Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 16 of 235
Found at i:4630328 original size:54 final size:54
Alignment explanation
Indices: 4630258--4630383 Score: 166
Period size: 54 Copynumber: 2.3 Consensus size: 54
4630248 GGTATAAGTC
*** *
4630258 AAGGGTATTTCT-GTAATTTTGTAAATCAG-GAGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTT-TGGTAATTTCACAAATCAGTG-GTATTTTGGTAATTTTACAAACT
* *
4630312 GAGGGTATTTTGGTAATTTCACAAATCAGTGGTATTTTGGTAATTTTACGAACT
1 AAGGGTATTTTGGTAATTTCACAAATCAGTGGTATTTTGGTAATTTTACAAACT
4630366 AAGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
4630384 CTACCCTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
53 1 0.02
54 61 0.97
55 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.43
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTCACAAATCAGTGGTATTTTGGTAATTTTACAAACT
Found at i:4630423 original size:27 final size:27
Alignment explanation
Indices: 4630260--4630416 Score: 133
Period size: 27 Copynumber: 5.8 Consensus size: 27
4630250 TATAAGTCAA
**
4630260 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAATCAG
* *
4630287 GAGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
*
4630313 AGGGTATTTTGGTAATTTCACAAATCAG
1 -GGGTATTTTGGTAATTTTACAAATCAG
* * *
4630341 TGGTATTTTGGTAATTTTACGAA-CTAA
1 GGGTATTTTGGTAATTTTACAAATC-AG
* **
4630368 GGGTATTTTGGTAATTCTACCCTAT-AG
1 GGGTATTTTGGTAATTTTA-CAAATCAG
**
4630395 GGGTATTTCAGTAATTTTACAA
1 GGGTATTTTGGTAATTTTACAA
4630417 TCGAGGGTAA
Statistics
Matches: 103, Mismatches: 21, Indels: 13
0.75 0.15 0.09
Matches are distributed among these distances:
26 4 0.04
27 96 0.93
28 3 0.03
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:4630445 original size:27 final size:27
Alignment explanation
Indices: 4630403--4630506 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
4630393 AGGGGTATTT
4630403 CAGTAA-TTT-TACAATCGAGGGTAAAA
1 CAGTAATTTTGTA-AATCGAGGGTAAAA
*
4630429 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTTTGTAAATCGAGGGTAAAA
* * *
4630456 TAGTAATTCTGTAAATCAAGGGTAAAA
1 CAGTAATTTTGTAAATCGAGGGTAAAA
*
4630483 CAGTAATTTTATAAATCGAGGGTA
1 CAGTAATTTTGTAAATCGAGGGTA
4630507 CTTTGGTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.07
27 60 0.90
28 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (27 bp):
CAGTAATTTTGTAAATCGAGGGTAAAA
Found at i:4633079 original size:26 final size:26
Alignment explanation
Indices: 4633042--4633094 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
4633032 CAAATTTAAC
4633042 TCTGGAGATTATCGAATGAAGAGCGG
1 TCTGGAGATTATCGAATGAAGAGCGG
*
4633068 TCTGGAGCTTATCGAATGAAGAGCGG
1 TCTGGAGATTATCGAATGAAGAGCGG
4633094 T
1 T
4633095 GCATGTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (26 bp):
TCTGGAGATTATCGAATGAAGAGCGG
Found at i:4633793 original size:20 final size:20
Alignment explanation
Indices: 4633768--4633824 Score: 105
Period size: 20 Copynumber: 2.8 Consensus size: 20
4633758 ACGGGGTGAC
4633768 CACACGGGCTTGTCCCAATG
1 CACACGGGCTTGTCCCAATG
4633788 CACACGGGCTTGTCCCAATG
1 CACACGGGCTTGTCCCAATG
4633808 CACACGGGCTTGGTCCC
1 CACACGGGCTT-GTCCC
4633825 GAACCTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 31 0.86
21 5 0.14
ACGTcount: A:0.18, C:0.37, G:0.26, T:0.19
Consensus pattern (20 bp):
CACACGGGCTTGTCCCAATG
Found at i:4639120 original size:41 final size:41
Alignment explanation
Indices: 4639045--4639179 Score: 200
Period size: 41 Copynumber: 3.3 Consensus size: 41
4639035 TTTTTTGTTA
* * *
4639045 AAACGCCGCTAAA-AACAGAGCATTAGCAGTGCTTTTGGTG
1 AAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
*
4639085 AGACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
1 AAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
* *
4639126 AAACGCCGCTAAAGACTAGAGCATTAGCGGCGCTTTTGGTA
1 AAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
*
4639167 AAACGCCACTAAA
1 AAACGCCGCTAAA
4639180 ATTCATGTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 12 0.14
41 74 0.86
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (41 bp):
AAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
Found at i:4639822 original size:24 final size:24
Alignment explanation
Indices: 4639795--4639843 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4639785 CATATATTTA
4639795 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
4639819 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
4639843 T
1 T
4639844 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:4643450 original size:19 final size:19
Alignment explanation
Indices: 4643427--4643473 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
4643417 ATTTAATCTA
*
4643427 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
4643445 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
4643465 ATTTTTATT
1 ATTTTTATT
4643474 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:4643582 original size:13 final size:12
Alignment explanation
Indices: 4643560--4643589 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
4643550 TGAATTTTAA
4643560 TTTTTTTTATTT
1 TTTTTTTTATTT
4643572 TTTTATTTTATTT
1 TTTT-TTTTATTT
4643585 TTTTT
1 TTTTT
4643590 AAATTTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTATTT
Found at i:4643657 original size:43 final size:43
Alignment explanation
Indices: 4643596--4643703 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
4643586 TTTTAAATTT
* * *
4643596 CATGACCTTTAGGGGCGTTT-TGGGGAAAAGCGTCGCTACAGGC
1 CATGACCTTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGC
4643639 CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
1 CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
** *
4643682 CATGAATTTTAGCGGCATTTGT
1 CATGACCTTTAGCGGCGTTTGT
4643704 TAGCGGCGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 57 0.98
44 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.26
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
Found at i:4643757 original size:56 final size:56
Alignment explanation
Indices: 4643647--4643757 Score: 186
Period size: 56 Copynumber: 2.0 Consensus size: 56
4643637 GCCATGACCT
* **
4643647 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGAATTTTAGCGGCATTTG
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGAACTTTAGCAACATTTG
*
4643703 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGACCTTTAGCAACATTT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGAACTTTAGCAACATTT
4643758 TTTTAAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (56 bp):
TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGAACTTTAGCAACATTTG
Found at i:4645100 original size:30 final size:30
Alignment explanation
Indices: 4645054--4645113 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4645044 TTCTCGAGCC
4645054 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
4645084 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
4645114 CATATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:4652675 original size:28 final size:26
Alignment explanation
Indices: 4652619--4652731 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
4652609 AGCATGGCTG
* *
4652619 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
4652645 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
4652673 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
4652700 CCAGATCAAATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
4652728 CCAG
1 CCAG
4652732 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.49
28 32 0.43
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:4652704 original size:55 final size:54
Alignment explanation
Indices: 4652619--4652731 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
4652609 AGCATGGCTG
* *
4652619 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAAATAATTCGTGGCAGAACCA
* * * *
4652673 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAAATAATTCGTGGCAGAACCA
4652728 CCAG
1 CCAG
4652732 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAAATAATTCGTGGCAGAACCA
Found at i:4652875 original size:25 final size:25
Alignment explanation
Indices: 4652833--4652880 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4652823 GACAAAATTA
*
4652833 ACCTAGGGGCATATTGGTCATTTAC
1 ACCTAGGGGCATATTGGTAATTTAC
*
4652858 ACCTAGGGGTATCA-TGGTAATTT
1 ACCTAGGGGCAT-ATTGGTAATTT
4652881 TCCATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
ACCTAGGGGCATATTGGTAATTTAC
Found at i:4654174 original size:24 final size:24
Alignment explanation
Indices: 4654147--4654217 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
4654137 CTAGATTTCC
**
4654147 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
4654171 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
4654195 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
4654218 CTCCTGATAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:4670669 original size:20 final size:20
Alignment explanation
Indices: 4670619--4670660 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4670609 TTTAAAATTT
* *
4670619 TAAAAATATAAAAGTTAAAA
1 TAAAAAAATTAAAGTTAAAA
4670639 TAAAAAAATTAAAG-TAAAA
1 TAAAAAAATTAAAGTTAAAA
4670658 TAA
1 TAA
4670661 CCAAAATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
TAAAAAAATTAAAGTTAAAA
Found at i:4675627 original size:27 final size:27
Alignment explanation
Indices: 4675589--4675641 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
4675579 TAAAATATGG
4675589 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
4675616 GTGGAGGGTACCCCACAGGCGGCACC
1 GTGGAGGGTACCCCACAGGCGGCACC
4675642 GCTGACTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.34, G:0.38, T:0.08
