Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 117 of 226
Found at i:39920080 original size:41 final size:41
Alignment explanation
Indices: 39919964--39920080 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 41
39919954 TGATTCAGTA
* * * * *
39919964 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAGTGTTT
* * * *
39920005 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
39920046 CACCGGCAATAAGCCTGCTA-AGCACTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAA
39920081 AATCTCAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.02
41 63 0.97
42 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
Found at i:39920949 original size:9 final size:9
Alignment explanation
Indices: 39920935--39920965 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39920925 CCTAATACAA
39920935 AAATACACC
1 AAATACACC
39920944 AAATACACC
1 AAATACACC
*
39920953 AAATACACA
1 AAATACACC
39920962 AAAT
1 AAAT
39920966 TCATCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (9 bp):
AAATACACC
Found at i:39920950 original size:17 final size:18
Alignment explanation
Indices: 39920928--39920975 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
39920918 ATTTAGTCCT
*
39920928 AATACA-AAAATACACCA
1 AATACACAAAATACACAA
*
39920945 AATACACCAAATACACAA
1 AATACACAAAATACACAA
*
39920963 AATTCATCAAAAT
1 AATACA-CAAAAT
39920976 CATGCCTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 6 0.24
18 14 0.56
19 5 0.20
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (18 bp):
AATACACAAAATACACAA
Found at i:39921688 original size:13 final size:13
Alignment explanation
Indices: 39921670--39921694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39921660 CAATCAAATG
39921670 CACACAAAATAAA
1 CACACAAAATAAA
39921683 CACACAAAATAA
1 CACACAAAATAA
39921695 TATTAAAATT
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:39922804 original size:2 final size:2
Alignment explanation
Indices: 39922797--39922821 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39922787 CAAGAATTAG
39922797 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
39922822 TCTTCAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39929193 original size:21 final size:21
Alignment explanation
Indices: 39929167--39929208 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
39929157 TGTAAAGGGA
39929167 TATGGTTGATCGATATAGGAT
1 TATGGTTGATCGATATAGGAT
39929188 TATGGTTGATCGATATAGGAT
1 TATGGTTGATCGATATAGGAT
39929209 AAGACCCTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.38
Consensus pattern (21 bp):
TATGGTTGATCGATATAGGAT
Found at i:39929467 original size:88 final size:88
Alignment explanation
Indices: 39929314--39929590 Score: 432
Period size: 88 Copynumber: 3.2 Consensus size: 88
39929304 TACTCTAACA
* * * * *
39929314 CTAGCAACTCTTGAATTTTATGTAATGTATGAACATCGATGAAAGTTAGCAATTTAATCAAACAT
1 CTAGCAACTCTTGAATTTTATGTGATGCATGAACATCAATGAAAGTTAGCAGTTTAATCAGACAT
39929379 ATTTTATGATGAGGCATAACATG
66 ATTTTATGATGAGGCATAACATG
* * * *
39929402 CTAGCAACTCTTGAATTTTATGTGATCCATGAACTTCAATCAAAGTTGGCAGTTTAATCAGACAT
1 CTAGCAACTCTTGAATTTTATGTGATGCATGAACATCAATGAAAGTTAGCAGTTTAATCAGACAT
*
39929467 ATTTCTA--ATGAGGCATAACATA
66 ATTT-TATGATGAGGCATAACATG
*
39929489 CTAACAACTCTTGAATTTTATGTGATGCATGAACATCAATGAAAGTTAGCAGTTTAATCAGACAT
1 CTAGCAACTCTTGAATTTTATGTGATGCATGAACATCAATGAAAGTTAGCAGTTTAATCAGACAT
39929554 ATTTTATGATGAGGCATAACATG
66 ATTTTATGATGAGGCATAACATG
39929577 CTAGCAACTCTTGA
1 CTAGCAACTCTTGA
39929591 TTGTCAAGTG
Statistics
Matches: 169, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
86 2 0.01
87 78 0.46
88 87 0.51
89 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (88 bp):
CTAGCAACTCTTGAATTTTATGTGATGCATGAACATCAATGAAAGTTAGCAGTTTAATCAGACAT
ATTTTATGATGAGGCATAACATG
Found at i:39938826 original size:78 final size:78
Alignment explanation
Indices: 39938697--39938860 Score: 274
Period size: 78 Copynumber: 2.1 Consensus size: 78
39938687 AAAAGTTTAG
* *
39938697 AAAATCTTTCTCTATCCACTTCTTATCCACCACCCTCTCTTTCTTTGTAAAAACTTTTCTTTTAC
1 AAAATATTTCTCTATCCACTTCTTATCCACCACCCTCTCTTTCTTTGTAAAAACTTTTCCTTTAC
39938762 TTCTACTTTTGTA
66 TTCTACTTTTGTA
* * *
39938775 AAAATATTTCTTTATCCACTTCTTATCCACCATCCTCTCTTTCTTTGTAAAAAGTTTTCCTTTAC
1 AAAATATTTCTCTATCCACTTCTTATCCACCACCCTCTCTTTCTTTGTAAAAACTTTTCCTTTAC
39938840 TTCTACTTTTGTA
66 TTCTACTTTTGTA
*
39938853 ATAATATT
1 AAAATATT
39938861 ATCCAATATC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.24, C:0.25, G:0.03, T:0.48
Consensus pattern (78 bp):
AAAATATTTCTCTATCCACTTCTTATCCACCACCCTCTCTTTCTTTGTAAAAACTTTTCCTTTAC
TTCTACTTTTGTA
Found at i:39947316 original size:497 final size:487
Alignment explanation
Indices: 39946390--39947375 Score: 1376
Period size: 497 Copynumber: 2.0 Consensus size: 487
39946380 TATGGTTTTG
* *
39946390 CCAGTTTGCCTTCAAATGCTCACATAACTACTCAGGCCACTACTGATTTCAGAATCACACATATT
1 CCAGTTTGCCTTCAAATGCTCACATAACTACCCAGGCCACTACTGATTTCAGAATCACAAATATT
* * *
39946455 GACTTCTGCACTATATATGTTCTCAACTTTCAAGCTCAAACTGTGTTTGATATGAGTGGAAGAGG
66 GAATTCTGCACCATATACGTTCTCAACTTTCAAGCTCAAACTGTGTTTGATATGAGTGGAAGAGG
* *
39946520 AAAAGCAGAAAAGGTGGAAGGAAAATGGTGTTTTTGGTCGTGTCCATCTTTTGCTTCATCTGTAT
131 AAAAACAGAAAAGGTGGAAGGAAAATGGTGTTTTTGGTCG-GTCCATCTTTTGCTTCATCCGTAT
* * * *
39946585 TGAGGAAATGGAGTGAGAGAACGAAAAAGGGAGAGATTGCATCTGCCGGTTCCTTCAAAATCCAA
195 TGAGGAAATAGAGTGAGAGAACGAAAAAGGGAAAGATTGCATCTGCCGATACCTTCAAAATCCAA
*
39946650 TTCCTCTGAAAGTGGTGGAAACCACTGATTCAACTAAAATCAATTTATTTTATTCACATTTATCC
260 TTCCTCTGAAAGTGGTGGAAACCACTGATTCAACTAAAACCAATTTATTTTATTCACATTTATCC
* * * * * **
39946715 TCCGCTCCTTGCTTTCCCTCTTTTTTTCCAATTCTGCACAAAAATCAGGAAGGAAAAAACTTCTA
325 TCAGCACCTAGCTTTCCCCCCTAGTTTCCAATTCTGCACAAAAATCAGGAA-GAAAAAACTTCTA
*
39946780 TCCTTACCTTTCCTTCCTCAGCCCACATTCCTTCCCTCCATTTCTTTCTT-GAAAAGCAGTGCAA
389 TCCTTACCTTTCCTTACTCAGCCCACATTCCTTCCCTCCATTTCTTTCTTAGAAAA-CAGTGCAA
39946844 TGCACAAGTTCAAGAAAATCCCTTAAGCATGTTTA
453 TGCACAAGTTCAAGAAAATCCCTTAAGCATGTTTA
** *
39946879 CCAGTTTGCCTTCAAATGCTCACATAACTACCCAGGCCGTTATTGATTTCAGAATCACAAATATT
1 CCAGTTTGCCTTCAAATGCTCACATAACTACCCAGGCCACTACTGATTTCAGAATCACAAATATT
* *
39946944 GAATTCTGCACCATATACGTTCTTAACTTTCAAGTTTCAACCTTAAACTGTGTTT-AGTATGAGT
66 GAATTCTGCACCATATACGTTCTCAACTTTCAAG-------CTCAAACTGTGTTTGA-TATGAGT
* * *
39947008 GGAAGAGGAAAAACAGAAAGTAGGTGGAAGGAAATTGGTTTTTTTTGGTC-GTCCTTCTTTTGCT
123 GGAAGAGGAAAAACAGAAA--AGGTGGAAGGAAAATGG-TGTTTTTGGTCGGTCCATCTTTTGCT
39947072 TCATCCGTATTGAGGAAATAGAGTGAGAGAAC-AAAAACGGGAAAGATTGCATCAGTG-C-ATAC
185 TCATCCGTATTGAGGAAATAGAGTGAGAGAACGAAAAA-GGGAAAGATTGCATC--TGCCGATAC
* *
39947134 CTTCAAAATCCATTTCCTCTGAAAGTGGTGGAAACCACTGATTCAACTAGAACCAATTTATTTTA
247 CTTCAAAATCCAATTCCTCTGAAAGTGGTGGAAACCACTGATTCAACTAAAACCAATTTATTTTA
39947199 TTCACATTTATCCTCAGCACCTAGCTTTCCCCCCCTAGTTTCCAATTCTGCACAAAAATCA-GAA
312 TTCACATTTATCCTCAGCACCTAGCTTT-CCCCCCTAGTTTCCAATTCTGCACAAAAATCAGGAA
**** * * **
39947263 -AATCCTCTTTTCTATCCTTCCCTTTTCTTACTCAGCCCATGTTCCTTCCCTCCATTTCTTTCTT
376 GAAAAAAC--TTCTATCCTTACCTTTCCTTACTCAGCCCACATTCCTTCCCTCCATTTCTTTCTT
* *
39947327 AGAAAACAGTGCAATGTACAGGTTCAAGAAAATCCCTTAAGCATGTTTA
439 AGAAAACAGTGCAATGCACAAGTTCAAGAAAATCCCTTAAGCATGTTTA
39947376 GGGAAACAGG
Statistics
Matches: 439, Mismatches: 40, Indels: 28
0.87 0.08 0.06
Matches are distributed among these distances:
489 90 0.21
495 4 0.01
496 43 0.10
497 240 0.55
498 50 0.11
499 12 0.03
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (487 bp):
CCAGTTTGCCTTCAAATGCTCACATAACTACCCAGGCCACTACTGATTTCAGAATCACAAATATT
GAATTCTGCACCATATACGTTCTCAACTTTCAAGCTCAAACTGTGTTTGATATGAGTGGAAGAGG
AAAAACAGAAAAGGTGGAAGGAAAATGGTGTTTTTGGTCGGTCCATCTTTTGCTTCATCCGTATT
GAGGAAATAGAGTGAGAGAACGAAAAAGGGAAAGATTGCATCTGCCGATACCTTCAAAATCCAAT
TCCTCTGAAAGTGGTGGAAACCACTGATTCAACTAAAACCAATTTATTTTATTCACATTTATCCT
CAGCACCTAGCTTTCCCCCCTAGTTTCCAATTCTGCACAAAAATCAGGAAGAAAAAACTTCTATC
CTTACCTTTCCTTACTCAGCCCACATTCCTTCCCTCCATTTCTTTCTTAGAAAACAGTGCAATGC
ACAAGTTCAAGAAAATCCCTTAAGCATGTTTA
Found at i:39948743 original size:16 final size:17
Alignment explanation
Indices: 39948722--39948756 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
39948712 CACCATTAAA
39948722 TATTCTGTTAT-TTTAT
1 TATTCTGTTATGTTTAT
*
39948738 TATTCTGTTCTGTTTAT
1 TATTCTGTTATGTTTAT
39948755 TA
1 TA
39948757 ATTATTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.17, C:0.09, G:0.09, T:0.66
Consensus pattern (17 bp):
TATTCTGTTATGTTTAT
Found at i:39953486 original size:24 final size:25
Alignment explanation
Indices: 39953436--39953486 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
39953426 AAGATTCAAA
*
39953436 ATATTTTTAAAAAAATTCAAAATTT
1 ATATTTTTAAAAAAATTCAAAAATT
*
39953461 ATATTTTT-TAAAAATT-ATAAAATT
1 ATATTTTTAAAAAAATTCA-AAAATT
39953485 AT
1 AT
39953487 TAAAAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 1 0.04
24 14 0.61
25 8 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTTTAAAAAAATTCAAAAATT
Found at i:39954755 original size:3 final size:3
Alignment explanation
Indices: 39954747--39954787 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
39954737 AAGGTGACGG
* * *
39954747 TGA TGA TGA TGA TGA TAA TGA TGA TGA TAA TGA TGG TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
39954788 CTGACCACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:39954762 original size:12 final size:12
Alignment explanation
Indices: 39954747--39954786 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
39954737 AAGGTGACGG
*
39954747 TGATGATGATGA
1 TGATAATGATGA
39954759 TGATAATGATGA
1 TGATAATGATGA
*
39954771 TGATAATGATGG
1 TGATAATGATGA
39954783 TGAT
1 TGAT
39954787 GCTGACCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (12 bp):
TGATAATGATGA
Found at i:39959119 original size:16 final size:17
Alignment explanation
Indices: 39959098--39959142 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
39959088 ATTAAAATTT
*
39959098 TAATTTTTTTTT-TAAA
1 TAATTTTTTTTTAAAAA
39959114 TAATTTTTAATTTTAAAAA
1 TAATTTTT--TTTTAAAAA
39959133 TAATTTTTTT
1 TAATTTTTTT
39959143 GGAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.32
17 2 0.08
18 4 0.16
19 11 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TAATTTTTTTTTAAAAA
Found at i:39960915 original size:9 final size:9
Alignment explanation
Indices: 39960901--39960936 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
39960891 TATAGTTTGA
39960901 TATTCGAAT
1 TATTCGAAT
*
39960910 TATTCGAGT
1 TATTCGAAT
39960919 TATTCGAAT
1 TATTCGAAT
39960928 TAATTCGAA
1 T-ATTCGAA
