Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 65
Found at i:4962155 original size:20 final size:20
Alignment explanation
Indices: 4962130--4962189 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
4962120 ATTTTTTAGC
4962130 ATCGGTATTATTCATACAGT
1 ATCGGTATTATTCATACAGT
4962150 ATCGGTATTATTCATACAGT
1 ATCGGTATTATTCATACAGT
* *
4962170 AT-AGTATTATTCGTACAGT
1 ATCGGTATTATTCATACAGT
4962189 A
1 A
4962190 CTATTCATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 16 0.42
20 22 0.58
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (20 bp):
ATCGGTATTATTCATACAGT
Found at i:4962695 original size:126 final size:126
Alignment explanation
Indices: 4962469--4962983 Score: 796
Period size: 126 Copynumber: 4.1 Consensus size: 126
4962459 AAACCAAAAT
* *
4962469 CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACTTGACTAGATCTCCTCATTA
1 CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACCAGATCTCCTCATTA
* * *
4962534 TATAGGAGTTGTGTCAACTCAGATAACTAGTCGTCCTCATCACGTAGGAACCGTGTTATCA
66 TGTAGGAGTCGTGTCAACTCAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCA
* *
4962595 CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGCCATCACTTGACCAGATCTCCTCATTA
1 CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACCAGATCTCCTCATTA
* * * *
4962660 TGTATGAGTTGTGTCAACTCAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTCTCA
66 TGTAGGAGTCGTGTCAACTCAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCA
* *
4962721 CCCTTAGATGGCCAAGACTCATGAACAGTTGAGTAGTGTCATCACCTGACCAGATCTCCTCATTA
1 CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACCAGATCTCCTCATTA
* * *
4962786 TGTAGGAGTCGTGTCAACTCAAATAATCAGTCGTCCTCATCATGTAGGAACCGTGTTATCA
66 TGTAGGAGTCGTGTCAACTCAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCA
* * * **
4962847 CCCTTAGATGTCCAAGACTCATGAACAGATGAGCAGCGTCATCACCTGACCAGATCTCTTCATCG
1 CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACCAGATCTCCTCATTA
* * * *
4962912 CGTAGGAGCCGTGTCAACCCAGATAACCAGTCGTCCTCATCACGTAGGAACTGTGTTATCA
66 TGTAGGAGTCGTGTCAACTCAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCA
*
4962973 CCTTTAGATGG
1 CCCTTAGATGG
4962984 TTAGAACTCT
Statistics
Matches: 355, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 355 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (126 bp):
CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACCTGACCAGATCTCCTCATTA
TGTAGGAGTCGTGTCAACTCAGATAACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCA
Found at i:4963179 original size:134 final size:128
Alignment explanation
Indices: 4962545--4963181 Score: 359
Period size: 126 Copynumber: 5.0 Consensus size: 128
4962535 ATAGGAGTTG
* * * * * * *
4962545 TGTCAACTCAGATAACTAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCCTTAGATGGCCAA
1 TGTCAACCCAGATAACCAGCCGTCCTCATCACGTAAGAACCGAGTTATCAACTTTAGATGG-CAA
* * * * * * * * * * * * ***
4962610 G-ACTCATGAACA-G-ATGAGCAGTGCCATCACTTGACCAGATCTCCTCATTATGTATGAGTTG
65 GAACTCTTCATCACGTATGAACAGTGTCATCCCCTGACCATATCTCTTCATCACGTAGGAGCAA
* * * * * *
4962671 TGTCAACTCAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTCTCACCCTTAGATGGCCAA
1 TGTCAACCCAGATAACCAGCCGTCCTCATCACGTAAGAACCGAGTTATCAACTTTAGATGG-CAA
* * * ** * * * * * *
4962736 G-ACTCATGAACA-GT-TGAGTAGTGTCATCACCTGACCAGATCTCCTCATTATGTAGGAGTC-G
65 GAACTCTTCATCACGTATGAACAGTGTCATCCCCTGACCATATCTCTTCATCACGTAGGAG-CAA
* * * * * * * * * *
4962797 TGTCAACTCAAATAATCAGTCGTCCTCATCATGTAGGAACCGTGTTATCACCCTTAGATGTCCAA
1 TGTCAACCCAGATAACCAGCCGTCCTCATCACGTAAGAACCGAGTTATCAACTTTAGATG-GCAA
* * * * * * * * **
4962862 G-ACTCATGAACA-G-ATGAGCAGCGTCATCACCTGACCAGATCTCTTCATCGCGTAGGAGCCG
65 GAACTCTTCATCACGTATGAACAGTGTCATCCCCTGACCATATCTCTTCATCACGTAGGAGCAA
* * * * * **
4962923 TGTCAACCCAGATAACCAGTCGTCCTCATCACGTAGGAACTGTGTTATCACCTTTAGATGGTTAG
1 TGTCAACCCAGATAACCAGCCGTCCTCATCACGTAAGAACCGAGTTATCAACTTTAGATGGCAAG
* * * * * *
4962988 AACTCTTCATCACGTATGAGTC-GTGTCAT-CACTCAACC-TGGTCTCCTT-GTCATGTAGGCA-
66 AACTCTTCATCACGTATGA-ACAGTGTCATCCCCT-GACCAT-ATCT-CTTCATCACGTAGG-AG
4963048 CAA
126 CAA
** *
4963051 TGTCAACCTTTGATAACCAGCCGTCCTCATCGCGTAAGAACCGAGTTATCAACTTCCTAAAGATG
1 TGTCAACC-CAGATAACCAGCCGTCCTCATCACGTAAGAACCGAGTTATCAACTT--T--AGATG
4963116 GCCAAGAACTCTTCATCACGTATGAACAGTGTCATCCCCTGACCATATCTCTTCATCACGTAGGA
61 G-CAAGAACTCTTCATCACGTATGAACAGTGTCATCCCCTGACCATATCTCTTCATCACGTAGGA
4963181 G
125 G
4963182 TCGTGTCAAC
Statistics
Matches: 427, Mismatches: 60, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
125 3 0.01
126 288 0.67
127 3 0.01
128 32 0.07
129 43 0.10
131 1 0.00
133 11 0.03
134 42 0.10
135 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (128 bp):
TGTCAACCCAGATAACCAGCCGTCCTCATCACGTAAGAACCGAGTTATCAACTTTAGATGGCAAG
AACTCTTCATCACGTATGAACAGTGTCATCCCCTGACCATATCTCTTCATCACGTAGGAGCAA
Found at i:4963617 original size:23 final size:23
Alignment explanation
Indices: 4963573--4963616 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4963563 AAATGAAATA
4963573 AAGCAAAAGGAAGAAAGAAAAAC
1 AAGCAAAAGGAAGAAAGAAAAAC
4963596 AAGCAAGAA-GAA-AAAGAAAAA
1 AAGCAA-AAGGAAGAAAGAAAAA
4963617 AGTGGACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 9 0.45
24 2 0.10
ACGTcount: A:0.73, C:0.07, G:0.20, T:0.00
Consensus pattern (23 bp):
AAGCAAAAGGAAGAAAGAAAAAC
Found at i:4970035 original size:29 final size:28
Alignment explanation
Indices: 4969959--4970046 Score: 135
Period size: 26 Copynumber: 3.2 Consensus size: 28
4969949 GCACAACTAA
4969959 TATTTAAACACCAAACAATTCATTACTT
1 TATTTAAACACCAAACAATTCATTACTT
*
4969987 TATTT--GCACCAAACAATTCATTACTT
1 TATTTAAACACCAAACAATTCATTACTT
*
4970013 ATATTTAAACACCAAAAAATTCATTACTT
1 -TATTTAAACACCAAACAATTCATTACTT
4970042 TATTT
1 TATTT
4970047 TTCTGCCATT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
26 20 0.37
27 5 0.09
28 10 0.19
29 19 0.35
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.39
Consensus pattern (28 bp):
TATTTAAACACCAAACAATTCATTACTT
Found at i:4971057 original size:2 final size:2
Alignment explanation
Indices: 4971015--4971046 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4971005 AAAAGGAAAC
4971015 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4971047 TACTAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4971813 original size:7 final size:7
Alignment explanation
Indices: 4971801--4971844 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
4971791 TCTTGTAATG
4971801 AACCCTA
1 AACCCTA
4971808 AACCCTA
1 AACCCTA
*
4971815 AATCCTA
1 AACCCTA
* *
4971822 AATCATA
1 AACCCTA
*
4971829 AACCATA
1 AACCCTA
4971836 AACCCTA
1 AACCCTA
4971843 AA
1 AA
4971845 TTATATTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (7 bp):
AACCCTA
Found at i:4971832 original size:21 final size:21
Alignment explanation
Indices: 4971806--4971845 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4971796 TAATGAACCC
* *
4971806 TAAACCCTAAATCCTAAATCA
1 TAAACCATAAACCCTAAATCA
4971827 TAAACCATAAACCCTAAAT
1 TAAACCATAAACCCTAAAT
4971846 TATATTTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCATAAACCCTAAATCA
Found at i:4971912 original size:7 final size:7
Alignment explanation
Indices: 4971900--4971942 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
4971890 TTTGTAATAG
4971900 ACCCTAA
1 ACCCTAA
4971907 ACCCTAA
1 ACCCTAA
*
4971914 ACCATAA
1 ACCCTAA
**
4971921 ACTATAA
1 ACCCTAA
4971928 ACCCTAA
1 ACCCTAA
*
4971935 AACCTAA
1 ACCCTAA
4971942 A
1 A
4971943 TCCGATTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:4972119 original size:7 final size:7
Alignment explanation
Indices: 4972104--4972149 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
4972094 GTCTTTATAA
4972104 TAAACCC
1 TAAACCC
*
4972111 TAAATCC
1 TAAACCC
* *
4972118 TACACCA
1 TAAACCC
*
4972125 TAAGCCC
1 TAAACCC
4972132 TAAACCC
1 TAAACCC
4972139 TAAACCC
1 TAAACCC
4972146 TAAA
1 TAAA
4972150 TCCGATTATG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:4972165 original size:207 final size:207
Alignment explanation
Indices: 4971811--4972231 Score: 662
Period size: 207 Copynumber: 2.0 Consensus size: 207
4971801 AACCCTAAAC
* * *
4971811 CCTAAATCCTAAATCATAAACCATAAACCCTAAATTATATTTACCTCATAAATCAATACAAAATC
1 CCTAAATCATAAACCATAAACCATAAACCCTAAATTATACTTACCTCATAAATCAATACAAAATC
* * *
4971876 GATTAATTAATGTCTTTGTAATAGACCCTAAACCCTAAACCATAAACTATAAACCCTAAAACCTA
66 GATTAATTAATGTCTTTATAATAAACCCTAAACCCTAAACCATAAACCATAAACCCTAAAACCTA
*
4971941 AATCCGATTATGTGATAGAGGTTAAGTTATGCATATGAAGGTAACATACAAATTATGCAAAATGA
131 AATCCGATTATGTGATAGAGGTTAAGTTATGCACATGAAGGTAACATACAAATTATGCAAAATGA
4972006 TGTTATGTGACT
196 TGTTATGTGACT
* * * * *
4972018 CCTAAATCATAAACCATAAACCATAAACCCTAAATTGTACTTACCTCATAAATTAGTACCAAGTC
1 CCTAAATCATAAACCATAAACCATAAACCCTAAATTATACTTACCTCATAAATCAATACAAAATC
* * * * * *
4972083 GGTTAATTAATGTCTTTATAATAAACCCTAAATCCTACACCATAAGCCCTAAACCCTAAACCCTA
66 GATTAATTAATGTCTTTATAATAAACCCTAAACCCTAAACCATAAACCATAAACCCTAAAACCTA
* *
4972148 AATCCGATTATGTGATAGAGGTTAAGTTATGCACATGAATGTAATATACAAATTATGCAAAATGA
131 AATCCGATTATGTGATAGAGGTTAAGTTATGCACATGAAGGTAACATACAAATTATGCAAAATGA
4972213 TGTTATGTGACT
196 TGTTATGTGACT
4972225 CCTAAAT
1 CCTAAAT
4972232 AAATCAATCG
Statistics
Matches: 194, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
207 194 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (207 bp):