Consensus pattern (27 bp):
GTGGAGGGTACCCCACAGGCGGCACCA
Found at i:4694712 original size:27 final size:27
Alignment explanation
Indices: 4694682--4694739 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
4694672 GAAAAAGGCA
*
4694682 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACTGGTGCCGCCTGTGGAGTACCCT
4694709 CCACTGGTGCCGCCTGTGGAGTACCCT
1 CCACTGGTGCCGCCTGTGGAGTACCCT
4694736 CCAC
1 CCAC
4694740 CCATATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.10, C:0.40, G:0.29, T:0.21
Consensus pattern (27 bp):
CCACTGGTGCCGCCTGTGGAGTACCCT
Found at i:4697816 original size:47 final size:47
Alignment explanation
Indices: 4697296--4697778 Score: 939
Period size: 47 Copynumber: 10.3 Consensus size: 47
4697286 CAGCCAAGAC
* *
4697296 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
4697343 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
4697390 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
4697437 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
4697484 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
4697531 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
4697578 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
4697625 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
4697672 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
*
4697719 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
4697766 AGTGTATATATGT
1 AGTGTATATATGT
4697779 GACAGGGCCG
Statistics
Matches: 433, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 433 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (47 bp):
AGTGTATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAA
Found at i:4698006 original size:37 final size:37
Alignment explanation
Indices: 4697950--4698028 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
4697940 CCGAGCTCTA
* *
4697950 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
4697987 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
4698024 AAGAC
1 AAGAC
4698029 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:4700088 original size:13 final size:13
Alignment explanation
Indices: 4700070--4700098 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4700060 GATCCATTGT
4700070 ATTTTATATATAA
1 ATTTTATATATAA
4700083 ATTTTATATATAA
1 ATTTTATATATAA
4700096 ATT
1 ATT
4700099 ATCATGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTTATATATAA
Found at i:4703019 original size:40 final size:40
Alignment explanation
Indices: 4702943--4703079 Score: 165
Period size: 40 Copynumber: 3.5 Consensus size: 40
4702933 ACCCAAGCAT
* * * *
4702943 CTTCGGGATTTAG-CCGAATATAAGT-ACTTGCTCAAATGC
1 CTTCGGGACTTAGCCCGGATAT-AGTAACTAGCACAAATGC
*
4702982 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
*
4703022 CTTCGGGACTTAGCCCGGA-ATTAG-ACACTAGCGCAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTA-ACTAGCACAAATGC
4703062 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
4703080 TTATCATCCG
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
39 17 0.19
40 71 0.81
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
Found at i:4710981 original size:40 final size:40
Alignment explanation
Indices: 4710926--4711270 Score: 638
Period size: 40 Copynumber: 8.6 Consensus size: 40
4710916 ACTACTTGCT
*
4710926 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
4710966 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
4711006 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
4711046 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
4711086 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
4711126 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
4711166 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
4711206 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
4711246 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
4711271 TTATCATCCG
Statistics
Matches: 299, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
39 1 0.00
40 298 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:4712880 original size:54 final size:54
Alignment explanation
Indices: 4712821--4712927 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
4712811 ACTAAAAATT
* *
4712821 AATTATCTTTTCATATGGGATTCGAATGATGTTCTTGTTTGTTTCTTTTGAAAG
1 AATTATCTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTTGAAAG
4712875 AATTATCTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTTGAAA
1 AATTATCTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTTGAAA
4712928 ATATACTCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (54 bp):
AATTATCTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTTGAAAG
Found at i:4713838 original size:34 final size:34
Alignment explanation
Indices: 4713676--4713838 Score: 218
Period size: 34 Copynumber: 4.7 Consensus size: 34
4713666 GGTTTTCCTC
* * * *
4713676 ATGGAAAATGCCATACCTATGTTTCATAACTCAGT
1 ATGG-AAATACCATACCTACGTTTCATAGCTCGGT
* *
4713711 ATGGAAAATACCAGACCTACGTATCATAGCTCGGT
1 ATGG-AAATACCATACCTACGTTTCATAGCTCGGT
* *
4713746 GTGGAAATACCATACCTACGTATCATAGCTCGGT
1 ATGGAAATACCATACCTACGTTTCATAGCTCGGT
* *
4713780 ATGGAAATACCATACCTACATTTCATAGCTTGGT
1 ATGGAAATACCATACCTACGTTTCATAGCTCGGT
4713814 ATGGAAATACCATACCTACGTTTCA
1 ATGGAAATACCATACCTACGTTTCA
4713839 CATTTTTTCA
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
34 83 0.72
35 32 0.28
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (34 bp):
ATGGAAATACCATACCTACGTTTCATAGCTCGGT
Found at i:4714177 original size:16 final size:18
Alignment explanation
Indices: 4714156--4714188 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4714146 CCATTCATTA
4714156 TAATTCA-TTC-CAATTC
1 TAATTCACTTCACAATTC
4714172 TAATTCACTTCACAATT
1 TAATTCACTTCACAATT
4714189 TATGCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATTCACTTCACAATTC
Found at i:4718262 original size:38 final size:39
Alignment explanation
Indices: 4718220--4718323 Score: 104
Period size: 38 Copynumber: 2.7 Consensus size: 39
4718210 TCGGATAGTT
*
4718220 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-ACCTAGC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
* ** ** * *
4718258 CGAAGTAAAGTAG-TGCCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
4718296 CGAAGTAACAGTATGACACCCAGTGTCT
1 CGAAGTAA-AGT-TGACACCCAGTGTCT
4718324 TATCAACTCG
Statistics
Matches: 49, Mismatches: 13, Indels: 5
0.73 0.19 0.07
Matches are distributed among these distances:
37 13 0.27
38 24 0.49
39 3 0.06
40 1 0.02
41 8 0.16
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:4720917 original size:3 final size:3
Alignment explanation
Indices: 4720909--4721078 Score: 340
Period size: 3 Copynumber: 56.7 Consensus size: 3
4720899 CATTTAACCC
4720909 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4720957 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4721005 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4721053 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
4721079 ACAGTTAGAT
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 167 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4721496 original size:19 final size:19
Alignment explanation
Indices: 4721472--4721510 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4721462 TACTCTTTTG
4721472 ATTGTTATAATATTAATTA
1 ATTGTTATAATATTAATTA
4721491 ATTGTTATAATATTAATTA
1 ATTGTTATAATATTAATTA
4721510 A
1 A
4721511 ATTATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
ATTGTTATAATATTAATTA
Found at i:4721520 original size:19 final size:19
Alignment explanation
Indices: 4721476--4721520 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4721466 CTTTTGATTG
*
4721476 TTATAATATTAATTAATTG
1 TTATAATATTAATTAATTA
4721495 TTATAATATTAATTAAATTA
1 TTATAATATTAATT-AATTA
4721515 TT-TAAT
1 TTATAAT
4721521 TCGTTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTATAATATTAATTAATTA
Found at i:4731008 original size:29 final size:28
Alignment explanation
Indices: 4730929--4730998 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
4730919 AAGTCTACAT
*
4730929 ACATGCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* * *
4730957 TCATTCAAATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
4730986 ACATTCATATGGC
1 ACATTCATATGGC
4730999 TCATCTGGCC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:4734868 original size:29 final size:29
Alignment explanation
Indices: 4734802--4734892 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
4734792 AAGTCTACAT
* * *
4734802 ACATGCATATGGCCCATTAGACC-CAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
*
4734830 TCATTCATATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
* * *
4734859 ACATTTATATGGTCCATCT-GGCCTGAATC
1 ACATTCATATGGCCCAT-TAGGCCTAAATC
4734888 A-ATTC
1 ACATTC
4734893 CCAAGCCATG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 23 0.44
29 28 0.54
30 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCTAAATC
Found at i:4736357 original size:46 final size:46
Alignment explanation
Indices: 4736235--4736359 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
4736225 GGTTGAGCAT
* * *
4736235 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
4736281 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
4736327 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
4736360 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:4743693 original size:7 final size:7
Alignment explanation
Indices: 4743655--4743717 Score: 69
Period size: 7 Copynumber: 9.0 Consensus size: 7
4743645 CTCTTATAAA
4743655 TTTAA-T
1 TTTAATT
4743661 TTTAATT