39960937 AACTCAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (9 bp):
TATTCGAAT
Found at i:39961637 original size:13 final size:13
Alignment explanation
Indices: 39961596--39961640 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
39961586 TTCTTCATCA
*
39961596 CTTTTGAAAAGTG
1 CTTTTGAGAAGTG
* *
39961609 CTGTGGAGAAGTG
1 CTTTTGAGAAGTG
39961622 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
39961635 CTTTTG
1 CTTTTG
39961641 GGAAATTTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:39962206 original size:21 final size:21
Alignment explanation
Indices: 39962180--39962234 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
39962170 AACAGCGGTG
*
39962180 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
39962201 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
39962222 GCAGTGAGATTAG
1 GCGGTGAGATTAG
39962235 AAACAGCGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:39968688 original size:72 final size:73
Alignment explanation
Indices: 39968598--39968772 Score: 230
Period size: 72 Copynumber: 2.4 Consensus size: 73
39968588 AAAATCACAT
* * *
39968598 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
39968662 GACCAAAC
66 AACCAAAC
* * *
39968670 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAA
39968733 AAACCAAAC
65 AAACCAAAC
* * *
39968742 ATAAATAACTGTTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
39968773 TTGTTGTTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
71 1 0.01
72 84 0.95
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
AACCAAAC
Found at i:39969212 original size:18 final size:18
Alignment explanation
Indices: 39969191--39969238 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
39969181 TCCATCAATT
*
39969191 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
39969209 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
39969227 TGAACATCATTT
1 TGAACATCATTT
39969239 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:39973348 original size:25 final size:25
Alignment explanation
Indices: 39973320--39973442 Score: 141
Period size: 25 Copynumber: 5.2 Consensus size: 25
39973310 AGAGGAACAA
*
39973320 AGCACCAGTAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
39973345 AGCACCAGCAGAGGAAC--A-AA-T
1 AGCACCAGCAGAGGAACAAAGAACC
*
39973366 A--ACCAGCAGAGGAAGAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
39973389 AGCACCAGCAGAAGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
* * *
39973414 AGCACCAGTAGAGGATCAAAGAAGC
1 AGCACCAGCAGAGGAACAAAGAACC
39973439 AGCA
1 AGCA
39973443 GATGAACAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
19 13 0.16
21 2 0.02
22 4 0.05
23 2 0.02
25 61 0.74
ACGTcount: A:0.49, C:0.24, G:0.24, T:0.03
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:39973372 original size:19 final size:19
Alignment explanation
Indices: 39973310--39973392 Score: 76
Period size: 19 Copynumber: 4.1 Consensus size: 19
39973300 GTGGTGGAGA
* *
39973310 AGAGGAACAAAGCACCAGT
1 AGAGGAACAAAGAACCAGC
39973329 AGAGGAACAAAGAACCAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGC
*
39973354 AGAGGAACAAATAACCAGC
1 AGAGGAACAAAGAACCAGC
*
39973373 AGAGGAAGAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
39973392 A
1 A
39973393 CCAGCAGAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
19 36 0.68
21 1 0.02
25 16 0.30
ACGTcount: A:0.51, C:0.22, G:0.25, T:0.02
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:39973377 original size:44 final size:44
Alignment explanation
Indices: 39973310--39973417 Score: 171
Period size: 44 Copynumber: 2.5 Consensus size: 44
39973300 GTGGTGGAGA
* *
39973310 AGAGGAACAAAGCACCAGTAGAGGAACAAAGAACCAGCACCAGC
1 AGAGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACCAGC
* *
39973354 AGAGGAACAAATAACCAGCAGAGGAAGAAAGAACCAGCACCAGC
1 AGAGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACCAGC
*
39973398 AGAAGAACAAAGAACCAGCA
1 AGAGGAACAAAGAACCAGCA
39973418 CCAGTAGAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.51, C:0.23, G:0.24, T:0.02
Consensus pattern (44 bp):
AGAGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACCAGC
Found at i:39973465 original size:18 final size:19
Alignment explanation
Indices: 39973392--39973465 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 19
39973382 AAGAACCAGC
*
39973392 ACCAGCAGAAGAACAAAGA
1 ACCAGCAGATGAACAAAGA
*
39973411 ACCAGCACCAGTAGAGGATCAAAGA
1 ACCAGCA-GA-T-GA--A-CAAAGA
*
39973436 AGCAGCAGATGAACAAAGA
1 ACCAGCAGATGAACAAAGA
39973455 ACCAG-AGATGA
1 ACCAGCAGATGA
39973466 GAGAAGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
18 6 0.14
19 17 0.39
20 2 0.05
22 4 0.09
23 1 0.02
24 2 0.05
25 12 0.27
ACGTcount: A:0.50, C:0.20, G:0.24, T:0.05
Consensus pattern (19 bp):
ACCAGCAGATGAACAAAGA
Found at i:39973472 original size:69 final size:69
Alignment explanation
Indices: 39973320--39973459 Score: 208
Period size: 69 Copynumber: 2.0 Consensus size: 69
39973310 AGAGGAACAA
* * * *
39973320 AGCACCAGTAGAGGAACAAAGAACCAGCACCAGCAGAGGAACAAATAACCAGCAGAGGAAGAAAG
1 AGCACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGGAACAAAGAACCAGCAGAGGAACAAAG
39973385 AACC
66 AACC
* * * *
39973389 AGCACCAGCAGAAGAACAAAGAACCAGCACCAGTAGAGGATCAAAGAAGCAGCAGATGAACAAAG
1 AGCACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGGAACAAAGAACCAGCAGAGGAACAAAG
39973454 AACC
66 AACC
39973458 AG
1 AG
39973460 AGATGAGAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.49, C:0.23, G:0.24, T:0.04
Consensus pattern (69 bp):
AGCACCAGCAGAAGAACAAAGAACCAGCACCAGCAGAGGAACAAAGAACCAGCAGAGGAACAAAG
AACC
Found at i:39984130 original size:6 final size:7
Alignment explanation
Indices: 39984109--39984134 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
39984099 AGACGTAAGC
39984109 AAATAAA
1 AAATAAA
39984116 AAATAAA
1 AAATAAA
39984123 AAATAAA
1 AAATAAA
39984130 AAATA
1 AAATA
39984135 GAAGAAGCAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:39987827 original size:43 final size:42
Alignment explanation
Indices: 39987742--39987901 Score: 162
Period size: 43 Copynumber: 3.8 Consensus size: 42
39987732 GTAACAATGT
* * * * *
39987742 CATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGC
1 CATAGCCCAGACATGGTCTTACACGAAATCTCATATCGATGC
* * *
39987784 CAATAGCCCAGCCATGGTCTTACACGAAATCACATATCAATGC
1 C-ATAGCCCAGACATGGTCTTACACGAAATCTCATATCGATGC
*
39987827 CGAT-GTCCCAGACATGGTCTTACAC-AAAGTCTCATATTGATGC
1 C-ATAG-CCCAGACATGGTCTTACACGAAA-TCTCATATCGATGC
* * *
39987870 CATATCCCAGATATGGTCTTACACGTAATCTC
1 CATAGCCCAGACATGGTCTTACACGAAATCTC
39987902 GGTAACCCTA
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.30
43 68 0.70
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
CATAGCCCAGACATGGTCTTACACGAAATCTCATATCGATGC
Found at i:39995712 original size:29 final size:29
Alignment explanation
Indices: 39995674--39995748 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
39995664 CATTTCTTTA
39995674 ACAGAGATAGCCACAAATG-CCTCCTTTTG
1 ACAGAGATAGCCACAAA-GACCTCCTTTTG
* * *
39995703 ATAGAGATAGCCACAAAGACGTTCTTTTG
1 ACAGAGATAGCCACAAAGACCTCCTTTTG
*
39995732 ACAGAGATAGCTACAAA
1 ACAGAGATAGCCACAAA
39995749 AACATCTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 39 0.98
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (29 bp):
ACAGAGATAGCCACAAAGACCTCCTTTTG
Found at i:39995764 original size:29 final size:29
Alignment explanation
Indices: 39995670--39995777 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 29
39995660 CAAACATTTC
** *
39995670 TTTAACAGAGATAGCCACAAATGC-CTCCT
1 TTTAACAGAGATAGCCACAAAAACGAT-CT
* * * *
39995699 TTTGATAGAGATAGCCACAAAGACGTTCT
1 TTTAACAGAGATAGCCACAAAAACGATCT
* *
39995728 TTTGACAGAGATAGCTACAAAAAC-ATCT
1 TTTAACAGAGATAGCCACAAAAACGATCT
**
39995756 TTATAACAGAGATCTCCACAAA
1 TT-TAACAGAGATAGCCACAAA
39995778 GGATTTCTTA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 5 0.08
29 58 0.91
30 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (29 bp):
TTTAACAGAGATAGCCACAAAAACGATCT
Found at i:39995788 original size:29 final size:29
Alignment explanation
Indices: 39995756--39995874 Score: 130
Period size: 29 Copynumber: 4.1 Consensus size: 29
39995746 AAAAACATCT
* *
39995756 TTATAACAGAGATCTCCACAAAGGATTTC
1 TTATAACAAAGATCACCACAAAGGATTTC
* ** *
39995785 TTATAATAAAGATTGCCACAAAGGCTTTC
1 TTATAACAAAGATCACCACAAAGGATTTC
* * * *
39995814 TTATAACAGAGATCACCAAAAATGATTTA
1 TTATAACAAAGATCACCACAAAGGATTTC
* *
39995843 TTATAACAAAGATCACCATAAAAGATTTC
1 TTATAACAAAGATCACCACAAAGGATTTC
39995872 TTA
1 TTA
39995875 CGGAAACTAC
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (29 bp):
TTATAACAAAGATCACCACAAAGGATTTC
Found at i:39995806 original size:58 final size:58
Alignment explanation
Indices: 39995744--39995855 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
39995734 AGAGATAGCT
* * * *
39995744 ACAAAAACATCT-TTATAACAGAGATCTCCACAAAGGATTTCTTATAATAAAGATTGCC
1 ACAAAAAC-TCTCTTATAACAGAGATCACCAAAAAGGATTTATTATAACAAAGATTGCC
** * *
39995802 ACAAAGGCTTTCTTATAACAGAGATCACCAAAAATGATTTATTATAACAAAGAT
1 ACAAAAACTCTCTTATAACAGAGATCACCAAAAAGGATTTATTATAACAAAGAT
39995856 CACCATAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 2 0.04
58 43 0.96
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (58 bp):
ACAAAAACTCTCTTATAACAGAGATCACCAAAAAGGATTTATTATAACAAAGATTGCC
Found at i:39995872 original size:58 final size:58
Alignment explanation
Indices: 39995756--39995874 Score: 148
Period size: 58 Copynumber: 2.1 Consensus size: 58
39995746 AAAAACATCT
* * * * ** * *
39995756 TTATAACAGAGATCTCCACAAAGGATTTCTTATAATAAAGATTGCCACAAAGGCTTTC
1 TTATAACAGAGATCACCAAAAAGGATTTATTATAACAAAGATCACCACAAAAGATTTC
* *
39995814 TTATAACAGAGATCACCAAAAATGATTTATTATAACAAAGATCACCATAAAAGATTTC
1 TTATAACAGAGATCACCAAAAAGGATTTATTATAACAAAGATCACCACAAAAGATTTC
39995872 TTA
1 TTA
39995875 CGGAAACTAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (58 bp):
TTATAACAGAGATCACCAAAAAGGATTTATTATAACAAAGATCACCACAAAAGATTTC
Found at i:39996018 original size:25 final size:25
Alignment explanation
Indices: 39995970--39996019 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
39995960 AGAGATAGCC
* *
39995970 ACAAAGACTCACTTATATGGTAATT
1 ACAAAGACTCACTTATAAGATAATT
*
39995995 ACAAAGGCTCACTTATAAGATAATT
1 ACAAAGACTCACTTATAAGATAATT
39996020 GGTGTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (25 bp):
ACAAAGACTCACTTATAAGATAATT
Found at i:40008577 original size:17 final size:17
Alignment explanation
Indices: 40008555--40008588 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
40008545 GATTTACTCT
