA
* * * * * * *
18470965 CCTAACACATGCCTGTGTGACTCAAGTTAGAGAGTTACATGGTCTAGCACATAG
1 CCTAACACAAGCCCGTGCGACTCAAGTCAAAGAGCTACATGGTCTAACACATAG
*
18471019 CCTAACACAAGCCCGTGCGACTCAAGTCAAAGAGCTGC-TCGGTCTAACACA
1 CCTAACACAAGCCCGTGCGACTCAAGTCAAAGAGCTACAT-GGTCTAACACA
18471070 CGCCCATGTG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.02
54 41 0.98
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (54 bp):
CCTAACACAAGCCCGTGCGACTCAAGTCAAAGAGCTACATGGTCTAACACATAG
Found at i:18475981 original size:20 final size:21
Alignment explanation
Indices: 18475956--18475995 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
18475946 TTTTATTAGG
18475956 GGCAAAATAC-CAAAAAAAGA
1 GGCAAAATACACAAAAAAAGA
* *
18475976 GGCAAATTACACATAAAAAG
1 GGCAAAATACACAAAAAAAG
18475996 GGGGGTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.60, C:0.15, G:0.15, T:0.10
Consensus pattern (21 bp):
GGCAAAATACACAAAAAAAGA
Found at i:18476455 original size:19 final size:19
Alignment explanation
Indices: 18476411--18476455 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
18476401 GGACGAGGCT
*
18476411 TTTAATTTTTTAATATTTTA
1 TTTAA-TTTTTAATAATTTA
*
18476431 -TAAATTTTTAATAATTTA
1 TTTAATTTTTAATAATTTA
18476449 TTTAATT
1 TTTAATT
18476456 AAATTAGACG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTAATTTTTAATAATTTA
Found at i:18477774 original size:27 final size:27
Alignment explanation
Indices: 18477736--18477798 Score: 110
Period size: 27 Copynumber: 2.3 Consensus size: 27
18477726 GGTAATGGAA
18477736 TGGCGGCACCGGTGGTGCC-TTTCTCAT
1 TGGCGGCACCGGTGGTGCCATTTCT-AT
18477763 TGGCGGCACCGGTGGTGCCATTTCTAT
1 TGGCGGCACCGGTGGTGCCATTTCTAT
18477790 TGGCGGCAC
1 TGGCGGCAC
18477799 AGGACTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 30 0.86
28 5 0.14
ACGTcount: A:0.10, C:0.29, G:0.35, T:0.27
Consensus pattern (27 bp):
TGGCGGCACCGGTGGTGCCATTTCTAT
Found at i:18478754 original size:27 final size:28
Alignment explanation
Indices: 18478697--18478756 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
18478687 TTTTAGTCCT
* *
18478697 GTGCCACCAATGGGAATTGGCACCACCG
1 GTGCCACCAATGAGAATAGGCACCACCG
* *
18478725 GTGCCGCCAATGAGAA-AGGCACCACTG
1 GTGCCACCAATGAGAATAGGCACCACCG
18478752 GTGCC
1 GTGCC
18478757 CCCATTCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.25, C:0.32, G:0.30, T:0.13
Consensus pattern (28 bp):
GTGCCACCAATGAGAATAGGCACCACCG
Found at i:18478842 original size:23 final size:22
Alignment explanation
Indices: 18478812--18478864 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
18478802 TGGTAAATAA
18478812 ATTTTTTTGT-ATATTATTTTGAT
1 ATTTTTTT-TAATATTATTTTG-T
*
18478835 ATTTTTTTTAATATTTTTTTGT
1 ATTTTTTTTAATATTATTTTGT
*
18478857 ATTATTTT
1 ATTTTTTT
18478865 AGTAAAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (22 bp):
ATTTTTTTTAATATTATTTTGT
Found at i:18478854 original size:13 final size:13
Alignment explanation
Indices: 18478812--18478864 Score: 60
Period size: 12 Copynumber: 4.4 Consensus size: 13
18478802 TGGTAAATAA
18478812 ATTTTTTTGT-AT
1 ATTTTTTTGTAAT
*
18478824 ATTATTTTG--AT
1 ATTTTTTTGTAAT
18478835 ATTTTTTT-TAAT
1 ATTTTTTTGTAAT
*
18478847 ATTTTTTTGTATT
1 ATTTTTTTGTAAT
18478860 ATTTT
1 ATTTT
18478865 AGTAAAAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 9 0.26
12 18 0.51
13 8 0.23
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (13 bp):
ATTTTTTTGTAAT
Found at i:18483262 original size:5 final size:5
Alignment explanation
Indices: 18483254--18483302 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
18483244 TAGAAAAAAA
* *
18483254 AAAGC AAAGC AAAGC AAAGC -AA-C AGAAG- AAAAC AAAGC AGAGC AAAGC
1 AAAGC AAAGC AAAGC AAAGC AAAGC A-AAGC AAAGC AAAGC AAAGC AAAGC
18483302 A
1 A
18483303 GAATAGAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 31 0.86
ACGTcount: A:0.61, C:0.18, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGC
Found at i:18486685 original size:48 final size:48
Alignment explanation
Indices: 18486631--18486727 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
18486621 AGAAGCAATT
* *
18486631 ATACATAACATATAACACATACAAAGTCATATTAATTTACTCTTTTCA
1 ATACATAACATACAACACATACAAAGTCATATTAACTTACTCTTTTCA
* *
18486679 ATACATAATATACATCACATACAAAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATACAACACATACAAAGTCATATTAACTTACTCTTTTCA
18486727 A
1 A
18486728 ATCCTTCATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (48 bp):
ATACATAACATACAACACATACAAAGTCATATTAACTTACTCTTTTCA
Found at i:18487461 original size:2 final size:2
Alignment explanation
Indices: 18487454--18487483 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18487444 GCTCACAACT
18487454 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
18487484 TAGAACTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:18501544 original size:50 final size:50
Alignment explanation
Indices: 18501484--18501603 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 50
18501474 CATTGAGACT
* * ** *
18501484 ATGATAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCACCGAG
1 ATGAAAGGTCCCATGTAAGACCATGTCTAGGACATGACATGGGCACCGAG
** *
18501534 ATGAAAGGTCCCCCGTAAGACCATGTCTAGGACATGACATGGGCACCGAT
1 ATGAAAGGTCCCATGTAAGACCATGTCTAGGACATGACATGGGCACCGAG
*
18501584 ATGAGAA-TTCCCATGTAAGA
1 ATGA-AAGGTCCCATGTAAGA
18501604 TCTTATCTGG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 56 0.97