1 TTTAATT
4743668 TTCTAATT
1 TT-TAATT
*
4743676 AAGTT-ATT
1 --TTTAATT
4743684 TTTAATT
1 TTTAATT
4743691 TTTAATT
1 TTTAATT
4743698 TTTAATT
1 TTTAATT
4743705 TTTAA-T
1 TTTAATT
4743711 TTTAATT
1 TTTAATT
4743718 CAGTTAAATC
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
6 13 0.27
7 26 0.53
8 8 0.16
9 1 0.02
10 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (7 bp):
TTTAATT
Found at i:4745306 original size:21 final size:20
Alignment explanation
Indices: 4745270--4745311 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4745260 CGGGACTAAA
4745270 TCGAAAAAATATAAAATTTT
1 TCGAAAAAATATAAAATTTT
*
4745290 TCGAAAAAAGT-TAAAAATTT
1 TCGAAAAAA-TATAAAATTTT
4745310 TC
1 TC
4745312 AAACAGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
TCGAAAAAATATAAAATTTT
Found at i:4747359 original size:43 final size:43
Alignment explanation
Indices: 4747205--4747361 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 43
4747195 AATTAAGAAC
* *
4747205 TCCGAGCTCGTTGAGCGGTCCGAGTT-AGTGATATATGTGAGAA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCA-TGATATATGTGAGCA
* * * **
4747248 TCCGAACTTGTTGAGTGGTCCAAGTTTGTGATATATGTG-GCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGCA
* * * *
4747290 TCCGATCTCGTTGAGTAGTCCGAGTTCATTATAGATGTGAGCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGCA
4747333 TCCGAGCTCGTTGAGTGGTCCGAGTTCAT
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCAT
4747362 AATGGATGCG
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 33 0.34
43 63 0.66
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGCA
Found at i:4752294 original size:13 final size:13
Alignment explanation
Indices: 4752276--4752301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4752266 TAAGTTAAAA
4752276 GGACACTCGGGTT
1 GGACACTCGGGTT
4752289 GGACACTCGGGTT
1 GGACACTCGGGTT
4752302 AAGTTAAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (13 bp):
GGACACTCGGGTT
Found at i:4753186 original size:48 final size:52
Alignment explanation
Indices: 4753076--4753233 Score: 171
Period size: 48 Copynumber: 3.1 Consensus size: 52
4753066 ACATGACATT
* *
4753076 AAAGAAGACCATATCGTGTAAGACCGTAATTAGTGGGTTATGACATCATATGG
1 AAAGAAGACCATATCATGTAAGACCGTAATTA-TGGGTTATGACATCATATGA
* *
4753129 AAAGTAGACCATATCATGTAAGATCGTAA-T-T-GG-TATGACATCATATGA
1 AAAGAAGACCATATCATGTAAGACCGTAATTATGGGTTATGACATCATATGA
* * ** * *
4753177 AAAGAAGACCATATAATGTAAGACTGTAACTGGTGGGTTATGGCATTATATGGA
1 AAAGAAGACCATATCATGTAAGACCGTAA-TTATGGGTTATGACATCATAT-GA
4753231 AAA
1 AAA
4753234 TATTTTAAAG
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
48 39 0.44
49 2 0.02
50 1 0.01
51 1 0.01
52 3 0.03
53 37 0.42
54 5 0.06
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAGAAGACCATATCATGTAAGACCGTAATTATGGGTTATGACATCATATGA
Found at i:4753530 original size:28 final size:28
Alignment explanation
Indices: 4753498--4753594 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
4753488 TTAAAGAACG
*
4753498 CCTTTATGGCAAATCTATGAAAGGATAA
1 CCTTTATGGCAAATCTATGAAAGGAAAA
* * * *
4753526 CCTTTGTGGAAAATCTGTGAAAGGACAA
1 CCTTTATGGCAAATCTATGAAAGGAAAA
* *
4753554 CCTTTATGGC-GATCTTTGTCAAAGGAAAA
1 CCTTTATGGCAAATCTATG--AAAGGAAAA
*
4753583 CCTTTGTGGCAA
1 CCTTTATGGCAA
4753595 TCTCCGTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
27 6 0.11
28 32 0.58
29 17 0.31
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (28 bp):
CCTTTATGGCAAATCTATGAAAGGAAAA
Found at i:4753734 original size:111 final size:111
Alignment explanation
Indices: 4753584--4754038 Score: 777
Period size: 111 Copynumber: 4.1 Consensus size: 111
4753574 AAAGGAAAAC
** * * *
4753584 CTTTGTGGCAATCTCCGTAAATGAAGCCTTCGTGGCTATATTTGAAAAGGAACGCCTTCATGGCG
1 CTTTGTGGCAATCTCTATAAAGGAAGCTTTCATGGCTATATTTGAAAAGGAACGCCTTCATGGCG
*
4753649 TAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGGATAAGAAAGT
66 CAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGGATAAGAAAGT
4753695 CTTTGTGGCAATCTCTATAAAGGAAGCTTTCATGGCTATATTTGAAAAGGAACGCCTTCATGGCG
1 CTTTGTGGCAATCTCTATAAAGGAAGCTTTCATGGCTATATTTGAAAAGGAACGCCTTCATGGCG
*
4753760 TAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGGATAAGAAAGT
66 CAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGGATAAGAAAGT
*
4753806 CTTTGTGGCAATCTCTATAAAGGAAGCTTTCATGGCTATATTTGAAAAGGAACGCCTTCGTGGCG
1 CTTTGTGGCAATCTCTATAAAGGAAGCTTTCATGGCTATATTTGAAAAGGAACGCCTTCATGGCG
*
4753871 CAACTTAAGGATAGGATGCCTTGGTGTCAACTCTGGATAAGAAAGT
66 CAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGGATAAGAAAGT
*
4753917 CTTTGTGGCAATCTCTATAAAGGAAGCTTTCATGGCTATATTTGAAAAGGAACGCCTTCGTGGCG
1 CTTTGTGGCAATCTCTATAAAGGAAGCTTTCATGGCTATATTTGAAAAGGAACGCCTTCATGGCG
* * *
4753982 CAACTTAAGGATAGGATGCCTTGGTGTCAACTCTGTA-AAGGAAAGC
66 CAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGGATAA-GAAAGT
4754028 CTTTGTGGCAA
1 CTTTGTGGCAA
4754039 ATACAAACGA
Statistics
Matches: 333, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
110 2 0.01
111 331 0.99
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (111 bp):
CTTTGTGGCAATCTCTATAAAGGAAGCTTTCATGGCTATATTTGAAAAGGAACGCCTTCATGGCG
CAACCTAAGGATAGGATGCCTTGGTGTCAACTCTGGATAAGAAAGT
Found at i:4757038 original size:38 final size:39
Alignment explanation
Indices: 4756996--4757081 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
4756986 GACCAAGCCA
* *
4756996 ACACACCA-TGTGGGGATAGAATCGACCCACCCAACCCT
1 ACACACCAGTATGGGGATAGAATCAACCCACCCAACCCT
* * *
4757034 ACACACCAAGTATGGGGATATAATCAACCCATCTAACCCT
1 ACACACC-AGTATGGGGATAGAATCAACCCACCCAACCCT
4757074 ACACACCA
1 ACACACCA
4757082 CAAGGTACCG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 7 0.17
39 2 0.05
40 32 0.78
ACGTcount: A:0.36, C:0.35, G:0.14, T:0.15
Consensus pattern (39 bp):
ACACACCAGTATGGGGATAGAATCAACCCACCCAACCCT
Found at i:4757053 original size:40 final size:40
Alignment explanation
Indices: 4757006--4757081 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
4756996 ACACACCATG
*
4757006 TGGGGATAGAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
* * *
4757046 TGGGGATATAATCAACCCATCTAACCCTACACACCA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCA
4757082 CAAGGTACCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.34, G:0.14, T:0.16
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:4763244 original size:21 final size:20
Alignment explanation
Indices: 4763220--4763259 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4763210 CACTACCTAA
4763220 AGTATTTCATGACACATACAT
1 AGTATTTCA-GACACATACAT
*
4763241 AGTATTTCAGACATATACA
1 AGTATTTCAGACACATACA
4763260 GACAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTATTTCAGACACATACAT
Found at i:4764097 original size:40 final size:40
Alignment explanation
Indices: 4764042--4764117 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
4764032 ACACACTATG
* *
4764042 TGGGGGTAGAATCAACCTACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
* * *
4764082 TGGGGATATAATCAACCCATCCAACCCTACATACCA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCA
4764118 CAAGGTACCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.36, C:0.33, G:0.14, T:0.17
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:4769652 original size:6 final size:6
Alignment explanation
Indices: 4769641--4769665 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4769631 GTCGAAACTA
4769641 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
4769666 ACATCGATGA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:4772513 original size:20 final size:21
Alignment explanation
Indices: 4772488--4772541 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
4772478 CATCTCAAGG
4772488 AACTCTTGCAACTACGCTTT-
1 AACTCTTGCAACTACGCTTTC
4772508 AACTCTTGCAACTACGCTTTC
1 AACTCTTGCAACTACGCTTTC
* *
4772529 AACACTTTCAACT
1 AACTCTTGCAACT
4772542 TTTTCAACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.33
Consensus pattern (21 bp):
AACTCTTGCAACTACGCTTTC
Found at i:4776058 original size:31 final size:31
Alignment explanation
Indices: 4776023--4776086 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
4776013 CCTTTTCATA
4776023 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
4776054 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
4776085 TT
1 TT
4776087 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:4776391 original size:26 final size:26
Alignment explanation
Indices: 4776306--4776402 Score: 146
Period size: 25 Copynumber: 3.8 Consensus size: 26
4776296 CCTCTTTTAA
*
4776306 AAACTGGGG-TAAAGCCCTTTTC-AT
1 AAACTGGGGCAAAAGCCCTTTTCGAT
4776330 AAACTGGGGCAAAAGCCCTTTT-GAT
1 AAACTGGGGCAAAAGCCCTTTTCGAT
* *
4776355 AAACTGAGGCAAAAGCCCTTTTCGGT
1 AAACTGGGGCAAAAGCCCTTTTCGAT
4776381 AAACTGGGGCAAAAGCCCTTTT
1 AAACTGGGGCAAAAGCCCTTTT
4776403 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
24 9 0.14
25 34 0.52
26 23 0.35
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (26 bp):
AAACTGGGGCAAAAGCCCTTTTCGAT
Found at i:4776472 original size:20 final size:20
Alignment explanation
Indices: 4776449--4776495 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
4776439 TTAAGAATAC
4776449 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
4776469 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
4776489 ATCATGT
1 ATCATGT
4776496 ATACCAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:4789029 original size:70 final size:70
Alignment explanation
Indices: 4788916--4789054 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 70
4788906 CATTAGGTAT
4788916 TTTTACCGATTTTGTCGTTTTACTCGTTTTCACGTAAAATCGCTTAGCAAAAGTTGTTTAACACA