40008555 GTTCAACTTCATCTTTC
1 GTTCAACTTCATCTTTC
40008572 GTTCAACTTCATCTTTC
1 GTTCAACTTCATCTTTC
40008589 AATCTCGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (17 bp):
GTTCAACTTCATCTTTC
Found at i:40014681 original size:51 final size:50
Alignment explanation
Indices: 40014605--40014826 Score: 194
Period size: 51 Copynumber: 4.4 Consensus size: 50
40014595 TATGAACAGG
* * ** *
40014605 TGTGTAGTACTAAGTGCAAGCTACTACGTCTA-TTGATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAGAT--TGATCACA
* * * * * *
40014656 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGGCCTTGGTCACT
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAG-ATTGATCACA
* * * * *
40014707 TGTGTAGTACTATGTGCAAGCTACTACGTGAACCAGAAAGCTTGATCACG
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAGATTGATCACA
* * * * *
40014757 TGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGACAATGATCACA
1 TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAT-AGATTGATCACA
* *
40014808 TGGGTGGTACTATGTGCAA
1 TGTGTAGTACTATGTGCAA
40014827 ACCACCGAAT
Statistics
Matches: 137, Mismatches: 31, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
50 40 0.29
51 92 0.67
52 4 0.03
53 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGATAGATTGATCACA
Found at i:40022330 original size:51 final size:51
Alignment explanation
Indices: 40022246--40022465 Score: 230
Period size: 51 Copynumber: 4.3 Consensus size: 51
40022236 ATGAACAGGA
* * *
40022246 GTGTAGTACTAAGTGCAGGCTACTACGTCTATC-GATAGATAATGGTCACAT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-GACAATGGTCACAT
* * * *
40022297 GTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGCCATTGGTCACTT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGACAATGGTCACAT
* * * * * * * *
40022348 GTGTAATACTATGTGCAAGCTACTACGTGAACCGGA-AAGC-TTGATCACGT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGA-CAATGGTCACAT
* *
40022398 GTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGACAATGTTCACAT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGACAATGGTCACAT
* *
40022449 GGGTGGTACTATGTGCA
1 GTGTAGTACTATGTGCA
40022466 AACCACCGAA
Statistics
Matches: 137, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
50 40 0.29
51 94 0.69
52 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGACAATGGTCACAT
Found at i:40025815 original size:23 final size:23
Alignment explanation
Indices: 40025789--40025833 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
40025779 TTTCTTACTG
*
40025789 TAGTAATTTTCAGGGTATTACAA
1 TAGTAATTTTCAGGATATTACAA
40025812 TAGTAATTTTCAGGATATTACA
1 TAGTAATTTTCAGGATATTACA
40025834 TGGCATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCAGGATATTACAA
Found at i:40026048 original size:70 final size:70
Alignment explanation
Indices: 40025954--40026094 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
40025944 ATTCCACGTG
* *
40025954 TATGAAATTTCAATGTTGTGTTGATAAATTTTAATGTAAGTATGTAAATGTTTAAATGTAAAAAG
1 TATGAAATTTCAATGTTGTGTTGATAAATTTTAATGCAAGTAAGTAAATGTTTAAATGTAAAAAG
40026019 GGACT
66 GGACT
40026024 TATGAAATTTCAATGTTGTGTTGATAAATTTTAATGCAAGTAAGTAAATGTTTAAATGTAAAAAG
1 TATGAAATTTCAATGTTGTGTTGATAAATTTTAATGCAAGTAAGTAAATGTTTAAATGTAAAAAG
40026089 GGACT
66 GGACT
40026094 T
1 T
40026095 TAAAATAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (70 bp):
TATGAAATTTCAATGTTGTGTTGATAAATTTTAATGCAAGTAAGTAAATGTTTAAATGTAAAAAG
GGACT
Found at i:40027726 original size:3 final size:3
Alignment explanation
Indices: 40027718--40027763 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
40027708 TATGGTACCG
* *
40027718 TTA TTA TTA CTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
40027764 AATATTCCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:40030515 original size:14 final size:15
Alignment explanation
Indices: 40030498--40030528 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
40030488 ACAAGTATAT
40030498 TTTTTTAAT-ATTTA
1 TTTTTTAATAATTTA
40030512 TTTTTTAATAATTTA
1 TTTTTTAATAATTTA
40030527 TT
1 TT
40030529 ATATTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTAATAATTTA
Found at i:40031119 original size:30 final size:31
Alignment explanation
Indices: 40031083--40031142 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
40031073 AAACATTTTA
*
40031083 TTTTTCCCAAAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCAAAAACTTTTACTCCCTTCCCAC
* *
40031113 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTTCCCAAAAACTTTTACTCCCTTCCCA
40031143 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTTCCCAAAAACTTTTACTCCCTTCCCAC
Found at i:40031910 original size:5 final size:5
Alignment explanation
Indices: 40031900--40031925 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
40031890 CTCGAAAATT
40031900 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
40031926 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:40036465 original size:19 final size:19
Alignment explanation
Indices: 40036441--40036481 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
40036431 TTTGCATGCT
*
40036441 TATACCATCTCTACCATAC
1 TATACCATATCTACCATAC
40036460 TATACCATATCTACCATAC
1 TATACCATATCTACCATAC
40036479 TAT
1 TAT
40036482 CTCATTCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (19 bp):
TATACCATATCTACCATAC
Found at i:40037054 original size:21 final size:21
Alignment explanation
Indices: 40037016--40037083 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
40037006 ACATCATTAT
40037016 CAGAAGCCCG-AA-GGCTGAA
1 CAGAAGCCCGTAAGGGCTGAA
*
40037035 CAGAAGCTCGTAAGGGCTGAA
1 CAGAAGCCCGTAAGGGCTGAA
* * * * *
40037056 CGGAAACCCATAAGGGTTAAA
1 CAGAAGCCCGTAAGGGCTGAA
40037077 CAGAAGC
1 CAGAAGC
40037084 TCAATAGATC
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 9 0.24
20 2 0.05
21 27 0.71
ACGTcount: A:0.38, C:0.22, G:0.29, T:0.10
Consensus pattern (21 bp):
CAGAAGCCCGTAAGGGCTGAA
Found at i:40037097 original size:42 final size:42
Alignment explanation
Indices: 40037033--40037145 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
40037023 CCGAAGGCTG
* * * *
40037033 AACAGAAGCTCGTAAGGGCTGAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATGAGAGCTGAACGGAAACCCATAAGAGTTA
* * *
40037075 AACAGAAGCTCAAT-AGATCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTC-ATGAGAGCTGAACGGAAACCCATAAGAGTTA
*
40037117 AACAGAAGCTCATGAGAGCTAAACGGAAA
1 AACAGAAGCTCATGAGAGCTGAACGGAAA
40037146 GTAAACACGA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.03
42 58 0.95
43 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATGAGAGCTGAACGGAAACCCATAAGAGTTA
Found at i:40037139 original size:21 final size:20
Alignment explanation
Indices: 40037073--40037140 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
40037063 CCATAAGGGT
*
40037073 TAAACAGAAGCTCAATAGATC
1 TAAACAGAAGCTC-ATAGAGC
* * * *
40037094 TGAACGGAAACTCATATGAGT
1 TAAACAGAAGCTCATA-GAGC
40037115 TAAACAGAAGCTCATGAGAGC
1 TAAACAGAAGCTCAT-AGAGC
40037136 TAAAC
1 TAAAC
40037141 GGAAAGTAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
20 3 0.08
21 32 0.89
22 1 0.03
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (20 bp):
TAAACAGAAGCTCATAGAGC
Found at i:40039312 original size:20 final size:20
Alignment explanation
Indices: 40039287--40039340 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
40039277 AGTATACAAC
40039287 ATCTCAACATATCTTCCAGA
1 ATCTCAACATATCTTCCAGA
* *
40039307 ATCTCAACATATCCTCTAGA
1 ATCTCAACATATCTTCCAGA
40039327 ATCTCAACATATCT
1 ATCTCAACATATCT
40039341 CAACAAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.31
Consensus pattern (20 bp):
ATCTCAACATATCTTCCAGA
Found at i:40039342 original size:10 final size:10
Alignment explanation
Indices: 40039287--40039345 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
40039277 AGTATACAAC
40039287 ATCTCAACAT
1 ATCTCAACAT
* *
40039297 ATCTTCCAGA-
1 ATC-TCAACAT
40039307 ATCTCAACAT
1 ATCTCAACAT
* *
40039317 ATCCTCTAGA-
1 AT-CTCAACAT
40039327 ATCTCAACAT
1 ATCTCAACAT
40039337 ATCTCAACA
1 ATCTCAACA
40039346 AAGTTGAACC
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
9 9 0.24
10 19 0.51
11 9 0.24
ACGTcount: A:0.37, C:0.31, G:0.03, T:0.29
Consensus pattern (10 bp):
ATCTCAACAT
Found at i:40043733 original size:23 final size:23
Alignment explanation
Indices: 40043707--40043751 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
40043697 CTTTGAAGGG
40043707 CTGAAGGGTAACCCTAACACAAA
1 CTGAAGGGTAACCCTAACACAAA
40043730 CTGAAGGGTAACCCTAACACAA
1 CTGAAGGGTAACCCTAACACAA
40043752 CTTACCCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (23 bp):
CTGAAGGGTAACCCTAACACAAA
Found at i:40043740 original size:46 final size:46
Alignment explanation
Indices: 40043649--40043740 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
40043639 AACTAAATTT
* * * * *
40043649 TTCTTTGAAGGGCTGAGGGGTAACCTTGACACAAAATCCATGGTAA
1 TTCTTTGAAGGGCTGAAGGGTAACCCTAACACAAAATCAAGGGTAA
* *
40043695 TTCTTTGAAGGGCTGAAGGGTAACCCTAACACAAACTGAAGGGTAA
1 TTCTTTGAAGGGCTGAAGGGTAACCCTAACACAAAATCAAGGGTAA
40043741 CCCTAACACA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (46 bp):
TTCTTTGAAGGGCTGAAGGGTAACCCTAACACAAAATCAAGGGTAA
Found at i:40045613 original size:36 final size:36
Alignment explanation
Indices: 40045549--40045622 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
40045539 GGAGGAGCAC
* *
40045549 ATCAGTCATAATAGATCTAAAAAGCTGCTAAACTGA
1 ATCAGTCAAAATAGATCGAAAAAGCTGCTAAACTGA
* *
40045585 ATCAGTCAAAATAGATCCGAAAGA-CTGCTGAACTGA
1 ATCAGTCAAAATAGAT-CGAAAAAGCTGCTAAACTGA
40045621 AT
1 AT
40045623 AGAGTTTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 28 0.85
37 5 0.15
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (36 bp):
ATCAGTCAAAATAGATCGAAAAAGCTGCTAAACTGA
Found at i:40055661 original size:21 final size:21
Alignment explanation
Indices: 40055637--40055722 Score: 54
Period size: 21 Copynumber: 4.1 Consensus size: 21
40055627 CCTCAAACAC
40055637 ATATAATTAAATATAAATAAT
1 ATATAATTAAATATAAATAAT
* * * *
40055658 ATATTATAAAAAATAAAAAAT
1 ATATAATTAAATATAAATAAT
*
40055679 ATA-ATATTATTTATATAAAT-AT
1 ATATA-ATTA--AATATAAATAAT
*
40055701 ATATAAAT-AATATTAAA-AAT
1 ATATAATTAAATA-TAAATAAT
40055721 AT
1 AT
40055723 TATGTGTTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 13
0.67 0.15 0.18
Matches are distributed among these distances:
19 3 0.06
20 8 0.17
21 23 0.48
22 7 0.15
23 7 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAATTAAATATAAATAAT
Found at i:40055733 original size:41 final size:40
Alignment explanation