CCTAAATCATAAACCATAAACCATAAACCCTAAATTATACTTACCTCATAAATCAATACAAAATC
GATTAATTAATGTCTTTATAATAAACCCTAAACCCTAAACCATAAACCATAAACCCTAAAACCTA
AATCCGATTATGTGATAGAGGTTAAGTTATGCACATGAAGGTAACATACAAATTATGCAAAATGA
TGTTATGTGACT
Found at i:4974254 original size:23 final size:23
Alignment explanation
Indices: 4974195--4974256 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
4974185 CCCGTCTTTG
* * *
4974195 AGCTTCAAACGAGCTTAAAGTCA
1 AGCTTCAATCGAGCTCAAAATCA
*
4974218 AGCTTGAATCGAGCTCAAAATCA
1 AGCTTCAATCGAGCTCAAAATCA
*
4974241 AGCTTCAATTGAGCTC
1 AGCTTCAATCGAGCTC
4974257 GAGTCTCGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (23 bp):
AGCTTCAATCGAGCTCAAAATCA
Found at i:4975737 original size:34 final size:34
Alignment explanation
Indices: 4975699--4975768 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
4975689 GATGGTAACA
4975699 CATGTCACCATTAGATTAAATGTTTTTTATAATT
1 CATGTCACCATTAGATTAAATGTTTTTTATAATT
**
4975733 CATGTGTCCATTAGATTAAATGTTTTTTATAATT
1 CATGTCACCATTAGATTAAATGTTTTTTATAATT
4975767 CA
1 CA
4975769 AAATTATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.47
Consensus pattern (34 bp):
CATGTCACCATTAGATTAAATGTTTTTTATAATT
Found at i:4976385 original size:54 final size:55
Alignment explanation
Indices: 4976296--4976404 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 55
4976286 TAATTAACAA
* * *
4976296 GTTCGAGTCCCTCTGGCACCTTTGTTCCCTTTGTATTTGTTATTTGA-TTTCCTT
1 GTTCGAGTCCCTCTGGCACCTTTGCTCCATCTGTATTTGTTATTTGATTTTCCTT
4976350 GTTCGAGTCCC-CGTGGCACCTTTGCTCCATCTGTATTTGTTATTTGATTTTCCTT
1 GTTCGAGTCCCTC-TGGCACCTTTGCTCCATCTGTATTTGTTATTTGATTTTCCTT
4976405 TAACTAGATG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
53 1 0.02
54 42 0.84
55 7 0.14
ACGTcount: A:0.10, C:0.25, G:0.17, T:0.48
Consensus pattern (55 bp):
GTTCGAGTCCCTCTGGCACCTTTGCTCCATCTGTATTTGTTATTTGATTTTCCTT
Found at i:4977292 original size:308 final size:308
Alignment explanation
Indices: 4976734--4977317 Score: 911
Period size: 308 Copynumber: 1.9 Consensus size: 308
4976724 TTTTTTTACA
* * *
4976734 TCCATTATTAGAATTCTTTCCTTAGATATGTGTTCACATTGGATATGGAAAGATTCTTCCATAAT
1 TCCATTAGTAGAATTCTTTCCTTAGATAAGTGTTCACACTGGATATGGAAAGATTCTTCCATAAT
* * * * *
4976799 CCTCCTTGATATAACATTGTCCCCTTCCATATTTGTCAAGCTCATGTGAACATCTTTAAATATGA
66 CCTCCTTGATATAACATCGTCCCATGCCATATTTGCCAAGCTCATGTGAACATCTTCAAATATGA
* * *
4976864 TGTCACTTTCCTTTTTTGCACAGCCAGTGTGAACGGGCTCCATAACATTCTACAAGTGATGAGCC
131 TGTCACGTTCCTTTTTTGCACAGCCAATGTGAACGGGCTCCACAACATTCTACAAGTGATGAGCC
** * * *
4976929 AAGTCTGGTGGTCTTGGCAAGCCCGATACTCTATCTTGAACCTCTTTTTCGGACACTTGTACCAA
196 AAGTCTAATGGTCTTGGCAAGCCCGATACTCCATCTTGAACCTCTTTGTCGGACACTAGTACCAA
4976994 TGTCCCGAGCCCAACTTCGCAACCCATGACATTCTCCCCCACCAAACC
261 TGTCCCGAGCCCAACTTCGCAACCCATGACATTCTCCCCCACCAAACC
*
4977042 TCCATTAGTAGAATT-TGTTCCTT-GTATAAGTGTTCACACTGGATATGGAAAGATTCTTCTATA
1 TCCATTAGTAGAATTCT-TTCCTTAG-ATAAGTGTTCACACTGGATATGGAAAGATTCTTCCATA
* * *
4977105 ATCCTTCTTGATATAACATCGTCTCATGCCATATTTGCCAAGCTCATGTGAACATCTTCGAATAT
64 ATCCTCCTTGATATAACATCGTCCCATGCCATATTTGCCAAGCTCATGTGAACATCTTCAAATAT
* * *
4977170 GATGTCACGTTCCTTTTTTGCACTGCCAATGTGAACGGGCTCCACAACATTCTCCAAGTGATGGG
129 GATGTCACGTTCCTTTTTTGCACAGCCAATGTGAACGGGCTCCACAACATTCTACAAGTGATGAG
* *
4977235 CCAAGTCTAATGGTCTTGGCAAGCCTGATACTCCATCTTGAACCTCTTTGTCGGACACTAGTACT
194 CCAAGTCTAATGGTCTTGGCAAGCCCGATACTCCATCTTGAACCTCTTTGTCGGACACTAGTACC
4977300 AATGTCCCGAGCCCAACT
259 AATGTCCCGAGCCCAACT
4977318 CTGTGACCCT
Statistics
Matches: 249, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
307 2 0.01
308 247 0.99
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (308 bp):
TCCATTAGTAGAATTCTTTCCTTAGATAAGTGTTCACACTGGATATGGAAAGATTCTTCCATAAT
CCTCCTTGATATAACATCGTCCCATGCCATATTTGCCAAGCTCATGTGAACATCTTCAAATATGA
TGTCACGTTCCTTTTTTGCACAGCCAATGTGAACGGGCTCCACAACATTCTACAAGTGATGAGCC
AAGTCTAATGGTCTTGGCAAGCCCGATACTCCATCTTGAACCTCTTTGTCGGACACTAGTACCAA
TGTCCCGAGCCCAACTTCGCAACCCATGACATTCTCCCCCACCAAACC
Found at i:4980324 original size:20 final size:22
Alignment explanation
Indices: 4980276--4980330 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
4980266 CTATATATAT
4980276 TTTTAAATTATTTCACCTTAGGA
1 TTTTAAATTATTTCACCTTA-GA
*
4980299 -TTTAAATTATTT-ACTTTA-A
1 TTTTAAATTATTTCACCTTAGA
4980318 TTTTAAATTATTT
1 TTTTAAATTATTT
4980331 TAAATTTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.03
20 12 0.40
21 5 0.17
22 12 0.40
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTAAATTATTTCACCTTAGA
Found at i:4983199 original size:5 final size:5
Alignment explanation
Indices: 4983189--4983320 Score: 264
Period size: 5 Copynumber: 26.4 Consensus size: 5
4983179 TATTTTGTTG
4983189 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
4983239 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
4983289 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
4983321 TGTTTTAAAT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 127 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:4983719 original size:27 final size:24
Alignment explanation
Indices: 4983687--4983737 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
4983677 GTTTATTTAT
4983687 TTTAAAAAATAAGAAAATTATTTTAAA
1 TTTAAAAAAT-A-AAAA-TATTTTAAA
*
4983714 TTTAAAATATAAAAATATTTTAAA
1 TTTAAAAAATAAAAATATTTTAAA
4983738 AAATATTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 4 0.17
26 1 0.04
27 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
TTTAAAAAATAAAAATATTTTAAA
Found at i:4983863 original size:16 final size:16
Alignment explanation
Indices: 4983842--4983894 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
4983832 AAAAATAAAA
4983842 AATATATATTCAATAT
1 AATATATATTCAATAT
*
4983858 AATATATATT-ATACAT
1 AATATATATTCA-ATAT
4983874 AATATATA--C-ATAT
1 AATATATATTCAATAT
4983887 AATATATA
1 AATATATA
4983895 AACGCACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 11 0.33
15 1 0.03
16 21 0.64
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATATATTCAATAT
Found at i:4983883 original size:11 final size:12
Alignment explanation
Indices: 4983854--4983894 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
4983844 TATATATTCA
4983854 ATATA-ATATAT
1 ATATACATATAT
4983865 ATTATACATA-AT
1 A-TATACATATAT
4983877 ATATACATATAAT
1 ATATACATAT-AT
4983890 ATATA
1 ATATA
4983895 AACGCACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.35
12 7 0.27
13 10 0.38
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATACATATAT
Found at i:4985140 original size:16 final size:17
Alignment explanation
Indices: 4985119--4985166 Score: 73
Period size: 16 Copynumber: 2.9 Consensus size: 17
4985109 TATAACGATT
4985119 GATAAAAT-AATAAAAA
1 GATAAAATAAATAAAAA
4985135 GATAAAATAAATAAAAA
1 GATAAAATAAATAAAAA
*
4985152 -ATAAAAAAAATAAAA
1 GATAAAATAAATAAAA
4985167 GGTGTCGACC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 22 0.73
17 8 0.27
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (17 bp):
GATAAAATAAATAAAAA
Found at i:4985160 original size:8 final size:8
Alignment explanation
Indices: 4985120--4985166 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
4985110 ATAACGATTG
*
4985120 ATAAAATA
1 ATAAAAAA
*
4985128 ATAAAAAG
1 ATAAAAAA
4985136 ATAAAATAA
1 ATAAAA-AA
4985145 AT-AAAAA
1 ATAAAAAA
4985152 ATAAAAAAA
1 AT-AAAAAA
4985161 ATAAAA
1 ATAAAA
4985167 GGTGTCGACC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 4 0.12
8 19 0.58
9 10 0.30
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (8 bp):
ATAAAAAA
Found at i:4990478 original size:52 final size:52
Alignment explanation
Indices: 4990400--4990498 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
4990390 GGTAAAGTAC
* * *
4990400 TGATTAAGTGTTGTTTTGTTGAGATTATTAAAAGTTATAAAATGATTATTGA
1 TGATTAAGTGTTGTTTTGTAGAGATTATTAAAAATTACAAAATGATTATTGA
4990452 TGATTAAGTGTTGTTTTGTAGAGATTATTAAAAATTACAAAATGATT
1 TGATTAAGTGTTGTTTTGTAGAGATTATTAAAAATTACAAAATGATT
4990499 TATGATTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.44
Consensus pattern (52 bp):
TGATTAAGTGTTGTTTTGTAGAGATTATTAAAAATTACAAAATGATTATTGA
Found at i:4992495 original size:14 final size:14
Alignment explanation
Indices: 4992476--4992505 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4992466 GTGTATTTTT
4992476 TTAACTTTTTTATA
1 TTAACTTTTTTATA
4992490 TTAACTTTTTTATA
1 TTAACTTTTTTATA
4992504 TT
1 TT
4992506 TATATCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAACTTTTTTATA
Found at i:4995672 original size:2 final size:2
Alignment explanation
Indices: 4995665--4995742 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
4995655 TTTATATGCA
4995665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4995707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4995743 GATTAAACTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4996451 original size:29 final size:30
Alignment explanation
Indices: 4996392--4996463 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
4996382 ATTTATTTAA
*
4996392 AAAAAATAAAAATTATTTTAAATTTTAAAT
1 AAAAAATAAAAATTATTTTAAATATTAAAT
* *
4996422 AAAAAATATAAAA-T-TTTTATATATTCAAT
1 AAAAAATA-AAAATTATTTTAAATATTAAAT
4996451 AAATTAAATAAAA
1 AAA--AAATAAAA
4996464 TTAAAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 15 0.42
30 12 0.33
31 9 0.25
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAAAATAAAAATTATTTTAAATATTAAAT
Found at i:5005632 original size:20 final size:20