1 TTTTACCGATTTTGTCGTTTTACTCGTTTTCACGTAAAATCGCTTAGCAAAAGTTGTTTAACACA
4788981 ATTTC
66 ATTTC
*
4788986 TTTTACCGATTTTGTCGTTTTACTCGTTTTCACGTAAAATCGCTTAGTAAAAGTTGTTTAACACA
1 TTTTACCGATTTTGTCGTTTTACTCGTTTTCACGTAAAATCGCTTAGCAAAAGTTGTTTAACACA
4789051 ATTT
66 ATTT
4789055 AAAGCTTCAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (70 bp):
TTTTACCGATTTTGTCGTTTTACTCGTTTTCACGTAAAATCGCTTAGCAAAAGTTGTTTAACACA
ATTTC
Found at i:4789925 original size:28 final size:29
Alignment explanation
Indices: 4789894--4789950 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
4789884 AGATGAATTG
4789894 AAATA-AAAAAAAAG-GAGGAAAAATGGAA
1 AAATAGAAAAAAAAGAGAGG-AAAATGGAA
* *
4789922 AAATAGAAAGAAAAGAGATGAAAATGGAA
1 AAATAGAAAAAAAAGAGAGGAAAATGGAA
4789951 GATGGAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.20
29 17 0.68
30 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (29 bp):
AAATAGAAAAAAAAGAGAGGAAAATGGAA
Found at i:4791798 original size:41 final size:41
Alignment explanation
Indices: 4791753--4791835 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
4791743 TACTTTTTCC
4791753 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
1 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
4791794 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
1 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
4791835 A
1 A
4791836 CTTTTCAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (41 bp):
ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
Found at i:4792021 original size:38 final size:38
Alignment explanation
Indices: 4791974--4792081 Score: 106
Period size: 32 Copynumber: 3.0 Consensus size: 38
4791964 TAAATAATTG
4791974 AAATCAAATTTAAAAAAAGTTTGACATTTTTACTAATA
1 AAATCAAATTTAAAAAAAGTTTGACATTTTTACTAATA
* * * *
4792012 AAAT-AAAATTAAATAAAA---T---A-TTTAAATAATTG
1 AAATCAAATTTAAA-AAAAGTTTGACATTTTTACTAA-TA
4792044 AAATCAAATTTAAAAAAAGTTTGACATTTTTACTAATA
1 AAATCAAATTTAAAAAAAGTTTGACATTTTTACTAATA
4792082 CAAAAAGAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
31 7 0.13
32 10 0.19
33 8 0.15
35 2 0.04
37 8 0.15
38 10 0.19
39 7 0.13
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.36
Consensus pattern (38 bp):
AAATCAAATTTAAAAAAAGTTTGACATTTTTACTAATA
Found at i:4792021 original size:70 final size:70
Alignment explanation
Indices: 4791939--4792081 Score: 277
Period size: 70 Copynumber: 2.0 Consensus size: 70
4791929 AAATAATTTT
*
4791939 ATAAAATAAAATTAATTAAAATATTTAAATAATTGAAATCAAATTTAAAAAAAGTTTGACATTTT
1 ATAAAATAAAATTAAATAAAATATTTAAATAATTGAAATCAAATTTAAAAAAAGTTTGACATTTT
4792004 TACTA
66 TACTA
4792009 ATAAAATAAAATTAAATAAAATATTTAAATAATTGAAATCAAATTTAAAAAAAGTTTGACATTTT
1 ATAAAATAAAATTAAATAAAATATTTAAATAATTGAAATCAAATTTAAAAAAAGTTTGACATTTT
4792074 TACTA
66 TACTA
4792079 ATA
1 ATA
4792082 CAAAAAGAGT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (70 bp):
ATAAAATAAAATTAAATAAAATATTTAAATAATTGAAATCAAATTTAAAAAAAGTTTGACATTTT
TACTA
Found at i:4799861 original size:19 final size:19
Alignment explanation
Indices: 4799820--4799861 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4799810 AAAAAAAACT
*
4799820 AAAAAATATATAAAATTGT
1 AAAAAATATATAAAATTGA
**
4799839 AAAAAATATATATTATTGA
1 AAAAAATATATAAAATTGA
4799858 AAAA
1 AAAA
4799862 CTACCTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAAAATATATAAAATTGA
Found at i:4806808 original size:48 final size:47
Alignment explanation
Indices: 4806747--4807016 Score: 213
Period size: 48 Copynumber: 5.6 Consensus size: 47
4806737 AAATAAAGTA
4806747 CCAATGCCATGTCCCAGACATGGTCTTACATGAATCTACA-A-ATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACA--AATC-ACATATATCATCG
* * * *
4806795 CCAATGCCATGTCCTAGATATGGTCTTA-TAATGGCACATATATAATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACAAAT--CACATATATCATCG
* * * * ** * *
4806843 CCGACGCTATGTCCCAAACATGGTCTTACACAGGCACATATATTATCA
1 CCAATGCCATGTCCCAGACATGGTCTTACA-AATCACATATATCATCG
* * *
4806891 CCAATGCCATGTCCTAGACATGGTCTTACACATGTACATATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACAAAT-CACATATATCATCG
*** * * ** *
4806939 CTGGTGCCATGTCCCAAACATGGTCTTGCACAGGCACATATATCATTG
1 CCAATGCCATGTCCCAGACATGGTCTTACA-AATCACATATATCATCG
* * *
4806987 TCGATGCCATGTCCCAAACATGGTCTTACA
1 CCAATGCCATGTCCCAGACATGGTCTTACA
4807017 CAAAGTCTCA
Statistics
Matches: 173, Mismatches: 41, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
45 3 0.02
46 3 0.02
47 2 0.01
48 164 0.95
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (47 bp):
CCAATGCCATGTCCCAGACATGGTCTTACAAATCACATATATCATCG
Found at i:4806930 original size:96 final size:97
Alignment explanation
Indices: 4806752--4807018 Score: 299
Period size: 96 Copynumber: 2.8 Consensus size: 97
4806742 AAGTACCAAT
* * ** * *
4806752 GCCATGTCCCAGACATGGTCTTACATGAATCTACA-A-ATCATCGCCAATGCCATGTCCTAGATA
1 GCCATGTCCCAAACATGGTCTTACA-CAGGC-ACATATATCATCACCAATGCCATGTCCTAGACA
*
4806815 TGGTCTTATA-ATGGCACATATATAATCGCCGAC
64 TGGTCTTACACATGGCACATATATAATCGCCGAC
* *
4806848 GCTATGTCCCAAACATGGTCTTACACAGGCACATATATTATCACCAATGCCATGTCCTAGACATG
1 GCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCACCAATGCCATGTCCTAGACATG
* * * **
4806913 GTCTTACACAT-GTACATATATCATCGCTGGT
66 GTCTTACACATGGCACATATATAATCGCCGAC
* *** * * *
4806944 GCCATGTCCCAAACATGGTCTTGCACAGGCACATATATCATTGTCGATGCCATGTCCCAAACATG
1 GCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCACCAATGCCATGTCCTAGACATG
4807009 GTCTTACACA
66 GTCTTACACA
4807019 AAGTCTCATT
Statistics
Matches: 145, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
94 3 0.02
95 3 0.02
96 137 0.94
97 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (97 bp):
GCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCACCAATGCCATGTCCTAGACATG
GTCTTACACATGGCACATATATAATCGCCGAC
Found at i:4807006 original size:144 final size:143
Alignment explanation
Indices: 4806746--4807018 Score: 352
Period size: 144 Copynumber: 1.9 Consensus size: 143
4806736 CAAATAAAGT
*
4806746 ACCAATGCCATGTCCCAGACATGGTCTTACATGAATCTACAAATCATCGCCAATGCCATGTCCTA
1 ACCAATGCCATGTCCCAGACATGGTCTTACA-GAATCTACAAATCATCGCCAATGCCATGTCCCA
* * * *
4806811 GATATGGTCTTATAATGGCACATATATAATCGCCGACGCTATGTCCCAAACATGGTCTTACACAG
65 AACATGGTCTTACAATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACACAG
4806876 GCACATATATTATC
130 GCACATATATTATC
* * * ***
4806890 ACCAATGCCATGTCCTAGACATGGTCTTACA-CATGTACATATATCATCGCTGGTGCCATGTCCC
1 ACCAATGCCATGTCCCAGACATGGTCTTACAGAATCTACA-A-ATCATCGCCAATGCCATGTCCC
* * * * *
4806954 AAACATGGTCTTGCACA-GGCACATATATCATTGTCGATGCCATGTCCCAAACATGGTCTTACAC
64 AAACATGGTCTTACA-ATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACAC
4807018 A
128 A
4807019 AAGTCTCATT
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
142 6 0.05
143 1 0.01
144 102 0.93
145 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (143 bp):
ACCAATGCCATGTCCCAGACATGGTCTTACAGAATCTACAAATCATCGCCAATGCCATGTCCCAA
ACATGGTCTTACAATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACACAGG
CACATATATTATC
Found at i:4809017 original size:27 final size:27
Alignment explanation
Indices: 4808987--4809164 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
4808977 ATATTGAGCC
* *
4808987 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
4809014 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
4809041 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
4809069 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
4809096 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
4809123 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
4809150 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4809165 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:4809126 original size:82 final size:81
Alignment explanation
Indices: 4809008--4809163 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
4808998 TGCTATATAA
* * *
4809008 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
4809073 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4809090 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
4809154 CACTTAGTGC
65 CACTTAGTGC
4809164 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4811708 original size:27 final size:26
Alignment explanation
Indices: 4811648--4811709 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
4811638 TATAGAATAG
* *
4811648 ATAATAATATAACCATGCATATATATT
1 ATAA-AATATAAACATGCATATACATT
*
4811675 ATTAAATATTAAACATGCATATACA-T
1 ATAAAATA-TAAACATGCATATACATT
4811701 ATGAAAATA
1 AT-AAAATA
4811710 AAAGTGCACA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.34
Consensus pattern (26 bp):
ATAAAATATAAACATGCATATACATT
Found at i:4811931 original size:16 final size:16
Alignment explanation
Indices: 4811910--4811950 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4811900 AAGATGAAAC
*
4811910 TAATAA-AAATTAATAG
1 TAATAATAAA-TAATAA
4811926 TAATAATAAATAATAA
1 TAATAATAAATAATAA
4811942 TAATAATAA
1 TAATAATAA
4811951 TAACACTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
TAATAATAAATAATAA
Found at i:4811934 original size:3 final size:3
Alignment explanation
Indices: 4811910--4811953 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
4811900 AAGATGAAAC
* *
4811910 TAA TAA AAA TTAA TAG TAA TAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
4811954 CACTAAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 30 0.86
4 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:4811934 original size:19 final size:19
Alignment explanation
Indices: 4811910--4811953 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
4811900 AAGATGAAAC
*
4811910 TAATAAA-AATTAATAGTAA
