Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold129
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: 3652842
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 48564 characters in sequence are not A, C, G, or T
File 18 of 23
Found at i:2828880 original size:37 final size:37
Alignment explanation
Indices: 2828839--2828921 Score: 166
Period size: 37 Copynumber: 2.2 Consensus size: 37
2828829 TAACGTGGAC
2828839 TTGACTCGGACTTAGGTGCCACTAGCTCGTGTGGGCT
1 TTGACTCGGACTTAGGTGCCACTAGCTCGTGTGGGCT
2828876 TTGACTCGGACTTAGGTGCCACTAGCTCGTGTGGGCT
1 TTGACTCGGACTTAGGTGCCACTAGCTCGTGTGGGCT
2828913 TTGACTCGG
1 TTGACTCGG
2828922 GTGCCTCCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (37 bp):
TTGACTCGGACTTAGGTGCCACTAGCTCGTGTGGGCT
Found at i:2828971 original size:31 final size:31
Alignment explanation
Indices: 2828890--2828976 Score: 111
Period size: 31 Copynumber: 2.8 Consensus size: 31
2828880 CTCGGACTTA
* * *
2828890 GGTGCCACTAGCTCGTGTGGGCTTTGACTCG
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
* *
2828921 GGTGCCTCCAACTTGTGTGGGCTTTGACTAG
1 GGTGCCACCAACTCGTGTGGGCTTTGACTAG
* *
2828952 GGTGCCACCAACTCATGTGGACTTT
1 GGTGCCACCAACTCGTGTGGGCTTT
2828977 AGAAGGGGAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.14, C:0.25, G:0.31, T:0.30
Consensus pattern (31 bp):
GGTGCCACCAACTCGTGTGGGCTTTGACTAG
Found at i:2829176 original size:121 final size:120
Alignment explanation
Indices: 2829048--2829497 Score: 546
Period size: 121 Copynumber: 3.7 Consensus size: 120
2829038 AAGAAAGCGA
* ** * * * *
2829048 AGAATGAAAT-GGTCATGCTTTTTGAGGACAAAGGAAGAACGGAAAAAGGAAAGCATCCTACTCT
1 AGAATGAAATAGGTCCTGCTCCTTGAGGACAAAGGAAAAAGGGAAAAAGGAAAGCGTCCTACTCC
* * *
2829112 TTGAGGACAAAAGGAAAATGAGTATGTCTTGCTCTTCATGGACAAAAGAAAAAAGG
66 TTAAGGACAAAGGGAAAAAGAGTATGTCTTGCTCTTCA-GGACAAAAGAAAAAAGG
* * * * *
2829168 AAGAATGAAATAGGTCCTGCTCCTTGAGGACAAAAGAAAAAGGAAAAAAGGAAAGTGTCTTGCTC
1 -AGAATGAAATAGGTCCTGCTCCTTGAGGACAAAGGAAAAAGGGAAAAAGGAAAGCGTCCTACTC
* * *
2829233 CTTAAGGACAAATGGAAAAAGAGTATGTTTTGCTTTTCAAGGACAAAAGAAAAAAGG
65 CTTAAGGACAAAGGGAAAAAGAGTATGTCTTGCTCTTC-AGGACAAAAGAAAAAAGG
* * *
2829290 AGAATGAAAT-GGATCCTGCTCCTTGAGGATAAAGGAAAAAGGGAAAAATGAAAGTGTCCTACTC
1 AGAATGAAATAGG-TCCTGCTCCTTGAGGACAAAGGAAAAAGGGAAAAAGGAAAGCGTCCTACTC
* * * * * * *
2829354 GTTGAGGACAAAGGGAAAATGAGCACGTCCTGCTCTTCGAGGACAAAGGAAAAAAGG
65 CTTAAGGACAAAGGGAAAAAGAGTATGTCTTGCTCTTC-AGGACAAAAGAAAAAAGG
* * * *
2829411 AGAAT-AAATGGGTCCTGCTCCTTAAGGACAAAGGAAAAAGGGAATAAGGAAAGCGTCTTACTCC
1 AGAATGAAATAGGTCCTGCTCCTTGAGGACAAAGGAAAAAGGGAAAAAGGAAAGCGTCCTACTCC
2829475 TTAAGGACAAAGGGAAAAAGAGT
66 TTAAGGACAAAGGGAAAAAGAGT
2829498 GAATCCTATT
Statistics
Matches: 281, Mismatches: 44, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
120 71 0.25
121 118 0.42
122 91 0.32
123 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (120 bp):
AGAATGAAATAGGTCCTGCTCCTTGAGGACAAAGGAAAAAGGGAAAAAGGAAAGCGTCCTACTCC
TTAAGGACAAAGGGAAAAAGAGTATGTCTTGCTCTTCAGGACAAAAGAAAAAAGG
Found at i:2829209 original size:43 final size:42
Alignment explanation
Indices: 2829120--2829451 Score: 136
Period size: 43 Copynumber: 8.1 Consensus size: 42
2829110 CTTTGAGGAC
* * * *
2829120 AAAAGGAA-AATGAGTATGTCTTGCT-CTTCATGGACAAAAGAA
1 AAAAGGAAGAATGAATAGGTCCTGCTCCTTGA-GGACAAAAG-A
2829162 AAAAGGAAGAATGAAATAGGTCCTGCTCCTTGAGGACAAAAGA
1 AAAAGGAAGAATG-AATAGGTCCTGCTCCTTGAGGACAAAAGA
* * * * *
2829205 AAAAGGAAAAAAGGAA-AGTGTCTTGCTCCTTAAGGACAAATGGA
1 AAAAGG-AAGAATGAATAG-GTCCTGCTCCTTGAGGACAAA-AGA
** * *
2829249 AAAA-G-AG--T--AT--GTTTTGCT-TTTCAAGGACAAAAGAA
1 AAAAGGAAGAATGAATAGGTCCTGCTCCTT-GAGGACAAAAG-A
* *
2829284 AAAAGG-AGAATGAA-ATGGATCCTGCTCCTTGAGGATAAAGGA
1 AAAAGGAAGAATGAATA-GG-TCCTGCTCCTTGAGGACAAAAGA
* * *
2829326 AAAAGGGAAAAATGAA-AGTGTCCTACTCGTTGAGGAC-AAAG-
1 AAAA-GGAAGAATGAATAG-GTCCTGCTCCTTGAGGACAAAAGA
** * *
2829367 ----GGAA-AATGAGCACGTCCTGCT-CTTCGAGGACAAAGGAA
1 AAAAGGAAGAATGAATAGGTCCTGCTCCTT-GAGGACAAAAG-A
* * * *
2829405 AAAAGG-AGAATAAATGGGTCCTGCTCCTTAAGGACAAAGGA
1 AAAAGGAAGAATGAATAGGTCCTGCTCCTTGAGGACAAAAGA
2829446 AAAAGG
1 AAAAGG
2829452 GAATAAGGAA
Statistics
Matches: 221, Mismatches: 36, Indels: 67
0.68 0.11 0.21
Matches are distributed among these distances:
34 5 0.02
35 39 0.18
36 11 0.05
37 1 0.00
38 1 0.00
40 1 0.00
41 9 0.04
42 43 0.19
43 66 0.30
44 41 0.19
45 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (42 bp):
AAAAGGAAGAATGAATAGGTCCTGCTCCTTGAGGACAAAAGA
Found at i:2829426 original size:42 final size:40
Alignment explanation
Indices: 2829380--2829494 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 40
2829370 AAATGAGCAC
*
2829380 GTCCTGCT-CTTCGAGGACAAAGGAAAAAAGGAGAATAAATGG
1 GTCCTGCTCCTT-AAGGACAAAGG-AAAAAGG-GAATAAATGG
* *
2829422 GTCCTGCTCCTTAAGGACAAAGGAAAAAGGGAATAAGGAAAGC
1 GTCCTGCTCCTTAAGGACAAAGGAAAAAGGGAAT-A--AATGG
* *
2829465 GTCTTACTCCTTAAGGACAAAGGGAAAAAG
1 GTCCTGCTCCTTAAGGACAAA-GGAAAAAG
2829495 AGTGAATCCT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
40 4 0.06
41 8 0.13
42 18 0.29
43 25 0.40
44 8 0.13
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.17
Consensus pattern (40 bp):
GTCCTGCTCCTTAAGGACAAAGGAAAAAGGGAATAAATGG
Found at i:2829588 original size:42 final size:42
Alignment explanation
Indices: 2829542--2829697 Score: 127
Period size: 42 Copynumber: 3.7 Consensus size: 42
2829532 TGTGTCTAGT
* **
2829542 TCTTTGAGGATAAAGGAAAAAAAGAAATGAAGTGTGTCCTAC
1 TCTTTGAGGATAAAGGAAAAAAAGAAATGAAATGCATCCTAC
* * * * * * *
2829584 TCTTTGAGAATAAAGGGAAAAGA-AAATAAAATGCAACATGC
1 TCTTTGAGGATAAAGGAAAAAAAGAAATGAAATGCATCCTAC
* * * *
2829625 TCTTTGAGGACAAAGGAGAAAAGGAAAT-AAAGTGCATCCTGC
1 TCTTTGAGGATAAAGGAAAAAAAGAAATGAAA-TGCATCCTAC
* *
2829667 TCTTTGAGGACAAAAGGAAAAGAAGGAAATG
1 TCTTTGAGGA-TAAAGGAAAA-AAAGAAATG
2829698 CATCATGCTT
Statistics
Matches: 89, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
41 31 0.35
42 42 0.47
43 8 0.09
44 8 0.09
ACGTcount: A:0.46, C:0.10, G:0.24, T:0.20
Consensus pattern (42 bp):
TCTTTGAGGATAAAGGAAAAAAAGAAATGAAATGCATCCTAC
Found at i:2829712 original size:39 final size:40
Alignment explanation
Indices: 2829583--2829723 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 40
2829573 GTGTGTCCTA
* * * * * *
2829583 CTCTTTGAGAATAAAGGGAAAAGAAAATAAAATGCAACATG
1 CTCTTTGAGGACAAAAGGAAAAGGAAA-GAAATGCATCATG
* * *
2829624 CTCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGCATCCTG
1 CTCTTTGAGGACAAAAG-GAAAAGGAAAGAAA-TGCATCATG
*
2829666 CTCTTTGAGGACAAAAGGAAAA-GAAGGAAATGCATCATG
1 CTCTTTGAGGACAAAAGGAAAAGGAAAGAAATGCATCATG
*
2829705 CTTTTTGAGGACTAAAAGG
1 CTCTTTGAGGAC-AAAAGG
2829724 TGCCACCAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
39 19 0.22
40 12 0.14
41 23 0.27
42 32 0.37
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (40 bp):
CTCTTTGAGGACAAAAGGAAAAGGAAAGAAATGCATCATG
Found at i:2829723 original size:83 final size:83
Alignment explanation
Indices: 2829542--2829720 Score: 211
Period size: 83 Copynumber: 2.2 Consensus size: 83
2829532 TGTGTCTAGT
* ** * *
2829542 TCTTTGAGGA-TAAAGGAAAAAAAGAAATGAAGTGTGTCCTACTCTTTGAGAATAAAGGGAAAAG
1 TCTTTGAGGACTAAAGGAAAAAAAGAAATAAAGTGCATCCTACTCTTTGAGAACAAAAGGAAAAG
*
2829606 AAAATAAAATGCAACATGC
66 -AAAGAAAATGCAACATGC
* * * *
2829625 TCTTTGAGGAC-AAAGGAGAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGGAAAAG
1 TCTTTGAGGACTAAAGGAAAAAAAGAAATAAAGTGCATCCTACTCTTTGAGAACAAAAGGAAAAG
* *
2829689 -AAGGAAATGCATCATGC
66 AAAGAAAATGCAACATGC
*
2829706 TTTTTGAGGACTAAA
1 TCTTTGAGGACTAAA
2829721 AGGTGCCACC
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 24 0.30
82 3 0.04
83 54 0.67
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (83 bp):
TCTTTGAGGACTAAAGGAAAAAAAGAAATAAAGTGCATCCTACTCTTTGAGAACAAAAGGAAAAG
AAAGAAAATGCAACATGC
Found at i:2829783 original size:62 final size:60
Alignment explanation
Indices: 2829697--2829872 Score: 180
Period size: 58 Copynumber: 2.9 Consensus size: 60
2829687 AGAAGGAAAT
* *
2829697 GCATCATGCTTTTTGAGGACTAAAAGGTGCCACCAATTCATGTAGGCTTTCAAAAGAAAGAG
1 GCATCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTAGGCTTT-AAAA-AAAGAG
* * *
2829759 GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAAG-G
1 GCATCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTAGGCTTTAAAAAAAGAG
** * ** * *
2829818 TG--TTTTGCTTTTTGAGGA-TAAAAAAATGCCACCAACTCGTGTGGGCTTTAAAAAA
1 -GCATCATGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCATGTAGGCTTTAAAAAA
2829873 TAAAAAGGCG
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
57 1 0.01
58 46 0.45
59 1 0.01
60 5 0.05
61 4 0.04
62 45 0.44
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (60 bp):
GCATCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTAGGCTTTAAAAAAAGAG
Found at i:2830929 original size:13 final size:13
Alignment explanation
Indices: 2830911--2830936 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2830901 TACACCAAGT
2830911 ATGTATCGATACA
1 ATGTATCGATACA
2830924 ATGTATCGATACA
1 ATGTATCGATACA
2830937 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2830934 original size:32 final size:33
Alignment explanation
Indices: 2830893--2830956 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2830883 TAGCCAAACT
* **
2830893 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2830925 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2830957 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2837140 original size:13 final size:13
Alignment explanation
Indices: 2837122--2837147 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2837112 ACATTTTACT
2837122 TTGTATCGATACA
1 TTGTATCGATACA
2837135 TTGTATCGATACA
1 TTGTATCGATACA
2837148 GGGGGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2837311 original size:20 final size:20
Alignment explanation
Indices: 2837268--2837313 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2837258 AAATCTTTTG
2837268 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2837289 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2837309 CAAAA
1 CAAAA
2837314 CCAGCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2839746 original size:20 final size:20
Alignment explanation
Indices: 2839701--2839752 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
2839691 GTAGCCAAAC
* **
2839701 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACAAAAAA
2839721 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
2839740 TTGTATCGATACA
1 TTGTATCGATACA
2839753 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:2843060 original size:52 final size:52
Alignment explanation
Indices: 2842975--2843099 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
2842965 ATATGAAAAG
*
2842975 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
* * *
2843027 TTGCCTTCACGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
2843079 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2843100 AAGATCAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2843110 original size:52 final size:51
Alignment explanation
Indices: 2842975--2843119 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
2842965 ATATGAAAAG
*
2842975 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAATGTATCGATACATCTGGGCAAAT
* * *
2843027 TTGCCTTCACGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAATGTATCGATACATCTGGGCAAAT
*
2843079 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AATGTATCGATACA
2843120 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2843123 original size:13 final size:13
Alignment explanation
Indices: 2843105--2843132 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2843095 ATACAAAGAT
2843105 CAATGTATCGATA
1 CAATGTATCGATA
2843118 CAATGTATCGATA
1 CAATGTATCGATA
2843131 CA
1 CA
2843133 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2843212 original size:13 final size:13
Alignment explanation
Indices: 2843194--2843218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2843184 ACAAAACTAA
2843194 TGTATCGATACAT
1 TGTATCGATACAT
2843207 TGTATCGATACA
1 TGTATCGATACA
2843219 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2843214 original size:32 final size:33
Alignment explanation
Indices: 2843173--2843238 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
2843163 AGTAGCTTAA
2843173 ATTGTATCGATACAAAAC-TAATGTATCGATAC
1 ATTGTATCGATACAAAACTTAATGTATCGATAC
* *
2843205 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTAATGTATCGATAC
2843238 A
1 A
2843239 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTAATGTATCGATAC
Found at i:2844118 original size:52 final size:49
Alignment explanation
Indices: 2844041--2844333 Score: 351
Period size: 52 Copynumber: 6.1 Consensus size: 49
2844031 CTTAGGAATG
* *
2844041 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2844090 TTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAACGATATTGGAC
1 TTAAAGATG--AAAG-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
2844142 TTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG--AAA-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
2844194 TT-AA-A-G---GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
2844237 TTAAAGATGAAAGTGCCAATATGCTAATTCAAGGCCAGCGAT-TTGGAC