51 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
ATGAAAGGTCCCATGTAAGACCATGTCTAGGACATGACATGGGCACCGAG
Found at i:18502491 original size:72 final size:72
Alignment explanation
Indices: 18502413--18502563 Score: 277
Period size: 72 Copynumber: 2.1 Consensus size: 72
18502403 ATCAAGTTAG
* *
18502413 ATTCAAGAAATAGAGGTTGAAGGAGAGGGGAAATCAAGTTAAAGATTGAAATCAATAGAGCAAGG
1 ATTCAAGAAATAGAGGCTGAAGGAGAGGGAAAATCAAGTTAAAGATTGAAATCAATAGAGCAAGG
18502478 TAAGAAC
66 TAAGAAC
18502485 ATTCAAGAAATAGAGGCTGAAGGAGAGGGAAAATCAAGTTAAAGATTGAAATCAATAGAGCAAGG
1 ATTCAAGAAATAGAGGCTGAAGGAGAGGGAAAATCAAGTTAAAGATTGAAATCAATAGAGCAAGG
18502550 TAAGAAC
66 TAAGAAC
18502557 A-TCAAGA
1 ATTCAAGA
18502564 TTTCAATATA
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 6 0.08
72 71 0.92
ACGTcount: A:0.48, C:0.08, G:0.26, T:0.17
Consensus pattern (72 bp):
ATTCAAGAAATAGAGGCTGAAGGAGAGGGAAAATCAAGTTAAAGATTGAAATCAATAGAGCAAGG
TAAGAAC
Found at i:18502776 original size:19 final size:19
Alignment explanation
Indices: 18502752--18502789 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18502742 TTAAATATTA
18502752 AAATACTATAGAGAAAGGG
1 AAATACTATAGAGAAAGGG
18502771 AAATACTATAGAGAAAGGG
1 AAATACTATAGAGAAAGGG
18502790 TTTTAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.26, T:0.16
Consensus pattern (19 bp):
AAATACTATAGAGAAAGGG
Found at i:18504095 original size:57 final size:57
Alignment explanation
Indices: 18503989--18504097 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
18503979 GATCCTATCC
* **
18503989 TGATATAGCCCTCCCGAAGAATATGTGTGTAAAAGATCTAGTGCAGACGGGTGATCT
1 TGATATAGCCCTCCCGAAGAATATGTGAGTAAAAGATCTAGCCCAGACGGGTGATCT
* *
18504046 TGATATAGCCCTCCCGAAGAATATGT-AG-AAAATGGATTTAGCCCGGACGGGT
1 TGATATAGCCCTCCCGAAGAATATGTGAGTAAAA--GATCTAGCCCAGACGGGT
18504098 AATCCAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
55 4 0.09
56 1 0.02
57 40 0.89
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (57 bp):
TGATATAGCCCTCCCGAAGAATATGTGAGTAAAAGATCTAGCCCAGACGGGTGATCT
Found at i:18509431 original size:23 final size:25
Alignment explanation
Indices: 18509410--18509464 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
18509400 TTTAGCAATC
18509410 AAATAATAA-AATAAACAACAATACA
1 AAATAATAATAAT-AACAACAATACA
*
18509435 GAAATAATAATAATAACAACGAATATA
1 -AAATAATAATAATAACAAC-AATACA
18509462 AAA
1 AAA
18509465 CAACAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.69, C:0.09, G:0.04, T:0.18
Consensus pattern (25 bp):
AAATAATAATAATAACAACAATACA
Found at i:18509635 original size:18 final size:16
Alignment explanation
Indices: 18509589--18509657 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 16
18509579 GAAATGCAGG
* *
18509589 ATACAATAAAAAAATAA
1 ATACAATAATATAAT-A
*
18509606 ATACATTAATATAATA
1 ATACAATAATATAATA
18509622 ATACCTAATAATATACA-A
1 ATA-C-AATAATATA-ATA
18509640 ATACAAT-ATATAATA
1 ATACAATAATATAATA
18509655 ATA
1 ATA
18509658 TATAAATGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.02
15 9 0.20
16 7 0.16
17 14 0.32
18 12 0.27
19 1 0.02
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
ATACAATAATATAATA
Found at i:18509647 original size:23 final size:23
Alignment explanation
Indices: 18509621--18509664 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18509611 TTAATATAAT
*
18509621 AATACCTAATAATATACAAATAC
1 AATACATAATAATATACAAATAC
* *
18509644 AATATATAATAATATATAAAT
1 AATACATAATAATATACAAAT
18509665 GAAATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (23 bp):
AATACATAATAATATACAAATAC
Found at i:18511082 original size:45 final size:45
Alignment explanation
Indices: 18511029--18511191 Score: 154
Period size: 45 Copynumber: 3.6 Consensus size: 45
18511019 TTCAATCTAT
18511029 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
* * * *
18511074 TCCACTGCAACTTCAAGGAAATGAGATTCT-CTATCCTT-AGTTTAC
1 TCCACTGCAACTTCAGGGAAATAAGATT-TGCTAT-CTTCAGTCTGC
* * * * *
18511119 TCCACTGCAACTTCAGTGAGATATG-TCTTG-TAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGAT-TTGCTATCTTCAGTCTGC
* * **
18511163 CCCACTACAACTTCAGGGGGATAAGATTT
1 TCCACTGCAACTTCAGGGAAATAAGATTT
18511192 AGCTTTGGTG
Statistics
Matches: 94, Mismatches: 18, Indels: 13
0.75 0.14 0.10
Matches are distributed among these distances:
43 3 0.03
44 30 0.32
45 57 0.61
46 4 0.04
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
Found at i:18511490 original size:143 final size:143
Alignment explanation
Indices: 18511256--18511567 Score: 405
Period size: 143 Copynumber: 2.2 Consensus size: 143
18511246 ATTTTAATTC
* * * *
18511256 GCTCCACTACAACTTCAAGGAGAT-AGGATTGGTGGCTTCAATCTGCTTCATACAAATTCAGAAA
1 GCTCCACTGCAACTTCAGGGAGATAAGGATTGGTGGCTTCAATATGCTCCATACAAATTCAGAAA
* * * *
18511320 GATAAGATCCTCCATAATTTGTAGCTTTAATCTATTCCACTGTAACGTTAGAGAAATAAGATTCG
66 GACAAGATCCTACATAATTTGTAGCTTTAATCTATTCCACTGCAACGCTAGAGAAATAAGATTCG
* * *
18511385 TTGTCTTTAGTCT
131 CTATCTTCAGTCT
* * ** *
18511398 GCTCCGCTGCAACTTTAGGGAGATAAGG-TTGGTGGCTTCAATATGCTCCACTGTAACTTCAGAA
1 GCTCCACTGCAACTTCAGGGAGATAAGGATTGGTGGCTTCAATATGCTCCA-TACAAATTCAGAA
* * *
18511462 AGACAAGAT-CTGACATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAGTAAGATT
65 AGACAAGATCCT-ACATAATTTGTAGCTTTAATCTATTCCACTGCAACGCTAGAGAAATAAGATT
18511526 CGCTATCTTCAGTCT
129 CGCTATCTTCAGTCT
*
18511541 GCTCCACTGGAACTTCAGGGAGATAAG
1 GCTCCACTGCAACTTCAGGGAGATAAG
18511568 ACTTGTAACT
Statistics