1 TAATAAATAA-TAATAATAA
4811929 TAATAAATAATAATAATAA
1 TAATAAATAATAATAATAA
4811948 TAATAA
1 TAATAA
4811954 CACTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
TAATAAATAATAATAATAA
Found at i:4825848 original size:42 final size:42
Alignment explanation
Indices: 4825800--4825917 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
4825790 CCGAGGCTAT
*
4825800 GTGTAAGACCATATCTAGGATA-TGACATC-ATTATGAGACTTC
1 GTGTAAGACCATATCTAGGATATTG-CATCGA-TATAAGACTTC
* *
4825842 GTGTAAGACCATATCTGGGATATTGCATCGATATAAGATTTC
1 GTGTAAGACCATATCTAGGATATTGCATCGATATAAGACTTC
* * *
4825884 GTGTAAGACTATATCTAGGCTATTGGCATTGATA
1 GTGTAAGACCATATCTAGGATATT-GCATCGATA
4825918 CGAGATCCCA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 55 0.83
43 11 0.17
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATTGCATCGATATAAGACTTC
Found at i:4831703 original size:18 final size:18
Alignment explanation
Indices: 4831680--4831715 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4831670 AGATCGGTGA
*
4831680 TAAAGTATTTCTGAAAGT
1 TAAAGTATTTCTAAAAGT
4831698 TAAAGTATTTCTAAAAGT
1 TAAAGTATTTCTAAAAGT
4831716 ATCTCCGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.39
Consensus pattern (18 bp):
TAAAGTATTTCTAAAAGT
Found at i:4833413 original size:43 final size:42
Alignment explanation
Indices: 4833352--4833450 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 42
4833342 TGAGTCTTAT
* **
4833352 CTGGGATATGGTATCGATATGAGATTTCATGTAAGACCATAG
1 CTGGGATATGGCATCGATATGAGATACCATGTAAGACCATAG
* *
4833394 CTGGGCTATTGGCATCGATATGAGATACCATGTAAGACCATAT
1 CTGGGATA-TGGCATCGATATGAGATACCATGTAAGACCATAG
4833437 CTGGGATATGGCAT
1 CTGGGATATGGCAT
4833451 TGGTGTAGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 13 0.26
43 37 0.74
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
CTGGGATATGGCATCGATATGAGATACCATGTAAGACCATAG
Found at i:4835123 original size:28 final size:28
Alignment explanation
Indices: 4835091--4835156 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
4835081 CCGTGTCCAT
**
4835091 GCCCGTGTCCCTCACATTGCCATGACAC
1 GCCCGTGTCCCTCACACAGCCATGACAC
4835119 GCCCGTGTCCCTCACACAGCCATGACAC
1 GCCCGTGTCCCTCACACAGCCATGACAC
*
4835147 GCCCATGTCC
1 GCCCGTGTCC
4835157 TAGCCTGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.18, C:0.45, G:0.18, T:0.18
Consensus pattern (28 bp):
GCCCGTGTCCCTCACACAGCCATGACAC
Found at i:4836256 original size:49 final size:49
Alignment explanation
Indices: 4836151--4836282 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
4836141 GGGTTAAGAT
* *
4836151 GCCGACGCCATGTCCCAGACATGGTGTTACACTGGCTTTCATATAGCGAG
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTTTCATATAGCGAG
* * *
4836201 GCCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTT-ATCTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCT-TTCATATAGCGAG
* * *
4836249 TGTCGATGCCATGTCCTAGGCAGGTCTTACACTG
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTG
4836283 ACACACGACA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
48 1 0.01
49 49 0.69
50 21 0.30
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAG
Found at i:4840033 original size:45 final size:45
Alignment explanation
Indices: 4839982--4840067 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
4839972 TGAGTAAGTC
4839982 AGTATGTCGTAGATAAAGACCACTACGAACTTATCCAAATAAATT
1 AGTATGTCGTAGATAAAGACCACTACGAACTTATCCAAATAAATT
4840027 AGTATGTCGTAGATAAAGACCACTACGAACTTATCCAAATA
1 AGTATGTCGTAGATAAAGACCACTACGAACTTATCCAAATA
4840068 CAGCCAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (45 bp):
AGTATGTCGTAGATAAAGACCACTACGAACTTATCCAAATAAATT
Found at i:4844262 original size:48 final size:46
Alignment explanation
Indices: 4844183--4844307 Score: 144
Period size: 48 Copynumber: 2.7 Consensus size: 46
4844173 TCGTCTTAAT
* * * *
4844183 GCCGATGCATGTCCCAGACGTGTTTTGCACTGGCT-TAAATATCTTGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-AATA--TTGAG
* *
4844231 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATATTGTG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTAATATTGAG
**
4844277 GTTGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
4844308 AGCACACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 33 0.49
48 34 0.50
49 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTAATATTGAG
Found at i:4845974 original size:30 final size:30
Alignment explanation
Indices: 4845940--4845997 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4845930 CTCGAGCCTA
4845940 GGGAAAAAGTGTAAATATGCAAAAGTTTAG
1 GGGAAAAAGTGTAAATATGCAAAAGTTTAG
* * * *
4845970 GGGAAAAATTGTAATTTTGCCAAAGTTT
1 GGGAAAAAGTGTAAATATGCAAAAGTTT
4845998 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGAAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:4850623 original size:47 final size:47
Alignment explanation
Indices: 4850564--4851697 Score: 2002
Period size: 47 Copynumber: 24.1 Consensus size: 47
4850554 TTAGGATTTT
** ** * * *
4850564 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
4850611 ATGTGATAAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* **
4850658 ATGTGATGAATGTGAACCTGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
4850705 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCA
4850756 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4850803 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4850850 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4850897 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4850944 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4850991 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851038 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851085 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851132 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851179 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851226 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851273 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851320 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851367 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851414 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851461 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851508 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
4851555 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
4851602 ATGTGATGAATGTGAACA-ACATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * *
4851648 ATGTGATGAATGTGAACATGTATATATGT-AGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGA-TAAGGCCGAATGGCCA
4851695 ATG
1 ATG
4851698 CGAAACGTGT
Statistics
Matches: 1054, Mismatches: 27, Indels: 12
0.96 0.02 0.01
Matches are distributed among these distances:
46 43 0.04
47 966 0.92
48 1 0.00
50 1 0.00
51 43 0.04
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:4851965 original size:38 final size:37
Alignment explanation
Indices: 4851923--4852037 Score: 115
Period size: 37 Copynumber: 3.1 Consensus size: 37
4851913 TTAAAAACCA
* * *
4851923 GATGACCATATGTGGTGA-CTATGTCTGGGTTAAGACCC
1 GATGACCACATGTGGAGATC-ATGTCCGGG-TAAGACCC
* *
4851961 GATGACTACGTGTGGAGATCATGTCCGGGTAAGACCC
1 GATGACCACATGTGGAGATCATGTCCGGGTAAGACCC
* * ** *
4851998 GATGACTACGTGTGGAGATTTTGTCCCGGTAAGACCC
1 GATGACCACATGTGGAGATCATGTCCGGGTAAGACCC
4852035 GAT
1 GAT
4852038 AACTTCGTGT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
37 45 0.66
38 22 0.32
39 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.26
Consensus pattern (37 bp):
GATGACCACATGTGGAGATCATGTCCGGGTAAGACCC
Found at i:4852054 original size:37 final size:37
Alignment explanation
Indices: 4851953--4852055 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
4851943 ATGTCTGGGT
** *
4851953 TAAGACCCGATGACTACGTGTGGAGATCATGTCCGGG
1 TAAGACCCGATGACTACGTGTGGAGATTTTGTCCCGG
4851990 TAAGACCCGATGACTACGTGTGGAGATTTTGTCCCGG
1 TAAGACCCGATGACTACGTGTGGAGATTTTGTCCCGG
* *
4852027 TAAGACCCGATAACTTCGTGTGGAGATTT
1 TAAGACCCGATGACTACGTGTGGAGATTT
4852056 CATCTGAGCT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.26
Consensus pattern (37 bp):
TAAGACCCGATGACTACGTGTGGAGATTTTGTCCCGG
Found at i:4853391 original size:19 final size:19
Alignment explanation
Indices: 4853367--4853471 Score: 70
Period size: 19 Copynumber: 5.0 Consensus size: 19
4853357 ATATTATTAC
4853367 AAATGTCATTATCTAATTT
1 AAATGTCATTATCTAATTT
*
4853386 AAATGT-ATTTATTCATATTATTAC
1 AAATGTCA-TTA-TC-TA--ATT-T
4853410 AAATGTCATTATCTAATTT
1 AAATGTCATTATCTAATTT
*
4853429 AAATGT-ATTTATTCATATTATTAC
1 AAATGTCA-TTA-TC-TA--ATT-T
4853453 AAATGTCATTATCTAATTT
1 AAATGTCATTATCTAATTT
4853472 TTTTACATAC
Statistics
Matches: 68, Mismatches: 4, Indels: 28
0.68 0.04 0.28
Matches are distributed among these distances:
18 2 0.03
19 18 0.26
20 10 0.15
21 4 0.06
22 4 0.06
23 10 0.15
24 18 0.26
25 2 0.03
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (19 bp):
AAATGTCATTATCTAATTT
Found at i:4853406 original size:43 final size:43
Alignment explanation
Indices: 4853345--4853471 Score: 254
Period size: 43 Copynumber: 3.0 Consensus size: 43
4853335 TGTGTAAGAG
4853345 ATGTATTTATTCATATTATTACAAATGTCATTATCTAATTTAA
1 ATGTATTTATTCATATTATTACAAATGTCATTATCTAATTTAA
4853388 ATGTATTTATTCATATTATTACAAATGTCATTATCTAATTTAA
1 ATGTATTTATTCATATTATTACAAATGTCATTATCTAATTTAA
4853431 ATGTATTTATTCATATTATTACAAATGTCATTATCTAATTT
1 ATGTATTTATTCATATTATTACAAATGTCATTATCTAATTT
4853472 TTTTACATAC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (43 bp):
ATGTATTTATTCATATTATTACAAATGTCATTATCTAATTTAA
Found at i:4853464 original size:24 final size:24