Indices: 40055655--40055735 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 40
40055645 AAATATAAAT
40055655 AATATATTATAAAAAATAAAAAATATAATATTATTTATATA
1 AATATATTATAAAAAATAAAAAATAT-ATATTATTTATATA
* *
40055696 AATATA-TATAAATAATATTAAAAATAT-TATGTGTTTATAT
1 AATATATTATAAA-AA-ATAAAAAATATATAT-TATTTATAT
40055736 TTAATTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 9 0.26
41 16 0.46
42 10 0.29
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (40 bp):
AATATATTATAAAAAATAAAAAATATATATTATTTATATA
Found at i:40060787 original size:207 final size:207
Alignment explanation
Indices: 40060422--40061024 Score: 658
Period size: 207 Copynumber: 2.9 Consensus size: 207
40060412 ATTTTTCCTA
* * * *
40060422 TGGTGAAAGCAAGTCCCAAGATTCCTATCCT-AGTGTTGATTGCCAACATCAGTAACCAGTACGA
1 TGGTGAAAGCGAGTCCCAAGATTCCTATTCTGA-TGTTGATTGCCAACATTAGTAGCCAGTACGA
* *
40060486 TTACTCGCCATCGTACTACAAGGCATGGGTCACAAAATAAAAGGTTATGGATAAGTTGCATCACG
65 TTACACGCCATCGTACTACAAGGCATGGGTCACAAAATAAAAGGCTATGGATAAGTTGCATCACG
* * * * *
40060551 ATTGGGATAGGTTGTATAATGACTTGTGGCAATGGTTTTAGGTACTGGATCGATACGTACC-AGA
130 GTTGGGATAGGTCGTATAATGATTTGTGGCAATGGTGTCAGGTACTGGATCGATACGTACCAAG-
40060615 TTCCATAATCGATC
194 TTCCATAATCGATC
* * * * * *
40060629 TGGTGAAAGCGAGTCCTAAGATTCTTGTTCTGATGTTGATTGCCAACATTTGTAGTCAGTATGAT
1 TGGTGAAAGCGAGTCCCAAGATTCCTATTCTGATGTTGATTGCCAACATTAGTAGCCAGTACGAT
** * *
40060694 TACACATCATCGTACTACAAGGCATGGGTCATAAAATAAAAGGCTATGGATAAGTTGCATCATGG
66 TACACGCCATCGTACTACAAGGCATGGGTCACAAAATAAAAGGCTATGGATAAGTTGCATCACGG
* * * * * * * * *
40060759 CTGAGATAGGTCGTAGAATGATTTGTGGCAAAGGTGTCGGGTACTAGATTGGTACGTATCAAGTT
131 TTGGGATAGGTCGTATAATGATTTGTGGCAATGGTGTCAGGTACTGGATCGATACGTACCAAGTT
***
40060824 TTGTAATCGATC
196 CCATAATCGATC
* * * * * * *
40060836 TAGTAAAAGTGAATCCCAGGATTCCCCTA-TC-GGTGTTGATTGCCAATATTCA-TAGCCAGTAC
1 TGGTGAAAGCGAGTCCCAAGATT--CCTATTCTGATGTTGATTGCCAACATT-AGTAGCCAGTAC
* * * **
40060898 AATTACACGCCATCATACTACAAGACACAGGTCACAAAATAAAAGGCTATGGATAAGTTGCATCA
63 GATTACACGCCATCGTACTACAAGGCATGGGTCACAAAATAAAAGGCTATGGATAAGTTGCATCA
* * * * * * *
40060963 CAGTTGGGACAGTTCGTATAATGATTTGTGGAAATGGTGTGAAGTATTGGATCGATACGTAC
128 CGGTTGGGATAGGTCGTATAATGATTTGTGGCAATGGTGTCAGGTACTGGATCGATACGTAC
40061025 TAGGTTCGTA
Statistics
Matches: 320, Mismatches: 71, Indels: 10
0.80 0.18 0.02
Matches are distributed among these distances:
207 313 0.98
208 5 0.02
209 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (207 bp):
TGGTGAAAGCGAGTCCCAAGATTCCTATTCTGATGTTGATTGCCAACATTAGTAGCCAGTACGAT
TACACGCCATCGTACTACAAGGCATGGGTCACAAAATAAAAGGCTATGGATAAGTTGCATCACGG
TTGGGATAGGTCGTATAATGATTTGTGGCAATGGTGTCAGGTACTGGATCGATACGTACCAAGTT
CCATAATCGATC
Found at i:40068461 original size:26 final size:26
Alignment explanation
Indices: 40068415--40068464 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
40068405 TTTGGTTTTA
* *
40068415 TTTAAAATATTTATTTTGATTTTAAT
1 TTTAAAATATTTACTTCGATTTTAAT
40068441 TTTAAAATGATTT-CTTCGATTTTA
1 TTTAAAAT-ATTTACTTCGATTTTA
40068465 CCTTAGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTAAAATATTTACTTCGATTTTAAT
Found at i:40069288 original size:27 final size:28
Alignment explanation
Indices: 40069229--40069299 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 28
40069219 ATAAATTTTG
*
40069229 TTATAATTA-TA-A-ATTTAACAAATAT
1 TTATAATTATTACATATTTAACAAATAC
40069254 TGTGATAATTATTACATATTTAA-AAATAC
1 T-T-ATAATTATTACATATTTAACAAATAC
40069283 TTATAATTTAATTACAT
1 TTATAA-TT-ATTACAT
40069300 TTATTATTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 1 0.03
26 1 0.03
27 11 0.29
28 5 0.13
29 14 0.37
30 6 0.16
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (28 bp):
TTATAATTATTACATATTTAACAAATAC
Found at i:40071477 original size:49 final size:49
Alignment explanation
Indices: 40071420--40071523 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
40071410 TCATGTGTTA
* ** *
40071420 TAATTTTATACAGTGTTGAGTTTTTGATTCATGATATTTAACTTAATTT
1 TAATTTTATACAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
*
40071469 TAATTTTATAGAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATACAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
40071518 TAATTT
1 TAATTT
40071524 GTTTTTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.52
Consensus pattern (49 bp):
TAATTTTATACAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:40072950 original size:21 final size:21
Alignment explanation
Indices: 40072909--40072951 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
40072899 AATAAAGTAG
*
40072909 ATTATACATTATTTTTATAGT
1 ATTATACATTATATTTATAGT
*
40072930 ATTATATATTATGATTT-TAGT
1 ATTATACATTAT-ATTTATAGT
40072951 A
1 A
40072952 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTATACATTATATTTATAGT
Found at i:40073107 original size:38 final size:35
Alignment explanation
Indices: 40073052--40073221 Score: 99
Period size: 38 Copynumber: 4.9 Consensus size: 35
40073042 ATTTTATAGC
*
40073052 ATTATATATTATG-ATTTTAGTAAATTCATATGAGAAT
1 ATTA-ATATTAAGAATTTTAGTAAATT-ATAT-AGAAT
* **
40073089 ATTTAATATTAAGAATTTTATTAAATTATATTTAAT
1 A-TTAATATTAAGAATTTTAGTAAATTATATAGAAT
* * *
40073125 AATAATTATGTTA-AA--TTA-TATATTAT-T-G--T
1 ATTAA-TAT-TAAGAATTTTAGTAAATTATATAGAAT
*
40073154 ATTATATATTATG-ATTTTAGTAAATTCATATAAGAAT
1 ATTA-ATATTAAGAATTTTAGTAAATT-ATAT-AGAAT
*
40073191 ATTTAATATTAAGAATTTTATTAAATTATAT
1 A-TTAATATTAAGAATTTTAGTAAATTATAT
40073222 TTTTATTAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
28 2 0.02
29 7 0.07
30 4 0.04
31 5 0.05
32 3 0.03
33 8 0.08
34 3 0.03
35 4 0.04
36 9 0.09
37 27 0.26
38 30 0.29
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.49
Consensus pattern (35 bp):
ATTAATATTAAGAATTTTAGTAAATTATATAGAAT
Found at i:40073112 original size:102 final size:102
Alignment explanation
Indices: 40073002--40073563 Score: 579
Period size: 102 Copynumber: 5.4 Consensus size: 102
40072992 AATTATATAT
*
40073002 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGCATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATATTATAGCATTATATATTATGAT
*
40073067 TTTAGTAAATTCATATGAGAATATTTAATATTAAGAA
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
* *
40073104 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATATTATTGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATATTATAGCATTATATATTATGAT
40073169 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
* * * * * *
40073206 TTTTATTAAATTATATTT-TTATTAAATTATATTTAATAATA-ATAAT-G--TTA-A-ATTAT-A
1 TTTTATTAAATTATATTTAATAAT-AATTATGTTAAATTATATATTATAGCATTATATATTATGA
* *
40073263 TTTTA-TAGCATT-ATATATTATG-ATTTTCGTAAATTCATATAAGAATA
65 TTTTAGTA-AATTCATATA--A-GAATATT--T-AA-T-AT-TAAG-A-A
* * * * ** *
40073310 TTTAATATTAAGAATTTTATTAAATTATATTTAATAATAATTATGATAAATTATATTTTATAGCA
1 TTT--TATT-A-AATTATATTTAATAATAATT-ATGTTAA--AT--TATA-TAT----TATAGCA
* *
40073375 TTATATATTATGATTTTTGTAAATTCATATGAGAATATTTAATATTAAGAA
52 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
* *
40073426 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATATTATAGCATTATATATTATGAT
* *
40073491 TATCGTAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
40073528 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
40073564 ATATGATTAA
Statistics
Matches: 383, Mismatches: 39, Indels: 76
0.77 0.08 0.15
Matches are distributed among these distances:
94 7 0.02
95 9 0.02
96 10 0.03
97 2 0.01
98 4 0.01
99 2 0.01
100 2 0.01
101 9 0.02
102 224 0.58
103 1 0.00
104 4 0.01
106 6 0.02
107 4 0.01
108 11 0.03
109 9 0.02
111 7 0.02
112 16 0.04
113 3 0.01
114 4 0.01
115 2 0.01
116 4 0.01
117 1 0.00
118 4 0.01
119 4 0.01
120 2 0.01
121 2 0.01
122 4 0.01
123 2 0.01
124 10 0.03
125 8 0.02
126 6 0.02
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATATTATAGCATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
Found at i:40073225 original size:16 final size:16
Alignment explanation
Indices: 40073206--40073239 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
40073196 ATATTAAGAA
40073206 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
40073222 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
40073238 TT
1 TT
40073240 AATAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTATTAAATTATAT
Found at i:40073226 original size:118 final size:118
Alignment explanation
Indices: 40073104--40073341 Score: 431
Period size: 118 Copynumber: 2.0 Consensus size: 118
40073094 ATATTAAGAA
* * *
40073104 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATATTATTGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATAATGTTAAATTATATATTATAGCATTATATATTATGAT
40073169 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
*
40073222 TTTTATTAAATTATATTTAATAATAATAATGTTAAATTATATTTTATAGCATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATAATGTTAAATTATATATTATAGCATTATATATTATGAT
*
40073287 TTTCGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
66 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
40073340 TT
1 TT
40073342 AATAATAATT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 115 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (118 bp):
TTTTATTAAATTATATTTAATAATAATAATGTTAAATTATATATTATAGCATTATATATTATGAT
TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
Found at i:40073257 original size:220 final size:219
Alignment explanation
Indices: 40072923--40073563 Score: 999
Period size: 220 Copynumber: 3.0 Consensus size: 219
40072913 TACATTATTT
* *
40072923 TTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATAGTAGATTGAATTT
1 TTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTA-A--GAATTT
40072987 TATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGC
63 TATTAAA-T-TATATTTTTATTAAATTATATTTAATAATAA-TATGTTAAATTATATTTTATAGC
* *
40073052 ATTATATATTATGATTTTAGTAAATTCATATGAGAATATTTAATATTAAGAATTTTATTAAATTA
125 ATTATATATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTA
40073117 TATTTAATAATAATTATGTTAAATTATATA
190 TATTTAATAATAATTATGTTAAATTATATA
*
40073147 TTATTGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
1 TTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
40073212 TAAATTATATTTTTATTAAATTATATTTAATAATAATAATGTTAAATTATATTTTATAGCATTAT
66 TAAATTATATTTTTATTAAATTATATTTAATAATAAT-ATGTTAAATTATATTTTATAGCATTAT
40073277 ATATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTT
130 ATATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTT
* *
40073342 AATAATAATTATGATAAATTATATT
195 AATAATAATTATGTTAAATTATATA
* * *
40073367 TTATAGCATTATATATTATGATTTTTGTAAATTCATATGAGAATATTTAATATTAAGAATTTTAT