Alignment explanation
Indices: 5005607--5005644 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5005597 AAATTTTTTT
*
5005607 TAAAAAATTATAAATAAATA
1 TAAAAAATCATAAATAAATA
5005627 TAAAAAATCATAAATAAA
1 TAAAAAATCATAAATAAA
5005645 GTCAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAAAATCATAAATAAATA
Found at i:5005885 original size:40 final size:39
Alignment explanation
Indices: 5005830--5005960 Score: 114
Period size: 40 Copynumber: 3.4 Consensus size: 39
5005820 TCTTAAGACT
*
5005830 CAAACCATAATATTAAGTCCAGAATAATAAAATTCATAAA
1 CAAACCACAATATTAAGT-CAGAATAATAAAATTCATAAA
* * *
5005870 CAAACCACAATATT-A---A-AAT-TTCAAATCTCA-AGACT
1 CAAACCACAATATTAAGTCAGAATAATAAAAT-TCATA-A-A
* *
5005905 CAAACCAGAATATTAAGTCTAGAACAATAAAATTCATAAA
1 CAAACCACAATATTAAGTC-AGAATAATAAAATTCATAAA
5005945 CAAACCACAATATTAA
1 CAAACCACAATATTAA
5005961 AATGTCAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 22
0.69 0.10 0.22
Matches are distributed among these distances:
33 6 0.09
34 7 0.10
35 14 0.20
36 1 0.01
39 1 0.01
40 29 0.41
41 6 0.09
42 6 0.09
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.24
Consensus pattern (39 bp):
CAAACCACAATATTAAGTCAGAATAATAAAATTCATAAA
Found at i:5005939 original size:75 final size:75
Alignment explanation
Indices: 5005816--5006070 Score: 366
Period size: 75 Copynumber: 3.4 Consensus size: 75
5005806 AAACCATAAA
* * * *
5005816 CAAATCTTAAGACTCAAACCATAATATTAAGTCCAGAATAATAAAATTCATAAACAAACCACAAT
1 CAAATCTCAAGACTCAAACCACAATATTAAGTCTAGAACAATAAAATTCATAAACAAACCACAAT
*
5005881 ATTAAAATTT
66 ATTAAAATAT
*
5005891 CAAATCTCAAGACTCAAACCAGAATATTAAGTCTAGAACAATAAAATTCATAAACAAACCACAAT
1 CAAATCTCAAGACTCAAACCACAATATTAAGTCTAGAACAATAAAATTCATAAACAAACCACAAT
*
5005956 ATTAAAATGT
66 ATTAAAATAT
* * * * ** *
5005966 CAAATCTCAATATTCAAACCACAATATTAACTCTAGAACAATAAAATTTATAAACAAATTATAAT
1 CAAATCTCAAGACTCAAACCACAATATTAAGTCTAGAACAATAAAATTCATAAACAAACCACAAT
*
5006031 ATTAAAGTAT
66 ATTAAAATAT
*
5006041 CAAATCTCAAGATTCAAACCACAATATTAA
1 CAAATCTCAAGACTCAAACCACAATATTAA
5006071 CACCACAACT
Statistics
Matches: 164, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 164 1.00
ACGTcount: A:0.52, C:0.18, G:0.04, T:0.26
Consensus pattern (75 bp):
CAAATCTCAAGACTCAAACCACAATATTAAGTCTAGAACAATAAAATTCATAAACAAACCACAAT
ATTAAAATAT
Found at i:5008707 original size:22 final size:22
Alignment explanation
Indices: 5008681--5008722 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5008671 GAGAATAAAA
* *
5008681 CTAGGGATTTGTGTTAAAATTC
1 CTAGGAATTTGTGTAAAAATTC
5008703 CTAGGAATTTGTGTAAAAAT
1 CTAGGAATTTGTGTAAAAAT
5008723 AGGCTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.38
Consensus pattern (22 bp):
CTAGGAATTTGTGTAAAAATTC
Found at i:5009186 original size:20 final size:20
Alignment explanation
Indices: 5009149--5009187 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5009139 TTTCCACCAC
**
5009149 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATAATCCTAA
*
5009169 ATGCATCTATATAATCCTA
1 ATGCAACTATATAATCCTA
5009188 TATGAGCTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATAATCCTAA
Found at i:5018254 original size:15 final size:15
Alignment explanation
Indices: 5018234--5018273 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
5018224 AGAACATATT
5018234 AATGCAGATTAAAGA
1 AATGCAGATTAAAGA
**
5018249 AATGCAGATCGAAGA
1 AATGCAGATTAAAGA
*
5018264 AATACAGATT
1 AATGCAGATT
5018274 TTGGGAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (15 bp):
AATGCAGATTAAAGA
Found at i:5019967 original size:24 final size:24
Alignment explanation
Indices: 5019940--5019995 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
5019930 GTTTATTATC
*
5019940 ATTATTTTAAAACATATTATACTA
1 ATTATTTTAAAAAATATTATACTA
*
5019964 ATTATTTGAAAAAATATTATACTA
1 ATTATTTTAAAAAATATTATACTA
5019988 ATTATTTT
1 ATTATTTT
5019996 CAATTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTATTTTAAAAAATATTATACTA
Found at i:5023329 original size:35 final size:34
Alignment explanation
Indices: 5023244--5023330 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
5023234 ATTTGATTTT
*
5023244 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
5023278 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
5023316 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
5023331 ACTAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:5023450 original size:45 final size:49
Alignment explanation
Indices: 5023360--5023450 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
5023350 AAGTCCAACA
* * *
5023360 AATTTAACAAAATAAAGTAAGTATTAAATGATAAATAATAAAAAATTAT
1 AATTAAACAAAATAAAGTAAATATCAAATGATAAATAATAAAAAATTAT
5023409 AATTAAACAAAATAAAGTAAATA-CAAAT-AT-AATAA-AAAAAAT
1 AATTAAACAAAATAAAGTAAATATCAAATGATAAATAATAAAAAAT
5023451 CTATCGATGC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
45 7 0.18
46 5 0.13
47 2 0.05
48 4 0.10
49 21 0.54
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.26
Consensus pattern (49 bp):
AATTAAACAAAATAAAGTAAATATCAAATGATAAATAATAAAAAATTAT
Found at i:5023563 original size:21 final size:21
Alignment explanation
Indices: 5023546--5023585 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
5023536 TCCTCGTTGT
5023546 CATCGTCGTCGTCGTCGTCAC
1 CATCGTCGTCGTCGTCGTCAC
5023567 CATCGTCGTCGTCGTCGTC
1 CATCGTCGTCGTCGTCGTC
5023586 CTGAGCAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.38, G:0.25, T:0.30
Consensus pattern (21 bp):
CATCGTCGTCGTCGTCGTCAC
Found at i:5025580 original size:111 final size:111
Alignment explanation
Indices: 5025443--5025664 Score: 399
Period size: 111 Copynumber: 2.0 Consensus size: 111
5025433 ATTACAAAAA
* *
5025443 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
* *
5025508 AATTAAAATGTTAAAATGTTACCGTATCAGCAAAGTGTTGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
*
5025554 TTAATTCTTAATCTAATAATCATGCATTAATTAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
5025619 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
5025665 ATGATTTCCA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:5026005 original size:50 final size:50
Alignment explanation
Indices: 5025951--5026076 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 50
5025941 AGATATCCAG
* * * *
5025951 GTATAGCGCGGATCATGGGGCGCGCTATACCCACGTGGCGCCAGATCACC
1 GTATAGCGCGGAGCAGGGGGCACGCTATACCCACGTGGCGCCAAATCACC
* * *
5026001 GTATATCGCGGGGCAGGGGGCACGCTATACCCACGTGGCGCCAAATCAGC
1 GTATAGCGCGGAGCAGGGGGCACGCTATACCCACGTGGCGCCAAATCACC
* **
5026051 ATATAGCGCGGTCCAGGGGGCACGCT
1 GTATAGCGCGGAGCAGGGGGCACGCT
5026077 TTCCTGCTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.21, C:0.30, G:0.34, T:0.15
Consensus pattern (50 bp):
GTATAGCGCGGAGCAGGGGGCACGCTATACCCACGTGGCGCCAAATCACC
Found at i:5026267 original size:14 final size:14
Alignment explanation
Indices: 5026250--5026276 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5026240 TTAATTTTTT
5026250 AAAAAAAATATTTA
1 AAAAAAAATATTTA
5026264 AAAAAAAATATTT
1 AAAAAAAATATTT
5026277 TGAACTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAAAAATATTTA
Found at i:5026926 original size:29 final size:31
Alignment explanation
Indices: 5026843--5026926 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 31
5026833 TAGATTCAAA
*
5026843 TATCAAATTGATATTTTATATAAAGTTTAGG
1 TATCAAATTGATATTTTATATAAAGTTTAAG
* *
5026874 TGTTAAATT-ATTATTTTA-AGTAAA-TTTAAG
1 TATCAAATTGA-TATTTTATA-TAAAGTTTAAG
* *
5026904 -ATCAAATTGCTATTTTATCTAAA
1 TATCAAATTGATATTTTATATAAA
5026927 ATTCAGGGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
29 17 0.40
30 7 0.17
31 18 0.43
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (31 bp):
TATCAAATTGATATTTTATATAAAGTTTAAG
Found at i:5027821 original size:31 final size:33
Alignment explanation
Indices: 5027773--5027851 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
5027763 TTTAAATAGT
* *
5027773 TATTATATTTTATATT-AAT-ATATTTATGTAAA
1 TATTAT-TTTTTTATTAAATAATATTTATATAAA
*
5027805 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATT-AAATAATATTTATATAAA
*
5027839 TATTATTTATTTA
1 TATTATTTTTTTA
5027852 GAATTATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 8 0.20
32 6 0.15
33 3 0.08
34 23 0.57
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (33 bp):
TATTATTTTTTTATTAAATAATATTTATATAAA
Found at i:5027843 original size:34 final size:31
Alignment explanation
Indices: 5027763--5027851 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 31
5027753 TTAGTATTTT
* * *
5027763 TTTAAATAGTTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTTTTATTAATATA
* *
5027795 TTTATGTAAATATTATTTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTTATT--AAT-ATA
*
5027829 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTTTTTTA
5027852 GAATTATTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 8 0.17
32 12 0.26
33 3 0.07
34 23 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:5030247 original size:34 final size:34
Alignment explanation
Indices: 5030197--5030294 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
5030187 AAATGTTTTT
* *
5030197 AAAATACAAATTATATTATTCCAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
5030231 AAAATAAAAATAATATTATTCGAAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
5030265 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