Alignment explanation
Indices: 4853351--4853464 Score: 108
Period size: 24 Copynumber: 5.2 Consensus size: 24
4853341 AGAGATGTAT
4853351 TTATTCATATTATTACAAATGTCA
1 TTATTCATATTATTACAAATGTCA
*
4853375 TTA-TC-TA--ATT-TAAATGT-A
1 TTATTCATATTATTACAAATGTCA
4853393 TTTATTCATATTATTACAAATGTCA
1 -TTATTCATATTATTACAAATGTCA
*
4853418 TTA-TC-TA--ATT-TAAATGT-A
1 TTATTCATATTATTACAAATGTCA
4853436 TTTATTCATATTATTACAAATGTCA
1 -TTATTCATATTATTACAAATGTCA
4853461 TTAT
1 TTAT
4853465 CTAATTTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 28
0.69 0.04 0.27
Matches are distributed among these distances:
18 2 0.03
19 18 0.25
20 10 0.14
21 4 0.06
22 4 0.06
23 10 0.14
24 22 0.31
25 2 0.03
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (24 bp):
TTATTCATATTATTACAAATGTCA
Found at i:4853678 original size:17 final size:17
Alignment explanation
Indices: 4853656--4853689 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4853646 ATTCACTAAT
4853656 ATAAT-ATCAATTAAATA
1 ATAATAATCAA-TAAATA
4853673 ATAATAATCAATAAATA
1 ATAATAATCAATAAATA
4853690 TATTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATAATCAATAAATA
Found at i:4854246 original size:21 final size:20
Alignment explanation
Indices: 4854220--4854259 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
4854210 ATATAATGCT
4854220 CTCCTTTAAATGATGTAATAG
1 CTCCTTTAAATGATG-AATAG
*
4854241 CTCCTTTAAGTGATGAATA
1 CTCCTTTAAATGATGAATA
4854260 ATGCTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
CTCCTTTAAATGATGAATAG
Found at i:4856166 original size:26 final size:26
Alignment explanation
Indices: 4856137--4856187 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
4856127 AAATTTGAAG
4856137 TAGAAATATTTATTTTATTATTTCTA
1 TAGAAATATTTATTTTATTATTTCTA
4856163 TAGAAATATTTATTTTATTATTTCT
1 TAGAAATATTTATTTTATTATTTCT
4856188 TTAAGGTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
TAGAAATATTTATTTTATTATTTCTA
Found at i:4861460 original size:47 final size:45
Alignment explanation
Indices: 4861200--4861472 Score: 173
Period size: 47 Copynumber: 5.8 Consensus size: 45
4861190 TTTGTGTGCC
*
4861200 AGTGTAAGACATGTTTGGGACAT-GCATCGGTCACATTAT-GAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATC-G--ACATTATGGAGAGCT
* * ** *
4861246 AGTGTAAAACCATGTCTGGGACATGGCATCAACATATACACGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACAT-TA-TGGAGAGCT
* * * * * *
4861294 AGTGTAAGACATGCCTGAGACAT-GCATTGGC--TA-CGAGATGTGT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACATTATGGAGA-G-CT
* *
4861337 CAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATATGTGAGAGCT
1 -AGTGTAAGA-CATGTCTGGGACATGGCATCGACA---TTATG-GAGAGCT
* * *
4861388 AGTGTAAGAAATTGTTTGGGGCATGGCATCGAC-TTGATGGATGAGCT
1 AGTGTAAGACA-TGTCTGGGACATGGCATCGACATT-ATGGA-GAGCT
*
4861435 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACATTAT
4861473 ACCCTATGTT
Statistics
Matches: 178, Mismatches: 27, Indels: 43
0.72 0.11 0.17
Matches are distributed among these distances:
41 5 0.03
42 1 0.01
43 2 0.01
44 9 0.05
45 15 0.08
46 24 0.13
47 62 0.35
48 22 0.12
49 1 0.01
50 29 0.16
51 3 0.02
52 1 0.01
53 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACATTATGGAGAGCT
Found at i:4869008 original size:46 final size:46
Alignment explanation
Indices: 4868864--4869073 Score: 203
Period size: 46 Copynumber: 4.5 Consensus size: 46
4868854 TTACTTATGT
* **
4868864 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
* ** ** *
4868910 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGAGA
4868958 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-AGA
* ** * *
4869004 GCCAGTTTGCGATATGTCTGGGACATGCATCGGCACGT-ATAGA-G-GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C-TCA-AGATGAGA
4869050 GCCAGTGTAAGACCATGTCTGGGA
1 GCCAGTGTAAGA-CATGTCTGGGA
4869074 TATTACATTG
Statistics
Matches: 132, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
46 63 0.48
47 42 0.32
48 27 0.20
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
Found at i:4871668 original size:21 final size:21
Alignment explanation
Indices: 4871638--4871687 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
4871628 TTCAAGTTCC
*
4871638 ACACGAGCGTGTAGCCCTCTT
1 ACACGGGCGTGTAGCCCTCTT
4871659 ACACGGGCGTGTAGCCCTCTT
1 ACACGGGCGTGTAGCCCTCTT
4871680 ACACGGGC
1 ACACGGGC
4871688 ATGTTCCCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.34, G:0.28, T:0.20
Consensus pattern (21 bp):
ACACGGGCGTGTAGCCCTCTT
Found at i:4875426 original size:46 final size:46
Alignment explanation
Indices: 4875282--4875452 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
4875272 TGTGTGAGTT
** *
4875282 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATCAAGACGAGAGCC
* * ** * *
4875328 AGTGTAAGACCATGTCTGGGACATGGTATTGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCAAGACGAGAGCC
*
4875376 AGTGTAAGACATTTCTGGGACATGCATCGGCATCAAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACG-AGAGCC
* *
4875422 AGTGTAAGATATGCCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
4875453 TACAAGATGT
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 52 0.51
47 30 0.29
48 20 0.20
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGAGAGCC
Found at i:4877713 original size:51 final size:50
Alignment explanation
Indices: 4877636--4877818 Score: 215
Period size: 51 Copynumber: 3.6 Consensus size: 50
4877626 CGGATACCCG
* * *
4877636 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCAAAGCTAACTTCTTCACAAA
* *
4877687 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTG-TCAAAGCTA-ACTTCTTCACAAA
* * * * * *
4877739 GTGGCCTTCACATAGTACAACACTTATGACCAAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTAACTTCTTCACAAA
* *
4877788 GTGGCCTTCACATAGTACTACACTTGAGTCA
1 GTGGCCTTCACATAGTACCACACTTGTGTCA
4877819 CTAGTTACAT
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
49 35 0.31
50 1 0.01
51 40 0.35
52 37 0.33
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTAACTTCTTCACAAA
Found at i:4877753 original size:52 final size:52
Alignment explanation
Indices: 4877636--4877813 Score: 222
Period size: 52 Copynumber: 3.5 Consensus size: 52
4877626 CGGATACCCG
* * * **
4877636 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATATTTCTTCACAAA
4877687 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAA
* * * *
4877739 GTGGCCTTCACATAGTACAACACTTATGACC-AAGC--TATCTCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAA
*
4877788 GTGGCCTTCACATAGTACTACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
4877814 AGTCACTAGT
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
49 36 0.32
51 37 0.32
52 41 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAA
Found at i:4881291 original size:43 final size:42
Alignment explanation
Indices: 4881244--4881381 Score: 109
Period size: 44 Copynumber: 3.2 Consensus size: 42
4881234 TCCTAGACGT
* * *
4881244 GGTCTTACATGTAACCAAATATTGATGCC-ACTGTCCCAGATAG
1 GGTCTTACACGAAACCAAATA-CGATGCCGA-TGTCCCAGATAG
* * *
4881287 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAACCAAATACGATGCCGATGTCCCAGATAG
* * * * * *
4881329 GGTATTACACGTAAATCATAAGT-CGATGCCAACGTCCCAGACAT
1 GGTCTTACACG-AAACCA-AA-TACGATGCCGATGTCCCAGATAG
4881373 GGTCTTACA
1 GGTCTTACA
4881382 TGATAACACA
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
42 26 0.32
43 25 0.31
44 29 0.36
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAACCAAATACGATGCCGATGTCCCAGATAG
Found at i:4881367 original size:44 final size:41
Alignment explanation
Indices: 4881220--4881381 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 41
4881210 CAGAAATCTC
* * * * * *
4881220 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAACCAA
1 ATACGATGCC-ACGTCCCAGACATGGTCTTACACGAAATCAA
* * *
4881262 ATATTGATGCCACTGTCCCAGATAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAC-GTCCCAGACATGGTCTTACACGAAATCAA
* *
4881305 ATACGATGCCGATGTCCCAGACATGGTATTACACGTAAATCATA
1 ATACGATGCC-ACGTCCCAGACATGGTCTTACACG-AAATCA-A
4881349 AGT-CGATGCCAACGTCCCAGACATGGTCTTACA
1 A-TACGATGCC-ACGTCCCAGACATGGTCTTACA
4881382 TGATAACACA
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 30 0.31
43 37 0.38
44 29 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (41 bp):
ATACGATGCCACGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:4897469 original size:15 final size:15
Alignment explanation
Indices: 4897451--4897492 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
4897441 ATCTTGGGTT
*
4897451 TCTTTATCCTGGATC
1 TCTTTATTCTGGATC
*
4897466 TCTTTATTCTGGATT
1 TCTTTATTCTGGATC
4897481 TCTTTATTCTGG
1 TCTTTATTCTGG
4897493 GCTTCTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.12, C:0.19, G:0.14, T:0.55
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:4897498 original size:15 final size:15
Alignment explanation
Indices: 4897450--4897498 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4897440 TATCTTGGGT
*
4897450 TTCTTTATCCTGGA-
1 TTCTTTATTCTGGAC
*
4897464 TCTCTTTATTCTGGAT
1 T-TCTTTATTCTGGAC
*
4897480 TTCTTTATTCTGGGC
1 TTCTTTATTCTGGAC
4897495 TTCT
1 TTCT
4897499 CAATCTTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.10, C:0.20, G:0.14, T:0.55
Consensus pattern (15 bp):
TTCTTTATTCTGGAC
Found at i:4900206 original size:46 final size:44
Alignment explanation
Indices: 4900145--4900321 Score: 149
Period size: 46 Copynumber: 3.9 Consensus size: 44
4900135 ATATTTGGGC
4900145 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *** * *
4900189 ATGTCTGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
* * * *
4900238 ATCCGAGCTCGTTGAGTTTAGTCTGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* *