1 TTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
2844285 TT-AA-A-G---GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
2844328 TTAAAG
1 TTAAAG
2844334 GAAGATGCCA
Statistics
Matches: 216, Mismatches: 15, Indels: 30
0.83 0.06 0.11
Matches are distributed among these distances:
42 26 0.12
43 45 0.21
44 4 0.02
45 2 0.01
46 2 0.01
47 2 0.01
48 8 0.04
49 37 0.17
50 1 0.00
51 5 0.02
52 83 0.38
53 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
TTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:2844214 original size:43 final size:43
Alignment explanation
Indices: 2844153--2844334 Score: 249
Period size: 43 Copynumber: 4.1 Consensus size: 43
2844143 TAAAGATGAC
*
2844153 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
*
2844196 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
2844239 AAAGATGAAAGTGCCAATATGCTAATTCAAGGCCAGCGA-TTTGGACTT
1 -AA-A-G---GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
2844287 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
2844330 AAAGG
1 AAAGG
2844335 AAGATGCCAC
Statistics
Matches: 123, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
42 26 0.21
43 54 0.44
44 2 0.02
45 2 0.02
46 2 0.02
47 2 0.02
48 8 0.07
49 27 0.22
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
Found at i:2844311 original size:91 final size:94
Alignment explanation
Indices: 2844107--2844333 Score: 379
Period size: 91 Copynumber: 2.4 Consensus size: 94
2844097 TGACAAAGAC
* * * *
2844107 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AAAGGTGCCAATATGCTAA
2844172 TTCAAGGCCAGCGATATTGGACTTAAAGGT
65 TTCAAGGCCAGCGATATTGGACTTAAAGGT
2844202 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-AAA-GTGCCAATATGCTAAT
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGGTGCCAATATGCTAAT
2844265 TCAAGGCCAGCGAT-TTGGACTTAAAGGT
66 TCAAGGCCAGCGATATTGGACTTAAAGGT
*
2844293 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
2844334 GAAGATGCCA
Statistics
Matches: 127, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
91 54 0.43
92 29 0.23
93 3 0.02
95 41 0.32
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (94 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAGGTGCCAATATGCTAAT
TCAAGGCCAGCGATATTGGACTTAAAGGT
Found at i:2844450 original size:32 final size:32
Alignment explanation
Indices: 2844339--2844556 Score: 321
Period size: 32 Copynumber: 6.7 Consensus size: 32
2844329 TAAAGGAAGA
* * *
2844339 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCGACTTGTGTGGGCTTTAG-AGAGGGT
*
2844372 TGCCACCGACTTGTGTGGGCTTTAGAAAAGGGAT
1 TGCCACCGACTTGTGTGGGCTTTAG-AGAGGG-T
*
2844406 TGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAGGGT
2844438 TGCCACCGACTTGTGTGGGCTTT-GAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAG-AGGGT
* *
2844470 TGCCACCGACTTGTGTGGGCTTTAAACAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAGGGT
*
2844502 TGCCACCGACTTGTGTGGGCTTTAAAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAGGGT
2844534 TGCCACCGACTTGTGTGGGCTTT
1 TGCCACCGACTTGTGTGGGCTTT
2844557 GGGAAGGAGA
Statistics
Matches: 172, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
31 3 0.02
32 110 0.64
33 34 0.20
34 25 0.15
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.29
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTAGAGAGGGT
Found at i:2844534 original size:96 final size:98
Alignment explanation
Indices: 2844339--2844563 Score: 366
Period size: 96 Copynumber: 2.3 Consensus size: 98
2844329 TAAAGGAAGA
*
2844339 TGCCACCAACTTGTGTGGGCTTTTGAAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGG
1 TGCCACCGACTTGTGTGGGC-TTTG-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGG
*
2844403 GATTGCCACCAACTTGTGTGGGCTTTAGAGAGGGT
64 GATTGCCACCAACTTGTGTGGGCTTTAAAGAGGGT
*
2844438 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTA-AACAGGG-
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGA
*
2844501 TTGCCACCGACTTGTGTGGGCTTTAAAGAGGGT
66 TTGCCACCAACTTGTGTGGGCTTTAAAGAGGGT
*
2844534 TGCCACCGACTTGTGTGGGCTTTGGGAAGG
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGG
2844564 AGAAAGATGC
Statistics
Matches: 120, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
96 60 0.50
97 10 0.08
98 31 0.26
99 19 0.16
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (98 bp):
TGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAGGGA
TTGCCACCAACTTGTGTGGGCTTTAAAGAGGGT
Found at i:2844637 original size:31 final size:31
Alignment explanation
Indices: 2844571--2845146 Score: 275
Period size: 31 Copynumber: 17.9 Consensus size: 31
2844561 AGGAGAAAGA
*
2844571 TGCCATGGAGTTGTGGAC-TT-AAAAG--GG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* *
2844598 TGCTACGGAATTGTGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
2844629 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* * ** *
2844660 TGCCACGAAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTGAA--AAGAAGG
* * *
2844693 TGCCACCGAGTTGTGGGC-TT-AAACG--GG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* * *
2844720 TGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTGAA--AAGAAG-G
* * *
2844754 TGCCACGGAGTTGTGGGCTTTAAAAAGGACAAAGA
1 TGCCACGGAGTTGTGGACTTTGAAAA-G---AAGG
* * *
2844789 TGCCACAGAGTTGTGGGCTTGGAAAAGAAGGAAAAAAG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAA-G------G
** *
2844827 ATGCCATAGAGTTGTGGGCTTTGAAAAGAAGG
1 -TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* *
2844859 TGCCACGGAGTCGTGGACTTTGAAAGGAAGG
1 TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
* ** *
2844890 TGCCACGGAGTGGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTGAA--AAGAAGG
* *
2844923 TGCCACAGAGTTGTGGGCTTT-AAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTGAAAA--G---AAG-G
* *
2844959 TGCCACAGAGTTGTGGGCTTT-AAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTGAAAA--G---AAG-G
*
2844995 TGCCACGGAGTCGTGGACTTTGAGACAA-AA--
1 TGCCACGGAGTTGTGGACTTTGA-A-AAGAAGG
* * *
2845025 TGCCACTGAGTCGTGGACTTT-AAAGAAAAGG
1 TGCCACGGAGTTGTGGACTTTGAAA-AGAAGG
* *
2845056 ATGCCACTGAGTCGTGGACTTTGAAGAA-AAGG
1 -TGCCACGGAGTTGTGGACTTTGAA-AAGAAGG
* ** * *
2845088 ATGCCACTGAGTCATGGACTTTGAGAAG-AGAT
1 -TGCCACGGAGTTGTGGACTTTGAAAAGAAG-G
* * *
2845120 TGCCACTGAGTCGTGGACTTTAAAAAG
1 TGCCACGGAGTTGTGGACTTTGAAAAG
2845147 GAACTTGAAG
Statistics
Matches: 445, Mismatches: 59, Indels: 86
0.75 0.10 0.15
Matches are distributed among these distances:
27 34 0.08
28 5 0.01
29 11 0.02
30 22 0.05
31 131 0.29
32 55 0.12
33 48 0.11
34 23 0.05
35 26 0.06
36 58 0.13
37 1 0.00
38 2 0.00
39 29 0.07
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (31 bp):
TGCCACGGAGTTGTGGACTTTGAAAAGAAGG
Found at i:2844737 original size:60 final size:59
Alignment explanation
Indices: 2844559--2844986 Score: 227
Period size: 64 Copynumber: 6.7 Consensus size: 59
2844549 TGGGCTTTGG
* * * * * *
2844559 GAAGGAGAAAGATGCCATGGAGTTGTGGACTTAAAAGGGTGCTACGGAATTGTGGACTTT
1 GAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAGTTGTGGACTTA
* *
2844619 GAA--AAGAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGAAGTCGTGGACTTA
1 GAAGGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAG--GGTGCCACG-AGTTGTGGACTTA
* * * * *
2844681 AAAGGAACAAGGTGCCACCGAGTTGTGGGCTTAAACGGGTGCCACAGAGTTGTGGACTTA
1 GAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC-GAGTTGTGGACTTA
* *
2844741 GAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGACAAAGATGCCACAGAGTTGTGGG
1 GAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGG-----G-TGCCAC-GAGTTGTGGA
2844806 CTTGGAAAA
56 CTT-----A
* ** * * *
2844815 GAAGGAAAAAAGATGCCATAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTT
1 GAAGG-AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAG--GGTGCCAC-GAGTTGTGGACTTA
* *
2844880 GAAAGG---AAGGTGCCACGGAGTGGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCT
1 G-AAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G-----GGTGCCAC-GAGTTGTGGAC-
2844942 TTA
57 TTA
* * *
2844945 AAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGG
1 GAA-GGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGG
2844987 AAAAAGAGTG
Statistics
Matches: 291, Mismatches: 40, Indels: 70
0.73 0.10 0.17
Matches are distributed among these distances:
58 21 0.07
59 2 0.01
60 41 0.14
61 23 0.08
62 42 0.14
63 7 0.02
64 45 0.15
65 5 0.02
66 4 0.01
68 4 0.01
69 36 0.12
70 23 0.08
71 1 0.00
74 30 0.10
75 6 0.02
76 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (59 bp):
GAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAGTTGTGGACTTA
Found at i:2844800 original size:96 final size:91
Alignment explanation
Indices: 2844627--2844808 Score: 231
Period size: 96 Copynumber: 1.9 Consensus size: 91
2844617 TTGAAAAGAA
* * *
2844627 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGAAGTCGTGGACTTAAAAGGAACAAG
1 GGTGCCACAGAGTTGTGGACTTAGAAAAAAAGGTGCCACGAAGTCGTGGACTTAAAAGGAACAAG
* *
2844692 GTGCCACCGAGTTGTGGGCTTAAACG
66 ATGCCACAGAGTTGTGGGCTTAAACG
* * *
2844718 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGG-
1 GGTGCCACAGAGTTGTGGACTTAGAA--AAAAAG-GTGCCACGAAGTCGTGGAC-TT-AAAAGGA
2844782 ACAAAGATGCCACAGAGTTGTGGGCTT
61 AC-AAGATGCCACAGAGTTGTGGGCTT
2844809 GGAAAAGAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
91 24 0.31
93 5 0.06
94 16 0.21
95 4 0.05
96 28 0.36
ACGTcount: A:0.30, C:0.16, G:0.34, T:0.20
Consensus pattern (91 bp):
GGTGCCACAGAGTTGTGGACTTAGAAAAAAAGGTGCCACGAAGTCGTGGACTTAAAAGGAACAAG
ATGCCACAGAGTTGTGGGCTTAAACG
Found at i:2844965 original size:36 final size:35
Alignment explanation
Indices: 2844719--2845015 Score: 262
Period size: 36 Copynumber: 8.6 Consensus size: 35
2844709 GCTTAAACGG
* *
2844719 GTGCCACAGAGTTGTGGAC-TTAGAAGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGGAAAAAGA
* *
2844753 GTGCCACGGAGTTGTGGGCTTTAAAAAGGACAAAGA
1 GTGCCACAGAGTTGTGGGCTTT-AAAAGGAAAAAGA
*
2844789 -TGCCACAGAGTTGTGGGCTTGGAAAAGAAGGAAAAA-A
1 GTGCCACAGAGTTGTGGGCTT---TAA-AAGGAAAAAGA
*
2844826 GATGCCATAGAGTTGTGGGCTTTGAAAA-G---AAG-
1 G-TGCCACAGAGTTGTGGGCTTT-AAAAGGAAAAAGA
* * * *
2844858 GTGCCACGGAGTCGTGGACTTTGAAAGG---AAG-
1 GTGCCACAGAGTTGTGGGCTTTAAAAGGAAAAAGA
* * * *
2844889 GTGCCACGGAGTGGTGGAC-TTAAAAGGAACAAG-
1 GTGCCACAGAGTTGTGGGCTTTAAAAGGAAAAAGA
2844922 GTGCCACAGAGTTGTGGGCTTTAAAAGGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTTAAAA-GGAAAAAGA
2844958 GTGCCACAGAGTTGTGGGCTTTAAAAGGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTTAAAA-GGAAAAAGA
* * *
2844994 GTGCCACGGAGTCGTGGACTTT
1 GTGCCACAGAGTTGTGGGCTTT
2845016 GAGACAAAAT
Statistics
Matches: 223, Mismatches: 23, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
30 10 0.04
31 39 0.17
32 3 0.01
33 19 0.09
34 23 0.10
35 29 0.13
36 68 0.30
37 5 0.02
38 8 0.04
39 19 0.09
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (35 bp):
GTGCCACAGAGTTGTGGGCTTTAAAAGGAAAAAGA
Found at i:2844967 original size:170 final size:166
Alignment explanation
Indices: 2844718--2845076 Score: 449
Period size: 170 Copynumber: 2.1 Consensus size: 166
2844708 GGCTTAAACG
* * *
2844718 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGA
1 GGTGCCACAGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
* * * *
2844783 CAAAGATGCCACAGAGTTGTGGGCTTGGAAAAGAAGGAAAAA-AGATGCCATAGAGTTGTGGGCT
66 AAAAGATGCCACAGAGTTGTGGGCTT-GAAAAG--GGAAAAAGAG-TGCCACAGAGTCGTGGACT
*
2844847 TTGA-A-AAGAAGGTGCCACGGAGTCGTGGACTTTGAAAG-GAA
127 TTGAGACAA-AA--TGCCACGGAGTCGTGGACTTT-AAAGAAAA
* * * *
2844888 GGTGCCACGGAGTGGTGGACTTAAAAGGAACAAG-GTGCCACAGAGTTGTGGGCTTTAAAAGGGA
1 GGTGCCACAGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
* *
2844952 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTCGTGGACTTTG
66 AAAAGA-TGCCACAGAGTTGTGGGCTTGAAAAGGGAAAAAGAGTGCCACAGAGTCGTGGACTTTG
*
2845017 AGACAAAATGCCACTGAGTCGTGGACTTTAAAGAAAA
130 AGACAAAATGCCACGGAGTCGTGGACTTTAAAGAAAA
*
2845054 GGATGCCACTGAGTCGTGGACTT
1 GG-TGCCACAGAGTCGTGGACTT
2845077 TGAAGAAAAG
Statistics
Matches: 167, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
165 4 0.02
166 24 0.14
167 44 0.26
168 5 0.03
169 40 0.24
170 50 0.30
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (166 bp):
GGTGCCACAGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGGA
AAAAGATGCCACAGAGTTGTGGGCTTGAAAAGGGAAAAAGAGTGCCACAGAGTCGTGGACTTTGA
GACAAAATGCCACGGAGTCGTGGACTTTAAAGAAAA
Found at i:2845008 original size:136 final size:131
Alignment explanation
Indices: 2844566--2845077 Score: 366
Period size: 134 Copynumber: 3.9 Consensus size: 131
2844556 TGGGAAGGAG
** * * * *
2844566 AAAGATGCCATGGAGTTGTGGAC-TT-AAAAG--GGTGCTACGGAATTGTGGACTTTGAAA-AGA
1 AAAGATGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAACA-A
* ** * * *
2844626 AGGTGCCACGGAGTTGTGGACTTTGAA--AAGAAGGTGCCAC-GAAGTCGTGGAC-TT-AAA-AG
65 A-GTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAG-AGTTGTGGGCTTTAAAAGAG
2844685 G-AA
128 GAAA
* * * * * * * *
2844688 CAAGGTGCCACCGAGTTGTGGGC-TT-AAACG--GGTGCCACAGAGTTGTGGACTTAGAAGGAAA
1 AAAGATGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTG-A--AAC
* * * *
2844749 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGG-ACAAAGATGCCACAGAGTTGTGGGCTTGGAA