Matches: 145, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
142 42 0.29
143 103 0.71
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (143 bp):
GCTCCACTGCAACTTCAGGGAGATAAGGATTGGTGGCTTCAATATGCTCCATACAAATTCAGAAA
GACAAGATCCTACATAATTTGTAGCTTTAATCTATTCCACTGCAACGCTAGAGAAATAAGATTCG
CTATCTTCAGTCT
Found at i:18511580 original size:143 final size:143
Alignment explanation
Indices: 18511256--18511602 Score: 378
Period size: 143 Copynumber: 2.4 Consensus size: 143
18511246 ATTTTAATTC
* * * * ** * * *
18511256 GCTCCACTACAACTTCAAGGAGATAGGATTGGTGGCTTCAATC-TGCTTCA-TACAAATTCAGAA
1 GCTCCACTGCAACTTCAGGGAGATAAGCTTGGTAACTTCAA-CATGCTCCACTGCAACTTCAGAA
* * * *
18511319 AGATAAGATCCTCCATAATTTGTAGCTTTAATCTATTCCACTGTAACGTTAGAGAAATAAGATTC
65 AGACAAGATCCTACATAATTTGTAGCTTTAATCTATTCCACTGCAACGCTAGAGAAATAAGATTC
* * *
18511384 GTTGTCTTTAGTCT
130 GCTATCTTCAGTCT
* * * ** * *
18511398 GCTCCGCTGCAACTTTAGGGAGATAAGGTTGGTGGCTTCAATATGCTCCACTGTAACTTCAGAAA
1 GCTCCACTGCAACTTCAGGGAGATAAGCTTGGTAACTTCAACATGCTCCACTGCAACTTCAGAAA
* * *
18511463 GACAAGAT-CTGACATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCTAGGGAAGTAAGATTC
66 GACAAGATCCT-ACATAATTTGTAGCTTTAATCTATTCCACTGCAACGCTAGAGAAATAAGATTC
18511527 GCTATCTTCAGTCT
130 GCTATCTTCAGTCT
* * *
18511541 GCTCCACTGGAACTTCAGGGAGATAAGACTT-GTAACTTCAACCTGCTCCATTGCAACTTCAG
1 GCTCCACTGCAACTTCAGGGAGATAAG-CTTGGTAACTTCAACATGCTCCACTGCAACTTCAG
18511603 GGAGATAAGG
Statistics
Matches: 170, Mismatches: 31, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
142 43 0.25
143 125 0.74
144 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (143 bp):
GCTCCACTGCAACTTCAGGGAGATAAGCTTGGTAACTTCAACATGCTCCACTGCAACTTCAGAAA
GACAAGATCCTACATAATTTGTAGCTTTAATCTATTCCACTGCAACGCTAGAGAAATAAGATTCG
CTATCTTCAGTCT
Found at i:18513105 original size:45 final size:45
Alignment explanation
Indices: 18513044--18513131 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
18513034 GCCTCTCTTT
18513044 TTTTTACGACTCAAAGCGCCCTTCGCGGGTTTTCACCTTGGTCTC
1 TTTTTACGACTCAAAGCGCCCTTCGCGGGTTTTCACCTTGGTCTC
* * *
18513089 TTTTTAGGACTTAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
1 TTTTTACGACTCAAAGCGCCCTTCGCGGGTTTTCACCTTGGTC
18513132 CCTTCTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.38
Consensus pattern (45 bp):
TTTTTACGACTCAAAGCGCCCTTCGCGGGTTTTCACCTTGGTCTC
Found at i:18520367 original size:19 final size:20
Alignment explanation
Indices: 18520343--18520389 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
18520333 TGGTGGACTT
* *
18520343 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
18520362 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
18520382 -AATGCAAA
1 TAATGCAAA
18520390 AAGGCGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:18525729 original size:240 final size:240
Alignment explanation
Indices: 18525306--18525790 Score: 889
Period size: 240 Copynumber: 2.0 Consensus size: 240
18525296 TGTGATGGGA
18525306 AAAAGAGACAGAACAAATGAAAGACAATCAACTAAGTCTGGTACTGGTTCACTGATTAAAATTAA
1 AAAAGAGACAGAACAAATGAAAGACAATCAACTAAGTCTGGTACTGGTTCACTGATTAAAATTAA
* * *
18525371 TGAGAGATCAACGGCCGTTGGCCAGTAGGCCGACCGGGAACAATGAAAATTTTAAGTTCGAACAT
66 TGAGAGATCAACGGCCGCTGGCCAGTAGGCCGACCGGGAACAATAAAAATTTTAAATTCGAACAT
* *
18525436 TCATAAATCGGGGCATCCACGAGTGATTAATCGCCTCAGGAATAAGGTGAGGCATGTACAACCCT
131 TCATAAATCGGGGCATCCACGAGCGATTAATCGCCTCAGGAATAAAGTGAGGCATGTACAACCCT
*
18525501 TGATTTTGTTTCTAATAGAAATAAAATTGAGTGAAAAGAGAATGG
196 TGATTTTGATTCTAATAGAAATAAAATTGAGTGAAAAGAGAATGG
*
18525546 AAAAGAGACAGAACAAATGAAAGACAATCAACTAAGTCTGGTGCTGGTTCACTGATTAAAATTAA
1 AAAAGAGACAGAACAAATGAAAGACAATCAACTAAGTCTGGTACTGGTTCACTGATTAAAATTAA
*
18525611 TGAGAGATCAACGGCCGCTGGCGAGTAGGCCGACCGGGAACAATAAAAATTTTAAATTCGAACAT
66 TGAGAGATCAACGGCCGCTGGCCAGTAGGCCGACCGGGAACAATAAAAATTTTAAATTCGAACAT
*
18525676 TCATAAATTGGGGCATCCACGAGCGATTAATCGCCTCAGGAATAAAGTGAGGCATGTACAACCCT
131 TCATAAATCGGGGCATCCACGAGCGATTAATCGCCTCAGGAATAAAGTGAGGCATGTACAACCCT
18525741 TGATTTTGATTCTAATAGAAATAAAATTGAGTGAAAAGAGAATGG
196 TGATTTTGATTCTAATAGAAATAAAATTGAGTGAAAAGAGAATGG
18525786 AAAAG
1 AAAAG
18525791 GTTCAACTGA
Statistics
Matches: 236, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
240 236 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (240 bp):
AAAAGAGACAGAACAAATGAAAGACAATCAACTAAGTCTGGTACTGGTTCACTGATTAAAATTAA
TGAGAGATCAACGGCCGCTGGCCAGTAGGCCGACCGGGAACAATAAAAATTTTAAATTCGAACAT
TCATAAATCGGGGCATCCACGAGCGATTAATCGCCTCAGGAATAAAGTGAGGCATGTACAACCCT
TGATTTTGATTCTAATAGAAATAAAATTGAGTGAAAAGAGAATGG
Found at i:18528789 original size:9 final size:9
Alignment explanation
Indices: 18528771--18528823 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
18528761 TACAAAATTT
*
18528771 GAAATTAAA
1 GAAATAAAA
18528780 GAAATAAAA
1 GAAATAAAA
*
18528789 GAAAGGGTTCAAA
1 GAAA----TAAAA
18528802 GAAATAAAA
1 GAAATAAAA
18528811 GAAATAAAA
1 GAAATAAAA
18528820 GAAA
1 GAAA
18528824 GGGCTCAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 29 0.78
13 8 0.22
ACGTcount: A:0.68, C:0.02, G:0.17, T:0.13
Consensus pattern (9 bp):
GAAATAAAA
Found at i:18528806 original size:31 final size:31
Alignment explanation
Indices: 18528771--18528833 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
18528761 TACAAAATTT
* *
18528771 GAAATTAAAGAAATAAAAGAAAGGGTTCAAA
1 GAAATAAAAGAAATAAAAGAAAGGGCTCAAA
18528802 GAAATAAAAGAAATAAAAGAAAGGGCTCAAA