4900283 CACCCGATCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
4900322 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.61
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (44 bp):
ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:4900301 original size:93 final size:93
Alignment explanation
Indices: 4900142--4900313 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
4900132 AGGATATTTG
*** * *
4900142 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
*
4900207 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
4900235 GGCATCCGAGCTCGTTGAGTTTAGTCTGAGTTCACTTATGGATGCGAACACCCGATCTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
4900300 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
4900314 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:4904802 original size:6 final size:6
Alignment explanation
Indices: 4904791--4904816 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4904781 GTAAAGTAAT
4904791 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
4904817 GGCACGGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:4907295 original size:17 final size:17
Alignment explanation
Indices: 4907269--4907306 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4907259 AGCTCGAAGC
4907269 AAATTAGTT-AAGATAAA
1 AAATTAGTTAAAG-TAAA
*
4907286 AAATTTGTTAAAGTAAA
1 AAATTAGTTAAAGTAAA
4907303 AAAT
1 AAAT
4907307 GAATAAGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (17 bp):
AAATTAGTTAAAGTAAA
Found at i:4907599 original size:14 final size:14
Alignment explanation
Indices: 4907580--4907606 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4907570 CCTCTCCATT
4907580 TTCTTCTTCTTTTC
1 TTCTTCTTCTTTTC
4907594 TTCTTCTTCTTTT
1 TTCTTCTTCTTTT
4907607 TTTTTGTAGA
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTCTTCTTCTTTTC
Found at i:4925495 original size:18 final size:17
Alignment explanation
Indices: 4925472--4925505 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4925462 TTAAGCCATA
4925472 ATGGGCCGAATGGGCCCG
1 ATGGGCC-AATGGGCCCG
*
4925490 ATGGGCCCATGGGCCC
1 ATGGGCCAATGGGCCC
4925506 AACTTGTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.32, G:0.41, T:0.12
Consensus pattern (17 bp):
ATGGGCCAATGGGCCCG
Found at i:4925870 original size:27 final size:27
Alignment explanation
Indices: 4925840--4926009 Score: 141
Period size: 27 Copynumber: 6.3 Consensus size: 27
4925830 TTAGATTTCT
* *
4925840 GAAACACCCTCAGTTTGTAAAATTATC
1 GAAATACCCTCAGTTTGTAAAATTACC
**
4925867 GAAATACTTTCAGTTTGTAAAATTACC
1 GAAATACCCTCAGTTTGTAAAATTACC
*
4925894 GAAATACGCC-CTA-TTTGCAAAATTACC
1 GAAATAC-CCTC-AGTTTGTAAAATTACC
*
4925921 GAGATACCC-CTAGTTTGTAAAATTACC
1 GAAATACCCTC-AGTTTGTAAAATTACC
* * * * *
4925948 AAAATACCCCCAGTTTCTAAAAGTACT
1 GAAATACCCTCAGTTTGTAAAATTACC
* * *
4925975 AAAATACCCT-TGTTGTGTAAACTTACC
1 GAAATACCCTCAGTT-TGTAAAATTACC
*
4926002 AAAATACC
1 GAAATACC
4926010 TTGTAGGGTA
Statistics
Matches: 118, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
26 8 0.07
27 108 0.92
28 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (27 bp):
GAAATACCCTCAGTTTGTAAAATTACC
Found at i:4928147 original size:12 final size:12
Alignment explanation
Indices: 4928130--4928206 Score: 50
Period size: 12 Copynumber: 6.4 Consensus size: 12
4928120 AATGGGAGGT
*
4928130 TGGAGTGATTTA
1 TGGAGAGATTTA
*
4928142 TGGAGTG-TATTA
1 TGGAGAGAT-TTA
4928154 TGGAGAGATATTA
1 TGGAGAGAT-TTA
* * *
4928167 -GGAGAAAATCA
1 TGGAGAGATTTA
* *
4928178 AGGAGTGATTTA
1 TGGAGAGATTTA
4928190 TGGAGAGATTTA
1 TGGAGAGATTTA
*
4928202 AGGAG
1 TGGAG
4928207 GAAAATATGG
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
11 3 0.06
12 43 0.84
13 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.34, T:0.30
Consensus pattern (12 bp):
TGGAGAGATTTA
Found at i:4928191 original size:36 final size:37
Alignment explanation
Indices: 4928143--4928212 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 37
4928133 AGTGATTTAT
4928143 GGAGTGTATTATGGAGAGATATT-AGGA-GAAAATCAA
1 GGAGTGTATTATGGAGAGAT-TTAAGGAGGAAAATCAA
4928179 GGAGTG-ATTTATGGAGAGATTTAAGGAGGAAAAT
1 GGAGTGTA-TTATGGAGAGATTTAAGGAGGAAAAT
4928213 ATGGGATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
35 3 0.10
36 22 0.71
37 6 0.19
ACGTcount: A:0.40, C:0.01, G:0.33, T:0.26
Consensus pattern (37 bp):
GGAGTGTATTATGGAGAGATTTAAGGAGGAAAATCAA
Found at i:4928204 original size:24 final size:24
Alignment explanation
Indices: 4928131--4928206 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
4928121 ATGGGAGGTT
* *
4928131 GGAGTGATTTATGGAGTG-TATTAT
1 GGAGTGATTTATGGAGAGAT-TTAA
* * * *
4928155 GGAGAGATATTA-GGAGAAAATCAA
1 GGAGTGAT-TTATGGAGAGATTTAA
4928179 GGAGTGATTTATGGAGAGATTTAA
1 GGAGTGATTTATGGAGAGATTTAA
4928203 GGAG
1 GGAG
4928207 GAAAATATGG
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
23 3 0.08
24 33 0.85
25 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.34, T:0.29
Consensus pattern (24 bp):
GGAGTGATTTATGGAGAGATTTAA
Found at i:4929538 original size:27 final size:27
Alignment explanation
Indices: 4929520--4929650 Score: 145
Period size: 27 Copynumber: 4.9 Consensus size: 27
4929510 ATACCTTCGG
* *
4929520 TTTGTAAAATTACCGAAATACTCTCAA
1 TTTGTAAAATTACCGAAATACCCCCAA
* *
4929547 TTTGTAAAATTATCGAAATACCCCCGA
1 TTTGTAAAATTACCGAAATACCCCCAA
* * * *
4929574 TGTGTAAAATTATCGAGATACCCCCAG
1 TTTGTAAAATTACCGAAATACCCCCAA
* * *
4929601 TTTGTAAAATTACCAAAATACCCCTAT
1 TTTGTAAAATTACCGAAATACCCCCAA
* *
4929628 TTTGAAAAATTACCAAAATACCC
1 TTTGTAAAATTACCGAAATACCC
4929651 TTGTAGTGTA
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCCCAA
Found at i:4929605 original size:54 final size:54
Alignment explanation
Indices: 4929522--4929676 Score: 143
Period size: 54 Copynumber: 2.9 Consensus size: 54
4929512 ACCTTCGGTT
* * * *
4929522 TGTAAAATTACCGAAATACTCTCAATTTGTAAAATTATCGAAATACCCCCGATG
1 TGTAAAATTACCGAAATACCCCCAATTTGTAAAATTACCAAAATACCCCCGATG
* * * * *
4929576 TGTAAAATTATCGAGATACCCCCAGTTTGTAAAATTACCAAAATA-CCCCTATTT
1 TGTAAAATTACCGAAATACCCCCAATTTGTAAAATTACCAAAATACCCCCGA-TG
* * *** *
4929630 TGAAAAATTACCAAAATA-CCCTTGTAGTGTAAAATTACCAAAATACC
1 TGTAAAATTACCGAAATACCCCCAAT-TTGTAAAATTACCAAAATACC
4929677 TCTGTAGGGT
Statistics
Matches: 82, Mismatches: 16, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
53 10 0.12
54 71 0.87
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
TGTAAAATTACCGAAATACCCCCAATTTGTAAAATTACCAAAATACCCCCGATG
Found at i:4929663 original size:27 final size:27
Alignment explanation
Indices: 4929603--4929691 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
4929593 ACCCCCAGTT
* * **
4929603 TGTAAAATTACCAAAATACCCCTATTT
1 TGTAAAATTACCAAAATACCCTTGTAG
*
4929630 TGAAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
4929657 TGTAAAATTACCAAAATA-CCTCTGTAG
1 TGTAAAATTACCAAAATACCCT-TGTAG
*
4929684 GGTAAAAT
1 TGTAAAAT
4929692 GACTGTTTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.06
27 51 0.94
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCTTGTAG
Found at i:4929676 original size:81 final size:81
Alignment explanation
Indices: 4929505--4929676 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 81
4929495 GTTTAGATTT
** * * * * * *
4929505 CCAAAATACCTTCGGTTTGTAAAATTACCGAAATACTCTCAATTTGTAAAATTATCGAAATACCC
1 CCAAAATACCCCCAGTTTGTAAAATTACCAAAATACCCTCAATTTGAAAAATTACCAAAATACCC
4929570 CCGATGTGTAAAATTA
66 CCGATGTGTAAAATTA
* * * *
4929586 TCGAGATACCCCCAGTTTGTAAAATTACCAAAATACCC-CTATTTTGAAAAATTACCAAAATACC
1 CCAAAATACCCCCAGTTTGTAAAATTACCAAAATACCCTC-AATTTGAAAAATTACCAAAATACC
**
4929650 CTTG-TAGTGTAAAATTA
65 CCCGAT-GTGTAAAATTA
4929667 CCAAAATACC
1 CCAAAATACC
4929677 TCTGTAGGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
80 2 0.03
81 70 0.97
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (81 bp):
CCAAAATACCCCCAGTTTGTAAAATTACCAAAATACCCTCAATTTGAAAAATTACCAAAATACCC
CCGATGTGTAAAATTA
Found at i:4929963 original size:27 final size:26
Alignment explanation
Indices: 4929933--4930022 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 26
4929923 GTGCAAATCG
*
4929933 TATTTACCAGTGGCTATGTGCCTATCA
1 TATTTACC-GTGGCTATGTGCCGATCA
* * *
4929960 TATTTATCGATGACTATGTGTCGATCA
1 TATTTACCG-TGGCTATGTGCCGATCA
*
4929987 TATTTACCCGTGGCTATGTGCCGATTA
1 TATTTA-CCGTGGCTATGTGCCGATCA
4930014 TA-TTACCGT
1 TATTTACCGT
4930023 CGTTGATGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 43 0.81
28 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (26 bp):
TATTTACCGTGGCTATGTGCCGATCA
Found at i:4933218 original size:27 final size:27
Alignment explanation
Indices: 4933175--4933346 Score: 181
Period size: 27 Copynumber: 6.4 Consensus size: 27
4933165 TTAGATTTTT
4933175 GAAATACCCTC-GATTTGTAAAATTACC
1 GAAATACCCTCAG-TTTGTAAAATTACC
* *
4933202 GAAATACTCTCAGTTTGTAAAATTACT
1 GAAATACCCTCAGTTTGTAAAATTACC
* *
4933229 GAAATACCC-CCGATTTGTAAAATTACT
1 GAAATACCCTCAG-TTTGTAAAATTACC
* *
4933256 GAGATACCCTCAATTTGTAAAATTACC
1 GAAATACCCTCAGTTTGTAAAATTACC
*
4933283 AAAATACTCC-CAGTTTGTAAAATTACC
1 GAAATAC-CCTCAGTTTGTAAAATTACC
* * *
4933310 GAAATACCCT-TGTAGTGTAAACTTACC
1 GAAATACCCTCAGT-TTGTAAAATTACC
*
4933337 AAAATACCCT
1 GAAATACCCT
4933347 TATAGGGTAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.05
27 113 0.92
28 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
GAAATACCCTCAGTTTGTAAAATTACC
Found at i:4933273 original size:54 final size:54
Alignment explanation
Indices: 4933174--4933319 Score: 204
Period size: 54 Copynumber: 2.7 Consensus size: 54
4933164 TTTAGATTTT
* * *
4933174 TGAAATACCCTCGATTTGTAAAATTACCGAAATACTCTCAGTTTGTAAAATTAC