63 AA-AGTGCCACGGAGTCGTGGAC-TT-AAAAGGAAC-AAGGTGCCACAGAGTTGTGGGCTT-TAA
2844813 AAGAAGGAAA
123 AAG-AGGAAA
* *
2844823 AAAGATGCCATAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAGGAA
1 AAAGATGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAA-CAA
* *
2844888 GGTGCCACGGAGTGGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTAAAAG-GG-
65 AGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTAAAAGAGGA
2844951 AA
130 AA
2844953 AAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTCGTGGACTTTG
1 AAAGA-TGCCACAGAGTTGTGGGCTTTGAAAA--G---AAG-GTGCCACGGAGTCGTGGACTTTG
* * * * * * *
2845017 AGACAAAATGCCACTGAGTCGTGGACTTTAAA-GAA-AAGGATGCCACTGAGTCGTGGACTTT
59 AAACAAAGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGG-TGCCACAGAGTTGTGGGCTTT
2845078 GAAGAAAAGG
Statistics
Matches: 316, Mismatches: 43, Indels: 50
0.77 0.11 0.12
Matches are distributed among these distances:
122 44 0.14
123 1 0.00
125 21 0.07
126 4 0.01
127 2 0.01
128 1 0.00
129 17 0.05
130 13 0.04
131 22 0.07
132 4 0.01
133 9 0.03
134 53 0.17
135 51 0.16
136 46 0.15
137 6 0.02
138 1 0.00
139 21 0.07
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (131 bp):
AAAGATGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAACAAA
GTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTAAAAGAGGAA
A
Found at i:2845108 original size:230 final size:224
Alignment explanation
Indices: 2844610--2845150 Score: 598
Period size: 230 Copynumber: 2.3 Consensus size: 224
2844600 CTACGGAATT
* *
2844610 GTGGACTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTGCCACGAAGTCGTG
1 GTGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTG-AAAGAAGGTGCCACGGAGTCGTG
*
2844675 GACTTAAAAGGAACAAGGTGCCACCGAGTTGTGGGCTTAAACGGGTGCCACAGAGTTGTGGACTT
65 GACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTAAACGGGTGCCACAGAGTTGTGGACTT
* * * *
2844740 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGACAAAGATGCCACAGAGTTGTGG
130 AAAAGGAAAAAGAGTGCCACGGAGTCGTGGACTTT--AAAGGACAAAGATGCCACAGAGTCGTGG
* *
2844805 GCTTGGAAAAGAAGGAAAAAAGATGCCATAGAGTT
193 ACTT---AAAGAAGGAAAAAAGATGCCATAGAGTC
* *
2844840 GTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAGGAAGGTGCCACGGAGTGGTG
1 GTGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAA-GAAGGTGCCACGGAGTCGTG
*
2844905 GACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGT
65 GACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGC-TT-AAA-CG-----G-GTGCCACAGAGT
* * *
2844970 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTCGTGGACTTT-GA-GACAAA-ATGCCACT
121 TGTGGAC-TTAAAA-GGAAAAAGAGTGCCACGGAGTCGTGGACTTTAAAGGACAAAGATGCCACA
* *
2845032 GAGTCGTGGACTT-TA-AA-G-AAAAGGATGCCACT-GAGTC
184 GAGTCGTGGACTTAAAGAAGGAAAAAAGATGCCA-TAGAGTC
* * * *
2845069 GTGGACTTTGAAGAA-AAGGATGCCACTGAGTCATGGACTTTGAGAAG-AGATTGCCACTGAGTC
1 GTGGACTTTGAA-AAGAAGG-TGCCACGGAGTCGTGGACTTTGA-AAGAAG-GTGCCACGGAGTC
2845132 GTGGACTTTAAAAAGGAAC
62 GTGGAC-TT-AAAAGGAAC
2845151 TTGAAGAATT
Statistics
Matches: 269, Mismatches: 23, Indels: 36
0.82 0.07 0.11
Matches are distributed among these distances:
229 35 0.13
230 134 0.50
231 8 0.03
232 13 0.05
233 1 0.00
236 18 0.07
237 6 0.02
238 2 0.01
239 18 0.07
240 5 0.02
241 29 0.11
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (224 bp):
GTGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAGAAGGTGCCACGGAGTCGTGG
ACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGGCTTAAACGGGTGCCACAGAGTTGTGGACTTA
AAAGGAAAAAGAGTGCCACGGAGTCGTGGACTTTAAAGGACAAAGATGCCACAGAGTCGTGGACT
TAAAGAAGGAAAAAAGATGCCATAGAGTC
Found at i:2845135 original size:63 final size:62
Alignment explanation
Indices: 2844986--2845140 Score: 199
Period size: 63 Copynumber: 2.5 Consensus size: 62
2844976 CTTTAAAAGG
* * *
2844986 GAAAAAGAGTGCCACGGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCGTGGACTTTAAA
1 GAAAAGGA-TGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCATGGACTTTAAA
*
2845049 GAAAAGGATGCCACTGAGTCGTGGACTTTGAAGA-AAAGGATGCCACTGAGTCATGGACTTT-GA
1 GAAAAGGATGCCACTGAGTCGTGGACTTTG-AGACAAA--ATGCCACTGAGTCATGGACTTTAAA
*
2845112 GAAGA-GATTGCCACTGAGTCGTGGACTTT
1 GAAAAGGA-TGCCACTGAGTCGTGGACTTT
2845141 AAAAAGGAAC
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
62 26 0.31
63 36 0.43
64 21 0.25
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.23
Consensus pattern (62 bp):
GAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCATGGACTTTAAA
Found at i:2846129 original size:18 final size:18
Alignment explanation
Indices: 2846083--2846141 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
2846073 TGAAAAGGGG
*
2846083 TTTTTCCC-TTCTTCTTT
1 TTTTTCCCTTTTTTCTTT
***
2846100 TTTTTTTGTTTTTTCTTT
1 TTTTTCCCTTTTTTCTTT
*
2846118 TTTTTCCCTTTTTTGTTT
1 TTTTTCCCTTTTTTCTTT
*
2846136 TGTTTC
1 TTTTTC
2846142 TTTTTTTGGA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
17 5 0.16
18 27 0.84
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTTCCCTTTTTTCTTT
Found at i:2846417 original size:25 final size:22
Alignment explanation
Indices: 2846397--2846476 Score: 99
Period size: 22 Copynumber: 3.5 Consensus size: 22
2846387 TTTTTTGTTC
2846397 TGTTTTTTTCTGTTTTGTTTTTT
1 TGTTTTTTT-TGTTTTGTTTTTT
2846420 TGTTTTTTTTTGTTTTTTGTTTTTT
1 TG-TTTTTTTTG--TTTTGTTTTTT
*
2846445 TGTTTGTTTTG-TTTGTTTTTTT
1 TGTTTTTTTTGTTTTG-TTTTTT
2846467 TGTTTTTTTT
1 TGTTTTTTTT
2846477 TTCATCACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.08
22 15 0.29
23 4 0.08
24 15 0.29
25 13 0.25
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (22 bp):
TGTTTTTTTTGTTTTGTTTTTT
Found at i:2846420 original size:8 final size:8
Alignment explanation
Indices: 2846409--2846478 Score: 81
Period size: 8 Copynumber: 8.5 Consensus size: 8
2846399 TTTTTTTCTG
2846409 TTTTGTTT
1 TTTTGTTT
2846417 TTTTGTTT
1 TTTTGTTT
*
2846425 TTTTTTGTT
1 TTTTGT-TT
2846434 TTTTGTTT
1 TTTTGTTT
2846442 TTTTGTTT
1 TTTTGTTT
2846450 GTTTTGTTT
1 -TTTTGTTT
2846459 GTTTT-TTT
1 -TTTTGTTT
2846467 TGTTT-TTT
1 T-TTTGTTT
2846475 TTTT
1 TTTT
2846479 CATCACTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
7 4 0.07
8 33 0.58
9 20 0.35
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (8 bp):
TTTTGTTT
Found at i:2846426 original size:9 final size:9
Alignment explanation
Indices: 2846387--2846476 Score: 87
Period size: 9 Copynumber: 9.7 Consensus size: 9
2846377 CCTTTGCACA
2846387 TTTTTTGTT
1 TTTTTTGTT
2846396 CTGTTTTT-TT
1 -T-TTTTTGTT
*
2846406 CTGTTTTG-T
1 -TTTTTTGTT
2846415 TTTTTTGTTT
1 TTTTTTG-TT
2846425 TTTTTTGTT
1 TTTTTTGTT
2846434 TTTTGTT-TT
1 TTTT-TTGTT
2846443 TTTGTTTGTT
1 TTT-TTTGTT
*
2846453 TTGTTTGTT
1 TTTTTTGTT
2846462 TTTTTTGTT
1 TTTTTTGTT
2846471 TTTTTT
1 TTTTTT
2846477 TTCATCACTT
Statistics
Matches: 69, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
8 6 0.09
9 38 0.55
10 20 0.29
11 5 0.07
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.84
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:2846443 original size:38 final size:36
Alignment explanation
Indices: 2846387--2846478 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 36
2846377 CCTTTGCACA
*
2846387 TTTTTTGTTCTGTTTTTTTCTGTTTTGTTTT-TTTGTTT
1 TTTTTTGTT-TTTTTTTTTCTG-TTTGTTTTGTTTG-TT
*
2846425 TTTTTTGTTTTTTGTTTTTTTGTTTGTTTTGTTTGTT
1 TTTTTTGTTTTTT-TTTTTCTGTTTGTTTTGTTTGTT
2846462 TTTTTTGTTTTTTTTTT
1 TTTTTTGTTTTTTTTTT
2846479 CATCACTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
36 4 0.08
37 26 0.52
38 20 0.40
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (36 bp):
TTTTTTGTTTTTTTTTTTCTGTTTGTTTTGTTTGTT
Found at i:2846476 original size:13 final size:13
Alignment explanation
Indices: 2846387--2846478 Score: 89
Period size: 13 Copynumber: 7.0 Consensus size: 13
2846377 CCTTTGCACA
2846387 TTTTTTGTTCTGTTT
1 TTTTTTGTT-T-TTT
* *
2846402 TTTTCTGTTTTGT
1 TTTTTTGTTTTTT
2846415 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
* *
2846428 TTTGTT-TTTTGT
1 TTTTTTGTTTTTT
*
2846440 TTTTTTGTTTGTT
1 TTTTTTGTTTTTT
*
2846453 TTGTTTGTTTTTT
1 TTTTTTGTTTTTT
2846466 TTGTTTT-TTTTTT
1 TT-TTTTGTTTTTT
2846479 CATCACTTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.16
13 41 0.65
14 4 0.06
15 8 0.13
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (13 bp):
TTTTTTGTTTTTT
Found at i:2846491 original size:1 final size:1
Alignment explanation
Indices: 2846399--2846478 Score: 61
Period size: 1 Copynumber: 80.0 Consensus size: 1
2846389 TTTTGTTCTG
* * * * * * * * * *
2846399 TTTTTTTCTGTTTTGTTTTTTTGTTTTTTTTTGTTTTTTGTTTTTTTGTTTGTTTTGTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
2846464 TTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTT
2846479 CATCACTTTT
Statistics
Matches: 57, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.86
Consensus pattern (1 bp):
T
Found at i:2853467 original size:52 final size:52
Alignment explanation
Indices: 2853382--2853504 Score: 192
Period size: 52 Copynumber: 2.4 Consensus size: 52
2853372 ATATGAAAAG
* *
2853382 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAAT
* * *
2853434 TTGCCTTCATGTATCGATACATTTTATAATGTATCTATACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAAT
*
2853486 TTGGCTGCATGTATCGATA
1 TTGCCTGCATGTATCGATA
2853505 TAAAGATCAG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAAT
Found at i:2853519 original size:52 final size:52
Alignment explanation
Indices: 2853382--2853525 Score: 166
Period size: 52 Copynumber: 2.8 Consensus size: 52
2853372 ATATGAAAAG
* *
2853382 TTGCCTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTAGGCAAAT
* *** * *
2853434 TTGCCTTCATGTATCGATACATTTTATAATGTATCTATACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTAGGCAAAT
* *
2853486 TTGGCTGCATGTATCGATATA-AAGATCAGTGTATCGATAC
1 TTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATAC
2853526 TATGTATCGA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 4 0.05
52 73 0.95
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTAGGCAAAT
Found at i:2853606 original size:19 final size:18
Alignment explanation
Indices: 2853582--2853647 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
2853572 TAGCTTAAAT
2853582 TGTATCGATACAAAGCTTA
1 TGTATCGATACAAA-CTTA
2853601 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
2853614 TGTATCAATACAACACCTTA
1 TGTATCGATACAA-A-CTTA
2853634 TGTATCGATACAAA
1 TGTATCGATACAAA
2853648 TCGTTGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
16 1 0.03
17 1 0.03
19 13 0.34
20 12 0.32
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2853625 original size:32 final size:33
Alignment explanation
Indices: 2853580--2853645 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2853570 AGTAGCTTAA
* *
2853580 ATTGTATCGATACAA-AGCTTATGTATCGATAC
1 ATTGTATCAATACAACACCTTATGTATCGATAC
2853612 ATTGTATCAATACAACACCTTATGTATCGATAC
1 ATTGTATCAATACAACACCTTATGTATCGATAC
2853645 A
1 A
2853646 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCAATACAACACCTTATGTATCGATAC
Found at i:2853977 original size:62 final size:62
Alignment explanation
Indices: 2853896--2855194 Score: 1334
Period size: 62 Copynumber: 21.2 Consensus size: 62
2853886 AAGTGTCTAC
* * ** *
2853896 AGGACTAAAAGGTGCCACCAACTCTTGTGGGCTTTGAAAAGAAAAAGGCAACCTGCTCTTTC
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * ** *
2853958 AGGATTGAAAGGTGACACCAACTCGTGTGGGCTTT-AAAAGAAAAAAACATCCTGCTCTTT-
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * * * *
2854018 --G---AAGA-GTGCCACCAACTTGTGTGAGCTTTAAAAAGAAAAAGGCATCTTACTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * *
2854074 AGGACTAAAAAGTGCCACTAACTTGTGTGGGCTTT-AAAAGAAAAAGGCATCCTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * * * * *
2854135 AAGACTAAAAGATGCCACCAACTCGTGTAGGTTTTAAAAAGAAAAAAGACGTCATGCT-TTTT
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGGCGTCCTGCTCTTTG
* * * * *
2854197 AGGGATTAAAATGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGACGTCCT-CTTCTTTT
1 A-GGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGC-TCTTTG
* * * * *
2854260 AGGACTAAAAGGTGCCACTAAAAT-ATGTGGGCTTTAAAAAGAAAAAAGGTGTCTTGCTCTTTG
1 AGGACTAAAAGGTGCCAC-CAACTCGTGTGGGCTTTAAAAAG-AAAAAGGCGTCCTGCTCTTTG
* *
2854323 AGGA-TGAAAAGGTGCCACCAACT-GTGTGGGCTTTAAAAAGAAAAA-ACGTCCTACTCTTTG
1 AGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * *
2854383 AGAACTAAAAGGTGCCACCAACTCGTGTGGACTTTAAAAAGAAAAAGACGTCCTGCTCTTCG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * * *** *
2854445 ATGAGTAAAA-GTGCCACCAACTTGTGTGGGCTTTAGAAAGAAAAAAATGTCCTACTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
** * * *
2854506 AGGACTAAAAGGTGCCATTAACTCATGTGGGCTTT--AAA-AAAAA-GCGTCCTACTCTTTA
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* *
2854564 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACGTCCTCCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * * *
2854626 AGGACTAAAAAGTGTCACCAACTTC-TGTGGACTTGAAAAAGAAAAAGGCGTCTTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAAC-TCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * * * *
2854688 AGGACTAAAAGGTACCACCAACTCTTGTGGGCTTTAAAAAGAAAAAAGTGTCCTACTCTTTA
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * * * * * * *
2854750 AGGACGAAAATGTGTCACCAACTCGTGTAGGCTTTAAAAAGAAAAAAGACATCCTACTCTTCG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGGCGTCCTGCTCTTTG
* * * * * *
2854813 AAGACTAAAAGGTGCCACCAACTCGTGTGGGCTCTAAACAGAAAAAGACATCCTACTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * ** *
2854875 AGGACTAAAAGGTGCCACCAACTCGTGTGAGCTTT-CAAAGAAAAAGATGTCTTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * ** * *
2854936 AGGACTAAAAGGTGACACTAACTCGTGTGGGCTTT-AAAAGAAAAAGGAATCTTGCTTTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* **** * *
2854997 AGGACTAAAAGGTGCCACAAACTTACATGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTT
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
* * *
2855059 AGGACTAAAAGGGGCCACTAACTCGTGTGGGCTTTAAAAA-AGAAAAGGCATCCTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGA-AAAAGGCGTCCTGCTCTTTG
* * * * *
2855121 AAGACTAAAAGGTGTCACCAACTCATGTGGGCTTTTAAAATGAAAAA-TCGTCCTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAACTCGTGTGGGC-TTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
*
2855183 AGGACTGAAAGG
1 AGGACTAAAAGG
2855195 ATAAAAGGGG
Statistics
Matches: 1036, Mismatches: 169, Indels: 64
0.82 0.13 0.05
Matches are distributed among these distances:
54 21 0.02
55 23 0.02
58 46 0.04
59 5 0.00
60 37 0.04
61 267 0.26
62 488 0.47
63 147 0.14
64 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (62 bp):
AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTG
Found at i:2856365 original size:20 final size:20
Alignment explanation
Indices: 2856340--2856461 Score: 100
Period size: 20 Copynumber: 5.5 Consensus size: 20
2856330 TACCCAGATA
2856340 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * * *
2856360 TATCGATATATGTATGAATG
1 TATCGATACATTTTTCAATG
*
2856380 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
2856400 TATCGATACATTCTGTTTTTTTACCTAGATG
1 TATCGATACA-------TTTTT--C-A-ATG
2856431 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
2856451 TATCGATACAT
1 TATCGATACAT
2856462 CTAGTTAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 55 0.68
21 1 0.01
22 1 0.01
24 5 0.06
27 4 0.05
29 1 0.01
30 1 0.01
31 13 0.16
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:2870445 original size:8 final size:8
Alignment explanation
Indices: 2870432--2870504 Score: 67
Period size: 8 Copynumber: 8.6 Consensus size: 8
2870422 TTTATACAAA
2870432 AAAAAAAC
1 AAAAAAAC
2870440 AAAAAAAC
1 AAAAAAAC
2870448 AGAAAAAAACC
1 --AAAAAAA-C
2870459 AAAAAAAAC
1 -AAAAAAAC
2870468 AAAAAAAC
1 AAAAAAAC
* *
2870476 CAAGAAA-
1 AAAAAAAC
*
2870483 AAAATAAC
1 AAAAAAAC
2870491 AAAAAAAC
1 AAAAAAAC
2870499 AGAAAA
1 A-AAAA
2870505 GGGTCTAGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
7 4 0.08
8 29 0.55
9 5 0.09
10 14 0.26
11 1 0.02
ACGTcount: A:0.82, C:0.12, G:0.04, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2870445 original size:9 final size:9
Alignment explanation
Indices: 2870431--2870485 Score: 67
Period size: 10 Copynumber: 5.9 Consensus size: 9
2870421 CTTTATACAA
2870431 AAAAAAAAC
1 AAAAAAAAC
2870440 -AAAAAAAC
1 AAAAAAAAC
2870448 AGAAAAAAACC
1 A-AAAAAAA-C
2870459 AAAAAAAAC
1 AAAAAAAAC
*
2870468 AAAAAAACC
1 AAAAAAAAC
2870477 AAGAAAAAA
1 AA-AAAAAA
2870486 ATAACAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 8 0.20
9 11 0.28
10 19 0.47
11 2 0.05
ACGTcount: A:0.84, C:0.13, G:0.04, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:2870455 original size:18 final size:17
Alignment explanation
Indices: 2870432--2870504 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 17
2870422 TTTATACAAA
2870432 AAAAAAACAAAAAAACAG
1 AAAAAAACAAAAAAA-AG
*
2870450 AAAAAAACCAAAAAAAAC
1 AAAAAAA-CAAAAAAAAG
* *
2870468 AAAAAAAC-CAAGAAA-
1 AAAAAAACAAAAAAAAG
*
2870483 AAAATAACAAAAAAACAG
1 AAAAAAACAAAAAAA-AG
2870501 AAAA
1 AAAA
2870505 GGGTCTAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
15 7 0.16
16 9 0.20
17 2 0.04
18 19 0.42
19 8 0.18
ACGTcount: A:0.82, C:0.12, G:0.04, T:0.01
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAG
Found at i:2870504 original size:10 final size:10
Alignment explanation
Indices: 2870430--2870504 Score: 64
Period size: 10 Copynumber: 7.4 Consensus size: 10
2870420 CCTTTATACA
* *
2870430 AAAAAAAAAC
1 AAAAAAACAG
2870440 AAAAAAACAG
1 AAAAAAACAG
2870450 AAAAAAACCA-
1 AAAAAAA-CAG
2870460 AAAAAAACA-
1 AAAAAAACAG
*
2870469 AAAAAACCAAG
1 AAAAAAAC-AG
* *
2870480 AAAAAAATAAC
1 AAAAAAA-CAG
2870491 AAAAAAACAG
1 AAAAAAACAG
2870501 AAAA
1 AAAA
2870505 GGGTCTAGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
9 9 0.17
10 28 0.53
11 16 0.30
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.01
Consensus pattern (10 bp):
AAAAAAACAG
Found at i:2871766 original size:28 final size:28
Alignment explanation
Indices: 2871720--2871935 Score: 306
Period size: 28 Copynumber: 7.6 Consensus size: 28
2871710 GAACGTTCAT
*
2871720 CCTTTCAAAGCCCACAAGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
2871748 CCTTTCAAAGCTCATAAGTCAATGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
2871776 CCTTTCAAAGCCCAAAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
2871804 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
2871832 TCTTTTTAAAGCCCAAAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
2871861 CCTTTCAAAGCCCCCAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
2871889 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
2871917 TCTTTTCAAAGCCCACAAG
1 -CCTTTCAAAGCCCACAAG
2871936 CTAGTGGTAA
Statistics
Matches: 168, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
28 126 0.75
29 42 0.25
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:2871942 original size:57 final size:57
Alignment explanation
Indices: 2871719--2872008 Score: 316
Period size: 56 Copynumber: 5.0 Consensus size: 57
2871709 AGAACGTTCA
* * * *
2871719 TCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCTCATAAGTCAATGGCA-
1 TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
*
2871775 TCCTTTCAAAGCCCAAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
1 TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
2871832 TCTTTTTAAAGCCCAAAAGTCAGTGGCACCCTTTCAAAGCCCCCAAGTCAGTGGCAC
1 TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
2871889 -CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAG-CTAGTGGTAAC
1 TCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTC-AGTGG-CAC
** * * * *
2871947 TTTTTTCCAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGGCCACACAAGTTAGTGGCA
1 TCCTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAA-GCC-CACAAGTCAGTGGCA
2872009 TTTTTTTTTT
Statistics
Matches: 201, Mismatches: 22, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
56 76 0.38
57 75 0.37
58 2 0.01
59 13 0.06
61 8 0.04
62 12 0.06
63 4 0.02
64 11 0.05
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (57 bp):
TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:2871942 original size:85 final size:85
Alignment explanation
Indices: 2871720--2871931 Score: 327
Period size: 85 Copynumber: 2.5 Consensus size: 85
2871710 GAACGTTCAT
* * * * * *
2871720 CCTTTCAAAGCCCACAAGTCAATGGCAC-CCTTTCAAAGCTCATAAGTCAATGGCATCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAAAAGTCAGTGGCACCCTTTCAA
2871784 AGCCCAAAAGTCAGTGGCAC
66 AGCCCAAAAGTCAGTGGCAC
*
2871804 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCAAAAGTCAGTGGCACCCTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAAAAGTCAGTGGCACCCTTTCAA
**
2871869 AGCCCCCAAGTCAGTGGCAC
66 AGCCCAAAAGTCAGTGGCAC
*
2871889 CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA
2871932 CAAGCTAGTG
Statistics
Matches: 116, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
84 27 0.23
85 89 0.77
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (85 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAAAAGTCAGTGGCACCCTTTCAA
AGCCCAAAAGTCAGTGGCAC
Found at i:2871959 original size:30 final size:29
Alignment explanation
Indices: 2871778--2872006 Score: 150
Period size: 28 Copynumber: 7.8 Consensus size: 29
2871768 AATGGCATCC
* * *
2871778 TTTCAAAGCCCAAAAG-TCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGCT-AGTGGAACTCT
*
2871806 TTTCAAAGCCCACAAG-TCAGTGGCACTCT
1 TTTCAAAGCCCACAAGCT-AGTGGAACTCT
* * * *
2871835 TTTTAAAGCCCAAAAG-TCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGCT-AGTGGAACTCT
* * *
2871863 TTTCAAAGCCCCCAAG-TCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGCT-AGTGGAACTCT
* *
2871891 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGCTAGTGGAACTCT
*
2871920 TTTCAAAGCCCACAAGCTAGTGGTAACTTT
1 TTTCAAAGCCCACAAGCTAGTGG-AACTCT
* *
2871950 TTTCCAAGCCCACACGAG-TCGGTGGCAACTCT
1 TTTCAAAGCCCACA--AGCT-AGTGG-AACTCT
*
2871982 TTTCAAAGGCCACACAAGTTAGTGG
1 TTTCAAA-GCC-CACAAGCTAGTGG
2872007 CATTTTTTTT
Statistics
Matches: 172, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
28 74 0.43
29 49 0.28
30 17 0.10
31 1 0.01
32 23 0.13
33 4 0.02
34 4 0.02
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGCTAGTGGAACTCT
Found at i:2872138 original size:45 final size:46
Alignment explanation
Indices: 2872074--2872196 Score: 131
Period size: 49 Copynumber: 2.6 Consensus size: 46
2872064 CTGTCTAACA
* * *
2872074 TCGCTAGCATTGAATCAGCATATTGGCACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
* *
2872119 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATG
** **
2872168 TCTTTGGCCTTGAATTGGCACATTGGCAC
1 TCGCTGGCCTTGAATCAGCACATTGGCAC
2872197 TCCTCTCACC
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
45 23 0.35
47 9 0.14
49 33 0.51
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.32
Consensus pattern (46 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
Found at i:2872915 original size:20 final size:20
Alignment explanation
Indices: 2872890--2872961 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
2872880 TACCTAGATA
*
2872890 TATCGATACATTTTTTAATG
1 TATCGATACATTTTTCAATG
* * * *
2872910 TATCGATATATGTATGAATG
1 TATCGATACATTTTTCAATG
*
2872930 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
*
2872950 TATCAATACATT
1 TATCGATACATT
2872962 CTGTCTTTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:2877534 original size:25 final size:22
Alignment explanation
Indices: 2877504--2877547 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2877494 GAGAAAATGT
*
2877504 TGTTATTGTTAAATTTGGCTAA
1 TGTTATTATTAAATTTGGCTAA
2877526 TGTTATTATTAAATTTGGCTAA
1 TGTTATTATTAAATTTGGCTAA
2877548 ATGGTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.50
Consensus pattern (22 bp):
TGTTATTATTAAATTTGGCTAA
Found at i:2878300 original size:19 final size:20
Alignment explanation
Indices: 2878255--2878303 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2878245 CACACTCAAA
2878255 TGTATCGATACATATTACTT
1 TGTATCGATACATATTACTT
* *
2878275 AGTATCGATACATGTT-CTT
1 TGTATCGATACATATTACTT
2878294 TGTATCGATA
1 TGTATCGATA
2878304 AACTATGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATATTACTT
Found at i:2878430 original size:20 final size:20
Alignment explanation
Indices: 2878405--2878503 Score: 78
Period size: 20 Copynumber: 4.8 Consensus size: 20
2878395 TAACAGCTAT
2878405 AATTGTATCGATACATTATG
1 AATTGTATCGATACATTATG
*
2878425 AATTGTATCGATACATTGAGTCC
1 AATTGTATCGATACATT-A-T-G
* * *
2878448 AATGGCTA--GAATTTCA-AATG
1 AATTG-TATCG-A-TACATTATG
*
2878468 CATTGTATCGATACATTATG
1 AATTGTATCGATACATTATG
2878488 AATTGTATCGATACAT
1 AATTGTATCGATACAT
2878504 AAGAACGTGT
Statistics
Matches: 60, Mismatches: 10, Indels: 18
0.68 0.11 0.20
Matches are distributed among these distances:
19 5 0.08
20 39 0.65
21 3 0.05
22 3 0.05
23 5 0.08
24 5 0.08
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (20 bp):
AATTGTATCGATACATTATG
Found at i:2878514 original size:20 final size:20
Alignment explanation
Indices: 2878471--2878515 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2878461 TCAAATGCAT
* *
2878471 TGTATCGATACATTATGAAT
1 TGTATCGATACATTAAGAAG
2878491 TGTATCGATACA-TAAGAACG
1 TGTATCGATACATTAAGAA-G
2878511 TGTAT
1 TGTAT
2878516 TCGCGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTAAGAAG
Found at i:2878926 original size:35 final size:34
Alignment explanation
Indices: 2878880--2878945 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 34
2878870 GAAATGATTG
* *
2878880 AGAGGTTCTATCTTAGCTTTTGTAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTCG-AAAAGATAGGGA
*
2878915 AGAGGTTCTATCTTGGCCTTCGAAAAGATAG
1 AGAGGTTCTATCTTAGCCTTCGAAAAGATAG
2878946 TGTTGTAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 9 0.32
35 19 0.68
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTCGAAAAGATAGGGA
Found at i:2880937 original size:79 final size:79
Alignment explanation
Indices: 2880843--2881278 Score: 481
Period size: 78 Copynumber: 5.6 Consensus size: 79
2880833 CGGAATACAA
* ** * *
2880843 GGTTAGAGTATCCCCGAGATGAAAATTTTAATATTTTCAAAATAAAAATGAGGTTAGAGTATCCC
1 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGAGGTTGGAGTATCCC
**
2880908 CTTGAAAATAACAG
66 CTTGAAAATAATGG
* *
2880922 GGTTGGAGTACCCCCGAGA--AAAA-TTTAATATTTTGGAAATAAAAACGAGATTGGAGTATCCC