1 GAAATAAAAGAAATAAAAGAAAGGGCTCAAA
18528833 G
1 G
18528834 GTTTGAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.62, C:0.05, G:0.21, T:0.13
Consensus pattern (31 bp):
GAAATAAAAGAAATAAAAGAAAGGGCTCAAA
Found at i:18529850 original size:18 final size:19
Alignment explanation
Indices: 18529818--18529864 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
18529808 TGCAATTTTC
*
18529818 TTTTAATAATC-AAAATTTA
1 TTTT-ATAATCAAAAATGTA
*
18529837 TTTTATAATGAAAAATGTA
1 TTTTATAATCAAAAATGTA
*
18529856 TTTTGTAAT
1 TTTTATAAT
18529865 AATCAATGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (19 bp):
TTTTATAATCAAAAATGTA
Found at i:18530426 original size:17 final size:15
Alignment explanation
Indices: 18530391--18530421 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18530381 TTTATACTAC
*
18530391 AATATATTTATTATT
1 AATATATTTATAATT
18530406 AATATATTTATAATT
1 AATATATTTATAATT
18530421 A
1 A
18530422 TAATAAAAAT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATATATTTATAATT
Found at i:18541306 original size:124 final size:125
Alignment explanation
Indices: 18540886--18541326 Score: 679
Period size: 125 Copynumber: 3.5 Consensus size: 125
18540876 GATAAAATCA
18540886 AAGCAGGATGCTTTATCAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * **
18540951 AGGTACTGAAAAAATAATTTTGAGTTGACGTTTATGAGAAAATAGTATAAAAAAAACTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * ** * *
18541011 AAGCAGGATGCTTTATTAGAAGAATTTCTGAAATCGCGCCCATGTGGTTGTGCTTTTACTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
18541076 TGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
18541136 AAGCAGGATGCTTTATCAGAAGAATTTCT-AAAGTCGCGCCCACGTGGACGCGCTTTTGCTAGAG
1 AAGCAGGATGCTTTATCAGAAGAATTTATGAAA-TCGCGCCCACGTGGACGCGCTTTTGCTACAG
18541200 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA-AAAAAACGCTTC
65 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * *
18541260 AAGCAGAATGCTTTATCAGAATAATTTAGGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
18541325 AG
66 AG
18541327 CATGTTTGGG
Statistics
Matches: 286, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
124 72 0.25
125 214 0.75
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:18546078 original size:112 final size:111
Alignment explanation
Indices: 18545881--18546094 Score: 313
Period size: 112 Copynumber: 1.9 Consensus size: 111
18545871 ATATTTTTTT
**
18545881 GTACCAGTCAAAACATTTTGTAAAATCTGGTTGAATGTTAGTAAAATTATTAATTGCTAATTGTA
1 GTACCAGTCAAAACATTTTGTAAAATCTCATT-AATGTTAGTAAAATTATTAATTGCTAATTGTA
18545946 TTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTCTAG
65 TTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTCTAG
* * * * *
18545993 GTACCAGTCAAAACATTTTGTGAAATCTAACATT-TTGTTAGTCAAATTCTTAATTGTTAATTGT
1 GTACCAGTCAAAACATTTTGTAAAATCT--CATTAATGTTAGTAAAATTATTAATTGCTAATTGT
* *
18546057 ATTAATTGTTAGTAAATTTATCAAATTATATCATATTA
64 ATTAATTGTTAGTAAAATTATCAAATTATATCAAATTA
18546095 GGGTTAGATT
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
112 89 0.98
114 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (111 bp):
GTACCAGTCAAAACATTTTGTAAAATCTCATTAATGTTAGTAAAATTATTAATTGCTAATTGTAT
TAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTCTAG
Found at i:18546161 original size:15 final size:15
Alignment explanation
Indices: 18546141--18546169 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18546131 GGGTTTTGGT
18546141 GTTTTTAAGTTAAGA
1 GTTTTTAAGTTAAGA
18546156 GTTTTTAAGTTAAG
1 GTTTTTAAGTTAAG
18546170 GGTTACGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
GTTTTTAAGTTAAGA
Found at i:18546195 original size:27 final size:28
Alignment explanation
Indices: 18546149--18546201 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
18546139 GTGTTTTTAA
*
18546149 GTTAAGAGTTTTTAAGTTAAGGGTTACG
1 GTTAAGAGGTTTTAAGTTAAGGGTTACG
18546177 GTTAAG-GGTTTTAAGTTAAGGGTTA
1 GTTAAGAGGTTTTAAGTTAAGGGTTA
18546202 TGATTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.28, C:0.02, G:0.30, T:0.40
Consensus pattern (28 bp):
GTTAAGAGGTTTTAAGTTAAGGGTTACG
Found at i:18546201 original size:21 final size:20
Alignment explanation
Indices: 18546176--18546375 Score: 240
Period size: 21 Copynumber: 9.5 Consensus size: 20
18546166 TAAGGGTTAC
18546176 GGTTAAGGGTTTTAAGTTAAG
1 GGTT-AGGGTTTTAAGTTAAG
**
18546197 GGTTATGATTTTTAAGTTAAG
1 GGTTA-GGGTTTTAAGTTAAG
*
18546218 GATTAGGGGTTTTAAGTTAAG
1 GGTTA-GGGTTTTAAGTTAAG
*
18546239 GGTTAGTAGTTTTAAGTTAAG
1 GGTTAG-GGTTTTAAGTTAAG
18546260 GGTTAGGGTTTTTTAA-TTAAG
1 GGTTAGGG--TTTTAAGTTAAG
18546281 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGG-TTTTAAGTTAAG
18546302 GGTTTAGGGTTTTTAAGTTAAG
1 GG-TTAGGG-TTTTAAGTTAAG
* *
18546324 TGTTATGGTTTTTAAGTTAAG
1 GGTTA-GGGTTTTAAGTTAAG
18546345 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGG-TTTTAAGTTAAG
18546366 GGTTAGGGTT
1 GGTTAGGGTT
18546376 AGGGTTTTTG
Statistics
Matches: 158, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
20 14 0.09
21 116 0.73
22 28 0.18
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (20 bp):
GGTTAGGGTTTTAAGTTAAG
Found at i:18546215 original size:63 final size:63
Alignment explanation
Indices: 18546142--18546383 Score: 225
Period size: 63 Copynumber: 3.7 Consensus size: 63
18546132 GGTTTTGGTG
18546142 TTTTTAAGTTAA-G-A-GTTTTTAAGTTAAGGGTTACGGTTAAGGGTTTTAAGTTAAGGGTTATG