1 TGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTAC
* *
4933228 TGAAATACCCCCGATTTGTAAAATTACTGAGATACCCTCAATTTGTAAAATTAC
1 TGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTAC
** *
4933282 CAAAATACTCCC-AGTTTGTAAAATTACCGAAATACCCT
1 TGAAATACCCCCGA-TTTGTAAAATTACCGAAATACCCT
4933320 TGTAGTGTAA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 80 0.99
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTAC
Found at i:4933344 original size:81 final size:81
Alignment explanation
Indices: 4933176--4933346 Score: 227
Period size: 81 Copynumber: 2.1 Consensus size: 81
4933166 TAGATTTTTG
* * * *
4933176 AAATACCCTCGATTTGTAAAATTACCGAAATACTCTCAGTTTGTAAAATTACTGAAATACCCCCG
1 AAATACCCTCAATTTGTAAAATTACCAAAATACTCCCAGTTTGTAAAATTACCGAAATACCCCCG
* **
4933241 ATTTGTAAAATTACTG
66 ATGTGTAAAATTACCA
* **
4933257 AGATACCCTCAATTTGTAAAATTACCAAAATACTCCCAGTTTGTAAAATTACCGAAATACCCTTG
1 AAATACCCTCAATTTGTAAAATTACCAAAATACTCCCAGTTTGTAAAATTACCGAAATACCCCCG
*
4933322 -TAGTGTAAACTTACCA
66 AT-GTGTAAAATTACCA
4933338 AAATACCCT
1 AAATACCCT
4933347 TATAGGGTAA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 76 0.99
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATACCCTCAATTTGTAAAATTACCAAAATACTCCCAGTTTGTAAAATTACCGAAATACCCCCG
ATGTGTAAAATTACCA
Found at i:4933347 original size:27 final size:27
Alignment explanation
Indices: 4933271--4933359 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
4933261 ACCCTCAATT
** *
4933271 TGTAAAATTACCAAAATACTCCCAGT-T
1 TGTAAAATTACCAAAATAC-CCTTGTAG
*
4933298 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
* *
4933325 TGTAAACTTACCAAAATACCCTTATAG
1 TGTAAAATTACCAAAATACCCTTGTAG
*
4933352 GGTAAAAT
1 TGTAAAAT
4933360 GACTGTTTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.08
27 48 0.92
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCTTGTAG
Found at i:4933670 original size:27 final size:26
Alignment explanation
Indices: 4933592--4933676 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
4933582 GTGCAAATTG
*
4933592 TATTTACCAGTGGCTATGTGCCTATCA
1 TATTTACCA-TGGCTATGTGCCGATCA
* * * * * *
4933619 TATTTGTCGATGACTCTATGTCGATCA
1 TATTT-ACCATGGCTATGTGCCGATCA
*
4933646 TATTTACCCATGGCTATGTGCCGATTA
1 TATTTA-CCATGGCTATGTGCCGATCA
4933673 TATT
1 TATT
4933677 ACTGTCGCTG
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
27 40 0.95
28 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (26 bp):
TATTTACCATGGCTATGTGCCGATCA
Found at i:4940358 original size:40 final size:39
Alignment explanation
Indices: 4940290--4940594 Score: 245
Period size: 40 Copynumber: 7.6 Consensus size: 39
4940280 ACCGGACGAT
* * *
4940290 AAAC-GGGGCCACGTAAGTGCATTTAGGGGTACATAAGTAC
1 AAACAGGGG-CACGTATGTGTATTCAGGGGTAC-TAAGTAC
* * *
4940330 AAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTGTATTCAGGGGTA-CTAAGTAC
** * *
4940370 AATTAGGGGCACGGATGTGTATTTAGGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTGTATTCAGGGGTACT-AAGTAC
* * * *
4940410 AAACATGGGCATGTATGTGTACTCAGGGGTATCGAAGTA-
1 AAACAGGGGCACGTATGTGTATTCAGGGGTA-CTAAGTAC
* * * * *
4940449 AAATTAGGGGCACGGATATGTATTTAGGGGTACTGAAGTGC
1 AAA-CAGGGGCACGTATGTGTATTCAGGGGTACT-AAGTAC
* * * *
4940490 AAATAGGGGCGCGTATGTGCATTCAGGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTGTATTCAGGGGTA-CTAAGTAC
* * * * *
4940530 AATCAAGGGCACGTATGTGCATTTAAGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTGTATTCAGGGGTACT-AAGTAC
* *
4940570 AAACAGGGGCACATATGTGCATTCA
1 AAACAGGGGCACGTATGTGTATTCA
4940595 CTCAATAATT
Statistics
Matches: 208, Mismatches: 48, Indels: 18
0.76 0.18 0.07
Matches are distributed among these distances:
39 6 0.03
40 192 0.92
41 10 0.05
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.24
Consensus pattern (39 bp):
AAACAGGGGCACGTATGTGTATTCAGGGGTACTAAGTAC
Found at i:4940443 original size:80 final size:80
Alignment explanation
Indices: 4940310--4940580 Score: 400
Period size: 80 Copynumber: 3.4 Consensus size: 80
4940300 ACGTAAGTGC
4940310 ATTTAGGGGTACAT-AAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATT
1 ATTTAGGGGTAC-TGAAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATT
4940374 AGGGGCACGGATGTGT
65 AGGGGCACGGATGTGT
* *
4940390 ATTTAGGGGTACTGAAGTACAAACATGGGCATGTATGTGTACTCAGGGGTATCGAAGTAAAATTA
1 ATTTAGGGGTACTGAAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATTA
*
4940455 GGGGCACGGATATGT
66 GGGGCACGGATGTGT
* * ** * * *
4940470 ATTTAGGGGTACTGAAGTGCAAATAGGGGCGCGTATGTGCATTCAGGGGTATCGAAGTACAATCA
1 ATTTAGGGGTACTGAAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATTA
* * *
4940535 AGGGCACGTATGTGC
66 GGGGCACGGATGTGT
*
4940550 ATTTAAGGGTACTGAAGTACAAACAGGGGCA
1 ATTTAGGGGTACTGAAGTACAAACAGGGGCA
4940581 CATATGTGCA
Statistics
Matches: 170, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
79 1 0.01
80 169 0.99
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.24
Consensus pattern (80 bp):
ATTTAGGGGTACTGAAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATTA
GGGGCACGGATGTGT
Found at i:4940560 original size:120 final size:120
Alignment explanation
Indices: 4940316--4940581 Score: 281
Period size: 120 Copynumber: 2.2 Consensus size: 120
4940306 GTGCATTTAG
* * * * * *
4940316 GGGTACAT-AAGTACAAACAGGGGCATGTATGTGTACTCAGGGGTATCGAAGTACAATTAGGGGC
1 GGGTAC-TGAAGTACAAACAGGGGCACGGATATGTATTTAGGGGTATCGAAGTACAAATAGGGGC
* * * * * *
4940380 ACGGATGTGTATTTAGGGGTACTGAAGTACAAACATGGGCATGTATGTGTACTCAG
65 ACGGATGTGCATTCAGGGGTACTGAAGTACAAACAAGGGCACGTATGTGCACTCAA
* *
4940436 GGGTA-TCGAAGTA-AAATTAGGGGCACGGATATGTATTTAGGGGTA-CTGAAGTGCAAATAGGG
1 GGGTACT-GAAGTACAAA-CAGGGGCACGGATATGTATTTAGGGGTATC-GAAGTACAAATAGGG
* * * * *
4940498 GCGCGTATGTGCATTCAGGGGTA-TCGAAGTACAATCAAGGGCACGTATGTGCATTTAA
63 GCACGGATGTGCATTCAGGGGTACT-GAAGTACAAACAAGGGCACGTATGTGCACTCAA
4940556 GGGTACTGAAGTACAAACAGGGGCAC
1 GGGTACTGAAGTACAAACAGGGGCAC
4940582 ATATGTGCAT
Statistics
Matches: 119, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
118 1 0.01
119 5 0.04
120 109 0.92
121 4 0.03
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (120 bp):
GGGTACTGAAGTACAAACAGGGGCACGGATATGTATTTAGGGGTATCGAAGTACAAATAGGGGCA
CGGATGTGCATTCAGGGGTACTGAAGTACAAACAAGGGCACGTATGTGCACTCAA
Found at i:4958629 original size:39 final size:40
Alignment explanation
Indices: 4958584--4958751 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
4958574 CGGGGTTTAG
* * *
4958584 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
4958623 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
4958663 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
4958703 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
4958744 CCGGATAT
1 CCGGATAT
4958752 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:4958734 original size:41 final size:40
Alignment explanation
Indices: 4958607--4958751 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
4958597 CTCGCACAAG
* * * * *
4958607 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
4958647 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
4958687 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
4958728 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
4958752 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:4959982 original size:38 final size:38
Alignment explanation
Indices: 4959940--4960053 Score: 219
Period size: 38 Copynumber: 3.0 Consensus size: 38
4959930 CAAGAACTCC
4959940 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
4959978 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
*
4960016 TTCCTCCTTCCTTAGAATTTTCGGCCACAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
4960054 AAAGGATGAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:4964427 original size:48 final size:48
Alignment explanation
Indices: 4964355--4964751 Score: 613
Period size: 48 Copynumber: 8.4 Consensus size: 48
4964345 GGCTGTCACA
* *
4964355 TGAAATATGTATGAGAGATATATATGTGGTAAAGCCGAATGGCTAATG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
*
4964403 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATA
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
* * *
4964451 TTAAATATGTATGAGATA--TATATATGGTAAAGCCGAATGGCTAATC
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
4964497 TGAAATATGTATGAGATA--TATATGTGGTAAAGCCGAATGGCTAATG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
*
4964543 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATA
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
* *
4964591 TGAAATATGTATGATATATGTATATGTGGTAAAGCCGAATGGCTAATA
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
* * *
4964639 TGAAATATTTATGAGATATATATATGTGGTAAATCCGAATGGCTAATG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
* *
4964687 TGAAATATGTATGAGAGATGTATATTTGGTAAAGCCGAATGGCTAATG
1 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
* * *
4964735 AGCAATATGTAGGAGAT
1 TGAAATATGTATGAGAT
4964752 GTGTGTATAT
Statistics
Matches: 322, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 87 0.27
48 235 0.73
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (48 bp):
TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
Found at i:4966195 original size:40 final size:40
Alignment explanation
Indices: 4966140--4966234 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
4966130 ATTGAGAGTT
4966140 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
4966180 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
4966220 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
4966235 ACCTCAAAGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Done.