5030295 CATTAAATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:5030994 original size:128 final size:128
Alignment explanation
Indices: 5030697--5031424 Score: 1247
Period size: 128 Copynumber: 5.7 Consensus size: 128
5030687 ACAATCCATC
5030697 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
5030762 GGAAGGCGCGTCCCCGGGAACGCGCCTTCAAG-----T--GAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* * *
5030818 TAGTATCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGATAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
5030883 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
5030946 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* *
5031011 GGAAGGCGCGCCCCCAGGAATGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
*
5031074 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTATCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * *
5031139 GGAAGGCGCCCCCCCGGGAACGAGCCTTCAAGTCCCCTAATAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
5031202 TAGTGTCCCCGAGGGACATGAGTGACTTAATAAGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
5031267 GGAAGGCGAGCCCCCGGGAACGCACCTTTAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
5031330 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
5031395 GGAAGGCGCGCCCCCGGGAACGTC-CCTTCA
66 GGAAGGCGCGCCCCCGGGAACG-CGCCTTCA
5031425 TGTGAATAGT
Statistics
Matches: 569, Mismatches: 30, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
121 93 0.16
126 1 0.00
128 474 0.83
129 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:5031518 original size:8 final size:8
Alignment explanation
Indices: 5031505--5031545 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
5031495 TCACAAGCTT
5031505 TCAAATTC
1 TCAAATTC
5031513 TCAAATTC
1 TCAAATTC
* *
5031521 CCAAACTC
1 TCAAATTC
5031529 T-AAATTC
1 TCAAATTC
5031536 TCAAATTC
1 TCAAATTC
5031544 TC
1 TC
5031546 TGAAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:5036233 original size:17 final size:18
Alignment explanation
Indices: 5036206--5036239 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5036196 TGAGGAAAAG
*
5036206 GGAATAAGAGAATGAAAT
1 GGAATAAGAGAAAGAAAT
5036224 GGAA-AAGAGAAAGAAA
1 GGAATAAGAGAAAGAAA
5036240 AGAAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.09
Consensus pattern (18 bp):
GGAATAAGAGAAAGAAAT
Found at i:5036516 original size:51 final size:51
Alignment explanation
Indices: 5036354--5036490 Score: 247
Period size: 51 Copynumber: 2.7 Consensus size: 51
5036344 ACCCTTTGCA
*
5036354 GTAAGGCACGCCCCCTGCAGCGCGCTTTACGCTGATATGGCGTCACGTGGG
1 GTAAGGCGCGCCCCCTGCAGCGCGCTTTACGCTGATATGGCGTCACGTGGG
5036405 GTAAGGCGCGCCCCCTGCAGCGCGCTTTACGCTGATATGGCGTCACGTGGG
1 GTAAGGCGCGCCCCCTGCAGCGCGCTTTACGCTGATATGGCGTCACGTGGG
* *
5036456 GTAAGGCGCGCCCCCTGTAGCGCGCTTTATGCTGA
1 GTAAGGCGCGCCCCCTGCAGCGCGCTTTACGCTGA
5036491 GTTGGGATAC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 83 1.00
ACGTcount: A:0.15, C:0.31, G:0.34, T:0.20
Consensus pattern (51 bp):
GTAAGGCGCGCCCCCTGCAGCGCGCTTTACGCTGATATGGCGTCACGTGGG
Found at i:5040229 original size:35 final size:34
Alignment explanation
Indices: 5040144--5040230 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
5040134 AATATAATTT
*
5040144 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
*
5040178 TAAAT-CATAAACAAATTACAATAACTGATATTAAATGG
1 TAAATACA-ACA-AAATTACAATAA--G-TATTAAATGG
5040216 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
5040231 ACTAAAAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
33 2 0.05
34 7 0.16
35 17 0.39
36 2 0.05
37 5 0.11
38 11 0.25
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:5040263 original size:34 final size:33
Alignment explanation
Indices: 5040225--5040308 Score: 84
Period size: 34 Copynumber: 2.5 Consensus size: 33
5040215 GTAATAAACA
5040225 AAATTAACTAAAA-AACATTAACAA-AAAGTCCAA-C
1 AAATTAAC-AAAATAA-ATTAA-AATAAA-TCCAACC
5040259 AAATTTAACAAAATAAATTAAAATAAATCCAACC
1 AAA-TTAACAAAATAAATTAAAATAAATCCAACC
**
5040293 AAATTAATGAAATAAA
1 AAATTAACAAAATAAA
5040309 GTAAGTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
33 18 0.41
34 19 0.43
35 7 0.16
ACGTcount: A:0.63, C:0.13, G:0.02, T:0.21
Consensus pattern (33 bp):
AAATTAACAAAATAAATTAAAATAAATCCAACC
Found at i:5042578 original size:17 final size:18
Alignment explanation
Indices: 5042549--5042596 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
5042539 GCAAAAAAAA
*
5042549 TTAATTAAA-TAAAATA-
1 TTAAATAAATTAAAATAC
*
5042565 TTAAA-AAATTTAAATAC
1 TTAAATAAATTAAAATAC
5042582 TTAAATAAATTAAAA
1 TTAAATAAATTAAAA
5042597 GAAAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 10 0.38
17 5 0.19
18 8 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATAAATTAAAATAC
Found at i:5042610 original size:22 final size:23
Alignment explanation
Indices: 5042576--5042618 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
5042566 TAAAAAATTT
5042576 AAATACTTAAATA-AATTAAAAGA
1 AAATACTTAAATATAA-TAAAAGA
5042599 AAATA-TTAAATATAATAAAA
1 AAATACTTAAATATAATAAAA
5042619 TATATCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATACTTAAATATAATAAAAGA
Found at i:5055704 original size:3 final size:3
Alignment explanation
Indices: 5055696--5055728 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
5055686 TCCAGATTTC
5055696 TCT TCT TCT TCT TCT TCT TCT TCTT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TC
5055729 CCCGTGAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:5056407 original size:64 final size:64
Alignment explanation
Indices: 5056252--5056388 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 64
5056242 TTCAAGGTGT
* * * ***
5056252 ATCGATGCACATGAAGTGCATCGATGCACTCTTTTTAAATACAAACATCGAATACCATCGATGC
1 ATCGATGCATAAGGAGTGCATCGATGCACTCCCCTTAAATACAAACATCGAATACCATCGATGC
* ** **
5056316 ATCGATGCATAAGGAGTGCATCGATGCAC-CCCCTTAAATATAAACATCGAATAGGATTTATGC
1 ATCGATGCATAAGGAGTGCATCGATGCACTCCCCTTAAATACAAACATCGAATACCATCGATGC
5056379 ATCGATGCAT
1 ATCGATGCAT
5056389 GGTGTGGTGC
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
63 36 0.58
64 26 0.42
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (64 bp):
ATCGATGCATAAGGAGTGCATCGATGCACTCCCCTTAAATACAAACATCGAATACCATCGATGC
Found at i:5056682 original size:25 final size:25
Alignment explanation
Indices: 5056627--5056686 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
5056617 ATAAGTCTAG
*
5056627 ATTCAATATTTTGATACATGATCGCA
1 ATTC-ATATTATGATACATGATCGCA
* *
5056653 TTTCATATTATGATACATGATATG-A
1 ATTCATATTATGATACATGAT-CGCA
5056678 ATTCATATT
1 ATTCATATT
5056687 TTATGCATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (25 bp):
ATTCATATTATGATACATGATCGCA
Found at i:5056780 original size:31 final size:30
Alignment explanation
Indices: 5056731--5056790 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
5056721 TTATATAAGC
*
5056731 TATGTGATAAGGTGATGGAACATGATATGTT
1 TATGTGATAAGATGATGGAA-ATGATATGTT
*
5056762 TATGTGATAAAGAT-ATGGAAATTATATGT
1 TATGTGAT-AAGATGATGGAAATGATATGT
5056791 CTATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 14 0.54
32 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
TATGTGATAAGATGATGGAAATGATATGTT
Found at i:5057065 original size:23 final size:23
Alignment explanation
Indices: 5057012--5057068 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
5057002 CAATCTTATA
*
5057012 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
5057035 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
5057058 TGGCACTTCGG
1 TGGCACTTCGG
5057069 GGCGTTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:5057080 original size:23 final size:23
Alignment explanation
Indices: 5057012--5057080 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
5057002 CAATCTTATA
* * *
5057012 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGGGCAATTATACG
* *
5057035 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGGGCAATTATACG
**
5057058 TGGCACTTCGGGGCGTTTATACG
1 TGGCACTTCGGGGCAATTATACG
5057081 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.17, C:0.25, G:0.29, T:0.29
Consensus pattern (23 bp):
TGGCACTTCGGGGCAATTATACG
Found at i:5063624 original size:31 final size:30
Alignment explanation
Indices: 5063575--5063634 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
5063565 TTATATATGC
*
5063575 TATGTGATAAGGTGATGGAACATGATATGTT
1 TATGTGATAAGATGATGGAA-ATGATATGTT
*
5063606 TATGTGATAAAGAT-ATGGAAATTATATGT
1 TATGTGAT-AAGATGATGGAAATGATATGT
5063635 CTATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 14 0.54
32 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
TATGTGATAAGATGATGGAAATGATATGTT
Found at i:5063909 original size:23 final size:23
Alignment explanation
Indices: 5063855--5063915 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
5063845 ACAATCTTAT
*
5063855 ATGGCACTACGGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
*
5063878 ATGGCACTTCGGTGTAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
* *
5063901 GTGGCACTTCAGTGC
1 ATGGCACTTCGGTGC
5063916 GTTTATACGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:5065940 original size:2 final size:2
Alignment explanation
Indices: 5065933--5065964 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5065923 ATTCTTCAAT