1 TTTTTAAGTTAAGGTAGGTTTTTAAGTTAAGGGTTA--GTT-AGGGTTTTAAGTTAAGGGTTATG
18546204 A
63 A
* *
18546205 TTTTTAAGTTAAGGATTAGGGGTTTTAAGTTAAGGGTTAG-TA--GTTTTAAGTTAAGGGTTAGG
1 TTTTTAAGTTAAGG--TA-GGTTTTTAAGTTAAGGGTTAGTTAGGGTTTTAAGTTAAGGGTTA-T
*
18546267 GT
62 GA
*
18546269 TTTTTAA-TTAAGGGTTAGGGTTTTTAAGTTAAGGG-T--TTAGGGTTTTTAAGTTAAGTGTTAT
1 TTTTTAAGTTAA-GG-TA-GGTTTTTAAGTTAAGGGTTAGTTAGGG-TTTTAAGTTAAGGGTTAT
*
18546330 GG
62 GA
18546332 TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTT
1 TTTTTAAGTTAA-GG-TA-GGTTTTTAAGTTAAGGGTTA--GTTAGGGTTTT
18546384 TGTTAGGGTT
Statistics
Matches: 154, Mismatches: 7, Indels: 31
0.80 0.04 0.16
Matches are distributed among these distances:
61 2 0.01
62 1 0.01
63 63 0.41
64 55 0.36
65 2 0.01
66 1 0.01
67 2 0.01
68 4 0.03
69 24 0.16
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (63 bp):
TTTTTAAGTTAAGGTAGGTTTTTAAGTTAAGGGTTAGTTAGGGTTTTAAGTTAAGGGTTATGA
Found at i:18546228 original size:42 final size:42
Alignment explanation
Indices: 18546176--18546370 Score: 270
Period size: 42 Copynumber: 4.6 Consensus size: 42
18546166 TAAGGGTTAC
18546176 GGTTAAGGG-TTTTAAGTTAAGGGTTATGATTTTTAAGTTAAG
1 GGTT-AGGGTTTTTAAGTTAAGGGTTATGATTTTTAAGTTAAG
* * *
18546218 GATTAGGGGTTTTAAGTTAAGGGTTA-GTAGTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTATG-ATTTTTAAGTTAAG
* *
18546260 GGTTAGGGTTTTTTAA-TTAAGGGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGG-TTTTTAAGTTAAGGGTTATGATTTTTAAGTTAAG
* *
18546302 GGTTTAGGGTTTTTAAGTTAAGTGTTATGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAGGGTTATGATTTTTAAGTTAAG
18546345 GGTTAGGGTTTTTAAGTTAAGGGTTA
1 GGTTAGGGTTTTTAAGTTAAGGGTTA
18546371 GGGTTAGGGT
Statistics
Matches: 138, Mismatches: 9, Indels: 12
0.87 0.06 0.08
Matches are distributed among these distances:
41 5 0.04
42 94 0.68
43 39 0.28
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (42 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTATGATTTTTAAGTTAAG
Found at i:18546337 original size:85 final size:84
Alignment explanation
Indices: 18546176--18546375 Score: 289
Period size: 85 Copynumber: 2.4 Consensus size: 84
18546166 TAAGGGTTAC
* *
18546176 GGTTAAGGG-TTTTAAGTTAAGGGTTATGATTTTTAAGTTAAGGATTAGGGGTTTTAAGTTAAGG
1 GGTT-AGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGATTAGGGGTTTTAAGTTAAGG
18546240 GTTAGTAGTTTTAAGTTAAG
65 GTTAGTAGTTTTAAGTTAAG
* *
18546260 GGTTAGGGTTTTTTAA-TTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
1 GGTTAGGG-TTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGATTAGGGGTTTTAAGTTAAG
* *
18546324 TGTTA-TGGTTTTTAAGTTAAG
64 GGTTAGTAG-TTTTAAGTTAAG
18546345 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
18546376 AGGGTTTTTG
Statistics
Matches: 105, Mismatches: 6, Indels: 9
0.88 0.05 0.08
Matches are distributed among these distances:
83 4 0.04
84 36 0.34
85 65 0.62
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (84 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGATTAGGGGTTTTAAGTTAAGGG
TTAGTAGTTTTAAGTTAAG
Found at i:18547637 original size:7 final size:7
Alignment explanation
Indices: 18547625--18547650 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18547615 TTATATGCAT
18547625 AATACTA
1 AATACTA
18547632 AATACTA
1 AATACTA
18547639 AATACTA
1 AATACTA
18547646 AATAC
1 AATAC
18547651 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:18548837 original size:21 final size:22
Alignment explanation
Indices: 18548799--18548843 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
18548789 AATAATTAAA
*
18548799 AATAGGAATTTAAGAGAAATTT
1 AATAGGAATTTAAGAGAAAATT
*
18548821 AATAGGAA-TTGAGAGAAAATT
1 AATAGGAATTTAAGAGAAAATT
18548842 AA
1 AA
18548844 AATTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.27
Consensus pattern (22 bp):
AATAGGAATTTAAGAGAAAATT
Found at i:18548868 original size:50 final size:53
Alignment explanation
Indices: 18548792--18548892 Score: 129
Period size: 50 Copynumber: 2.0 Consensus size: 53
18548782 TTTTAAAAAT
18548792 AATTAAAAATAGGAATTTAAGAGAAATTT-AATAGG-AATTGAGAGAAAATTAA
1 AATTAAAAATAGGAATTTAAGAGAAATTTGAA-AGGAAATTGAGAGAAAATTAA
* * * *
18548844 AATTAAATAT-GG-ATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATT
1 AATTAAAAATAGGAATTTAAGAGAAATTTGAAAGGAAATTGAGAGAAAATT
18548893 GAGAGGAGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
50 17 0.40
51 17 0.40
52 9 0.21
ACGTcount: A:0.50, C:0.01, G:0.21, T:0.28
Consensus pattern (53 bp):
AATTAAAAATAGGAATTTAAGAGAAATTTGAAAGGAAATTGAGAGAAAATTAA
Found at i:18550895 original size:27 final size:27
Alignment explanation
Indices: 18550848--18550901 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
18550838 TTTTTCGTGT
* *
18550848 ATTATTTTTAATTATTTTATA-CATTA
1 ATTATTTTAAATTATTATATATCATTA
18550874 ATTATTTTAAAATTATTATATATCATTA
1 ATTATTTT-AAATTATTATATATCATTA
18550902 TCTTTATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 11 0.46
28 5 0.21
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTTTAAATTATTATATATCATTA
Found at i:18550902 original size:40 final size:42
Alignment explanation
Indices: 18550858--18550943 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 42
18550848 ATTATTTTTA
*
18550858 ATTAT-TTTATACAT-TA-ATTATTTTAAAATTATTATATATC
1 ATTATCTTTAT-CATGTACATTATTTTAAAATTATTATACATC
* *
18550898 ATTATCTTTATCATGTACTATTGTTTTTAAATTATTATACATC
1 ATTATCTTTATCATGTAC-ATTATTTTAAAATTATTATACATC
18550941 ATT
1 ATT