1 TTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
*
40073432 TAAA-T-TA----TA-T---TTA-A--TAATAAT--TATGTTAAATTATATTTTATAGTATTATA
66 TAAATTATATTTTTATTAAATTATATTTAATAATAATATGTTAAATTATATTTTATAGCATTATA
*
40073482 TATTATGATTATCGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTA
131 TATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTA
40073547 ATAATAATTATGTTAAA
196 ATAATAATTATGTTAAA
40073564 ATATGATTAA
Statistics
Matches: 401, Mismatches: 14, Indels: 24
0.91 0.03 0.05
Matches are distributed among these distances:
204 107 0.27
205 1 0.00
207 7 0.02
209 1 0.00
210 3 0.01
213 1 0.00
214 2 0.00
218 2 0.00
219 2 0.00
220 209 0.52
221 1 0.00
222 13 0.03
224 47 0.12
225 5 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (219 bp):
TTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
TAAATTATATTTTTATTAAATTATATTTAATAATAATATGTTAAATTATATTTTATAGCATTATA
TATTATGATTTTCGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTA
ATAATAATTATGTTAAATTATATA
Found at i:40073756 original size:16 final size:16
Alignment explanation
Indices: 40073731--40073768 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
40073721 TTGAATTACT
*
40073731 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
40073747 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
40073763 ATTACA
1 ATTACA
40073769 ACGAACCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:40073970 original size:21 final size:21
Alignment explanation
Indices: 40073930--40073972 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
40073920 TTTTTCCTAA
*
40073930 AATGCGAATTGGATGGAATTG
1 AATGCGAATTGGATGAAATTG
* *
40073951 AATGCGAATTGTATTAAATTG
1 AATGCGAATTGGATGAAATTG
40073972 A
1 A
40073973 GTTAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.33
Consensus pattern (21 bp):
AATGCGAATTGGATGAAATTG
Found at i:40074447 original size:26 final size:26
Alignment explanation
Indices: 40074405--40074547 Score: 152
Period size: 26 Copynumber: 5.6 Consensus size: 26
40074395 ACACACCGTA
* * *
40074405 GCTCTT-ATGAGCGTCCCGATAAATG
1 GCTCTTCATGAGCTTCCCGTTTAATG
* *
40074430 GCTCTTCGTGAGCTTCCCGTTTAAGG
1 GCTCTTCATGAGCTTCCCGTTTAATG
* * *
40074456 GCTCTTCGTGAGCTTCCCTTTTAAGG
1 GCTCTTCATGAGCTTCCCGTTTAATG
40074482 GCTCTTCATGAGCTTCCCGTTTAATTG
1 GCTCTTCATGAGCTTCCCGTTTAA-TG
*
40074509 GCTCTCCAT-AGCTTCCCG-TTAATG
1 GCTCTTCATGAGCTTCCCGTTTAATG
40074533 GCT-TTC-TGGAGCTTC
1 GCTCTTCAT-GAGCTTC
40074548 TTGTTACATG
Statistics
Matches: 103, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
24 11 0.11
25 10 0.10
26 70 0.68
27 9 0.09
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.36
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGTTTAATG
Found at i:40080733 original size:52 final size:52
Alignment explanation
Indices: 40080677--40080781 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
40080667 GACTGTGACA
*
40080677 CAGAATAAAATAAGCTACCTGGGAACCAGAGGAAGCTATGAGAAACCAATAT
1 CAGAATAAAAGAAGCTACCTGGGAACCAGAGGAAGCTATGAGAAACCAATAT
* *
40080729 CAGAATAAAAGAAGCTACCTGGGAACCCGAGGAAGCTATGAGAAATCAATAT
1 CAGAATAAAAGAAGCTACCTGGGAACCAGAGGAAGCTATGAGAAACCAATAT
40080781 C
1 C
40080782 CGAACCTCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
CAGAATAAAAGAAGCTACCTGGGAACCAGAGGAAGCTATGAGAAACCAATAT
Found at i:40081784 original size:74 final size:74
Alignment explanation
Indices: 40081663--40081808 Score: 265
Period size: 74 Copynumber: 2.0 Consensus size: 74
40081653 AAGTATAGGG
* * *
40081663 TTAAAATGGTAATTTTGCAAAAATACATGTTGGACTATATTTTATGTGAATTAGATTGAATTGGG
1 TTAAAATGGTAATTTTGCAAAAATACATGATGGACTAAATTCTATGTGAATTAGATTGAATTGGG
40081728 TTAAATTCA
66 TTAAATTCA
40081737 TTAAAATGGTAATTTTGCAAAAATACATGATGGACTAAATTCTATGTGAATTAGATTGAATTGGG
1 TTAAAATGGTAATTTTGCAAAAATACATGATGGACTAAATTCTATGTGAATTAGATTGAATTGGG
40081802 TTAAATT
66 TTAAATT
40081809 AATTCGTATA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (74 bp):
TTAAAATGGTAATTTTGCAAAAATACATGATGGACTAAATTCTATGTGAATTAGATTGAATTGGG
TTAAATTCA
Found at i:40082179 original size:25 final size:25
Alignment explanation
Indices: 40082124--40082185 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 25
40082114 CAGCTCGCAT
** *
40082124 GAGCTTATTGTTATTCATCTCGGAA
1 GAGCTTATCATTATTCAACTCGGAA
* * *
40082149 GTGCTTATCATTATTCAACTTGGAG
1 GAGCTTATCATTATTCAACTCGGAA
*
40082174 GAGCTTACCATT
1 GAGCTTATCATT
40082186 TACAGCTAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (25 bp):
GAGCTTATCATTATTCAACTCGGAA
Found at i:40087362 original size:13 final size:13
Alignment explanation
Indices: 40087344--40087368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40087334 AAATTATCCA
40087344 ACCCAACCCAATT
1 ACCCAACCCAATT
40087357 ACCCAACCCAAT
1 ACCCAACCCAAT
40087369 AAAACTAAAA
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:40087449 original size:38 final size:39
Alignment explanation
Indices: 40087349--40087465 Score: 209
Period size: 39 Copynumber: 3.0 Consensus size: 39
40087339 ATCCAACCCA
*
40087349 ACCCAATTACCCAACCCAATAAAACTAAAATTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
40087388 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
*
40087427 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
40087465 A
1 A
40087466 ACTCTAAGTA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 29 0.38
39 47 0.62
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.19
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:40087659 original size:17 final size:17
Alignment explanation
Indices: 40087602--40087660 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
40087592 TTCAAGAATG
40087602 ATGTAATGTTTTTAATT
1 ATGTAATGTTTTTAATT
* ** *
40087619 ATATAATGATTCAAATACTT
1 ATGTAATG-TT--TTTAATT
40087639 ATGTAATGTTTTTAATT
1 ATGTAATGTTTTTAATT
40087656 ATGTA
1 ATGTA
40087661 GTGATTCAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 16 0.52
18 2 0.06
19 2 0.06
20 11 0.35
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (17 bp):
ATGTAATGTTTTTAATT
Found at i:40087688 original size:9 final size:9
Alignment explanation
Indices: 40087676--40087743 Score: 111
Period size: 9 Copynumber: 7.6 Consensus size: 9
40087666 TCAATTCGGG
40087676 TAATTCAGT
1 TAATTCAGT
40087685 TAATTCGAG-
1 TAATTC-AGT
40087694 TAATTCAGT
1 TAATTCAGT
*
40087703 TAATTCGGT
1 TAATTCAGT
40087712 TAATTCAGT
1 TAATTCAGT
40087721 TAATTCAGT
1 TAATTCAGT
40087730 TAATTCAGT
1 TAATTCAGT
40087739 TAATT
1 TAATT
40087744 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
8 2 0.04
9 51 0.93
10 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.44
Consensus pattern (9 bp):
TAATTCAGT
Found at i:40087691 original size:18 final size:18
Alignment explanation
Indices: 40087668--40087743 Score: 116
Period size: 18 Copynumber: 4.2 Consensus size: 18
40087658 GTAGTGATTC
40087668 AATTCGGGTAATTCAGTT
1 AATTCGGGTAATTCAGTT
*
40087686 AATTCGAGTAATTCAGTT
1 AATTCGGGTAATTCAGTT
*
40087704 AATTCGGTTAATTCAGTT
1 AATTCGGGTAATTCAGTT
* *
40087722 AATTCAGTTAATTCAGTT
1 AATTCGGGTAATTCAGTT
40087740 AATT
1 AATT
40087744 TTTAACCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (18 bp):
AATTCGGGTAATTCAGTT
Found at i:40089617 original size:16 final size:17
Alignment explanation
Indices: 40089581--40089617 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
40089571 GTTATATTTA
*
40089581 ATTTTTGATATGTTTTT
1 ATTTTTGATATGTTTTC
40089598 ATTTTTGATATG-TTTC
1 ATTTTTGATATGTTTTC
40089614 ATTT
1 ATTT
40089618 AAAACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (17 bp):
ATTTTTGATATGTTTTC
Found at i:40091534 original size:10 final size:10
Alignment explanation
Indices: 40091493--40091551 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
40091483 ATAAGTAATA
*
40091493 AATAATAAAG
1 AATAATAAAT
40091503 AA-AATAAAGT
1 AATAATAAA-T
*
40091513 AA-AGAAAAAT
1 AATA-ATAAAT
40091523 AATAATAAAT
1 AATAATAAAT
40091533 AATAATAAAT
1 AATAATAAAT
*
40091543 AAAAATAAA
1 AATAATAAA
40091552 AATTAGGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
9 6 0.14
10 31 0.74
11 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (10 bp):
AATAATAAAT
Found at i:40098527 original size:14 final size:14
Alignment explanation
Indices: 40098508--40098537 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
40098498 CAAAAACACA
40098508 TTCTTTTCTTTTCT
1 TTCTTTTCTTTTCT
*
40098522 TTCTTTTTTTTTCT
1 TTCTTTTCTTTTCT
40098536 TT
1 TT
40098538 TTTGAGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTTTCTTTTCT
Found at i:40101820 original size:58 final size:58
Alignment explanation
Indices: 40101717--40101850 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 58
40101707 TTAATTCATA
* *
40101717 TAATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATT
1 TAATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATT
* * * * *
40101775 TAATAATAATTATGTT-AGAATATGGTTAAATTATTTATTATTTTTATTACATTATTTT
1 TAATAATAATTATATTAAGAATATGATTAAATTATATATTA-TTTTATTAAATTATATT
40101833 TAATAATAATCT-TATTAA
1 TAATAATAAT-TATATTAA
40101851 AATTTAATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
57 20 0.31
58 43 0.66
59 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (58 bp):
TAATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATT
Found at i:40108541 original size:24 final size:21
Alignment explanation
Indices: 40108487--40108538 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
40108477 CTTGAAGAAA
40108487 AACTCAAAAACAATTATTATT
1 AACTCAAAAACAATTATTATT
*
40108508 AACTCAAAAAGAATTATTATT
1 AACTCAAAAACAATTATTATT
40108529 AACTCAAAAA
1 AACTCAAAAA
40108539 AAAATAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (21 bp):
AACTCAAAAACAATTATTATT
Found at i:40111862 original size:138 final size:137
Alignment explanation
Indices: 40111608--40112102 Score: 465
Period size: 138 Copynumber: 3.6 Consensus size: 137
40111598 ATAAGCGAAC
* * * * * ** * * ** *
40111608 CTTGGTTTTACAGCTAGGAGCTTTGCTCTTGCTAGTTGTGTTAGAGGTCGCGACTCTTCACCTAC
1 CTTGATTTTATAGTTAGAAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTTGCCTGC
* * ** *
40111673 AAACCTTGATTTTACAGTTAGGAGCTTTGCT-TTCGCTAACTACATTGGAGGTTGCGACTCTTCG
66 GAACCTTGATTTTACAGTTGGGAGCTTTGCTCTT-GCTAACTATGTTGGAGGTCGCGACTCTTCG
40111737 CCTGTGAA
130 CCTGTGAA
*
40111745 TCTTGATTTTATAGTTAGAAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTCT-CTT
1 -CTTGATTTTATAGTTAGAAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTT-TGCCT
* *
40111809 GCGAACCTTGATTTTACAGTTGGGAGCTTTGCTCTTGCTAACTATGTTAGAGGTCGCGGCTCTTC