5065933 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5065965 AAACACGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5066656 original size:55 final size:55
Alignment explanation
Indices: 5066559--5067363 Score: 986
Period size: 55 Copynumber: 14.8 Consensus size: 55
5066549 CGATACGGTC
* * * * * *
5066559 ATTCACAAACTCATTGTGAATTACGT-AGGTTGCACACATAGTGCCAATATGAAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * *
5066613 ATTCATAAACTTACTATGAATTTGGTGGGGTTGCACACATAGTGCCAATA-TAGAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGA-AA
* *
5066668 ATTCATAAACTCATTACGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * * *
5066723 ATTCATACACTTATTATGAATTTCGTGGGGTTGCACGCATAGTGCAAATACGGAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * *
5066778 ATTCATAAACTTATTATAAATTTTGTGGGGTTGCACACATAGTGCCAATACGGAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * ** * * *
5066833 ATTCATAAACTTTTTATAAATTTCGTGGTATTGTAAACATAGTGCCAATATGAAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * *
5066888 ATTCATAAACTAATTATGAATTTTGTGGGGTTG----CATAGTGACAATAC-ATAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGA-AA
* *
5066939 ATTCATAAACTTATTATGAATTGCGTGGGGTTGCACACATAGTGCTAATAC-ATAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGA-AA
* * *
5066994 ATTCATCAACTTAATATGAATTTCGTGGGGTTGCACACATAGTACCAATAC-AAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* ** * * *
5067048 ATTTATAAACTTATTATGAATTTTAT-GGTTTGCGCACATAGTGCCAATACAAAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * * * * *
5067102 ATTCATAAACTTATTATGAATTTCATGGTGTTGGACATATAGTTCCAATA-TATAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGA-AA
* *
5067157 ATTCATAAACTTATTATGAATTTTGTGGGGTTGCACACATAGTGCCAATACAAAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
*
5067212 ATTCATAAACTTATTATGAATTTTGTGGGGTTGCACACATAGTGCCAATACGAAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* ** *
5067267 ATTCATAAACTTATTATGAATTTCGTAGGGTTGCACACATAGTAACAATA-TAGAA
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGA-AA
* * *
5067322 ATTCATAAACTTATTATGAATTTCTTGGGGTTGTAAACATAG
1 ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAG
5067364 CAATACATAC
Statistics
Matches: 654, Mismatches: 84, Indels: 25
0.86 0.11 0.03
Matches are distributed among these distances:
50 1 0.00
51 44 0.07
53 21 0.03
54 73 0.11
55 513 0.78
56 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (55 bp):
ATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
Found at i:5071245 original size:55 final size:55
Alignment explanation
Indices: 5071165--5071763 Score: 763
Period size: 55 Copynumber: 10.9 Consensus size: 55
5071155 ATTAAGTAGG
* * * *
5071165 TGCACACATAGTGCCAATTCGGAAATTCATAAACTCATTATGAATTTTGTGGGGT
1 TGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCGTGGGGT
* * * * *
5071220 TGCACACATAGTACCAATACAGAAATTTATAAACTCATTTTGAATTTCATGGGGT
1 TGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCGTGGGGT
* * * *
5071275 TGGACATATAGTGCCAATACGGAAATTAATAAACTTATTATGAATTTCGTGGGGT
1 TGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCGTGGGGT
* * * *
5071330 TGCACGCATAGTGCCAATAAAGAAATTCATCAACTTAATATGAATTTCGTGGGGT
1 TGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCGTGGGGT
* * * *
5071385 TGCATAGATAGTGCCAATA-TGAAAATTCATAAACTTATTATGAATTTCGTGGTGT
1 TGCACACATAGTGCCAATACAG-AAATTCATAAACTTATTATGAATTTCGTGGGGT
* * *
5071440 TGCACACATAGTGCCAATAC-GTAAAATTCACAAACTTATAATGAATTTCGTGGTGT
1 TGCACACATAGTGCCAATACAG--AAATTCATAAACTTATTATGAATTTCGTGGGGT
* * * *
5071496 TCCACACATAGTTCCAATACAGTAATTCATAAACTTATTATGAATTTTGTGGGGT
1 TGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCGTGGGGT
* * * * * * *
5071551 TGCACACATAATGTCAATACAGAAATTCATAAACTCAATATGAATTTTGCGAGGT
1 TGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCGTGGGGT
*
5071606 TGCACACATAGTGCCAATA-GGAAAATTCATAAACTTATTATGAATTTCGTGGGGT
1 TGCACACATAGTGCCAATACAG-AAATTCATAAACTTATTATGAATTTCGTGGGGT
* * *
5071661 TGCACACATAGTGCTAATACAAAAATTCATAATCTTATTATGAATTTCGTGGGGT
1 TGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCGTGGGGT
* **
5071716 TGCACACACAGTTACAATACAGAAATTCATAAACTTATTATGAATTTC
1 TGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTC
5071764 TTAGGTTGTA
Statistics
Matches: 470, Mismatches: 68, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
54 2 0.00
55 417 0.89
56 50 0.11
57 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (55 bp):
TGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCGTGGGGT
Found at i:5073846 original size:16 final size:16
Alignment explanation
Indices: 5073825--5073855 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5073815 CAGGAAGGGT
5073825 TTTGCATTTATTAATG
1 TTTGCATTTATTAATG
5073841 TTTGCATTTATTAAT
1 TTTGCATTTATTAAT
5073856 ACAATTGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (16 bp):
TTTGCATTTATTAATG
Found at i:5082781 original size:22 final size:23
Alignment explanation
Indices: 5082756--5082821 Score: 89
Period size: 22 Copynumber: 2.7 Consensus size: 23
5082746 ATTAATGCAG
5082756 AAGTTTTGAAAAATGTTTGAT-A
1 AAGTTTTGAAAAATGTTTGATGA
5082778 AAGTTTTGAAAAATGTTTGATGA
1 AAGTTTTGAAAAATGTTTGATGA
5082801 AAGAATTTTGGAAAAAATGTT
1 AAG--TTTT-G-AAAAATGTT
5082822 ACCCCTTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
22 21 0.54
23 4 0.10
25 4 0.10
26 1 0.03
27 9 0.23
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (23 bp):
AAGTTTTGAAAAATGTTTGATGA
Found at i:5082796 original size:11 final size:11
Alignment explanation
Indices: 5082760--5082797 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
5082750 ATGCAGAAGT
5082760 TTTGAAAAATG
1 TTTGAAAAATG
*
5082771 TTTGATAAA-G
1 TTTGAAAAATG
5082781 TTTTGAAAAATG
1 -TTTGAAAAATG
5082793 TTTGA
1 TTTGA
5082798 TGAAAGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 1 0.04
11 21 0.91
12 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (11 bp):
TTTGAAAAATG
Found at i:5088536 original size:20 final size:19
Alignment explanation
Indices: 5088498--5088542 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
5088488 GGGCTTGCAA
* *
5088498 AATAAAATGTAATTATATT
1 AATAAAATATAAATATATT
5088517 AATAATAATATAAATATATT
1 AATAA-AATATAAATATATT
5088537 ATATAA
1 A-ATAA
5088543 CTATAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AATAAAATATAAATATATT
Found at i:5091617 original size:30 final size:29
Alignment explanation
Indices: 5091578--5091651 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 29
5091568 AAAATAATTA
5091578 AAATTTTAAAAATATTAATAATTATTTAT
1 AAATTTTAAAAATATTAATAATTATTTAT
*
5091607 AAATTATTAAAAATATTAATAATTATTTTT
1 AAATT-TTAAAAATATTAATAATTATTTAT
5091637 AAATTTTTAAAAATA
1 AAA-TTTTAAAAATA
5091652 AAAATTATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
29 5 0.12
30 35 0.83
31 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AAATTTTAAAAATATTAATAATTATTTAT
Found at i:5094154 original size:23 final size:24
Alignment explanation
Indices: 5094109--5094155 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
5094099 CTTGAGAGCA
*
5094109 TACCCAAGAAAGATTCTCGGGGCC
1 TACCCAAGAAAGATTCTCAGGGCC
5094133 TACCCAAGAAAGA-TCTCAGGGCC
1 TACCCAAGAAAGATTCTCAGGGCC
5094156 ACAGAGCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (24 bp):
TACCCAAGAAAGATTCTCAGGGCC
Found at i:5095963 original size:23 final size:23
Alignment explanation
Indices: 5095928--5095993 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
5095918 CGAGGGTTCC
* *
5095928 ATGTAGTCATTCGGGATAAAACT
1 ATGTGGTCATTCGGGACAAAACT
* *
5095951 ATGTGGTCCTTCGGGACAAACCT
1 ATGTGGTCATTCGGGACAAAACT
5095974 ATGTGGTCATTCGGGACAAA
1 ATGTGGTCATTCGGGACAAA
5095994 TATGTGACAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (23 bp):
ATGTGGTCATTCGGGACAAAACT
Found at i:5101253 original size:21 final size:20
Alignment explanation
Indices: 5101229--5101299 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
5101219 GGATGAACAA
5101229 TATCGATACTAAT-TGAAGAAG
1 TATCGATACTAATGTGAAG--G
* *
5101250 TATCGATATTGATGTGAAGG
1 TATCGATACTAATGTGAAGG
* *
5101270 TATCGATACCAAGGAT-AAGG
1 TATCGATACTAATG-TGAAGG
5101290 TATCGATACT
1 TATCGATACT
5101300 GTAAGTAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
20 24 0.59
21 12 0.29
22 5 0.12
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (20 bp):
TATCGATACTAATGTGAAGG
Found at i:5102126 original size:23 final size:23
Alignment explanation
Indices: 5102096--5102186 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
5102086 GTCGAGGGTT
* *
5102096 CTATGTGGTCTTTCTGGACAAAC
1 CTATGTGGTCCTTCAGGACAAAC
*
5102119 CTATGTGGTCCATCAGGACAAAC
1 CTATGTGGTCCTTCAGGACAAAC
*
5102142 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCAGGACAAAC
5102165 CTATGTGGTCCTTC-GAGACAAA
1 CTATGTGGTCCTTCAG-GACAAA
5102187 TATATGGCAC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 1 0.02
23 61 0.98
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (23 bp):
CTATGTGGTCCTTCAGGACAAAC
Found at i:5104551 original size:21 final size:21
Alignment explanation
Indices: 5104527--5104574 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
5104517 ATTGATCAAA
5104527 ATCGACGAAAAATATGATGCG
1 ATCGACGAAAAATATGATGCG
**
5104548 ATCGGGTTGAAAAATATGATGCG
1 ATC--GACGAAAAATATGATGCG
5104571 ATCG
1 ATCG
5104575 GGTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 4 0.17
23 19 0.83
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (21 bp):