18550944 GCTTAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
40 8 0.21
41 7 0.18
43 24 0.62
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (42 bp):
ATTATCTTTATCATGTACATTATTTTAAAATTATTATACATC
Found at i:18559574 original size:25 final size:24
Alignment explanation
Indices: 18559546--18559602 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
18559536 CTCACGCACA
*
18559546 TTTCTTTTTCCTCTTCTT-CTTGTC
1 TTTCTTTTACCTCTTCTTCCTT-TC
* *
18559570 TTTTCCTTTACCTCTTTTTCCTTTC
1 -TTTCTTTTACCTCTTCTTCCTTTC
18559595 TTTCTTTT
1 TTTCTTTT
18559603 CAGTTTGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 7 0.26
25 17 0.63
26 3 0.11
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTCTTTTACCTCTTCTTCCTTTC
Found at i:18567338 original size:18 final size:18
Alignment explanation
Indices: 18567317--18567356 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
18567307 TCTCCGGACT
18567317 TTTTGGGATTGT-TTTTGG
1 TTTTGGG-TTGTATTTTGG
*
18567335 TTTTGGGTTTTATTTTGG
1 TTTTGGGTTGTATTTTGG
18567353 TTTT
1 TTTT
18567357 CTAAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.05, C:0.00, G:0.28, T:0.68
Consensus pattern (18 bp):
TTTTGGGTTGTATTTTGG
Found at i:18578285 original size:17 final size:18
Alignment explanation
Indices: 18578263--18578300 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
18578253 TTAATGAACG
*
18578263 ACAAATAATCAATA-AAT
1 ACAAATAAGCAATATAAT
18578280 ACAAATAAGCAATATAAT
1 ACAAATAAGCAATATAAT
18578298 ACA
1 ACA
18578301 CGTGAGAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.21
Consensus pattern (18 bp):
ACAAATAAGCAATATAAT
Found at i:18578892 original size:26 final size:26
Alignment explanation
Indices: 18578821--18578908 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
18578811 TAGAATAATT
* * *
18578821 TTAAAATAATTAATATATAAAACAAC
1 TTAAAATAAATAATATACAAAACAAG
* ** *
18578847 TAAAAATAAAATAATATACAAAGTAAT
1 TTAAAAT-AAATAATATACAAAACAAG
*
18578874 TTAAAATAAATAATTTACAAAACAAG
1 TTAAAATAAATAATATACAAAACAAG
18578900 TTAAAATAA
1 TTAAAATAA
18578909 CACATAATGA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 30 0.60
27 20 0.40
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (26 bp):
TTAAAATAAATAATATACAAAACAAG
Found at i:18583793 original size:132 final size:132
Alignment explanation
Indices: 18583642--18584531 Score: 1290
Period size: 132 Copynumber: 6.8 Consensus size: 132
18583632 TCTTGTGGTT
* ** *
18583642 TTCAATCTACTCCACTGCTGTTCAGGG-AGATAGAATTATTGGCTTCAATGTACTCCACTGTAAC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * * *
18583706 CACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCATTACTGTTTAGGGAGACAAGATATGA
65 CACAGGGAGGTAAAATCT-GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
18583770 AATC
129 AATC
* *
18583774 TTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
18583839 TCAGGGAGGTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGAC--GATCTGAAA
66 ACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
18583902 TC
131 TC
* * *
18583904 TTCAATCTATTCCGCTGCTGCCGAGGGAAGTAGAATTACTGGCTTCAATGTACTCCGCTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* * *
18583969 ATAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCTACTACTGCTTAGGGAGACAAGATCTGTAA
66 ACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
18584034 TC
131 TC
*
18584036 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* * * *
18584101 ACAGGGAGGTAAAATCTGCCATTTTTTATTTGCTCCACTACTGCTTAGGGAGACAAGGTCTGAAA
66 ACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
18584166 TC
131 TC
* *
18584168 TTCAATCTATTCCACTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* * * * * *
18584233 AC-GAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTGTATATGC--AGGAAGGCAAGATCT
66 ACAG-GGAGGTAAAATCTGCCATCTTTGATCTGCTCCAC--TA-CTGCTTAGGGAGACAAGATCT
* *
18584295 AAAACC
127 GAAATC
* *
18584301 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTTAATGTACTCCACTATAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* * *
18584366 ACAGGGAGGTAAAATCTGCCATTTTTTATTTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
66 ACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
18584431 TC
131 TC
* * *
18584433 TTTAATCTATTCCACTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
18584498 ACAAGGAGGTAAAATCTGCCATCTTCGATCTGCT
66 ACAGGGAGGTAAAATCTGCCATCTTTGATCTGCT
18584532 TCGCTATCTA
Statistics
Matches: 676, Mismatches: 71, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
130 123 0.18
131 3 0.00
132 434 0.64
133 110 0.16
134 3 0.00
135 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
ACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
TC
Found at i:18583957 original size:262 final size:263
Alignment explanation
Indices: 18583642--18584531 Score: 1324
Period size: 265 Copynumber: 3.4 Consensus size: 263
18583632 TCTTGTGGTT
* * *
18583642 TTCAATCTACTCCACTGCTGTTCAGGG-AGATAGAATTATTGGCTTCAATGTACTCCACTGTAAC
1 TTCAATCTATTCCACTGCTGTCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
18583706 CACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCATTACTGTTTAGGGAGACAAGATATGA
65 CACAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCCATTACTGTTTAGGGAGACAAGATCTGA
* *
18583770 AATCTTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGC
129 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * * * *
18583835 AACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGAC-GATCTG
194 AACCACAGGGAGGTAAAATCTGCCATTTTTTATTTGCTCCACTACTGCTTAGGGAGACAGATCTG
18583899 AAATC
259 AAATC
* *
18583904 TTCAATCTATTCCGCTGCTG-CCGAGGGAAGTAGAATTACTGGCTTCAATGTACTCCGCTGTAAC
1 TTCAATCTATTCCACTGCTGTCC-AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * * * * *
18583968 CATAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCTACTACTGCTTAGGGAGACAAGATCTGTA
65 CACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCATTACTGTTTAGGGAGACAAGATCTGAA
*
18584033 ATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTA
130 ATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTA
*
18584098 ACCACAGGGAGGTAAAATCTGCCATTTTTTATTTGCTCCACTACTGCTTAGGGAGACAAGGTCTG
195 ACCACAGGGAGGTAAAATCTGCCATTTTTTATTTGCTCCACTACTGCTTAGGGAGAC-AGATCTG
18584163 AAATC
259 AAATC
*
18584168 TTCAATCTATTCCACTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* * * ** * * *
18584233 AC-GAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCGCTGTA-TATGCAGGAAGGCAAGATCTA
66 ACAG-GGAGGTAAAATCTGCCATCTTCGATCTGCTCC-AT-TACTGTTTAGGGAGACAAGATCTG
* * *
18584296 AAACCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTTAATGTACTCCACTA
128 AAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTG
18584361 TAACCACAGGGAGGTAAAATCTGCCATTTTTTATTTGCTCCACTACTGCTTAGGGAGACAAGATC
193 TAACCACAGGGAGGTAAAATCTGCCATTTTTTATTTGCTCCACTACTGCTTAGGGAGAC-AGATC
18584426 TGAAATC
257 TGAAATC
* *
18584433 TTTAATCTATTCCACTGCTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
*
18584498 ACAAGGAGGTAAAATCTGCCATCTTCGATCTGCT
66 ACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
18584532 TCGCTATCTA
Statistics
Matches: 570, Mismatches: 48, Indels: 17
0.90 0.08 0.03
Matches are distributed among these distances:
261 1 0.00
262 224 0.39
263 4 0.01
264 99 0.17
265 240 0.42
266 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (263 bp):
TTCAATCTATTCCACTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
ACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCATTACTGTTTAGGGAGACAAGATCTGAAA
TCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAA
CCACAGGGAGGTAAAATCTGCCATTTTTTATTTGCTCCACTACTGCTTAGGGAGACAGATCTGAA
ATC
Found at i:18585188 original size:14 final size:14
Alignment explanation
Indices: 18585169--18585198 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18585159 AGGGATAGTC
18585169 TTAGTTTAGACTTT
1 TTAGTTTAGACTTT
18585183 TTAGTTTAGACTTT
1 TTAGTTTAGACTTT
18585197 TT
1 TT
18585199 TTATTGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (14 bp):
TTAGTTTAGACTTT
Found at i:18585829 original size:7 final size:7
Alignment explanation
Indices: 18585813--18585853 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
18585803 AGCCTCTCTA
*
18585813 TTTTCTT
1 TTTTCAT
18585820 TTTTCAT
1 TTTTCAT
18585827 TTTTCA-
1 TTTTCAT
18585833 TTTTCAT
1 TTTTCAT
18585840 CTTTTCAT
1 -TTTTCAT
18585848 TTTTCA
1 TTTTCA
18585854 CATCACTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
8 7 0.23
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:18585865 original size:21 final size:22
Alignment explanation
Indices: 18585817--18585865 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
18585807 TCTCTATTTT
**
18585817 CTTTTTTCATTTTTCATTTTCA
1 CTTTTTTCATTTTTCATCATCA
*
18585839 -TCTTTTCATTTTTCA-CATCA
1 CTTTTTTCATTTTTCATCATCA
18585859 CTTTTTT
1 CTTTTTT
18585866 TTTGACTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.65
Consensus pattern (22 bp):
CTTTTTTCATTTTTCATCATCA
Found at i:18596485 original size:40 final size:40
Alignment explanation
Indices: 18596398--18596487 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 40
18596388 GGGATGTGTC
* * *
18596398 AGCAAATCGCGTCCACATCAGTGCGATTACTTACGTGGCA
1 AGCAAATCGCGTCCACATAAGCGCGATTACTGACGTGGCA
* *
18596438 A-CAAATCGCGTCCACGTAAGCGCGATTTGCTGACGTGG-A
1 AGCAAATCGCGTCCACATAAGCGCGA-TTACTGACGTGGCA
18596477 AGCAAATCGCG
1 AGCAAATCGCG
18596488 CTTACGTGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 23 0.53
40 20 0.47
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
AGCAAATCGCGTCCACATAAGCGCGATTACTGACGTGGCA
Found at i:18597754 original size:322 final size:311
Alignment explanation
Indices: 18597174--18597803 Score: 774
Period size: 322 Copynumber: 2.0 Consensus size: 311
18597164 AATACATATT
18597174 GGGGCAAAATACCAAAAAAAGCCCTATTTTTTAAAAATTTATCGAAATGGGCCCGGTATTTTATT
1 GGGGCAAAATACCAAAAAAAGCCCTATTTTTTAAAAATTTATCGAAATGGGCCCGGTATTTTATT
* * *
18597239 ATTTACCGGAATGAGCCATTTTCCCCGAAATCACGTCCACTTCAGCGCGATGTGTCAGCAAATCG
66 ATTTACCGAAATGAGCCATTTTCCCCGAAATCACGACCACGTCAGCGCGATGTGTCAGCAAATCG
* *
18597304 CGTCATCGTAGGCGCGATTTGTGTCCACGTAAGCAAAGCGTTCTAACGTGGACAAGATTTGCTGA
131 CGTCATCGTAGGCGCGATTTGTGT-CACGTAAGCAAAGCGTCCTAACGAGGACAAGATTTGCTGA
* *
18597369 CACGTCCCCTGACATCGCGCTGACGTTGACACGATTTCGGGGAAAATGGTCCATTCCGGTAAATA
195 CACGTCCCCTGACATCGCGCTGACGTGGACACGATTTCGGGGAAAATGGCCCATTCCGGTAAATA
*
18597434 ATAAAATACCGGGCCCATTTCGGTAAATTTTAAAAAAATAGGACTTTTTTTG
260 ATAAAATACCGAGCCCATTTCGGTAAATTTTAAAAAAATAGGACTTTTTTTG
18597486 GGGGCAAAATACC-AAAAAAGCCCTATTTTTTAAAAAATTTA-CTGAAATGGGCCCGGTATTTTA
1 GGGGCAAAATACCAAAAAAAGCCCTATTTTTT-AAAAATTTATC-GAAATGGGCCCGGTATTTTA
* * * *
18597549 TTATTTACCGAAATGGGTCATTTTCCCTGAAATCGCGACCACGTCAGCGCGATGTCAGGGAACGT
64 TTATTTACCGAAATGAGCCATTTTCCCCGAAATCACGACCACGTCAGCGCGA--T--------GT