64 GCGAACCTTGATTTTACAGTTGGGAGCTTTGCTCTTGCTAACTATGTTGGAGGTCGCGACTCTTC
40111874 GCCTGTGAA
129 GCCTGTGAA
* ** * * * ** * *
40111883 CCTCGATTTTATAGCTGGGAA-CTTTGTTCTCACTAACTGTATTGGAGACCGAGGCGCTTTGCCT
1 -CTTGATTTTATAG-TTAGAAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTTGCCT
* ** * * * * ** * * ** *
40111947 GCGAACATCAATTTTACAGCTGAGAGTTTTACTCTCACTAACTGTGTTGGAGATCATGACTCTTT
64 GCGAACCTTGATTTTACAGTTGGGAGCTTTGCTCTTGCTAACTATGTTGGAGGTCGCGACTCTTC
*
40112012 GCCTGCGAA
129 GCCTGTGAA
* * * * *
40112021 CTTTGATTTTATAGTTGGAAGTTTTGCTCTCGCTAACTATGTTGGAGGTCACGGCTCTTTGACTG
1 C-TTGATTTTATAGTTAGAAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTTGCCTG
40112086 CGAACCTTGATTTTACA
65 CGAACCTTGATTTTACA
40112103 AATGATAATT
Statistics
Matches: 287, Mismatches: 64, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
137 7 0.02
138 274 0.95
139 6 0.02
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (137 bp):
CTTGATTTTATAGTTAGAAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTTTGCCTGC
GAACCTTGATTTTACAGTTGGGAGCTTTGCTCTTGCTAACTATGTTGGAGGTCGCGACTCTTCGC
CTGTGAA
Found at i:40112115 original size:69 final size:69
Alignment explanation
Indices: 40111602--40112102 Score: 348
Period size: 69 Copynumber: 7.3 Consensus size: 69
40111592 TTTTTTATAA
* * * ** * * *
40111602 GCGAACCTTGGTTTTACAGCT-AGGAGCTTTGCTCTTGCTAGTTGTGTTAGAGGTCGCGACTCTT
1 GCGAACCTTGATTTTACAGCTGA-GAGTTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTT
**
40111666 CACCT
65 TGCCT
* * * * * *** ** *
40111671 ACAAACCTTGATTTTACAG-TTAGGAGCTTTGCTTTCGCTAACTACATTGGAGGTTGCGACTCTT
1 GCGAACCTTGATTTTACAGCTGA-GAGTTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTT
*
40111735 CGCCT
65 TGCCT
* * * * * *
40111740 GTGAATCTTGATTTTATAG-TTAGAAGCTTTGCTCTCGCTAACTGTGTTGGAGGTCGCGGCTCTT
1 GCGAACCTTGATTTTACAGCTGAG-AGTTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTT
*
40111804 CT-CTT
65 -TGCCT
* * * * * * * *
40111809 GCGAACCTTGATTTTACAGTTGGGAGCTTTGCTCTTGCTAACTATGTTAGAGGTCGCGGCTCTTC
1 GCGAACCTTGATTTTACAGCTGAGAGTTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTTT
40111874 GCCT
66 GCCT
* * * * ** * * * ** *
40111878 GTGAACCTCGATTTTATAGCTGGGAACTTTGTTCTCACTAACTGTATTGGAGACCGA-GGCGCTT
1 GCGAACCTTGATTTTACAGCTGAGAGTTTTGCTCTCGCTAACTGTGTTGGAGGTC-ACGGCTCTT
40111942 TGCCT
65 TGCCT
* ** * * * * *
40111947 GCGAACATCAATTTTACAGCTGAGAGTTTTACTCTCACTAACTGTGTTGGAGATCATGACTCTTT
1 GCGAACCTTGATTTTACAGCTGAGAGTTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTTT
40112012 GCCT
66 GCCT
* * * *
40112016 GCGAACTTTGATTTTATAGTTG-GAAGTTTTGCTCTCGCTAACTATGTTGGAGGTCACGGCTCTT
1 GCGAACCTTGATTTTACAGCTGAG-AGTTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTT
*
40112080 TGACT
65 TGCCT
40112085 GCGAACCTTGATTTTACA
1 GCGAACCTTGATTTTACA
40112103 AATGATAATT
Statistics
Matches: 345, Mismatches: 79, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
68 4 0.01
69 339 0.98
70 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (69 bp):
GCGAACCTTGATTTTACAGCTGAGAGTTTTGCTCTCGCTAACTGTGTTGGAGGTCACGGCTCTTT
GCCT
Found at i:40119275 original size:12 final size:12
Alignment explanation
Indices: 40119245--40119301 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
40119235 CTATATATTT
40119245 TATTATAATATA
1 TATTATAATATA
*
40119257 TAATATAATA-A
1 TATTATAATATA
40119268 TAGTTATATATATTA
1 TA-TTATA-ATA-TA
*
40119283 TATTCATAAAATA
1 TATT-ATAATATA
40119296 TATTAT
1 TATTAT
40119302 TTCATCATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
11 3 0.08
12 15 0.41
13 9 0.24
14 4 0.11
15 6 0.16
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
TATTATAATATA
Found at i:40119476 original size:13 final size:13
Alignment explanation
Indices: 40119450--40119486 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
40119440 TAGTCCTCCT
40119450 ACTA-TATATATA
1 ACTATTATATATA
*
40119462 ACTATTATATGTA
1 ACTATTATATATA
40119475 ACTATTAT-TATA
1 ACTATTATATATA
40119487 TTATAGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (13 bp):
ACTATTATATATA
Found at i:40119720 original size:16 final size:16
Alignment explanation
Indices: 40119684--40119725 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
40119674 ATAATCTATA
*
40119684 ATATAATAATAGTTAC
1 ATATAATAGTAGTTAC
40119700 ATATAATAGTAG-TAC
1 ATATAATAGTAGTTAC
40119715 AT-TATATAGTA
1 ATATA-ATAGTA
40119726 CTTATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 2 0.08
15 11 0.46
16 11 0.46
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (16 bp):
ATATAATAGTAGTTAC
Found at i:40119992 original size:199 final size:202
Alignment explanation
Indices: 40119641--40120005 Score: 529
Period size: 199 Copynumber: 1.8 Consensus size: 202
40119631 TGATTGAACA
* * * * *
40119641 TTATAAAATCATGTAGTACTATATTTTTTAATTATAATCTATAATATAATAATAGTTACATATAA
1 TTATAAAATAATGTAATACTATATATTTTAATTATAATATATAATATAATAATAGTTACATAGAA
* * * * * *
40119706 TAGTAGTACATTATATAGTACTTATTATTATATATTATTGTTTATTATTATACTATTTGAAATGT
66 TAATAGTACATTATATAGTA-TAATTATCATATATTATTGTTTATTAGTATACTAATTGAAATAT
* *
40119771 GCCCCAAGTCTCTATACTTTTTGTACATTTGAAAGTAGTATATTATAATATATTAATCATTTATA
130 GCACCAAGTCCCTATACTTTTTGTACATTTGAAAGTAGTATATTATAATATATTAATCATTTATA
40119836 TATATACG
195 TATATACG
* * *
40119844 TTATAATATAATGTAATATTATATATTTT-ATTATAATATATAATATAATAATAGTTATATAGAA
1 TTATAAAATAATGTAATACTATATATTTTAATTATAATATATAATATAATAATAGTTACATAGAA
*
40119908 TAATAGTACATTATATA-T-TAATTATCATGTATTATTGTTTATTAGTATACTAATTGAAATATG
66 TAATAGTACATTATATAGTATAATTATCATATATTATTGTTTATTAGTATACTAATTGAAATATG
**
40119971 CATTAAGTCCCTATACTTTTTGTACATTTGAAAGT
131 CACCAAGTCCCTATACTTTTTGTACATTTGAAAGT
40120006 TAAGCCTCAT
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
199 70 0.49
201 1 0.01
202 48 0.34
203 24 0.17
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (202 bp):
TTATAAAATAATGTAATACTATATATTTTAATTATAATATATAATATAATAATAGTTACATAGAA
TAATAGTACATTATATAGTATAATTATCATATATTATTGTTTATTAGTATACTAATTGAAATATG
CACCAAGTCCCTATACTTTTTGTACATTTGAAAGTAGTATATTATAATATATTAATCATTTATAT
ATATACG
Found at i:40120315 original size:20 final size:18
Alignment explanation
Indices: 40120290--40120327 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
40120280 TTATAATCTA
40120290 TATTATAGTAGTTATATATT
1 TATTATAGTA-TTA-ATATT
40120310 TATTATAGTATTAATATT
1 TATTATAGTATTAATATT
40120328 AAATTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
TATTATAGTATTAATATT
Found at i:40122751 original size:2 final size:2
Alignment explanation
Indices: 40122744--40122770 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
40122734 GTATTTGTAA
40122744 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
40122771 AAGGTGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40137046 original size:43 final size:44
Alignment explanation
Indices: 40136998--40137226 Score: 157
Period size: 43 Copynumber: 5.3 Consensus size: 44
40136988 TTTTAGAAAT
* **
40136998 AAACGCCGCTAAAAG-TCATGACATTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAAGACCACAACATTTAGCGGCGCTTTTCCCAC
* * ** *
40137041 AAACGCCACT-AAAGACCACAACCTTTAGCGGCGCTTTTGTCGC
1 AAACGCCGCTAAAAGACCACAACATTTAGCGGCGCTTTTCCCAC
* ****
40137084 AAACGCCGCT-AAAGACCACAACCTTTAGCGGCGCTTTTGTGGC
1 AAACGCCGCTAAAAGACCACAACATTTAGCGGCGCTTTTCCCAC
* ** * * * **
40137127 AAACACCGCT-AAAGACCATGACCTTTAGTGTCGCTTTTTAGCAC
1 AAACGCCGCTAAAAGACCACAACATTTAGCGGCGC-TTTTCCCAC
* * * * *
40137171 AAACGCCGCTATAAA-A-CA-AACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCGCTA-AAAGACCACAACATTTAGCGGCGCTTTTCCCAC
40137213 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
40137227 ACATATCATG
Statistics
Matches: 156, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.02
42 21 0.13
43 112 0.72
44 16 0.10
45 1 0.01
46 3 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (44 bp):
AAACGCCGCTAAAAGACCACAACATTTAGCGGCGCTTTTCCCAC
Found at i:40137143 original size:86 final size:85
Alignment explanation
Indices: 40137021--40137205 Score: 203
Period size: 86 Copynumber: 2.2 Consensus size: 85
40137011 AGTCATGACA
* *
40137021 TTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCACAACCTTTAGCGGCGCTTTTGT-CGCA
1 TTTAGCGGCGCTTTTCCCACAAACACCACTAAAGACCACAACCTTTAGCGGCGCTTTT-TACACA
*
40137085 AACGCCGCTA-AAGACCACAACC
65 AACGCCGCTATAA-AACA-AACC
**** * ** * *
40137107 TTTAGCGGCGCTTTTGTGGCAAACACCGCTAAAGACCATGACCTTTAGTGTCGCTTTTTAGCACA
1 TTTAGCGGCGCTTTTCCCACAAACACCACTAAAGACCACAACCTTTAGCGGCGCTTTTTA-CACA
40137172 AACGCCGCTATAAAACAAACC
65 AACGCCGCTATAAAACAAACC
*
40137193 TTTAGCGACGCTT
1 TTTAGCGGCGCTT
40137206 CTCGCAAAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
85 1 0.01
86 64 0.77
87 16 0.19
88 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (85 bp):
TTTAGCGGCGCTTTTCCCACAAACACCACTAAAGACCACAACCTTTAGCGGCGCTTTTTACACAA
ACGCCGCTATAAAACAAACC
Found at i:40141479 original size:21 final size:20
Alignment explanation
Indices: 40141455--40141495 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
40141445 CCTAACTCCT
*
40141455 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCAT-AATCCC
40141476 AACCCTTAAACCATAATCCC
1 AACCCTTAAACCATAATCCC
40141496 TAAATCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCCTTAAACCATAATCCC
Found at i:40141751 original size:7 final size:7
Alignment explanation
Indices: 40141739--40141900 Score: 62
Period size: 7 Copynumber: 22.9 Consensus size: 7
40141729 AATAGTTAAT
40141739 CTAAACC
1 CTAAACC
40141746 CTAAACC
1 CTAAACC
40141753 CTAAA-C
1 CTAAACC
*
40141759 TTAAACC
1 CTAAACC
40141766 CTAAAACC
1 CT-AAACC
*
40141774 ATAAACCC
1 CTAAA-CC
*
40141782 CT-AACA
1 CTAAACC
40141788 C-ATAACC
1 CTA-AACC
40141795 TCTAAACC
1 -CTAAACC
*
40141803 TTAAACC
1 CTAAACC
* *
40141810 C-CAGCC
1 CTAAACC
*
40141816 TTTAAACC
1 -CTAAACC
*
40141824 ATAAACC
1 CTAAACC
* *
40141831 ATAACCC
1 CTAAACC
40141838 CTAAACC
1 CTAAACC
*
40141845 CATAATCC
1 C-TAAACC
* *
40141853 ATAAACA
1 CTAAACC
* *
40141860 ATAAACT
1 CTAAACC
*
40141867 CTAAATC
1 CTAAACC
* *
40141874 ATATACC
1 CTAAACC
40141881 CTAAACC
1 CTAAACC
**
40141888 AAAAACC
1 CTAAACC
40141895 CTAAAC
1 CTAAAC
40141901 TATAGTGATA
Statistics
Matches: 111, Mismatches: 34, Indels: 20
0.67 0.21 0.12
Matches are distributed among these distances:
6 10 0.09
7 78 0.70
8 22 0.20
9 1 0.01
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:40141758 original size:14 final size:14
Alignment explanation
Indices: 40141739--40141900 Score: 107
Period size: 14 Copynumber: 11.4 Consensus size: 14
40141729 AATAGTTAAT
*
40141739 CTAAACCCTAAACC
1 CTAAACCATAAACC
*