ATCGACGAAAAATATGATGCG
Found at i:5104559 original size:23 final size:23
Alignment explanation
Indices: 5104533--5104589 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
5104523 CAAAATCGAC
5104533 GAAAAATATGATGCGATCGGGTT
1 GAAAAATATGATGCGATCGGGTT
5104556 GAAAAATATGATGCGATCGGGTT
1 GAAAAATATGATGCGATCGGGTT
* *
5104579 AAAAAAGATGA
1 GAAAAATATGA
5104590 AGTTTCACGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.23
Consensus pattern (23 bp):
GAAAAATATGATGCGATCGGGTT
Found at i:5106472 original size:66 final size:66
Alignment explanation
Indices: 5106352--5106481 Score: 179
Period size: 66 Copynumber: 2.0 Consensus size: 66
5106342 TTACGTCATA
* * *
5106352 AGGAATTACCAGTCGGTGCTCAACCTATTCAAGGAATTACCAACAACAACTGAACCTGCCAGAGA
1 AGGAATTACCAATCGGTGCTCAACCTATACAAGGAATTACCAACAACAACTGAACATGCCAGAGA
5106417 T
66 T
* * * * * *
5106418 AGGAATTACCAATCGGTGTTGAACCTATACAAGGAATTACCAGCAGCTATTGAACATGCCAGAG
1 AGGAATTACCAATCGGTGCTCAACCTATACAAGGAATTACCAACAACAACTGAACATGCCAGAG
5106482 TCTTCAGTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (66 bp):
AGGAATTACCAATCGGTGCTCAACCTATACAAGGAATTACCAACAACAACTGAACATGCCAGAGA
T
Found at i:5107293 original size:44 final size:44
Alignment explanation
Indices: 5107234--5107326 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
5107224 GGGTATTAAA
* * *
5107234 TTATTTTCTTCGATTCAAACATATGCACCATTCTAGCAATTTAT
1 TTATCTTCTTCGATTCAAACATATACACCATTATAGCAATTTAT
* *
5107278 TTATCTTCTTTGATTCAAACATATACACTATTATAGCAATTTAT
1 TTATCTTCTTCGATTCAAACATATACACCATTATAGCAATTTAT
5107322 TTATC
1 TTATC
5107327 ATGTGGTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.45
Consensus pattern (44 bp):
TTATCTTCTTCGATTCAAACATATACACCATTATAGCAATTTAT
Found at i:5107530 original size:27 final size:27
Alignment explanation
Indices: 5107500--5107559 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
5107490 ATTCTTGTCT
5107500 TTTTACAACATAAGAGTATTTTCATAA
1 TTTTACAACATAAGAGTATTTTCATAA
** * **
5107527 TTTTACCCCATAAGGGTATTTTTGTAA
1 TTTTACAACATAAGAGTATTTTCATAA
5107554 TTTTAC
1 TTTTAC
5107560 CTAACCAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (27 bp):
TTTTACAACATAAGAGTATTTTCATAA
Found at i:5107560 original size:27 final size:27
Alignment explanation
Indices: 5107508--5107560 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
5107498 CTTTTTACAA
5107508 CATAAGAGTATTTTCATAATTTTACCC
1 CATAAGAGTATTTTCATAATTTTACCC
* **
5107535 CATAAGGGTATTTTTGTAATTTTACC
1 CATAAGAGTATTTTCATAATTTTACC
5107561 TAACCAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (27 bp):
CATAAGAGTATTTTCATAATTTTACCC
Found at i:5109469 original size:3 final size:3
Alignment explanation
Indices: 5109461--5109494 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
5109451 AACGGCGTTT
5109461 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
5109495 CAGTTTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:5109739 original size:23 final size:22
Alignment explanation
Indices: 5109678--5109746 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
5109668 AATAATTATG
5109678 TTTTTGTGATATGTTTATCTCT-
1 TTTTTGTGA-ATGTTTATCTCTA
* *
5109700 TGCTTTGTGGAACGTTTATCTCTA
1 T-TTTTGT-GAATGTTTATCTCTA
*
5109724 TTTTTGTGACATGTTTTTCTCTA
1 TTTTTGTGA-ATGTTTATCTCTA
5109747 CCTTTTGGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 3 0.08
23 32 0.84
24 3 0.08
ACGTcount: A:0.14, C:0.13, G:0.16, T:0.57
Consensus pattern (22 bp):
TTTTTGTGAATGTTTATCTCTA
Found at i:5114930 original size:19 final size:21
Alignment explanation
Indices: 5114908--5114959 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
5114898 TACCTTTCGA
*
5114908 TATTCTTTTGTTTT-C-TCTT
1 TATTCTTTTATTTTGCATCTT
*
5114927 TATTTTTTTATTTTGCATCTT
1 TATTCTTTTATTTTGCATCTT
5114948 TATTCTTTTATT
1 TATTCTTTTATT
5114960 GTTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 1 0.04
21 15 0.54
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.73
Consensus pattern (21 bp):
TATTCTTTTATTTTGCATCTT
Found at i:5115181 original size:80 final size:80
Alignment explanation
Indices: 5115043--5115212 Score: 304
Period size: 80 Copynumber: 2.1 Consensus size: 80
5115033 TTGTCTTAAG
* *
5115043 ATTGAATTTGATGTCACCATGATTGATCAAGATGATATTTATTTGTTATCTCGCTAATTTTTCCT
1 ATTGGATTTGATGTCACCATGATTGATCAAGATGATATTTATTTGTTATCCCGCTAATTTTTCCT
* *
5115108 GTTTTGGATACTCGA
66 ATTTTGGACACTCGA
5115123 ATTGGATTTGATGTCACCATGATTGATCAAGATGATATTTATTTGTTATCCCGCTAATTTTTCCT
1 ATTGGATTTGATGTCACCATGATTGATCAAGATGATATTTATTTGTTATCCCGCTAATTTTTCCT
5115188 ATTTTGGACACTCGA
66 ATTTTGGACACTCGA
5115203 ATTGGATTTG
1 ATTGGATTTG
5115213 GATACGCATT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 86 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (80 bp):
ATTGGATTTGATGTCACCATGATTGATCAAGATGATATTTATTTGTTATCCCGCTAATTTTTCCT
ATTTTGGACACTCGA
Found at i:5124854 original size:54 final size:54
Alignment explanation
Indices: 5124796--5124904 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
5124786 CACCTCCGTA
*
5124796 CTTTGGGATGATTGAGCACCTCTATACTTCAATCTAGGATATTGCAACTCTGTG
1 CTTTGGGATGATTGAGCACCTCTATACTTCAATCTAGGATATGGCAACTCTGTG
* * * * * *
5124850 CTTTGGGATGATTTAGTACCTCTGTGCTTCAATCTAGGATCTGGCACCTCTGTG
1 CTTTGGGATGATTGAGCACCTCTATACTTCAATCTAGGATATGGCAACTCTGTG
5124904 C
1 C
5124905 ATTAAATAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (54 bp):
CTTTGGGATGATTGAGCACCTCTATACTTCAATCTAGGATATGGCAACTCTGTG
Found at i:5124986 original size:28 final size:28
Alignment explanation
Indices: 5124893--5124988 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
5124883 CTAGGATCTG
*
5124893 GCACCTCTGTGCATTAAATAAATGATTGG
1 GCACCTCTGTGCATTAAA-AAATGATTGA
* ****
5124922 GCACCTCTGTGCATCAATCTTTGAATTGA
1 GCACCTCTGTGCATTAAAAAATG-ATTGA
5124951 -CACCTCTGTGCATTAAAAAATGATTGA
1 GCACCTCTGTGCATTAAAAAATGATTGA
*
5124978 GCACTTCTGTG
1 GCACCTCTGTG
5124989 TATCAATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
27 5 0.09
28 28 0.53
29 20 0.38
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (28 bp):
GCACCTCTGTGCATTAAAAAATGATTGA
Found at i:5125001 original size:56 final size:57
Alignment explanation
Indices: 5124857--5125022 Score: 190
Period size: 56 Copynumber: 2.9 Consensus size: 57
5124847 GTGCTTTGGG
* * * * ** * *
5124857 ATGATTTAGTACCTCTGTGCTTCAATCTAGGATCTGGCACCTCTGTGCATTAAATAA
1 ATGATTGAGCACCTCTGTGCATCAATATTTGAACTGACACCTCTGTGCATTAAATAA
* * *
5124914 ATGATTGGGCACCTCTGTGCATCAATCTTTGAATTGACACCTCTGTGCATTAAA-AA
1 ATGATTGAGCACCTCTGTGCATCAATATTTGAACTGACACCTCTGTGCATTAAATAA
* * * *
5124970 ATGATTGAGCACTTCTGTGTATCAATATTTGAACTGGCACCTCTATGCATTAA
1 ATGATTGAGCACCTCTGTGCATCAATATTTGAACTGACACCTCTGTGCATTAA
5125023 CCATACTATT
Statistics
Matches: 93, Mismatches: 16, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
56 48 0.52
57 45 0.48
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (57 bp):
ATGATTGAGCACCTCTGTGCATCAATATTTGAACTGACACCTCTGTGCATTAAATAA
Found at i:5137525 original size:30 final size:30
Alignment explanation
Indices: 5137472--5137530 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
5137462 ATTTTATTAA
** *
5137472 TATATGAATGCGTTCTATGTGAAAGTTCTT
1 TATATGAATGCGTTCTACATGAAAATTCTT
* *
5137502 TATATGAATGTGTTTTACATGAAAATTCT
1 TATATGAATGCGTTCTACATGAAAATTCT
5137531 ATGCGAAAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (30 bp):
TATATGAATGCGTTCTACATGAAAATTCTT
Found at i:5155001 original size:17 final size:19
Alignment explanation
Indices: 5154963--5155013 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 19
5154953 GGCTTGCAAA
5154963 AATAA-AATATAATTATATT
1 AATAATAATATAA-TATATT
5154982 AATAATAATATAA-ATA-T
1 AATAATAATATAATATATT
5154999 AATAATAATATAATA
1 AATAATAATATAATA
5155014 AAAAATGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 14 0.47
18 4 0.13
19 5 0.17
20 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATAATAATATAATATATT
Found at i:5155015 original size:20 final size:20
Alignment explanation
Indices: 5154963--5155008 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
5154953 GGCTTGCAAA
* *
5154963 AATAA-AATATAATTATATT
1 AATAATAATATAAATATAAT
5154982 AATAATAATATAAATATAAT
1 AATAATAATATAAATATAAT
5155002 AATAATA
1 AATAATA
5155009 TAATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAATAATATAAATATAAT
Found at i:5158096 original size:27 final size:28
Alignment explanation
Indices: 5158065--5158129 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 28
5158055 CAAAAATAAT
* * *
5158065 AAAATAAAAAAGTAATTA-AATTTTTTA
1 AAAATAAAAAACTAATTATAAATTATTA
* * *
5158092 AAAATTAATAACTATTTATAAATTATTA
1 AAAATAAAAAACTAATTATAAATTATTA
5158120 AAAATAAAAA
1 AAAATAAAAA
5158130 TTATAAAAAG
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATAAAAAACTAATTATAAATTATTA
Found at i:5159808 original size:23 final size:22
Alignment explanation
Indices: 5159743--5159808 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
5159733 TAAGAATAAT
5159743 TATGTTTTTGTGATATGTTTATC
1 TATGTTTTTGTGA-ATGTTTATC
* *
5159766 TCT-TTCTTTGTGGAACGTTTATC
1 TATGTT-TTTGT-GAATGTTTATC
5159789 TATGTTTTTGTGACATGTTT
1 TATGTTTTTGTGA-ATGTTT
5159809 TTCTCTACCT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
22 4 0.11
23 27 0.77
24 4 0.11
ACGTcount: A:0.15, C:0.09, G:0.18, T:0.58
Consensus pattern (22 bp):
TATGTTTTTGTGAATGTTTATC
Found at i:5161401 original size:14 final size:14