1 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGAGGTTGGAGTATCCC
* * *
2880984 CTCGAAATTGATGG
66 CTTGAAAATAATGG
** * ** * *
2880998 GGTTGGAGTAT-CTTGAGATGAAAAATTTAGCATTTTGGAAATAAAAGCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGAGGTTGGAGTATCCC
* * * *
2881062 CTCGGAATTGATGG
66 CTTGAAAATAATGG
* * *
2881076 GGTTAGAGTAT-CCCAAGATGAAAATTTTAATATTTTGGAAATAAAAACAAGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGAGGTTGGAGTATCCC
* *
2881140 TTTGGAAATAATGG
66 CTTGAAAATAATGG
* * *
2881154 GGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAAGCGAAGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGAGGTTGGAGTATCCC
*
2881219 CTTGAAAATAATGA
66 CTTGAAAATAATGG
* * * **
2881233 GGTTGAAGTATCCTC-ACATGGAAAA-TTTAATATTTTAAAAATAAAA
1 GGTTGGAGTATCCCCGAGAT-GAAAATTTTAATATTTTGGAAATAAAA
2881279 GTGGGGTTAG
Statistics
Matches: 305, Mismatches: 47, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
75 5 0.02
76 53 0.17
77 8 0.03
78 143 0.47
79 96 0.31
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAATAAAAACGAGGTTGGAGTATCCC
CTTGAAAATAATGG
Found at i:2881293 original size:157 final size:156
Alignment explanation
Indices: 2880843--2881278 Score: 481
Period size: 157 Copynumber: 2.8 Consensus size: 156
2880833 CGGAATACAA
* ** ** *
2880843 GGTTAGAGTATCCCCGAGATGAAAATTTTAATATTTTCAAAATAAAAATGAGGTTAGAGTATCCC
1 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAATAAAAGCGAGGTTGGAGTATCCC
* * * *
2880908 CTTGAAAATAA-CAGGGTTGGAGTA-CCCCCGA-GAAAAATTTAATATTTTGGAAATAAAAACGA
66 CTTGAAAATAATGA-GGTTGAAGTATCCCAC-ATGGAAAATTTAATATTTTGGAAATAAAAACGA
* *
2880970 GATTGGAGTATCCCCTCGAAATTGATGG
129 GGTTGGAGTATCCCCTCGAAATTAATGG
** * ** *
2880998 GGTTGGAGTAT-CTTGAGATGAAAAATTTAGCATTTTGGAAATAAAAGCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAATAAAAGCGAGGTTGGAGTATCCC
* * * * * * *
2881062 CTCGGAATTGATGGGGTT-AGAGTATCCCAAGAT-GAAAATTTTAATATTTTGGAAATAAAAACA
66 CTTGAAAATAATGAGGTTGA-AGTATCCC-ACATGGAAAA-TTTAATATTTTGGAAATAAAAACG
* *
2881125 AGGTTGGAGTATCCCTTTGGAAA-TAATGG
128 AGGTTGGAGTATCCC-CTCGAAATTAATGG
* *
2881154 GGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAAGCGAAGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAATAAAAGCGAGGTTGGAGTATCCC
**
2881219 CTTGAAAATAATGAGGTTGAAGTATCCTCACATGGAAAATTTAATATTTTAAAAATAAAA
66 CTTGAAAATAATGAGGTTGAAGTATCC-CACATGGAAAATTTAATATTTTGGAAATAAAA
2881279 GTGGGGTTAG
Statistics
Matches: 227, Mismatches: 43, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
154 57 0.25
155 18 0.08
156 53 0.23
157 92 0.41
158 7 0.03
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (156 bp):
GGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGGAAATAAAAGCGAGGTTGGAGTATCCC
CTTGAAAATAATGAGGTTGAAGTATCCCACATGGAAAATTTAATATTTTGGAAATAAAAACGAGG
TTGGAGTATCCCCTCGAAATTAATGG
Found at i:2883921 original size:13 final size:13
Alignment explanation
Indices: 2883903--2883928 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2883893 GTTACTCTTA
2883903 AAGGATAGATTTT
1 AAGGATAGATTTT
2883916 AAGGATAGATTTT
1 AAGGATAGATTTT
2883929 GTGTTACTCT
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:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (13 bp):
AAGGATAGATTTT
Found at i:2884538 original size:29 final size:29
Alignment explanation
Indices: 2884496--2884556 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
2884486 TTAAATGTAA
* *
2884496 GTTCATTTTTCCTTTTTAAGTCTTTTAGG
1 GTTCATTTTTCCTTTTTAAATCCTTTAGG
*
2884525 GTTCGTTTTTCCTTTTTAAATCCTTTAGG
1 GTTCATTTTTCCTTTTTAAATCCTTTAGG
2884554 GTT
1 GTT
2884557 ATCGAGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.13, C:0.15, G:0.15, T:0.57
Consensus pattern (29 bp):
GTTCATTTTTCCTTTTTAAATCCTTTAGG
Found at i:2885179 original size:24 final size:22
Alignment explanation
Indices: 2885131--2885179 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
2885121 TAGTAAAAAA
* *
2885131 GCAAAAATTATCAAATGCAAAT
1 GCAAAAATTATAAAAAGCAAAT
2885153 GCAAAAATTAGTAAAAAAGCAAAT
1 GCAAAAATTA-T-AAAAAGCAAAT
2885177 GCA
1 GCA
2885180 TGTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 1 0.04
24 12 0.52
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.18
Consensus pattern (22 bp):
GCAAAAATTATAAAAAGCAAAT
Found at i:2885681 original size:88 final size:88
Alignment explanation
Indices: 2885501--2885668 Score: 239
Period size: 88 Copynumber: 1.9 Consensus size: 88
2885491 GATACAACCA
* ** * *
2885501 TTAATAAAGTGGCAAATGAATATGAAATGATGTAAATACCAATATTATCTAAAGTGCAGATATGC
1 TTAATAAAGTGGAAAATGAATACAAAATGATGCAAATACCAATATTATCTAAAGTGCAGACATGC
2885566 ATGAAATAATGCAACCGTAAGCT
66 ATGAAATAATGCAACCGTAAGCT
* * * *
2885589 TTAATAAAGTGGAAAATGCATACAAAATGATGCAAATGCTAAT-TTCATCTAATGTGCAGACATG
1 TTAATAAAGTGGAAAATGAATACAAAATGATGCAAATACCAATATT-ATCTAAAGTGCAGACATG
2885653 CATGAAATAATGCAAC
65 CATGAAATAATGCAAC
2885669 TTTGCCTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
87 2 0.03
88 68 0.97
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (88 bp):
TTAATAAAGTGGAAAATGAATACAAAATGATGCAAATACCAATATTATCTAAAGTGCAGACATGC
ATGAAATAATGCAACCGTAAGCT
Found at i:2886707 original size:13 final size:13
Alignment explanation
Indices: 2886674--2886717 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
2886664 TTTGCACTTA
*
2886674 CTTTTTCATTTCATG
1 CTTTTTCATTT--TT
*
2886689 CTTTTTCTTTTTT
1 CTTTTTCATTTTT
2886702 CTTTTTCATTTTT
1 CTTTTTCATTTTT
2886715 CTT
1 CTT
2886718 CTTTTTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 16 0.62
15 10 0.38
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (13 bp):
CTTTTTCATTTTT
Found at i:2891455 original size:158 final size:150
Alignment explanation
Indices: 2890990--2891457 Score: 396
Period size: 158 Copynumber: 3.0 Consensus size: 150
2890980 CCCTTAGGGT
* * * **
2890990 TTAAAAAGAATTATGGATGGATGAACCTACCCTAAATACCCACCTTTGGCATAAAAGCGAACTCG
1 TTAAAAAG-ATTATAGATGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAATGAACTC-
* * * * * * * *
2891055 GTGATAATCTAGGACTTAGTTTTG-AAAAGTTACAAAAATGCCCTTAGGGGATACTTTTGACG-T
64 GTGACAACCTAGGACTCAATTTTGAAAAAATTACAAAAATGCCC-TAAGGGATACCTTCGA-GTT
* * *
2891118 AGAAGTGTCT--GA--T--ATGAC
127 AGAAGTATCTCAAACCTAAAAGAC
* * * *
2891136 TTAAAAAGGATTATAGATGGGATGAACCTTTCCTAAATACCCACCTTCAGCATAAAATTAGACCT
1 TTAAAAA-GATTATAGAT-GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAAT-GAACT
* ** * * * * * * *
2891201 AGTGACAACCTAAAACTCGATTCTAAAAAAATTACAAATATACCCCTAAGAGATACCTTCGACTT
63 CGTGACAACCTAGGACTCAATTTTGAAAAAATTACAAAAAT-GCCCTAAGGGATACCTTCGAGTT
* *
2891266 AAAAGTA-CTCGATACCCCTAAAAGAC
127 AGAAGTATCTC-A-A-ACCTAAAAGAC
2891292 TTTAAAAAGATTATAGATGAGATGACAACCTATCCTAAATACCCACCTTCGGCATAAAAATGAAC
1 -TTAAAAAGATTATAGATG-GATG--AACCTATCCTAAATACCCACCTTCGGCATAAAAATGAAC
2891357 TCGATGACAACCTAGGACTCAATTTTGAAAAAATTACAAAAATGCCCTAAGGGTATACCTTCGAG
62 TCG-TGACAACCTAGGACTCAATTTTGAAAAAATTACAAAAATGCCCTAAGGG-ATACCTTCGAG
*
2891422 TTAGAAGTATCTCAACAACCTTAAAGGAC
125 TTAGAAGTATCTC-A-AACC-TAAAAGAC
2891451 TTAAAAA
1 TTAAAAA
2891458 TGATAAATAA
Statistics
Matches: 249, Mismatches: 50, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
146 15 0.06
147 52 0.21
148 35 0.14
149 3 0.01
154 1 0.00
155 1 0.00
156 18 0.07
157 20 0.08
158 92 0.37
159 12 0.05
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (150 bp):
TTAAAAAGATTATAGATGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAATGAACTCGT
GACAACCTAGGACTCAATTTTGAAAAAATTACAAAAATGCCCTAAGGGATACCTTCGAGTTAGAA
GTATCTCAAACCTAAAAGAC
Found at i:2893355 original size:167 final size:165
Alignment explanation
Indices: 2893174--2893736 Score: 588
Period size: 167 Copynumber: 3.4 Consensus size: 165
2893164 AACATAGATT
* ** * * * *
2893174 GAATTTTGCAAAACTAATTTAATAAAAATTTAATAACAATATTTGAT-AGATTTCAAAATTTTTA
1 GAATTTTTCAAAACTAATTTAATATGAATTAAATAATAATATTTGATGA-ATTTTAAAAATTTTA
* * * *
2893238 AATTGAGAAAAATGCTCCCAAAAATATTTACGGAGTAGAAAACTTCG-TATTTTAAAAATAGAAA
65 AATTGAGAAAAATCCCCCCAAAAATATTTATGGAGTAGAAAAC-TCGAT-TTTTAGAAATA-AAA
2893302 AATTTCAAGAAAAAAATGAAAAAATTAATGAAATAAAAG
127 AATTTCAAGAAAAAAATGAAAAAATTAATGAAATAAAAG
* * *
2893341 GAATTTTTCAAAACTGATTTAATGTGAGTTAAATAATAATATTTGATGAATTTT-AAAATTTATA
1 GAATTTTTCAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTT-TA
* * * *
2893405 AACTAAGAAAAATCCCCCCAAAAATATTTATGAAGTAGAAAACTCAATTATTTAGAAATAAGAAA
65 AATTGAGAAAAATCCCCCCAAAAATATTTATGGAGTAGAAAACTCGATT-TTTAGAAATAA-AAA
* * * *
2893470 GTTTTAAGAGAAAAATGAAAAAA-TCATGAAAATAAATA-
128 ATTTCAAGAAAAAAATGAAAAAATTAATG-AAATAAA-AG
* * * *
2893508 -AATTTTTCAAAACTAATTTATTATGAATTAAATGATGATATTTGATGAATTTTAAAAATTTTGA
1 GAATTTTTCAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAA
* * ** * * * *
2893572 ATCGAG-TAAA-CCCCCCAAAAACCTTTATGGAATAAAAAAACTCGATTTTTCAGAAACAAAGAA
66 ATTGAGAAAAATCCCCCCAAAAATATTTATGGAGT-AGAAAACTCGATTTTT-AGAAATAAAAAA
* *
2893635 TTTCAAGAAAAAAATG-AAAATTTGATGAAATAAAAG
129 TTTCAAGAAAAAAATGAAAAAATTAATGAAATAAAAG
** * *
2893671 GAATTTTTCAAAAC-AGATTTAATATTCATTAAATAATAATATTTAATAAATTTTAAAAATTTTA
1 GAATTTTTCAAAACTA-ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTTA
2893735 AA
65 AA
2893737 CCGATGAAAA
Statistics
Matches: 328, Mismatches: 54, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
162 1 0.00
163 12 0.04
164 97 0.30
165 21 0.06
166 66 0.20
167 129 0.39
168 2 0.01
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (165 bp):
GAATTTTTCAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAA
ATTGAGAAAAATCCCCCCAAAAATATTTATGGAGTAGAAAACTCGATTTTTAGAAATAAAAAATT
TCAAGAAAAAAATGAAAAAATTAATGAAATAAAAG
Found at i:2893793 original size:164 final size:164
Alignment explanation
Indices: 2893174--2893799 Score: 492
Period size: 167 Copynumber: 3.8 Consensus size: 164
2893164 AACATAGATT
* ** * * * *
2893174 GAATTTTGCAAAACTA-ATTTAATAAAAATTTAATAACAATATTTGAT-AGATTTCAAAATTTTT
1 GAATTTTTCAAAAC-AGATTTAATATTAATTAAATAATAATATTTGATGA-ATTTTAAAAATTTT
* * * * * * * * * *
2893237 AAATTGAGAAAAATGCTCCCAAAAATATTTACGGAGTAGAAAACTTC--GTATTTTAAAAATAGA
64 AAA-CGAG-AAAATCCCCCCAAAAACATTTATGAAGAAGAAAAC-TCAATTATTTTAGAAACA-A
*
2893300 AAAATTTCAAGAAAAAAATGAAAAAATTAATGAAATAAAAG
125 AGAATTTCAAGAAAAAAATG-AAAAATTAATGAAATAAAAG
* * * *
2893341 GAATTTTTCAAAACTGATTTAATGTGAGTTAAATAATAATATTTGATGAATTTT-AAAATTTATA
1 GAATTTTTCAAAACAGATTTAATATTAATTAAATAATAATATTTGATGAATTTTAAAAATTT-TA
* * * *
2893405 AACTAAGAAAAATCCCCCCAAAAATATTTATGAAGTAGAAAACTCAATTA-TTTAGAAA-TAAGA
65 AAC-GAG-AAAATCCCCCCAAAAACATTTATGAAGAAGAAAACTCAATTATTTTAGAAACAAAG-
* * * *
2893468 AAGTTTTAAGAGAAAAATGAAAAAATCATGAAAATAAATA-
127 AA-TTTCAAGAAAAAAATGAAAAATTAATG-AAATAAA-AG
* * * *
2893508 -AATTTTTCAAAACTA-ATTTATTATGAATTAAATGATGATATTTGATGAATTTTAAAAATTTTG
1 GAATTTTTCAAAAC-AGATTTAATATTAATTAAATAATAATATTTGATGAATTTTAAAAATTTT-
* * * * * * *
2893571 AATCGAGTAAA-CCCCCCAAAAACCTTTATGGAATAAAAAAACTCGATT-TTTCAGAAACAAAGA
64 AAACGAGAAAATCCCCCCAAAAACATTTAT-GAAGAAGAAAACTCAATTATTTTAGAAACAAAGA
* *
2893634 ATTTCAAGAAAAAAATGAAAATTTGATGAAATAAAAG
128 ATTTCAAGAAAAAAATGAAAAATTAATGAAATAAAAG
* * *
2893671 GAATTTTTCAAAACAGATTTAATATTCATTAAATAATAATATTTAATAAATTTTAAAAATTTTAA
1 GAATTTTTCAAAACAGATTTAATATTAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAA
* * * *
2893736 ACCGATGAAAATCCTCTCGAAAAA-ATTTCA-G-AGAAGAAAATTC-CTTATTTTAGAAACAAGA
66 A-CGA-GAAAATCC-CCCCAAAAACATTT-ATGAAGAAGAAAACTCAATTATTTTAGAAACAA-A
2893797 GAA
126 GAA
2893800 ATTCCAAAAG
Statistics
Matches: 370, Mismatches: 63, Indels: 54
0.76 0.13 0.11
Matches are distributed among these distances:
162 1 0.00
163 12 0.03
164 114 0.31
165 37 0.10
166 76 0.21
167 126 0.34
168 4 0.01
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (164 bp):
GAATTTTTCAAAACAGATTTAATATTAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAA
ACGAGAAAATCCCCCCAAAAACATTTATGAAGAAGAAAACTCAATTATTTTAGAAACAAAGAATT
TCAAGAAAAAAATGAAAAATTAATGAAATAAAAG
Found at i:2894136 original size:20 final size:21
Alignment explanation
Indices: 2894104--2894143 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2894094 GCATAGTGTG
2894104 ATTTATGAAAATTTAAAATTA
1 ATTTATGAAAATTTAAAATTA
*
2894125 ATTTAT-AAAATTTACAATT
1 ATTTATGAAAATTTAAAATT
2894144 TGACAGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
ATTTATGAAAATTTAAAATTA
Found at i:2895422 original size:79 final size:79
Alignment explanation
Indices: 2895291--2895475 Score: 250
Period size: 79 Copynumber: 2.3 Consensus size: 79
2895281 AACGGCGCTA
* * * *
2895291 GAGTATCCCCGATTATGGAAAATCGGTGTTCTGGAAATAAAACTGGGGTTGGAGTATTCCC-TCA
1 GAGTATCCCCGATTATGGAAAATCGATATTCTGAAAATAAAACTGAGGTTGGAGTA-TCCCTTCA
2895355 AAAATAAC-AGGGTTG
65 AAAATAACGA-GGTTG
* * *
2895370 GAGTATCCCTGATTATAGAAAATCGATATTTTGAAAATAAAA-TCGAGGTTGGAGTATCCCTTCA
1 GAGTATCCCCGATTATGGAAAATCGATATTCTGAAAATAAAACT-GAGGTTGGAGTATCCCTTCA
2895434 AAAATAACGAGGTTG
65 AAAATAACGAGGTTG
*
2895449 GAGTATCCCCGATTGTGGAAAATCGAT
1 GAGTATCCCCGATTATGGAAAATCGAT
2895476 GCTTTAGAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 5 0.05
79 87 0.94
80 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (79 bp):
GAGTATCCCCGATTATGGAAAATCGATATTCTGAAAATAAAACTGAGGTTGGAGTATCCCTTCAA
AAATAACGAGGTTG
Found at i:2895504 original size:79 final size:76
Alignment explanation