40141753 CTAAA-CTTAAACC
1 CTAAACCATAAACC
40141766 CTAAAACCATAAACCC
1 CT-AAACCATAAA-CC
40141782 CT-AACACAT-AACC
1 CTAAAC-CATAAACC
*
40141795 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
* * *
40141810 C-CAGCCTTTAAACC
1 CTAAACC-ATAAACC
* *
40141824 ATAAACCATAACCC
1 CTAAACCATAAACC
*
40141838 CTAAACCCATAATCC
1 CTAAA-CCATAAACC
* * *
40141853 ATAAACAATAAACT
1 CTAAACCATAAACC
* *
40141867 CTAAATCATATACC
1 CTAAACCATAAACC
*
40141881 CTAAACCAAAAACC
1 CTAAACCATAAACC
40141895 CTAAAC
1 CTAAAC
40141901 TATAGTGATA
Statistics
Matches: 114, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
13 14 0.12
14 66 0.58
15 30 0.26
16 4 0.04
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.19
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:40141801 original size:29 final size:29
Alignment explanation
Indices: 40141738--40141900 Score: 85
Period size: 29 Copynumber: 5.8 Consensus size: 29
40141728 CAATAGTTAA
* *
40141738 TCTAAACCCTAAA-CCCTAAACTTAAACC
1 TCTAAACCATAAACCCCTAAACATAAACC
40141766 -CTAAAACCATAAACCCCTAACACAT-AACC
1 TCT-AAACCATAAACCCCTAA-ACATAAACC
* ** *
40141795 TCTAAACCTTAAACCCC-AGCCTTTAAACC
1 TCTAAACCATAAACCCCTAAAC-ATAAACC
* *
40141824 -ATAAACCAT-AACCCCTAAACCCATAATCC
1 TCTAAACCATAAACCCCTAAA--CATAAACC
* * * *
40141853 -ATAAACAATAAA-CTCTAAATCATATACC
1 TCTAAACCATAAACCCCTAAA-CATAAACC
*
40141881 -CTAAACCA-AAAACCCTAAAC
1 TCTAAACCATAAACCCCTAAAC
40141901 TATAGTGATA
Statistics
Matches: 104, Mismatches: 20, Indels: 23
0.71 0.14 0.16
Matches are distributed among these distances:
27 13 0.12
28 37 0.36
29 46 0.44
30 8 0.08
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (29 bp):
TCTAAACCATAAACCCCTAAACATAAACC
Found at i:40142181 original size:41 final size:41
Alignment explanation
Indices: 40142073--40142325 Score: 308
Period size: 41 Copynumber: 6.1 Consensus size: 41
40142063 TAAATTATTT
* * *** *
40142073 TAAATCCCTGAGCATTAGCGGCGTTTTATGAAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* * **
40142114 TAAAATCCCTGAGCATTAGCGGCGCTTTCCTAAAAAAACCGC
1 T-AAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* *
40142156 TAAAGCCCTGAGCATTAGCGTCGCTTTCCCAGAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
*
40142197 TAAAGCCCTGAGCATTAGCGTCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* * * *
40142238 TAAAACCTTTAGCATTAAAGCGGCGCTTTCCCAAAACCGCCGC
1 TAAAGCCCTGAGCATT--AGCGGCGCTTTCCCAAAAACGCCGC
* *
40142281 TCAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
40142322 TAAA
1 TAAA
40142326 TCCCCGAAAG
Statistics
Matches: 185, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
41 114 0.62
42 36 0.19
43 35 0.19
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
Found at i:40142298 original size:84 final size:82
Alignment explanation
Indices: 40142073--40142325 Score: 301
Period size: 84 Copynumber: 3.0 Consensus size: 82
40142063 TAAATTATTT
* * *** * * *
40142073 TAAATCCCTGAGCATTAGCGGCGTTTTATGAAAAACACCGCTAAAATCCCTGAGCATTAGCGGCG
1 TAAAACCCTGAGCATTAGCGGCGCTTTCCCAGAAACGCCGCT-AAAGCCCTGAGCATTAGCGGCG
* **
40142138 CTTTCCTAAAAAAACCGC
65 CTTTCCCAAAAACGCCGC
* * *
40142156 TAAAGCCCTGAGCATTAGCGTCGCTTTCCCAGAAACGCCGCTAAAGCCCTGAGCATTAGCGTCGC
1 TAAAACCCTGAGCATTAGCGGCGCTTTCCCAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
40142221 TTTCCCAAAAACGCCGC
66 TTTCCCAAAAACGCCGC
* * *
40142238 TAAAACCTTTAGCATTAAAGCGGCGCTTTCCCA-AAACCGCCGCTCAAGCCCTGAGCATTAGCGG
1 TAAAACCCTGAGCATT--AGCGGCGCTTTCCCAGAAA-CGCCGCTAAAGCCCTGAGCATTAGCGG
*
40142302 CGCTTTCTCAAAAACGCCGC
63 CGCTTTCCCAAAAACGCCGC
40142322 TAAA
1 TAAA
40142326 TCCCCGAAAG
Statistics
Matches: 147, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
82 48 0.33
83 37 0.25
84 62 0.42
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (82 bp):
TAAAACCCTGAGCATTAGCGGCGCTTTCCCAGAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
TTTCCCAAAAACGCCGC
Found at i:40142299 original size:125 final size:124
Alignment explanation
Indices: 40142073--40142325 Score: 328
Period size: 125 Copynumber: 2.0 Consensus size: 124
40142063 TAAATTATTT
* * **
40142073 TAAATCCCTGAGCATTAGCGGCGTTTTATGAAAAACACCGCTAAAATCCCTGAGCATTAGCGGCG
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACACCGCTAAAATCCCTGAGCATTAGCGGCG
* * *
40142138 CTTTCCTAAAAAAACCGCTAAAGCCCTGAGCATTAGCGTCGCTTTCCCAGAAACGCCGC
66 CTTTCCCAAAAAAACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* * * * *
40142197 TAAAGCCCTGAGCATTAGCGTCGCTTTCCCAAAAACGCCGCTAAAA-CCTTTAGCATTAAAGCGG
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACACCGCTAAAATCCCTGAGCATT--AGCGG
*** * *
40142261 CGCTTTCCCAAAACCGCCGCTCAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
64 CGCTTTCCCAAAAAAACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
40142322 TAAA
1 TAAA
40142326 TCCCCGAAAG
Statistics
Matches: 110, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
123 9 0.08
124 39 0.35
125 62 0.56
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (124 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACACCGCTAAAATCCCTGAGCATTAGCGGCG
CTTTCCCAAAAAAACCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
Found at i:40142449 original size:40 final size:39
Alignment explanation
Indices: 40142360--40142488 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
40142350 TAGGTTTTTT
* * *
40142360 GCGGCGCTTTCCGAGAAA-CGCCGCTAATGCTTG-TTTTTA
1 GCGGCGTTTTCC-A-AAAGCGCCGCTAATGCTCGATCTTTA
*
40142399 GCGGCGTTTTCCATAAAGCGCCGCTAATACTCGATCTTTA
1 GCGGCGTTTTCCA-AAAGCGCCGCTAATGCTCGATCTTTA
*
40142439 GCGGCGTTTTCCAAGAAGCGTCGCTAATGCTCGATCTTTA
1 GCGGCGTTTTCCAA-AAGCGCCGCTAATGCTCGATCTTTA
*
40142479 GCGACGTTTT
1 GCGGCGTTTT
40142489 TTTATCCAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 4 0.05
39 25 0.32
40 50 0.63
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (39 bp):
GCGGCGTTTTCCAAAAGCGCCGCTAATGCTCGATCTTTA
Found at i:40143193 original size:12 final size:13
Alignment explanation
Indices: 40143166--40143198 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
40143156 GTTGTAAAGT
*
40143166 TTTATTTTTATTA
1 TTTATTTATATTA
40143179 TTTATTTAT-TTA
1 TTTATTTATATTA
40143191 TTTATTTA
1 TTTATTTA
40143199 CTTAGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATATTA
Found at i:40146724 original size:6 final size:6
Alignment explanation
Indices: 40146713--40146737 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
40146703 AAAAGGTAAA
40146713 AAAAAC AAAAAC AAAAAC AAAAAC A
1 AAAAAC AAAAAC AAAAAC AAAAAC A
40146738 CAACAACTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:40147207 original size:42 final size:44
Alignment explanation
Indices: 40147138--40147221 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 44
40147128 AAAGAAAGGA
*
40147138 GAAAGTTTAGATTTTGAAAAAAAAAATTTTTATTTATTTTAAAT
1 GAAAGTTTAGATTTTGAAAAAAAAAATTTTGATTTATTTTAAAT
* * *
40147182 GAAAGTTTA-ATTTT-TAAAACAAAATTTTGATTTTTTTTAA
1 GAAAGTTTAGATTTTGAAAAAAAAAATTTTGATTTATTTTAA
40147222 CTACTCCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 22 0.61
43 5 0.14
44 9 0.25
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (44 bp):
GAAAGTTTAGATTTTGAAAAAAAAAATTTTGATTTATTTTAAAT
Found at i:40147248 original size:142 final size:145
Alignment explanation
Indices: 40146979--40147375 Score: 480
Period size: 142 Copynumber: 2.7 Consensus size: 145
40146969 TGTTTTTTTT
* * * * *
40146979 AATGGATAAAGTTTAAATTTTGAAAAAACTAAAAATCTGTTTTTTTAGTTATTTTAAAGGAAAGT
1 AATGGAGAAAGTTTAGATTTTG-AAAAA-TAAAAA----TATTTTTATTTATTTTAAAAGAAAGT
* * * *
40147044 TTAAATTTTTAAAACAAAGTTTTGATTTGTTTTCAACTATTTCAAAGTAAAAGCTTTAATCTTTA
60 TT-AATTTTTAAAACAAAGTTTTGATTT-TTTTTAACTACTCCAAAATAAAAGCTTTAATCTTTA
*
40147109 AGAAAAATAGTATTTTTTTAAAGA
123 AGAAAAATAATATTTTTTTAAA-A
*
40147133 AA-GGAGAAAGTTTAGATTTTG-AAAA-AAAAA-ATTTTTATTTATTTTAAATGAAAGTTTAATT
1 AATGGAGAAAGTTTAGATTTTGAAAAATAAAAATATTTTTATTTATTTTAAAAGAAAGTTTAATT
*
40147194 TTTAAAACAAAATTTTGATTTTTTTTAACTACTCCAAAATAAAAGCTTTAATCTTTAAGAAAAAT
66 TTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAATAAAAGCTTTAATCTTTAAGAAAAAT
40147259 AATATTTTTTTAAAA
131 AATATTTTTTTAAAA
*
40147274 AATGGAGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTCTTTAAGTCATTTTAAAAGAAAGT
1 AATGGAGAAAGTTTAGATTTTGAAAAATAAAAATAT-TTTT-ATT---T-ATTTTAAAAGAAAGT
* *
40147339 TAAAATTTTTAAAATAAAGTTTTGA-TTTTTTTAACTA
60 T-TAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTA
40147376 TTTTGAAATA
Statistics
Matches: 216, Mismatches: 16, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
141 3 0.01
142 72 0.33
143 28 0.13
144 29 0.13
145 2 0.01
146 4 0.02
147 2 0.01
149 5 0.02
150 1 0.00
151 31 0.14
152 20 0.09
153 17 0.08
154 2 0.01
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (145 bp):
AATGGAGAAAGTTTAGATTTTGAAAAATAAAAATATTTTTATTTATTTTAAAAGAAAGTTTAATT
TTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAATAAAAGCTTTAATCTTTAAGAAAAAT
AATATTTTTTTAAAA
Found at i:40147903 original size:20 final size:20
Alignment explanation
Indices: 40147868--40147921 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
40147858 CACTTGTATA
* *
40147868 ATTTTTATATTCTTAT-TTC
1 ATTTATATATTTTTATGTTC
* *
40147887 ATTTTATTTATTTTTATGTTT
1 A-TTTATATATTTTTATGTTC
40147908 ATTTATATATTTTT
1 ATTTATATATTTTT
40147922 TTACACATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.04
20 24 0.86
21 3 0.11
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (20 bp):
ATTTATATATTTTTATGTTC
Found at i:40148605 original size:13 final size:14
Alignment explanation
Indices: 40148586--40148620 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
40148576 ATGTCAGATA
40148586 AAAATAATTAAAAT
1 AAAATAATTAAAAT
*
40148600 -AAATAACTAAAAT
1 AAAATAATTAAAAT
40148613 AAAATAAT
1 AAAATAAT
40148621 AAATCAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATAATTAAAAT
Found at i:40148850 original size:25 final size:27
Alignment explanation
Indices: 40148816--40148865 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
40148806 TTATTAAAAC
* *
40148816 TCTTCTAAAAGAAACTCA-AGAGAAAT
1 TCTTCTAAAAAAAACCCAGAGAGAAAT
40148842 TCTT-TAAAAAAAACCCAGAGAGAA
1 TCTTCTAAAAAAAACCCAGAGAGAA
40148866 TTTATTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (27 bp):
TCTTCTAAAAAAAACCCAGAGAGAAAT
Found at i:40161988 original size:20 final size:21
Alignment explanation
Indices: 40161960--40162006 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
40161950 CTTGTACGGG
*
40161960 TTTGCACTTAGGTGCCTCTGT
1 TTTGCACTTAGATGCCTCTGT
*
40161981 TTTG-ACTTCGATGCCTCTGT
1 TTTGCACTTAGATGCCTCTGT
*