Alignment explanation
Indices: 5161384--5161410 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5161374 ATATTAAATA
5161384 ATAAATATAATTAT
1 ATAAATATAATTAT
5161398 ATAAATATAATTA
1 ATAAATATAATTA
5161411 AAAAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAATATAATTAT
Found at i:5164649 original size:11 final size:11
Alignment explanation
Indices: 5164635--5164669 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
5164625 TTACTTTTAT
5164635 AAAAAATAATG
1 AAAAAATAATG
5164646 AAAAAAT-AT-
1 AAAAAATAATG
5164655 AAAAAATAATG
1 AAAAAATAATG
5164666 AAAA
1 AAAA
5164670 TATATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.32
10 4 0.18
11 11 0.50
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (11 bp):
AAAAAATAATG
Found at i:5164657 original size:20 final size:20
Alignment explanation
Indices: 5164632--5164680 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
5164622 ATTTTACTTT
5164632 TATAAAAAATAATGAAAAAA
1 TATAAAAAATAATGAAAAAA
*
5164652 TATAAAAAATAATGAAAATA
1 TATAAAAAATAATGAAAAAA
5164672 TATAAAAAA
1 TATAAAAAA
5164681 AATAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (20 bp):
TATAAAAAATAATGAAAAAA
Found at i:5164658 original size:9 final size:9
Alignment explanation
Indices: 5164632--5164686 Score: 56
Period size: 9 Copynumber: 5.7 Consensus size: 9
5164622 ATTTTACTTT
5164632 TATAAAAAA
1 TATAAAAAA
5164641 TAATGAAAAAA
1 T-AT-AAAAAA
5164652 TATAAAAAA
1 TATAAAAAA
*
5164661 TAATGAAAATA
1 T-AT-AAAAAA
5164672 TATAAAAAA
1 TATAAAAAA
*
5164681 AATAAA
1 TATAAA
5164687 TTTATCCCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 18 0.46
10 8 0.21
11 13 0.33
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (9 bp):
TATAAAAAA
Found at i:5164680 original size:11 final size:11
Alignment explanation
Indices: 5164632--5164680 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
5164622 ATTTTACTTT
5164632 TATAAAAAATA
1 TATAAAAAATA
*
5164643 -ATGAAAAA-A
1 TATAAAAAATA
5164652 TATAAAAAATA
1 TATAAAAAATA
*
5164663 -AT-GAAAATA
1 TATAAAAAATA
5164672 TATAAAAAA
1 TATAAAAAA
5164681 AATAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
9 7 0.23
10 18 0.60
11 5 0.17
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (11 bp):
TATAAAAAATA
Found at i:5167156 original size:8 final size:7
Alignment explanation
Indices: 5167131--5167156 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5167121 TTCTTTTATT
5167131 TTTTTAA
1 TTTTTAA
5167138 TTTTTAA
1 TTTTTAA
5167145 TTTTTAA
1 TTTTTAA
5167152 TTTTT
1 TTTTT
5167157 GTTGTTTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:5170621 original size:30 final size:30
Alignment explanation
Indices: 5170587--5170845 Score: 149
Period size: 30 Copynumber: 8.8 Consensus size: 30
5170577 CCATAATGGG
* * *
5170587 AAAATAGAAAATTAAAGGACCAAAATAGTA
1 AAAATAGAAATTTAAAGGACTAAAATAGCA
* ** *
5170617 AAAATGGAAACATAAGGGACTAAAATAG-A
1 AAAATAGAAATTTAAAGGACTAAAATAGCA
* * * * *
5170646 AAAAAATAAACTTAAGGGGCTAAAATAGCA
1 AAAATAGAAATTTAAAGGACTAAAATAGCA
* * *
5170676 AAAATAGACATTTAGAGGACTAAAATGGCA
1 AAAATAGAAATTTAAAGGACTAAAATAGCA
* * **
5170706 AAAATCATAAATTTAAGGGACTAAAATAAAA
1 AAAAT-AGAAATTTAAAGGACTAAAATAGCA
* *
5170737 AAAATA-AACATTTAAAAGACTAATATAG--
1 AAAATAGAA-ATTTAAAGGACTAAAATAGCA
* * *
5170765 TAAA-A-AAACTTAAGGGACT-AAAT--CA
1 AAAATAGAAATTTAAAGGACTAAAATAGCA
* * *
5170790 AAAATACATACATTTAAATGACTAAAATAGTA
1 AAAATAGA-A-ATTTAAAGGACTAAAATAGCA
** *
5170822 AAAATAGAAACCTAAGGGACTAAA
1 AAAATAGAAATTTAAAGGACTAAA
5170846 TAACAAATAA
Statistics
Matches: 173, Mismatches: 44, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
25 6 0.03
26 10 0.06
27 4 0.02
28 4 0.02
29 35 0.20
30 82 0.47
31 24 0.14
32 8 0.05
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.20
Consensus pattern (30 bp):
AAAATAGAAATTTAAAGGACTAAAATAGCA
Found at i:5170656 original size:29 final size:29
Alignment explanation
Indices: 5170624--5170747 Score: 117
Period size: 29 Copynumber: 4.2 Consensus size: 29
5170614 GTAAAAATGG
5170624 AAACATAAGGGACTAAAATAGAAAAAAAT
1 AAACATAAGGGACTAAAATAGAAAAAAAT
* * *
5170653 AAACTTAAGGGGCTAAAATAG-CAAAAAT
1 AAACATAAGGGACTAAAATAGAAAAAAAT
* * * *
5170681 AGACATTTAGAGGACTAAAATGGCAAAAATCAT
1 AAACA-TAAG-GGACTAAAATAG-AAAAA-AAT
**
5170714 AAATTTAAGGGACTAAAATA-AAAAAAAT
1 AAACATAAGGGACTAAAATAGAAAAAAAT
5170742 AAACAT
1 AAACAT
5170748 TTAAAAGACT
Statistics
Matches: 72, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
28 15 0.21
29 27 0.38
30 10 0.14
31 10 0.14
32 6 0.08
33 4 0.06
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.19
Consensus pattern (29 bp):
AAACATAAGGGACTAAAATAGAAAAAAAT
Found at i:5170740 original size:61 final size:59
Alignment explanation
Indices: 5170633--5170845 Score: 200
Period size: 61 Copynumber: 3.6 Consensus size: 59
5170623 GAAACATAAG
* ** * *
5170633 GGACTAAAATAGAAAAAAATAAACTTAAGGGGCTAAAATAGCAAAAATAGACATTTAGA
1 GGACTAAAATAGAAAAAAATAAACTTAAGGGACTAAAATAAAAAAAATAAACATTTAAA
* * *
5170692 GGACTAAAATGGCAAAAATCATAAATTTAAGGGACTAAAATAAAAAAAATAAACATTTAAA
1 GGACTAAAATAG-AAAAA-AATAAACTTAAGGGACTAAAATAAAAAAAATAAACATTTAAA
* * * * * * *
5170753 AGACTAATATAG--TAAAA-AAACTTAAGGGACT-AAATCAAAAATACATACATTTAAA
1 GGACTAAAATAGAAAAAAATAAACTTAAGGGACTAAAATAAAAAAAATAAACATTTAAA
* * * *
5170808 TGACTAAAATAGTAAAAATAGAAACCTAAGGGACTAAA
1 GGACTAAAATAG-AAAAAAATAAACTTAAGGGACTAAA
5170846 TAACAAATAA
Statistics
Matches: 124, Mismatches: 23, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
55 30 0.24
56 13 0.10
57 1 0.01
58 5 0.04
59 24 0.19
60 7 0.06
61 44 0.35
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.21
Consensus pattern (59 bp):
GGACTAAAATAGAAAAAAATAAACTTAAGGGACTAAAATAAAAAAAATAAACATTTAAA
Found at i:5170813 original size:55 final size:56
Alignment explanation
Indices: 5170718--5170825 Score: 155
Period size: 55 Copynumber: 1.9 Consensus size: 56
5170708 AATCATAAAT
* *
5170718 TTAAGGGACTAAAATAAAAAAAATAAACATTTAAAAGACTAATATAGTAAAAAAAC
1 TTAAGGGACTAAAATAAAAAAAACAAACATTTAAAAGACTAAAATAGTAAAAAAAC
* * * *
5170774 TTAAGGGACT-AAATCAAAAATACATACATTTAAATGACTAAAATAGTAAAAA
1 TTAAGGGACTAAAATAAAAAAAACAAACATTTAAAAGACTAAAATAGTAAAAA
5170826 TAGAAACCTA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 36 0.78
56 10 0.22
ACGTcount: A:0.59, C:0.08, G:0.09, T:0.23
Consensus pattern (56 bp):
TTAAGGGACTAAAATAAAAAAAACAAACATTTAAAAGACTAAAATAGTAAAAAAAC
Found at i:5172833 original size:30 final size:29
Alignment explanation
Indices: 5172791--5172867 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
5172781 TGTTTTAAGG
5172791 GAAA-TGATCTCAAAGATGGGTGTTTCAAAA
1 GAAACTGA-CTCAAAGAT-GGTGTTTCAAAA
** *
5172821 GAAACTGACTCAAAGACTTTTGTTTCAAGA
1 GAAACTGACTCAAAGA-TGGTGTTTCAAAA
**
5172851 GAAACAAACTCAAAGAT
1 GAAACTGACTCAAAGAT
5172868 TTTCCTTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 35 0.88
31 4 0.10
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (29 bp):
GAAACTGACTCAAAGATGGTGTTTCAAAA
Found at i:5172891 original size:29 final size:30
Alignment explanation
Indices: 5172814--5172892 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 30
5172804 AGATGGGTGT
**
5172814 TTCAAAAGAAACTGACTCAAAGACTTTTGT
1 TTCAAAAGAAACTGACTCAAAGACTTTTCC
* **
5172844 TTCAAGAGAAACAAACTCAAAGA-TTTTCC
1 TTCAAAAGAAACTGACTCAAAGACTTTTCC
* *
5172873 TTCAAAAGATACTGTCTCAA
1 TTCAAAAGAAACTGACTCAA
5172893 GAGAGACAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 19 0.49
30 20 0.51
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (30 bp):
TTCAAAAGAAACTGACTCAAAGACTTTTCC
Found at i:5172992 original size:64 final size:66
Alignment explanation
Indices: 5172838--5172997 Score: 227
Period size: 66 Copynumber: 2.5 Consensus size: 66
5172828 ACTCAAAGAC
* * *
5172838 TTTTGTTT-CAAGAGAAACAAACTCAAAGATTTTCCTTCAAAAGATACTGTCTCAAGAGAGACAA
1 TTTTGTTTCCAA-AGAAACAAACTCAAAGATTTTCCTACAAAAGAAACCGTCTCAAGAGAGACAA
5172902 AA
65 AA
* *
5172904 TTTTGTTTCCAAAGAAACATACTCAAAGATTTTTCTACAAAAGAAACCGTCTC-A-AGAGACAAA
1 TTTTGTTTCCAAAGAAACAAACTCAAAGATTTTCCTACAAAAGAAACCGTCTCAAGAGAGACAAA
5172967 A
66 A
* *
5172968 TTTTGTTTCCAAATAAACAGACTCAAAGAT
1 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
5172998 GGGTTATGTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
64 38 0.44
65 1 0.01
66 44 0.51
67 3 0.03
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (66 bp):
TTTTGTTTCCAAAGAAACAAACTCAAAGATTTTCCTACAAAAGAAACCGTCTCAAGAGAGACAAA
A
Found at i:5173054 original size:37 final size:38
Alignment explanation
Indices: 5173004--5173076 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
5172994 AGATGGGTTA
* *
5173004 TGTCTCAAGTGAGATGAA-A-TTTGTTTTGAGAGAAAAC
1 TGTCTCAAGTGAGA-CAACATTTTGTTTCGAGAGAAAAC
5173041 TGTCTCAAGTGAGACAACATTTTGTTTCGAGAGAAA
1 TGTCTCAAGTGAGACAACATTTTGTTTCGAGAGAAA
5173077 CAACATCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 2 0.06
37 15 0.47
38 15 0.47
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (38 bp):
TGTCTCAAGTGAGACAACATTTTGTTTCGAGAGAAAAC
Found at i:5173198 original size:32 final size:32
Alignment explanation
Indices: 5173157--5173219 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
5173147 TTCACATCAG
5173157 GATGTTGAATCCCCAAAGATGCCCCAACATTC
1 GATGTTGAATCCCCAAAGATGCCCCAACATTC
* *
5173189 GATGTTGAATCTCCAAAGATGCCCCATCATT
1 GATGTTGAATCCCCAAAGATGCCCCAACATT