Indices: 2895291--2895508 Score: 249
Period size: 79 Copynumber: 2.8 Consensus size: 76
2895281 AACGGCGCTA
* *
2895291 GAGTATCCCCGATTATGGAAAATCGGTGTTCTGGAAATAAAACTGGGGTTGGAGTATTCCCTCAA
1 GAGTATCCCCGATTATGGAAAATCGATGTT-TAGAAAT-AAACTGGGGTTGGAGTA-TCCCTCAA
2895356 AAATAACAGGGTTG
63 AAATAACAGGGTTG
* * * * * *
2895370 GAGTATCCCTGATTATAGAAAATCGATATTTTGAAAATAAAATCGAGGTTGGAGTATCCCTTCAA
1 GAGTATCCCCGATTATGGAAAATCGATGTTTAG-AAATAAACT-GGGGTTGGAGTATCCC-TCAA
2895435 AAATAAC-GAGGTTG
63 AAATAACAG-GGTTG
* * *
2895449 GAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGCTGGGGTTAGAGTATCCC
1 GAGTATCCCCGATTATGGAAAATCGATG-TTTAGAAATAA-ACTGGGGTTGGAGTATCCC
2895509 CGATTGTGAG
Statistics
Matches: 117, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 11 0.09
79 101 0.86
80 5 0.04
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (76 bp):
GAGTATCCCCGATTATGGAAAATCGATGTTTAGAAATAAACTGGGGTTGGAGTATCCCTCAAAAA
TAACAGGGTTG
Found at i:2895508 original size:51 final size:51
Alignment explanation
Indices: 2895444--2895662 Score: 271
Period size: 51 Copynumber: 4.3 Consensus size: 51
2895434 AAAATAACGA
* * * **
2895444 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGCTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTGG
* * * * **
2895495 GGTTAGAGTATCCCCGATTGTGAGAAATTAATATTTT-GAAAATAAAGTTGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAG-AAATAAAACTGG
* *
2895546 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAA-TCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACT-GG
* *
2895597 AGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTGG
2895648 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2895663 TTCGAAATAA
Statistics
Matches: 144, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
50 2 0.01
51 141 0.98
52 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTGG
Found at i:2895751 original size:51 final size:51
Alignment explanation
Indices: 2895673--2895791 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
2895663 TTCGAAATAA
* * *
2895673 CGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATGATGAAAAATCGATGTTTTAGAAATAAAAC
* * * * *
2895724 CGGGGTTGGAGTATCTCTGATTATGAAAAATTGATGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATGATGAAAAATCGATGTTTTAGAAATAAAAC
* *
2895775 CGAGGTTGAAGTATCCC
1 CGGGGTTGGAGTATCCC
2895792 TCGAAAATAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATGATGAAAAATCGATGTTTTAGAAATAAAAC
Found at i:2895853 original size:130 final size:130
Alignment explanation
Indices: 2895544--2895851 Score: 458
Period size: 130 Copynumber: 2.4 Consensus size: 130
2895534 AAATAAAGTT
* *
2895544 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGAGTTGGAGTATC
* * *
2895609 CCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTCGAAATAAC
66 CCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGAAGTATCCCCTTCGAAATAAC
* * * *
2895674 GGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGAGTTGGAGTATC
* * *
2895739 TCTGATTATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGAAGTAT-CCC-TCGAAAATAA
66 CCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGAAGTATCCCCTTCG-AAATAA
2895802 C
130 C
* * *
2895803 GGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTGGAAGTAAAA
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAA
2895852 ACATGAATGA
Statistics
Matches: 159, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
128 3 0.02
129 53 0.33
130 103 0.65
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (130 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGAGTTGGAGTATC
CCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGAAGTATCCCCTTCGAAATAAC
Found at i:2898238 original size:13 final size:13
Alignment explanation
Indices: 2898220--2898246 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2898210 GTAAACCCAT
2898220 AATGTATCGATAC
1 AATGTATCGATAC
2898233 AATGTATCGATAC
1 AATGTATCGATAC
2898246 A
1 A
2898247 TGAACAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2898914 original size:40 final size:41
Alignment explanation
Indices: 2898865--2898961 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
2898855 CCACTTTTTG
* * *
2898865 AGGACAAAGGAAAAAAG-GATGAAATAG-GTCTTGCTCCTTA
1 AGGATAAAGGAAAAAAGAAAAGAAA-AGTGTCTTGCTCCTTA
* *
2898905 AGGATAAAGGAAAAAAGAAAAGGAAAGTGTCTTGCTTCTTA
1 AGGATAAAGGAAAAAAGAAAAGAAAAGTGTCTTGCTCCTTA
2898946 AGGATAAAGTGAAAAA
1 AGGATAAAG-GAAAAA
2898962 GAGTACGTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 18 0.37
41 25 0.51
42 6 0.12
ACGTcount: A:0.47, C:0.08, G:0.25, T:0.20
Consensus pattern (41 bp):
AGGATAAAGGAAAAAAGAAAAGAAAAGTGTCTTGCTCCTTA
Found at i:2899043 original size:42 final size:43
Alignment explanation
Indices: 2898967--2899133 Score: 146
Period size: 42 Copynumber: 3.9 Consensus size: 43
2898957 AAAAAGAGTA
* *
2898967 CGTCCTACT-TTTCGAGGACAAAGGAAAAA-AGGAAAACGAAATG
1 CGTCCTGCTCTTT-GAGGACAAAAGAAAAAGAGGAAAA-GAAATG
* *
2899010 CGTCCTGCTCTTTGAGGA-TAAA-AAAAAGAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGAGGAAAAGAAA-TG
* * * * *
2899052 CGTCTTGCTTTTTGAAGACAAAAGGAAAAAGAAGGGAATGAAATG
1 CGTCCTGCTCTTTGAGGACAAAA-GAAAAAG-AGGAAAAGAAATG
* * *
2899097 TGTCCTGCTCTTTGAGGACAAAGGAGAAA-AGGAAAAG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAGAGGAAAAG
2899134 GCATCCTACT
Statistics
Matches: 98, Mismatches: 19, Indels: 15
0.74 0.14 0.11
Matches are distributed among these distances:
41 8 0.08
42 32 0.33
43 16 0.16
44 8 0.08
45 26 0.27
46 8 0.08
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.20
Consensus pattern (43 bp):
CGTCCTGCTCTTTGAGGACAAAAGAAAAAGAGGAAAAGAAATG
Found at i:2899225 original size:61 final size:60
Alignment explanation
Indices: 2899122--2899488 Score: 379
Period size: 61 Copynumber: 6.1 Consensus size: 60
2899112 GGACAAAGGA
** *
2899122 GAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAA-GCATCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
2899184 GAAAAGAAAATGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAA-GCATCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *** *
2899245 GCAAAGAGAAAGCATCCTACTCTTTGAGGAATGGAAGGTGCCACCAACTCAAGTGGTCTTT
1 GAAAAGA-AAAGCATCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
2899306 AAAAAGAGAAAGCATCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTT
1 GAAAAGA-AAAGCATCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
2899367 G-AAAG----GCATCCTACTCTTTGAGGACTAGAAAATGCCAGCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGCATCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
** * * *
2899422 -AAAAGGAAAAGGTGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAA-GAAAA-GCATCCTACTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT
2899484 -AAAAG
1 GAAAAG
2899489 GCGTCTTGCT
Statistics
Matches: 257, Mismatches: 39, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
55 48 0.19
56 1 0.00
60 4 0.02
61 167 0.65
62 37 0.14
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (60 bp):
GAAAAGAAAAGCATCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:2899271 original size:122 final size:114
Alignment explanation
Indices: 2899130--2899512 Score: 444
Period size: 122 Copynumber: 3.2 Consensus size: 114
2899120 GAGAAAAGGA
2899130 AAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAT
1 AAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAA-
* *
2899195 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTG
64 GCGTCATGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG
* ** * ** *
2899246 CAAAGAGAAAGCATCCTACTCTTTGAGGAATGGAAGGTGCCACCAACTCAAGTGGTCTTTAAAAA
1 --AA-AG---GCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAA
* * *
2899311 GAGAAAGCATCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTG
59 GA-AAAGCGTCATGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
2899368 AAAGGCATCCTACTCTTTGAGGACTAGAAAA-TGCCAGCAACTTGTGTGGGCTTTAAAAGGAAAA
1 AAAGGCATCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTTAAAA-GAAAA
* * * *
2899432 GGTGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
64 -GCGTCATGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTG
* * *
2899485 AAAGGCGTCTTGCTCTTTGAGGACTAAA
1 AAAGGCATCCTACTCTTTGAGGACTAAA
2899513 GGGCGAAAGG
Statistics
Matches: 224, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
115 7 0.03
116 60 0.27
117 51 0.23
118 2 0.01
119 4 0.02
120 2 0.01
122 95 0.42
123 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (114 bp):
AAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAGC
GTCATGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG
Found at i:2899398 original size:55 final size:55
Alignment explanation
Indices: 2899323--2899510 Score: 241
Period size: 55 Copynumber: 3.3 Consensus size: 55
2899313 GAAAGCATCA
* * * *
2899323 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCATCC
1 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCT
* * *
2899378 TACTCTTTGAGGACTAGAAAATGCCAGCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCT
1 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCT
*
2899439 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCT
1 TGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCT
2899495 TGCTCTTTGAGGACTA
1 TGCTCTTTGAGGACTA
2899511 AAGGGCGAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
55 40 0.35
56 25 0.22
60 1 0.01
61 27 0.23
62 22 0.19
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (55 bp):
TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCT
Found at i:2899663 original size:155 final size:156
Alignment explanation
Indices: 2899375--2899667 Score: 435
Period size: 156 Copynumber: 1.9 Consensus size: 156
2899365 TTGAAAGGCA
* * * ** *
2899375 TCCTACTCTTTGAGGACTAGAAAATGCCAGCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTT
1 TCCTACTCTTTGAGGACTAGAAAATGCCACCAAATTGTGTGGGCTTTAAAAAGAAAAGGCATCCT
* * *
2899440 GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGA
66 ACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTGA
2899505 GGACTAAAGGGCGAAAGGAGAAAGCG
131 GGACTAAAGGGCGAAAGGAGAAAGCG
* * * * *
2899531 TCCTGCTCTTTGAGGATTGGGAAATGCCACCAAATTGTGTGGGCTTTAAAAAGAGAAGGCATCCT
1 TCCTACTCTTTGAGGACTAGAAAATGCCACCAAATTGTGTGGGCTTTAAAAAGAAAAGGCATCCT
* *
2899596 ACTCTTTGAGGACTTG-GAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTGA
66 ACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTGA
2899660 GGACTAAA
131 GGACTAAA
2899668 AAATGCCACC
Statistics
Matches: 121, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
155 53 0.44
156 68 0.56
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (156 bp):
TCCTACTCTTTGAGGACTAGAAAATGCCACCAAATTGTGTGGGCTTTAAAAAGAAAAGGCATCCT
ACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTGA
GGACTAAAGGGCGAAAGGAGAAAGCG
Found at i:2899675 original size:55 final size:55
Alignment explanation
Indices: 2899528--2899777 Score: 275
Period size: 55 Copynumber: 4.4 Consensus size: 55
2899518 AAAGGAGAAA
* *** *
2899528 GCGTCCTGCTCTTTGAGGATTGGGAAATGCCACCAAATTGTGTGGGCTTTAAAAAGAGAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT----A-A-AAG
* * *** * *
2899589 GCATCCTACTCTTTGAGGACTTGGAAGTGCCACCAACTTGTATGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* *
2899644 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGTTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * ** *
2899699 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
2899754 GCGTCCTGCTCTTTGAGGACTAAA
1 GCGTCCTGCTCTTTGAGGACTAAA
2899778 GGGTGAAAGG
Statistics
Matches: 166, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
55 121 0.73
56 1 0.01
57 1 0.01
61 43 0.26
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:2899745 original size:110 final size:113
Alignment explanation
Indices: 2899528--2899777 Score: 346
Period size: 110 Copynumber: 2.2 Consensus size: 113
2899518 AAAGGAGAAA
* ***
2899528 GCGTCCTGCTCTTTGAGGATTGGGAAATGCCACCAAATTGTGTGGGCTTTAAAAAGAGAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAAATTGTGTGGGCTTT---AAGAGAAGGCAT
*
2899593 CCTACTCTTTGAGGACTTGGAAGTGCCACCAACTTGTATGGGCTTTAAAAG
63 CCTACTCTTTGAGGACTTGAAAGTGCCACCAACTTGTATGGGCTTTAAAAG
* * *
2899644 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGG-TTT-TGA-AAGGCGTCCT
1 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAAATTGTGTGGGCTTTAAGAGAAGGCATCCT
* *
2899706 ACTCTTTGAGGAC-TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
66 ACTCTTTGAGGACTTGAAA-GTGCCACCAACTTGTATGGGCTTTAAAAG
2899754 GCGTCCTGCTCTTTGAGGACTAAA
1 GCGTCCTGCTCTTTGAGGACTAAA
2899778 GGGTGAAAGG
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
109 4 0.03
110 73 0.59
111 2 0.02
115 3 0.02
116 41 0.33
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (113 bp):
GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAAATTGTGTGGGCTTTAAGAGAAGGCATCCT
ACTCTTTGAGGACTTGAAAGTGCCACCAACTTGTATGGGCTTTAAAAG
Found at i:2899836 original size:265 final size:270
Alignment explanation
Indices: 2899250--2899874 Score: 823
Period size: 272 Copynumber: 2.3 Consensus size: 270
2899240 GCTTTGCAAA
* *** *
2899250 GAGAAAGCATCCTACTCTTTGAGGAATGGAAGGTGCCACCAACTCAAGTGGTCTTTAAAAAGAGA