40162001 TATGCA
1 TTTGCA
40162007 TCATCGATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (21 bp):
TTTGCACTTAGATGCCTCTGT
Found at i:40162016 original size:22 final size:20
Alignment explanation
Indices: 40161972--40162018 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
40161962 TGCACTTAGG
* *
40161972 TGCCTCTGTTTTGACTTCGA
1 TGCCTCTGTTATGACATCGA
40161992 TGCCTCTGTTATGCATCATCGA
1 TGCCTCTGTTATG-A-CATCGA
40162014 TGCCT
1 TGCCT
40162019 TTGGTGTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.52
21 1 0.04
22 10 0.43
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (20 bp):
TGCCTCTGTTATGACATCGA
Found at i:40169639 original size:20 final size:20
Alignment explanation
Indices: 40169614--40169654 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
40169604 TAAGCTATAC
40169614 ATGGAATAGTGAAGAGGCAT
1 ATGGAATAGTGAAGAGGCAT
40169634 ATGGAATAGTGAAGAGGCAT
1 ATGGAATAGTGAAGAGGCAT
40169654 A
1 A
40169655 ACCTTTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.34, T:0.20
Consensus pattern (20 bp):
ATGGAATAGTGAAGAGGCAT
Found at i:40173027 original size:162 final size:162
Alignment explanation
Indices: 40172760--40173083 Score: 612
Period size: 162 Copynumber: 2.0 Consensus size: 162
40172750 TATTTATATG
40172760 TTTTCAATTGAATTATACATGTGATAGAAATTGCCATATATATATACCTATCGCATATCCAACAA
1 TTTTCAATTGAATTATACATGTGATAGAAATTGCCATATATATATACCTATCGCATATCCAACAA
40172825 CATAAAATGATTACCGAGCCCGTTTTGAACCTTAGGAAATCATAGGATACAAATGACACGTCATT
66 CATAAAATGATTACCGAGCCCGTTTTGAACCTTAGGAAATCATAGGATACAAATGACACGTCATT
40172890 TGGGTTTACATAATTCGGGTGTTGGTCCTGAA
131 TGGGTTTACATAATTCGGGTGTTGGTCCTGAA
*
40172922 TTTTCAATTGAATTATACATGTGATGGAAATTGCCATATATATATACCTATCGCATATCCAACAA
1 TTTTCAATTGAATTATACATGTGATAGAAATTGCCATATATATATACCTATCGCATATCCAACAA
* * *
40172987 CGTACAATGATTACCGAGCCCGTTTTGAACCTTAGGAAATCATAGGGTACAAATGACACGTCATT
66 CATAAAATGATTACCGAGCCCGTTTTGAACCTTAGGAAATCATAGGATACAAATGACACGTCATT
40173052 TGGGTTTACATAATTCGGGTGTTGGTCCTGAA
131 TGGGTTTACATAATTCGGGTGTTGGTCCTGAA
40173084 CGTCCTACTG
Statistics
Matches: 158, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 158 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (162 bp):
TTTTCAATTGAATTATACATGTGATAGAAATTGCCATATATATATACCTATCGCATATCCAACAA
CATAAAATGATTACCGAGCCCGTTTTGAACCTTAGGAAATCATAGGATACAAATGACACGTCATT
TGGGTTTACATAATTCGGGTGTTGGTCCTGAA
Found at i:40178063 original size:42 final size:43
Alignment explanation
Indices: 40177955--40178072 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 43
40177945 AGCTCGTACA
* * *
40177955 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACAAGTAATCACATAACG
* * * * * *
40177998 ATGCCACTGTCCCTGAAAGGGTCTTACACGTAATCATAT-ACG
1 ATGCCAATGTCCCAGACATGGTCTTACAAGTAATCACATAACG
*
40178040 ATGCCAATGTCCCAGGCATGGTCTTACAAGTAA
1 ATGCCAATGTCCCAGACATGGTCTTACAAGTAA
40178073 ATATAAAATT
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 30 0.49
43 31 0.51
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACAAGTAATCACATAACG
Found at i:40179143 original size:16 final size:14
Alignment explanation
Indices: 40179108--40179134 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
40179098 CGCAAACGAT
40179108 AAAATTTTCACACG
1 AAAATTTTCACACG
40179122 AAAATTTTCACAC
1 AAAATTTTCACAC
40179135 ATATAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAATTTTCACACG
Found at i:40180809 original size:50 final size:49
Alignment explanation
Indices: 40180742--40180920 Score: 159
Period size: 50 Copynumber: 3.6 Consensus size: 49
40180732 GGGAATGAGA
* * **
40180742 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGT
1 TCCC-TGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATGAGA-AC
* *
40180793 TCCCTGTAAGACCATGTCTGAGACATGGCATGGGCATCGATATGAGAAC
1 TCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATGAGAAC
* * * ** *
40180842 TCTCATGTAAGACCATATCTGGGATATGGCATTTGTAGTAC-AG--GA-AAC
1 TC-CCTGTAAGACCATGTCTGGGACATGGCATGGGCA-T-CGAGATGAGAAC
40180890 ATCCCATGTAAGACCATGTCTGGGACATGGC
1 -TCCC-TGTAAGACCATGTCTGGGACATGGC
40180921 TTTGGCATGT
Statistics
Matches: 106, Mismatches: 17, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
48 4 0.04
49 29 0.27
50 66 0.62
51 6 0.06
52 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (49 bp):
TCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATGAGAAC
Found at i:40181153 original size:12 final size:12
Alignment explanation
Indices: 40181136--40181168 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
40181126 ATTTAGGTAT
40181136 GCAAGTAAGTAA
1 GCAAGTAAGTAA
40181148 GCAAGTAAGTAA
1 GCAAGTAAGTAA
*
40181160 ACAAGTAAG
1 GCAAGTAAG
40181169 AGAGTAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.24, T:0.15
Consensus pattern (12 bp):
GCAAGTAAGTAA
Found at i:40181167 original size:20 final size:20
Alignment explanation
Indices: 40181142--40181180 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
40181132 GTATGCAAGT
40181142 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
40181162 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
40181181 GAAGAAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:40186150 original size:20 final size:20
Alignment explanation
Indices: 40186125--40186162 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
40186115 AGTCATTATG
40186125 AAGTTGAATTAAAGGCCAAC
1 AAGTTGAATTAAAGGCCAAC
40186145 AAGTTGAATTAAAGGCCA
1 AAGTTGAATTAAAGGCCA
40186163 GCAGCTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (20 bp):
AAGTTGAATTAAAGGCCAAC
Found at i:40188649 original size:22 final size:22
Alignment explanation
Indices: 40188618--40188661 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
40188608 TACACCAAAA
* *
40188618 TAGGCTTTTAGCGGTGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
40188640 TAGGCCTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
40188662 AGCACCGCTA
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:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:40188812 original size:43 final size:43
Alignment explanation
Indices: 40188756--40188938 Score: 294
Period size: 43 Copynumber: 4.3 Consensus size: 43
40188746 TTAGAAAAAC
*
40188756 ACGCTGCTAAAGACCAAGACCTTTAGCGGTGCTTTTCCCACAA
1 ACGCTGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAA
* * *
40188799 ACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTATCCCACAA
1 ACGCTGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAA
40188842 ACGCTGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAA
1 ACGCTGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAA
** *
40188885 ACGCCACTAAAGACCAATACCTTTAGCGGCGCTTTTCCCACAA
1 ACGCTGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAA
*
40188928 GCGCTGCTAAA
1 ACGCTGCTAAA
40188939 AACATGAATT
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 127 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (43 bp):
ACGCTGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAA
Found at i:40193857 original size:21 final size:21
Alignment explanation
Indices: 40193813--40193858 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
40193803 CCTCTAACCT
* *
40193813 CTAACCCCTAACCCCAAACCC
1 CTAACCCCTAACCACAAACAC
* *
40193834 CTAACCCCTAACTACTAACAC
1 CTAACCCCTAACCACAAACAC
40193855 CTAA
1 CTAA
40193859 ACATTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (21 bp):
CTAACCCCTAACCACAAACAC
Found at i:40193858 original size:7 final size:7
Alignment explanation
Indices: 40193800--40193845 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
40193790 CACTAACTCT
*
40193800 TAACCTC
1 TAACCCC
*
40193807 TAACCTC
1 TAACCCC
40193814 TAACCCC
1 TAACCCC
40193821 TAACCCC
1 TAACCCC
*
40193828 AAACCCC
1 TAACCCC
40193835 TAACCCC
1 TAACCCC
40193842 TAAC
1 TAAC
40193846 TACTAACACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (7 bp):
TAACCCC
Found at i:40194013 original size:155 final size:152
Alignment explanation
Indices: 40193712--40193995 Score: 335
Period size: 151 Copynumber: 1.8 Consensus size: 152
40193702 TAAGAACTTA
* * * * * *
40193712 ATTTATATATAAATTGAAAAATACTAATTAATCTAAACCTTAAACCTTAACCCGACCCCGAATCT
1 ATTTATATATAAATTGAAAAAAACTAACTAATCTAAACCCTAAACCTTAACCCAACACCAAATCT
* *
40193777 CTAAACCCAAAATCACTAACTCTTAACCTCTAACCTCTAACCCCTAACCCCAAACCCCTAACCCC
66 ATAAACCCAAAATCACTAACTCTTAACCTCTAACCTCTAACCCCTAACCCCAAACCACTAACCCC
*
40193842 TAACTACTAACACCTAAACATT
131 TAACTACGAACACCTAAACATT
*
40193864 ATTTA-ATATAAATT-AAAACAAACTAACTAATCTAAACCCTAAATCC-TAACCTAACACCAAAT
1 ATTTATATATAAATTGAAAA-AAACTAACTAATCTAAACCCTAAA-CCTTAACCCAACACCAAAT
* * * *
40193926 CTATAAACCCTAAATTAATCCCTAACTCTTAATCTCTAA-CTCCTAACCCCTACCCCCTAAATCA
64 CTATAAACCC--AA--AATCACTAACTCTTAACCTCTAACCT-CTAACCCCTAACCCC-AAACCA
40193990 C-AACCC
123 CTAACCC
40193996 TTAAACTAGA
Statistics
Matches: 111, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
150 4 0.04
151 51 0.46
152 7 0.06
153 2 0.02
154 2 0.02
155 40 0.36
156 5 0.05
ACGTcount: A:0.41, C:0.32, G:0.01, T:0.25
Consensus pattern (152 bp):
ATTTATATATAAATTGAAAAAAACTAACTAATCTAAACCCTAAACCTTAACCCAACACCAAATCT
ATAAACCCAAAATCACTAACTCTTAACCTCTAACCTCTAACCCCTAACCCCAAACCACTAACCCC
TAACTACGAACACCTAAACATT
Found at i:40194024 original size:14 final size:15
Alignment explanation
Indices: 40194005--40194037 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
40193995 CTTAAACTAG
40194005 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
40194019 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
40194034 AATC
1 AATC
40194038 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:40194509 original size:41 final size:41
Alignment explanation
Indices: 40194453--40194664 Score: 336
Period size: 41 Copynumber: 5.2 Consensus size: 41
40194443 GCGCTTTTTT
* *
40194453 GCTAAA-GTCTGAGCATTAGCGGCGCTTTTCCAAAAAGGTC
1 GCTAAAGGTCTGAGCATTAGCGGCGCTTTTCCAAAAACGCC
*
40194493 GCTAAAGGTCTGAGCATTAGCGGCGCTTTTCCAAAAAATGCC
1 GCTAAAGGTCTGAGCATTAGCGGCGCTTTTCC-AAAAACGCC
* **
40194535 GCTAAAAGTCTGAGCATTAGCGGCGCTTTTTTAAAAACGCC
1 GCTAAAGGTCTGAGCATTAGCGGCGCTTTTCCAAAAACGCC
*
40194576 GCTAAAGGTCTGAGCATTAGCGGCGCTTTTCCATAAACGCC
1 GCTAAAGGTCTGAGCATTAGCGGCGCTTTTCCAAAAACGCC
*
40194617 GCTAAAGGTCTGAACATTAGCGGCGCTTTTCCAAAAACGCC
1 GCTAAAGGTCTGAGCATTAGCGGCGCTTTTCCAAAAACGCC
40194658 GCTAAAG
1 GCTAAAG
40194665 CCTAGAAAGG
Statistics
Matches: 158, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 6 0.04
41 116 0.73
42 36 0.23
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (41 bp):
GCTAAAGGTCTGAGCATTAGCGGCGCTTTTCCAAAAACGCC
Done.