18597614 GTCAGCAAATCGCGTCCA-CGTCA-GCGCGATTTGCT-T-ACGTGGACA-CAAATCGCG-CCT-A
119 GTCAGCAAATCGCGT-CATCGT-AGGCGCGATTTG-TGTCACGT--A-AGCAAA--GCGTCCTAA
** ** ** *
18597672 CGAGGACGCGATTTGCTGACACGTCCCCTGACATCGCGCTGGTGTGGACGTGATTTTGGGGAAAA
176 CGAGGACAAGATTTGCTGACACGTCCCCTGACATCGCGCTGACGTGGACACGATTTCGGGGAAAA
* * ** * * *
18597737 TGGCCCATTTCGGTAAATAATAAAATATCGAGCCTGTTTCGGTAATTTTTTAAAAAATAGGGCTT
241 TGGCCCATTCCGGTAAATAATAAAATACCGAGCCCATTTCGGTAAATTTTAAAAAAATAGGACTT
18597802 TT
306 TT
18597804 ATGTGTAATT
Statistics
Matches: 272, Mismatches: 26, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
311 19 0.07
312 87 0.32
314 1 0.00
320 4 0.01
322 151 0.56
323 7 0.03
324 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (311 bp):
GGGGCAAAATACCAAAAAAAGCCCTATTTTTTAAAAATTTATCGAAATGGGCCCGGTATTTTATT
ATTTACCGAAATGAGCCATTTTCCCCGAAATCACGACCACGTCAGCGCGATGTGTCAGCAAATCG
CGTCATCGTAGGCGCGATTTGTGTCACGTAAGCAAAGCGTCCTAACGAGGACAAGATTTGCTGAC
ACGTCCCCTGACATCGCGCTGACGTGGACACGATTTCGGGGAAAATGGCCCATTCCGGTAAATAA
TAAAATACCGAGCCCATTTCGGTAAATTTTAAAAAAATAGGACTTTTTTTG
Found at i:18598778 original size:34 final size:35
Alignment explanation
Indices: 18598729--18598820 Score: 97
Period size: 31 Copynumber: 2.7 Consensus size: 35
18598719 TAATAATTAA
18598729 TAAATTATTTATAAATATAATGATACATAA-AATATTT
1 TAAA-TATTT-TAAATATAATGATACATAATAATA-TT
*
18598766 TAAA-ATTTTAAATATAAT-A-A-TTAATAATATT
1 TAAATATTTTAAATATAATGATACATAATAATATT
*
18598797 TAAATAATTT-AATATAATGATACA
1 TAAATATTTTAAATATAATGATACA
18598821 CAAAGTAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
31 17 0.36
32 10 0.21
33 2 0.04
34 10 0.21
35 4 0.09
37 4 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (35 bp):
TAAATATTTTAAATATAATGATACATAATAATATT
Found at i:18600097 original size:20 final size:20
Alignment explanation
Indices: 18600074--18600112 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18600064 ATTTTTTTAT
18600074 TTATTCAAATAGGTTGTTAC
1 TTATTCAAATAGGTTGTTAC
*
18600094 TTATTTAAATAGGTTGTTA
1 TTATTCAAATAGGTTGTTA
18600113 AGCTTTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TTATTCAAATAGGTTGTTAC
Found at i:18604674 original size:20 final size:20
Alignment explanation
Indices: 18604649--18604694 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
18604639 TGTTAATATT
* *
18604649 TTGTTATTTATTCAACTAGG
1 TTGTTACTTATTCAAATAGG
*
18604669 TTGTTACTTATTTAAATAGG
1 TTGTTACTTATTCAAATAGG
18604689 TTGTTA
1 TTGTTA
18604695 AGCTTTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (20 bp):
TTGTTACTTATTCAAATAGG
Found at i:18607127 original size:114 final size:114
Alignment explanation
Indices: 18606933--18607139 Score: 261
Period size: 114 Copynumber: 1.8 Consensus size: 114
18606923 TTATTAAGTA
* * ***
18606933 TTTTACTAAGTTGGTGCCACCCATCGACCGAGTCCCAACTCAAGTAGGGAATTACCAAAATGTTA
1 TTTTACTAAGTTGGAGCCACCCATCAACCGAGTCCCAACTCAAGTAGGGAATTACCAAAAAAATA
18606998 ATTTATATACCAAGTAAATTATATGATTAAGTAGGTGTTTTGTTAAGAT
66 ATTTATATACCAAGTAAATTATATGATTAAGTAGGTGTTTTGTTAAGAT
* * ** * * * *
18607047 TTTTTCTAAGTTTGAGCCACCCATCAATTGAGTCCTAAGTCAATTAGGTAATTACCAAAAAAATA
1 TTTTACTAAGTTGGAGCCACCCATCAACCGAGTCCCAACTCAAGTAGGGAATTACCAAAAAAATA
* * * *
18607112 TTTTATATGCTAAGTAAGTTATATGATT
66 ATTTATATACCAAGTAAATTATATGATT
18607140 GAGTGTGTAA
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
114 76 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (114 bp):
TTTTACTAAGTTGGAGCCACCCATCAACCGAGTCCCAACTCAAGTAGGGAATTACCAAAAAAATA
ATTTATATACCAAGTAAATTATATGATTAAGTAGGTGTTTTGTTAAGAT
Found at i:18610165 original size:24 final size:23
Alignment explanation
Indices: 18610134--18610180 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
18610124 AGGAAACCAA
*
18610134 AAAGAAAA-AAAAGAACGAAACCG
1 AAAGAAAAGAAAA-AAAGAAACCG
18610157 AAAGAAAAAGAAAAAAAGAAACCG
1 AAAG-AAAAGAAAAAAAGAAACCG
18610181 GAATCTACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.72, C:0.11, G:0.17, T:0.00
Consensus pattern (23 bp):
AAAGAAAAGAAAAAAAGAAACCG
Found at i:18610618 original size:3 final size:3
Alignment explanation
Indices: 18610610--18610644 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
18610600 ATTTGATTTT
*
18610610 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18610645 TTGGTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:18617238 original size:12 final size:12
Alignment explanation
Indices: 18617221--18617246 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18617211 GGTGGGTGCT
18617221 TTACCAAAAGTC
1 TTACCAAAAGTC
18617233 TTACCAAAAGTC
1 TTACCAAAAGTC
18617245 TT
1 TT
18617247 TTAACAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (12 bp):
TTACCAAAAGTC
Found at i:18620216 original size:17 final size:17
Alignment explanation
Indices: 18620186--18620223 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18620176 CTGTGAAATT
18620186 TAATCATTTTATTGAAA
1 TAATCATTTTATTGAAA
*
18620203 TAAT-ATTTTAATTGAGA
1 TAATCATTTT-ATTGAAA
18620220 TAAT
1 TAAT
18620224 TTTCATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (17 bp):
TAATCATTTTATTGAAA
Found at i:18624883 original size:13 final size:13
Alignment explanation
Indices: 18624865--18624889 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18624855 TTGATTTGTT
18624865 TTGATTATGTAAA
1 TTGATTATGTAAA
18624878 TTGATTATGTAA
1 TTGATTATGTAA
18624890 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Done.