1 GAGAAAGCGTCCTACTCTTTGAGGAATGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGA
* * * *
2899315 AAGCATCATGCTCTTTGAGGAC-TGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCATCCT
66 AGGCATCCTGCTCTTTGAGGACTTGGAAAATGCCACCAACTTATATGGGCTTTAAAAGGCATCCT
* * * * *
2899379 ACTCTTTGAGGACTAGAAAATGCCAGCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTGCTC
131 ACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT---AGGAAAAGGCGTCCTACTC
*
2899444 TTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCTCTTTGAGGAC
193 TTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
2899509 TAAAGGGCGAAAG
258 TAAAGGGCGAAAG
* * * *
2899522 GAGAAAGCGTCCTGCTCTTTGAGGATTGGGAA-ATGCCACCAAATTGTGTGGGCTTTAAAAAGAG
1 GAGAAAGCGTCCTACTCTTTGAGGAAT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAG
* * * *
2899586 AAGGCATCCTACTCTTTGAGGACTTGG-AAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCC
65 AAGGCATCCTGCTCTTTGAGGACTTGGAAAATGCCACCAACTTATATGGGCTTTAAAAGGCATCC
* *
2899650 TGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGG-TTT-TG-AAAGGCGTCCTACTCTT
130 TACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAGGAAAAGGCGTCCTACTCTT
* *
2899712 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTA
195 TGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTA
*
2899776 AAGGGTGAAAG
260 AAGGGCGAAAG
* * * * * * *
2899787 GAGAGAGTGTCTTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
1 GAGAAAGCGTCCTACTCTTTGAGGAATGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGA
* * *
2899852 AGGCGTCCTGCTTTTTGAAGACT
66 AGGCATCCTGCTCTTTGAGGACT
2899875 GAAAAGTGAA
Statistics
Matches: 308, Mismatches: 42, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
264 3 0.01
265 133 0.43
266 22 0.07
267 1 0.00
271 3 0.01
272 139 0.45
273 7 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (270 bp):
GAGAAAGCGTCCTACTCTTTGAGGAATGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGA
AGGCATCCTGCTCTTTGAGGACTTGGAAAATGCCACCAACTTATATGGGCTTTAAAAGGCATCCT
ACTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAGGAAAAGGCGTCCTACTCTTT
GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAA
AGGGCGAAAG
Found at i:2900870 original size:1 final size:1
Alignment explanation
Indices: 2900864--2900950 Score: 66
Period size: 1 Copynumber: 87.0 Consensus size: 1
2900854 CTTTTCTCTC
* * * * ** * * *
2900864 TTTTTTTCTTTTTTTTTGTTTTTTTTATTTCTTTTGGTTTTTTTTGTTTTTTTGTTTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
2900929 TTTGTGTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
2900951 AAAAAAAAGA
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:2900870 original size:12 final size:10
Alignment explanation
Indices: 2900848--2900950 Score: 52
Period size: 10 Copynumber: 9.8 Consensus size: 10
2900838 CTAAGCAGGC
2900848 TCTTTTCTTTT
1 TCTTTT-TTTT
*
2900859 CTCTCTTTTTT
1 -TCTTTTTTTT
2900870 TCTTTTTTTT
1 TCTTTTTTTT
*
2900880 TGTTTTTTTT
1 TCTTTTTTTT
2900890 AT-TTCTTTTGGTT
1 -TCTT-TTTT--TT
2900903 T-TTTTTGTTT
1 TCTTTTT-TTT
2900913 T-TTTGTTTTT
1 TCTTT-TTTTT
* *
2900923 TATTTTTTTG
1 TCTTTTTTTT
*
2900933 TGTTTTTGTTT
1 TCTTTTT-TTT
2900944 T-TTTTTT
1 TCTTTTTT
2900951 AAAAAAAAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
9 1 0.01
10 45 0.58
11 20 0.26
12 9 0.12
13 2 0.03
ACGTcount: A:0.02, C:0.07, G:0.08, T:0.83
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:2900894 original size:23 final size:21
Alignment explanation
Indices: 2900864--2900950 Score: 84
Period size: 23 Copynumber: 3.9 Consensus size: 21
2900854 CTTTTCTCTC
2900864 TTTTTTTCTTTTTTTTTGTTTT
1 TTTTTTTCTTTTTTTTT-TTTT
*
2900886 TTTTATTTCTTTTGGTTTTTTTTG
1 TTTT-TTTCTTTT--TTTTTTTTT
*
2900910 TTTTTTTGTTTTTTATTTTTTT
1 TTTTTTTCTTTTTT-TTTTTTT
* *
2900932 GTGTTTTTGTTTTTTTTTT
1 -TTTTTTTCTTTTTTTTTT
2900951 AAAAAAAAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
21 2 0.04
22 14 0.25
23 28 0.50
24 7 0.12
25 5 0.09
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.86
Consensus pattern (21 bp):
TTTTTTTCTTTTTTTTTTTTT
Found at i:2912288 original size:13 final size:13
Alignment explanation
Indices: 2912270--2912295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2912260 TACAGCAAGT
2912270 ATGTATCGATACA
1 ATGTATCGATACA
2912283 ATGTATCGATACA
1 ATGTATCGATACA
2912296 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2920186 original size:21 final size:20
Alignment explanation
Indices: 2920139--2920192 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2920129 CATTTGAGAC
* *
2920139 ATGTACCGATACATTCACTT
1 ATGTATCGATACATTCACTA
2920159 ATGTATCGATACATTCACTA
1 ATGTATCGATACATTCACTA
2920179 ATTGTATCGATACA
1 A-TGTATCGATACA
2920193 AATTATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:2926675 original size:20 final size:20
Alignment explanation
Indices: 2926609--2926679 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
2926599 TTTTAACTAG
*
2926609 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * * *
2926629 ATGCATTGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
2926649 ATTTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2926669 ATGTATCGATA
1 ATGTATCGATA
2926680 TATCTGGGTA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:2927682 original size:28 final size:28
Alignment explanation
Indices: 2927550--2928005 Score: 521
Period size: 28 Copynumber: 16.0 Consensus size: 28
2927540 TAAAAAAAAT
*
2927550 GTGCCACTAACTCGTGTGGGCTTTGAAAAGA
1 GTGCCACTGACT--TGTGGGCTTTG-AAAGA
* * *
2927581 GTTGCCACCGACTCGTTTGGGCTTTGAAAAAA
1 G-TGCCACTGACT--TGTGGGCTTTG-AAAGA
*
2927613 GTTACCACT-AGCTTGTGGGCTTTGAAAAGA
1 G-TGCCACTGA-CTTGTGGGCTTTG-AAAGA
* *
2927643 GTGCCATTGACTTGTAGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* * *
2927671 GTGCCACAGACTTATGGACTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGA
* *
2927700 GTGCCACTGACTTATGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2927728 GTGCCACTGACTTGTGGGCTTT-AAAAA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2927755 GGTGCCACTAACTTGTGGGCTTTGAAAG-
1 -GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2927783 GATGCCACTGACTTGTGGGCTTTGAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAGA
2927812 GTGCCACTGACTTGTGGGCTTTGAAA-A
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
2927839 GGTGCCACTAACTTCTGGGCTTTGAAA-A
1 -GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2927867 GATGCCACTGACTTGTGGGCTTTGAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAGA
*
2927896 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
*
2927924 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
2927952 GTGCCACTGACTTGTGGGCTTTGAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAGA
* *
2927979 GATGCTATTGACTT-TGGGCTTTGAAAG
1 G-TGCCACTGACTTGTGGGCTTTGAAAG
2928006 GATGAACGTT
Statistics
Matches: 380, Mismatches: 33, Indels: 28
0.86 0.07 0.06
Matches are distributed among these distances:
27 19 0.05
28 259 0.68
29 48 0.13
30 17 0.04
31 2 0.01
32 35 0.09
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGA
Found at i:2929234 original size:8 final size:8
Alignment explanation
Indices: 2929218--2929329 Score: 81
Period size: 8 Copynumber: 13.9 Consensus size: 8
2929208 ATCTAGACCC
*
2929218 TTTTCTGT
1 TTTTTTGT
2929226 TTTTTTGT
1 TTTTTTGT
*
2929234 TATTTT-T
1 TTTTTTGT
* *
2929241 TTCTTAGT
1 TTTTTTGT
2929249 TTTTTTGT
1 TTTTTTGT
2929257 TTTTTAAT-T
1 TTTTT--TGT
2929266 TTTTTTGGT
1 TTTTTT-GT
2929275 TTTTTTGT
1 TTTTTTGT
2929283 TTTTTT-T
1 TTTTTTGT
2929290 TTGTTTT-T
1 TT-TTTTGT
*
2929298 TTGTTT-T
1 TTTTTTGT
2929305 TTTTTTGAT
1 TTTTTTG-T
*
2929314 TTTTTTCT
1 TTTTTTGT
2929322 ATTTTTTG
1 -TTTTTTG
2929330 CATTGTCTGT
Statistics
Matches: 84, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
7 17 0.20
8 40 0.48
9 26 0.31
10 1 0.01
ACGTcount: A:0.05, C:0.03, G:0.10, T:0.82
Consensus pattern (8 bp):
TTTTTTGT
Found at i:2929241 original size:11 final size:10
Alignment explanation
Indices: 2929225--2929328 Score: 65
Period size: 10 Copynumber: 10.6 Consensus size: 10
2929215 CCCTTTTCTG
2929225 TTTTTTTGTTA
1 TTTTTTT-TTA
2929236 TTTTTTTCTTA
1 TTTTTTT-TTA
*
2929247 --GTTTTTT-
1 TTTTTTTTTA
* *
2929254 TGTTTTTTAA
1 TTTTTTTTTA
**
2929264 TTTTTTTTGG
1 TTTTTTTTTA
*
2929274 TTTTTTTGT-
1 TTTTTTTTTA
*
2929283 TTTTTTTTTG
1 TTTTTTTTTA
2929293 TTTTTTTGTT-
1 TTTTTTT-TTA
*
2929303 TTTTTTTTGA
1 TTTTTTTTTA
*
2929313 TTTTTTTCTA
1 TTTTTTTTTA
2929323 TTTTTT
1 TTTTTT
2929329 GCATTGTCTG
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
8 2 0.03
9 18 0.24
10 42 0.57
11 12 0.16
ACGTcount: A:0.06, C:0.02, G:0.09, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:2929267 original size:26 final size:26
Alignment explanation
Indices: 2929238--2929287 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
2929228 TTTTGTTATT
2929238 TTTTTCTTAGTTTTTTTGTTTTTTAA
1 TTTTTCTTAGTTTTTTTGTTTTTTAA
* *
2929264 TTTTTTTTGGTTTTTTTGTTTTTT
1 TTTTTCTTAGTTTTTTTGTTTTTT
2929288 TTTTGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.06, C:0.02, G:0.10, T:0.82
Consensus pattern (26 bp):
TTTTTCTTAGTTTTTTTGTTTTTTAA
Found at i:2929268 original size:37 final size:37
Alignment explanation
Indices: 2929227--2929321 Score: 93
Period size: 39 Copynumber: 2.5 Consensus size: 37
2929217 CTTTTCTGTT
2929227 TTTTTGTT-ATTTTTTTCTTAGTTTTTTTGTTTTTTAA
1 TTTTTGTTGATTTTTTTCTT-GTTTTTTTGTTTTTTAA
* * * * **
2929264 TTTTTTTTGGTTTTTTTGTTTTTTTTTTGTTTTTTTGTT
1 TTTTTGTTGATTTTTTTCTTGTTTTTTTG-TTTTTT-AA
*
2929303 TTTTTTTTGATTTTTTTCT
1 TTTTTGTTGATTTTTTTCT
2929322 ATTTTTTGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
37 15 0.32
38 15 0.32
39 17 0.36
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.83
Consensus pattern (37 bp):
TTTTTGTTGATTTTTTTCTTGTTTTTTTGTTTTTTAA
Found at i:2929269 original size:18 final size:18
Alignment explanation
Indices: 2929248--2929309 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
2929238 TTTTTCTTAG
2929248 TTTTTTTGTTTTTTAATT
1 TTTTTTTGTTTTTTAATT
* **
2929266 TTTTTTGGTTTTTTTGTTT
1 TTTTTTTG-TTTTTTAATT
**
2929285 TTTTTTTGTTTTTTTGTT
1 TTTTTTTGTTTTTTAATT
2929303 TTTTTTT
1 TTTTTTT
2929310 TGATTTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
18 22 0.59
19 15 0.41
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (18 bp):
TTTTTTTGTTTTTTAATT
Found at i:2929316 original size:18 final size:19
Alignment explanation
Indices: 2929218--2929319 Score: 107
Period size: 19 Copynumber: 5.3 Consensus size: 19
2929208 ATCTAGACCC
* * *
2929218 TTTTCTGTTTTTTTGTTAT
1 TTTTTTGTTTTTTTTTTGT
* *
2929237 TTTTTTCTTAGTTTTTTTG-
1 TTTTTTGTT-TTTTTTTTGT
** *
2929256 TTTTTTAATTTTTTTTGGT
1 TTTTTTGTTTTTTTTTTGT
2929275 TTTTTTGTTTTTTTTTTGT
1 TTTTTTGTTTTTTTTTTGT
2929294 TTTTTTGTTTTTTTTTTGAT
1 TTTTTTGTTTTTTTTTTG-T
2929314 TTTTTT
1 TTTTTT
2929320 CTATTTTTTG
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
18 7 0.10
19 48 0.71
20 13 0.19
ACGTcount: A:0.05, C:0.02, G:0.10, T:0.83
Consensus pattern (19 bp):
TTTTTTGTTTTTTTTTTGT
Found at i:2929327 original size:49 final size:49
Alignment explanation
Indices: 2929218--2929328 Score: 136
Period size: 49 Copynumber: 2.3 Consensus size: 49
2929208 ATCTAGACCC
2929218 TTTTCTGTTTTTTTGTTATTTTTTTCTTAGTTTTTTTGTTTTTTAATTT
1 TTTTCTGTTTTTTTGTTATTTTTTTCTTAGTTTTTTTGTTTTTTAATTT
* * * * *
2929267 TTTT-TGGTTTTTTTGTTTTTTTTTTGTT-TTTTTGTTTTTTTTTTGATTT
1 TTTTCT-GTTTTTTTGTTATTTTTTTCTTAGTTTT-TTTGTTTTTTAATTT
*
2929316 TTTTCTATTTTTT
1 TTTTCTGTTTTTT
2929329 GCATTGTCTG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
48 5 0.09
49 47 0.89
50 1 0.02
ACGTcount: A:0.05, C:0.03, G:0.09, T:0.83
Consensus pattern (49 bp):
TTTTCTGTTTTTTTGTTATTTTTTTCTTAGTTTTTTTGTTTTTTAATTT
Found at i:2929328 original size:1 final size:1
Alignment explanation
Indices: 2929225--2929310 Score: 55
Period size: 1 Copynumber: 86.0 Consensus size: 1
2929215 CCCTTTTCTG
* * * ** * ** ** *
2929225 TTTTTTTGTTATTTTTTTCTTAGTTTTTTTGTTTTTTAATTTTTTTTGGTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
2929290 TTGTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTT
2929311 GATTTTTTTC
Statistics
Matches: 64, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.05, C:0.01, G:0.09, T:0.85
Consensus pattern (1 bp):
T
Found at i:2939651 original size:13 final size:13
Alignment explanation
Indices: 2939633--2939658 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2939623 CAATTTTTTG
2939633 TGTATCGATACAT
1 TGTATCGATACAT
2939646 TGTATCGATACAT
1 TGTATCGATACAT
2939659 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2939670 original size:32 final size:33
Alignment explanation
Indices: 2939613--2939676 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2939603 TACAAGCCAA
**
2939613 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
2939646 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
2939677 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:2944660 original size:13 final size:13
Alignment explanation
Indices: 2944642--2944667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2944632 CAAGGTAGCT
2944642 TTGTATCGATACA
1 TTGTATCGATACA
2944655 TTGTATCGATACA
1 TTGTATCGATACA
2944668 ACACTTATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2945460 original size:52 final size:50
Alignment explanation
Indices: 2945361--2945891 Score: 433
Period size: 52 Copynumber: 10.6 Consensus size: 50
2945351 GTCAATATGT
* * * * * *
2945361 TGATTCACGGTCAACGACATTAGACTTAAAGATGAGAAGAATTCCAATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG-TAAG-ATGCCAATGTGC
* * * *
2945413 TGATTCAAGGCCATCGACATTGG-GTTTAAGAATGTTACAGATGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAG-ATG-TA-AGATGCCAATGTGC
** ** * * *
2945465 TGATTCAAGGCCATTGATTTTGGACTTAAAGGTG-AAGATG-CTATGTGT
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGTAAGATGCCAATGTGC
* * *
2945513 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG-ACAAAGGCACCAATATGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGTA-AGATG--CCAATGTGC
* * ** *
2945565 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG--TAAGATGCCAATGTGC
* *
2945617 TGATTCAAGGCCAGCGATATTGGACTTAAAGATG-AAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGTAAGATGCCAATGTGC
* * * * * *
2945666 TGATTCAAGGCTAACAACATTGGACTTAAAGGTG-AAGGTGCTAATGTGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGTAAGATGCCAATGTGC
* ** *
2945715 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG--TAAGATGCCAATGTGC
* * * *
2945767 TGATTCAAGGCCAGCGATATTGGACTTCAAGATGAAAG-TGCCAATGTGA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGTAAGATGCCAATGTGC
* * *
2945816 TTATTCAAGGCCAGCAACATTGGACTT-AA-A-G---G-TGCCAATATGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGTAAGATGCCAATGTGC
* *
2945859 TGATTCAAGGCTAGCGATATTGGACTTAGAAGA
1 TGATTCAAGGCCAGCGACATTGGACTTA-AAGA
2945892 AGATGCCACC
Statistics
Matches: 401, Mismatches: 62, Indels: 38
0.80 0.12 0.08
Matches are distributed among these distances:
43 33 0.08
45 2 0.00
46 2 0.00
47 1 0.00
48 37 0.09
49 126 0.31
50 5 0.01
51 5 0.01
52 180 0.45
53 7 0.02
54 2 0.00
55 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (50 bp):
TGATTCAAGGCCAGCGACATTGGACTTAAAGATGTAAGATGCCAATGTGC
Found at i:2945752 original size:150 final size:151
Alignment explanation
Indices: 2945404--2945849 Score: 592
Period size: 150 Copynumber: 3.0 Consensus size: 151
2945394 GAGAAGAATT
* * * ** * **
2945404 CCAATGTGCTGATTCAAGGCCATCGACATTGG-GTTTAAGAATGTTACAGATGCCAATATGCTGA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGACAAAGGCGCCAATATGCTGA
** * * * * * *
2945468 TTCAAGGCCATTGATTTTGGACTTAAAGGTGAAGATG-CTATGTGTTGATTCAAGGCCAGCGACA
65 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGATGATTCAAGGCCAGCAACA
*
2945532 TTGGACTTAAAGATGACAAAGGCA
130 TTGGACTTAAAGGTG--AAAGGCA
* *
2945556 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
* * *
2945621 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAACAACAT
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGATGATTCAAGGCCAGCAACAT
**
2945686 TGGACTTAAAGGTG-AAGGTG
131 TGGACTTAAAGGTGAAAGGCA
*
2945706 CTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
* * *
2945771 TCAAGGCCAGCGATATTGGACTTCAAGATGAAAGTGCCAATGTGATTATTCAAGGCCAGCAACAT
66 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGATGATTCAAGGCCAGCAACAT
2945836 TGGACTTAAAGGTG
131 TGGACTTAAAGGTG
2945850 CCAATATGCT
Statistics
Matches: 260, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
150 139 0.53
152 80 0.31
153 41 0.16
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (151 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGATGATTCAAGGCCAGCAACAT
TGGACTTAAAGGTGAAAGGCA
Found at i:2945852 original size:43 final size:43
Alignment explanation
Indices: 2945751--2945886 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 43
2945741 TAAAGATGAC
* * * *
2945751 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGATGATTCAAGGCCAGCAACATTGGACTT
* *
2945794 CAAGATGAAAGTGCCAATGTGATTATTCAAGGCCAGCAACATTGGACTT
1 -AA-A-G---GTGCCAATATGATGATTCAAGGCCAGCAACATTGGACTT
* * * *
2945843 AAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT
1 AAAGGTGCCAATATGATGATTCAAGGCCAGCAACATTGGACTT
2945886 A
1 A
2945887 GAAGAAGATG
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
43 34 0.45
44 2 0.03
45 1 0.01
46 2 0.03
47 1 0.01
48 2 0.03
49 33 0.44
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGATGATTCAAGGCCAGCAACATTGGACTT
Found at i:2946015 original size:57 final size:57
Alignment explanation
Indices: 2945908--2946150 Score: 237
Period size: 57 Copynumber: 4.3 Consensus size: 57
2945898 CACCAACTTG
* * * * * * *
2945908 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGTTTTTGAAGGTTGCCATTGATT
1 TGTGGGCTTTGGAAA-GGTTGCCACTAACTTGTGGGCTTTTGAAAGTTGCCACTGACT
* *
2945965 TGTGGGCTTTGGAAAGG-TGTCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGGAAAGGTTGCCACTAACTTGTGGGCTTTTG-AAAGTTGCCACTGACT
* * * *
2946022 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGC-TTTGAAAAGGGTGCCACCGACT
1 TGTGGGCTTTGGAAAGGTTGCCACTAACTTGTGGGCTTTTG-AAA-GTTGCCACTGACT
* * * * *
2946079 TATGGCCTTCT-G-AAGGTTGCCATTGACTTGTGGGCTTTTGAAAGTTGCCACTAACT
1 TGTGGGCTT-TGGAAAGGTTGCCACTAACTTGTGGGCTTTTGAAAGTTGCCACTGACT
2946135 TGTGGGCTTTGGAAAG
1 TGTGGGCTTTGGAAAG
2946151 TGAGGAATGT
Statistics
Matches: 157, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
55 3 0.02
56 49 0.31
57 100 0.64
58 5 0.03
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.34
Consensus pattern (57 bp):
TGTGGGCTTTGGAAAGGTTGCCACTAACTTGTGGGCTTTTGAAAGTTGCCACTGACT
Found at i:2946053 original size:85 final size:85
Alignment explanation
Indices: 2945895--2946150 Score: 300
Period size: 85 Copynumber: 3.0 Consensus size: 85
2945885 TAGAAGAAGA
** * *
2945895 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGTTTTTGAAGGTTGCCA
1 TGCCACCAAC-T-TGTGGGCTTTTGAAA-GGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCA
* *
2945959 TTGATTTGTGGGCTTTGGAAAGG
63 CTGACTTGTGGGCTTTGGAAAGG
* * * *
2945982 TGTCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTG
1 TGCCACCAACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTG
*
2946047 ACTTGTGGGCTTTGAAAAGGG
66 ACTTGTGGGCTTTGGAAA-GG
* * * * * * *
2946068 TGCCACCGACTTATGGCCTTCTG-AAGGTTGCCATTGACTTGTGGGCTTTTGAAAGTTGCCACTA
1 TGCCACCAACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTG
2946132 ACTTGTGGGCTTTGGAAAG
66 ACTTGTGGGCTTTGGAAAG
2946151 TGAGGAATGT
Statistics
Matches: 144, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
84 4 0.03
85 112 0.78
86 20 0.14
87 8 0.06
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.34
Consensus pattern (85 bp):
TGCCACCAACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTG
ACTTGTGGGCTTTGGAAAGG
Found at i:2946151 original size:28 final size:28
Alignment explanation
Indices: 2945908--2946151 Score: 204
Period size: 28 Copynumber: 8.6 Consensus size: 28
2945898 CACCAACTTG
* **
2945908 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTGGAAA--GTTGCCACTGACT
* * * * * *
2945937 TGTGTGTTTTTGAAGGTTGCCATTGATT
1 TGTGGGCTTTGGAAAGTTGCCACTGACT
* * *
2945965 TGTGGGCTTTGGAAAGGTGTCACTAACT
1 TGTGGGCTTTGGAAAGTTGCCACTGACT
* *
2945993 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGC-TTTGGAAAGTTGCCACTGACT
* *
2946022 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAGTTGCCACTGACT
* * *
2946050 TGTGGGCTTTGAAAAGGGTGCCACCGACT
1 TGTGGGCTTTGGAAA-GTTGCCACTGACT
* * * *
2946079 TATGGCCTTCT-GAAGGTTGCCATTGACT
1 TGTGGGCTT-TGGAAAGTTGCCACTGACT
* *
2946107 TGTGGGCTTTTGAAAGTTGCCACTAACT
1 TGTGGGCTTTGGAAAGTTGCCACTGACT
2946135 TGTGGGCTTTGGAAAGT
1 TGTGGGCTTTGGAAAGT
2946152 GAGGAATGTC
Statistics
Matches: 168, Mismatches: 42, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
27 5 0.03
28 106 0.63
29 56 0.33
30 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTGGAAAGTTGCCACTGACT
Found at i:2946551 original size:37 final size:37
Alignment explanation
Indices: 2946509--2946593 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
2946499 AAAGATGAAG
*
2946509 CACAAATGCATCATGCAAAAGGAAATGTTATGAATGT
1 CACAAATGCATCATACAAAAGGAAATGTTATGAATGT
*
2946546 CACAAATGCATCATACAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATACAAAAGGAAATGTTATGAATGT
2946583 CACAAATGCAT
1 CACAAATGCAT
2946594 GATTGTGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (37 bp):
CACAAATGCATCATACAAAAGGAAATGTTATGAATGT
Found at i:2947628 original size:1 final size:1
Alignment explanation
Indices: 2947622--2947670 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
2947612 CTTTTAATTA
* * * * *
2947622 TTTTTTTCTTTTTGTTTTTATTTTTTTCTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2947671 GGCGGAGGAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.02, C:0.04, G:0.04, T:0.90
Consensus pattern (1 bp):
T
Found at i:2947639 original size:23 final size:23
Alignment explanation
Indices: 2947613--2947670 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
2947603 ATCCGGACCC
2947613 TTTTAATTATTTTT-TTCTTTTTG
1 TTTTAATT-TTTTTCTTCTTTTTG
* *
2947636 TTTTTATTTTTTTCTTTTTTTTG
1 TTTTAATTTTTTTCTTCTTTTTG
*
2947659 TTTT-TTTTTTTT
1 TTTTAATTTTTTT
2947671 GGCGGAGGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.07, C:0.03, G:0.03, T:0.86
Consensus pattern (23 bp):
TTTTAATTTTTTTCTTCTTTTTG
Found at i:2947646 original size:13 final size:12
Alignment explanation
Indices: 2947623--2947669 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
2947613 TTTTAATTAT
2947623 TTTTTTCTTTTTG
1 TTTTTT-TTTTTG
*
2947636 TTTTTATTTTT-
1 TTTTTTTTTTTG
*
2947647 TTCTTTTTTTTG
1 TTTTTTTTTTTG
2947659 TTTTTTTTTTT
1 TTTTTTTTTTT
2947670 TGGCGGAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 9 0.31
12 15 0.52
13 5 0.17
ACGTcount: A:0.02, C:0.04, G:0.04, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:2947668 original size:20 final size:20
Alignment explanation
Indices: 2947619--2947667 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2947609 ACCCTTTTAA
2947619 TTATTTTTTTCTTTTTGTTT
1 TTATTTTTTTCTTTTTGTTT
2947639 TTATTTTTTTCTTTTT-TTT
1 TTATTTTTTTCTTTTTGTTT
2947658 GTT-TTTTTTT
1 -TTATTTTTTT
2947668 TTTGGCGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.04, C:0.04, G:0.04, T:0.88
Consensus pattern (20 bp):
TTATTTTTTTCTTTTTGTTT
Found at i:2953207 original size:20 final size:20
Alignment explanation
Indices: 2953154--2953208 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2953144 AAATTCTCAG
**
2953154 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
2953174 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
2953194 ATGTATCGATACATT
1 ATGTATCGATACATT
2953209 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:2953279 original size:21 final size:19
Alignment explanation
Indices: 2953232--2953286 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
2953222 GCAGGGTAGC
2953232 TTTGTATCGATACAACACT
1 TTTGTATCGATACAACACT
* **
2953251 TATGTATCGATACATTTACT
1 TTTGTATCGATACA-ACACT
2953271 GTTTGTATCGATACAA
1 -TTTGTATCGATACAA
2953287 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACAACACT
Found at i:2953940 original size:51 final size:54
Alignment explanation
Indices: 2953883--2954024 Score: 172
Period size: 51 Copynumber: 2.8 Consensus size: 54
2953873 TTTTGACTAG
*
2953883 ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAA-AAAGA-CAGA-
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAGAAAGATCAGAC
* ** *
2953934 ATGTATCGATACATTGAAGAATGTATCGATACAT-T--G-AAGAATTATCATAC
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAGAAAGATCAGAC
* *
2953984 ATGTATTGATACATTGAAAAATGTATCGATATATCTGGGTA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTA
2954025 CTTTTTCATA
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
47 2 0.03
48 4 0.05
49 3 0.04
50 32 0.42
51 33 0.43
53 1 0.01
54 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.31
Consensus pattern (54 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAGAAAGATCAGAC
Found at i:2953956 original size:20 final size:20
Alignment explanation
Indices: 2953931--2953985 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
2953921 GTAAAAAGAC
2953931 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
2953951 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
2953971 AGAAT-TATC-ATACAT
1 AGAATGTATCGATACAT
2953986 GTATTGATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.17
19 4 0.11
20 25 0.71
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2955026 original size:28 final size:30
Alignment explanation
Indices: 2954888--2955042 Score: 156
Period size: 32 Copynumber: 5.1 Consensus size: 30
2954878 CTTTTTTTTT
*
2954888 AAAA-AGGTGCCACTAACTTGTGTCGGCTTTG
1 AAAAGAGGTGCCACTGACTTGTG--GGCTTTG
* * *
2954919 AAAAGAGTTGCCACCGACTCGTGTAGGCTTTG
1 AAAAGAGGTGCCACTGACT--TGTGGGCTTTG
* * *
2954951 AAAAGAGTTACCACTGGCTCGTGTGGGCTTTG
1 AAAAGAGGTGCCACTGACT--TGTGGGCTTTG
*
2954983 AAAAGA-GTGCCCCTGACTTGTGGGCTTTG
1 AAAAGAGGTGCCACTGACTTGTGGGCTTTG
2955012 -AAAG-GGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGGTGCCACTGACTTGTGGGCTTTG
2955040 AAA
1 AAA
2955043 TTGTTAGGAT
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
28 26 0.25
29 13 0.12
31 12 0.11
32 52 0.49
34 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (30 bp):
AAAAGAGGTGCCACTGACTTGTGGGCTTTG
Done.