5173220 AATCATTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (32 bp):
GATGTTGAATCCCCAAAGATGCCCCAACATTC
Found at i:5173396 original size:26 final size:23
Alignment explanation
Indices: 5173348--5173408 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 23
5173338 TTTTATTTTC
5173348 AAGAGTTTGAAAATGTTAATTAA
1 AAGAGTTTGAAAATGTTAATTAA
5173371 AAGAGTTTTGAAAAATGATTAATT-A
1 AAGAG-TTTG-AAAATG-TTAATTAA
5173396 AAGA-TTTGAAAAT
1 AAGAGTTTGAAAAT
5173409 ATTGCCCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.14
23 9 0.26
24 4 0.11
25 11 0.31
26 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.34
Consensus pattern (23 bp):
AAGAGTTTGAAAATGTTAATTAA
Found at i:5173398 original size:25 final size:24
Alignment explanation
Indices: 5173348--5173407 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 24
5173338 TTTTATTTTC
5173348 AAGAGTTTG-AAAATGTTAATTAA
1 AAGAGTTTGAAAAATGTTAATTAA
5173371 AAGAGTTTTGAAAAATGATTAATT-A
1 AAGAG-TTTGAAAAATG-TTAATTAA
5173396 AAGA-TTTGAAAA
1 AAGAGTTTGAAAA
5173408 TATTGCCCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 13 0.38
24 4 0.12
25 11 0.32
26 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (24 bp):
AAGAGTTTGAAAAATGTTAATTAA
Found at i:5174315 original size:23 final size:24
Alignment explanation
Indices: 5174268--5174318 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
5174258 TTCTTGTCCA
5174268 TTTTCTTTATTTATTTCCTCTTTG
1 TTTTCTTTATTTATTTCCTCTTTG
* *
5174292 TTTTCTTT-TTTCTTTGCTCTTTG
1 TTTTCTTTATTTATTTCCTCTTTG
5174315 TTTT
1 TTTT
5174319 TCCCTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.04, C:0.16, G:0.06, T:0.75
Consensus pattern (24 bp):
TTTTCTTTATTTATTTCCTCTTTG
Found at i:5177971 original size:30 final size:30
Alignment explanation
Indices: 5177931--5178019 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
5177921 AAGCATTTAT
* *
5177931 AATTACAAGGACCAGAATGGGAAAAATAGAA
1 AATTA-AAGGACCAAAATAGGAAAAATAGAA
*
5177962 AATTAAAGGACCAAAATAGTAAAAATAGAA
1 AATTAAAGGACCAAAATAGGAAAAATAGAA
* * *
5177992 ACTTAAAGGACTAAAATA-GCAAAATAGA
1 AATTAAAGGACCAAAATAGGAAAAATAGA
5178020 CATTTGAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 8 0.16
30 38 0.75
31 5 0.10
ACGTcount: A:0.58, C:0.09, G:0.17, T:0.16
Consensus pattern (30 bp):
AATTAAAGGACCAAAATAGGAAAAATAGAA
Found at i:5178044 original size:29 final size:30
Alignment explanation
Indices: 5177952--5178252 Score: 227
Period size: 30 Copynumber: 10.1 Consensus size: 30
5177942 CCAGAATGGG
* * *
5177952 AAAAATAGAAAATTAAAGGACCAAAATAGT
1 AAAAATAGAAACTTAAAGGACTAAAATAGC
5177982 AAAAATAGAAACTTAAAGGACTAAAATAGC
1 AAAAATAGAAACTTAAAGGACTAAAATAGC
* * * *
5178012 -AAAATAGACATTTGAATGACT-AAATAGC
1 AAAAATAGAAACTTAAAGGACTAAAATAGC
* * *
5178040 AAAAAATTAGAAACTTAAGGGAATAAAATAGA
1 -AAAAA-TAGAAACTTAAAGGACTAAAATAGC
* * * * *
5178072 AAAAAAAGACATTTAGAGGACTAAAATAAC
1 AAAAATAGAAACTTAAAGGACTAAAATAGC
* * * **
5178102 AAAAACAAAAACTTAAGGGACTAAAATAAT
1 AAAAATAGAAACTTAAAGGACTAAAATAGC
* ** *
5178132 AAAAACA-AATGTTTAAAGGACTAACATAGC
1 AAAAATAGAA-ACTTAAAGGACTAAAATAGC
* * * * *
5178162 AAAAACATAAATTTAAGGGACT-AAATA-A
1 AAAAATAGAAACTTAAAGGACTAAAATAGC
* *
5178190 AAAATATAGACATTTAAAGGACTAAAATAGC
1 AAAA-ATAGAAACTTAAAGGACTAAAATAGC
* *
5178221 AAAAATAGAAACCTAAGGGACT-AAATAGC
1 AAAAATAGAAACTTAAAGGACTAAAATAGC
5178250 AAA
1 AAA
5178253 TAAAAATGAT
Statistics
Matches: 214, Mismatches: 48, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
28 11 0.05
29 47 0.22
30 128 0.60
31 22 0.10
32 6 0.03
ACGTcount: A:0.59, C:0.09, G:0.13, T:0.19
Consensus pattern (30 bp):
AAAAATAGAAACTTAAAGGACTAAAATAGC
Found at i:5178247 original size:59 final size:59
Alignment explanation
Indices: 5177952--5178245 Score: 313
Period size: 60 Copynumber: 4.9 Consensus size: 59
5177942 CCAGAATGGG
* * * * * *
5177952 AAAAATAGAAAATTAAAGGACCAAAATAGTAAAAATAGAAACTTAAAGGACTAAAATAG
1 AAAAATAGACATTTAAAGGACTAAAATAGCAAAAATAGAAACTTAAGGGACTAAAATAA
* * * *
5178011 CAAAATAGACATTTGAATGACT-AAATAGCAAAAAATTAGAAACTTAAGGGAATAAAATAGA
1 AAAAATAGACATTTAAAGGACTAAAATAGC-AAAAA-TAGAAACTTAAGGGACTAAAATA-A
* * * * *
5178072 AAAAAAAGACATTTAGAGGACTAAAATAACAAAAACAAAAACTTAAGGGACTAAAATAA
1 AAAAATAGACATTTAAAGGACTAAAATAGCAAAAATAGAAACTTAAGGGACTAAAATAA
* * ** * * * *
5178131 TAAAAACAAATGTTTAAAGGACTAACATAGCAAAAACATAAATTTAAGGGACT-AAATAA
1 -AAAAATAGACATTTAAAGGACTAAAATAGCAAAAATAGAAACTTAAGGGACTAAAATAA
*
5178190 AAAATATAGACATTTAAAGGACTAAAATAGCAAAAATAGAAACCTAAGGGACTAAA
1 AAAA-ATAGACATTTAAAGGACTAAAATAGCAAAAATAGAAACTTAAGGGACTAAA
5178246 TAGCAAATAA
Statistics
Matches: 191, Mismatches: 37, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
58 10 0.05
59 67 0.35
60 86 0.45
61 22 0.12
62 6 0.03
ACGTcount: A:0.59, C:0.09, G:0.13, T:0.19
Consensus pattern (59 bp):
AAAAATAGACATTTAAAGGACTAAAATAGCAAAAATAGAAACTTAAGGGACTAAAATAA
Found at i:5181188 original size:3 final size:3
Alignment explanation
Indices: 5181180--5181235 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
5181170 GGGCTTTGTA
* * *
5181180 AAT AAT AAT AAT AAT AAT AAT -AT TAT AAT AAT -AT CAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5181226 -AT ATAT AAT A
1 AAT A-AT AAT A
5181236 GATACGTCAC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.13
3 36 0.80
4 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:5181424 original size:3 final size:3
Alignment explanation
Indices: 5181416--5181485 Score: 117
Period size: 3 Copynumber: 23.7 Consensus size: 3
5181406 TAAACAAAAT
5181416 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5181464 TAA TAA -ATA TAA T-A TAA TAA TA
1 TAA TAA TA-A TAA TAA TAA TAA TA
5181486 TTTTTGGTAG
Statistics
Matches: 64, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 3 0.05
3 60 0.94
4 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5184407 original size:35 final size:34
Alignment explanation
Indices: 5184332--5184407 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 34
5184322 AATACAGTCA
* *
5184332 TCAATTATATTCTAAACCATAATTCCAAAATGCT
1 TCAATTACATTCTAAACCATAATTCCAAAATACT
*
5184366 TTAATTACATTCTAAACC-TCAAATTCCAAAATACT
1 TCAATTACATTCTAAACCAT--AATTCCAAAATACT
5184401 TCAATTA
1 TCAATTA
5184408 TATGCCCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 1 0.03
34 16 0.44
35 19 0.53
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (34 bp):
TCAATTACATTCTAAACCATAATTCCAAAATACT
Found at i:5184424 original size:35 final size:35
Alignment explanation
Indices: 5184352--5184426 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
5184342 TCTAAACCAT
* * * * *
5184352 AATTCCAAAATGCTTTAATTACATTCTAAACCTCA
1 AATTCCAAAATACTTCAATTACATGCCAAACCCCA
* *
5184387 AATTCCAAAATACTTCAATTATATGCCCAACCCCA
1 AATTCCAAAATACTTCAATTACATGCCAAACCCCA
5184422 AATTC
1 AATTC
5184427 ATAATACATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.40, C:0.27, G:0.03, T:0.31
Consensus pattern (35 bp):
AATTCCAAAATACTTCAATTACATGCCAAACCCCA
Found at i:5184912 original size:35 final size:35
Alignment explanation
Indices: 5184863--5184960 Score: 124
Period size: 35 Copynumber: 2.8 Consensus size: 35
5184853 GCAACACAAT
* *
5184863 CATCAATTATATTCTAAACCCCAAATTCCAAAATG
1 CATCAATTACATTCTAAACCCCAAATTCCAAAATA
** *
5184898 TTTCAATTACATTCTAAACCTCAAATTCCAAAATA
1 CATCAATTACATTCTAAACCCCAAATTCCAAAATA
* **
5184933 CATCAATTACATGCCCAACCCCAAATTC
1 CATCAATTACATTCTAAACCCCAAATTC
5184961 ATAATCCATT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.29
Consensus pattern (35 bp):
CATCAATTACATTCTAAACCCCAAATTCCAAAATA
Found at i:5186392 original size:15 final size:15
Alignment explanation
Indices: 5186363--5186402 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
5186353 AAGAGTAAAG
5186363 ATAATAGAAAATAATA
1 ATAATA-AAAATAATA
5186379 A-AATAAAAATTAATA
1 ATAATAAAAA-TAATA
5186394 ATAATAAAA
1 ATAATAAAA
5186403 TGGTAGGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 10 0.45
16 8 0.36
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (15 bp):
ATAATAAAAATAATA
Found at i:5186451 original size:21 final size:19
Alignment explanation
Indices: 5186410--5186476 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
5186400 AAATGGTAGG
*
5186410 TAAAAACAAATAAATAAATAA
1 TAAAAA-AAATAAA-ATATAA
5186431 TAATAAAAAATAAAATCATAA
1 TAA-AAAAAATAAAAT-ATAA
** *
5186452 -AAAAGTAATAAAATACAA
1 TAAAAAAAATAAAATATAA
5186470 TAAAAAA
1 TAAAAAA
5186477 TAAATAAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
18 3 0.08
19 14 0.38
20 3 0.08
21 14 0.38
22 3 0.08
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (19 bp):
TAAAAAAAATAAAATATAA
Found at i:5186451 original size:29 final size:29
Alignment explanation
Indices: 5186417--5186484 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
5186407 AGGTAAAAAC
5186417 AAATAAATAAA-TAATAATAA-AAAATAAA
1 AAATAAATAAAGTAATAA-AATAAAATAAA
* *
5186445 ATCATAAA-AAAGTAATAAAATACAATAAA
1 A-AATAAATAAAGTAATAAAATAAAATAAA
5186474 AAATAAATAAA
1 AAATAAATAAA
5186485 CTAAAACCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 11 0.33
29 22 0.67
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (29 bp):
AAATAAATAAAGTAATAAAATAAAATAAA
Found at i:5186478 original size:12 final size:11
Alignment explanation
Indices: 5186417--5186484 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
5186407 AGGTAAAAAC
5186417 AAATAAATAAA
1 AAATAAATAAA
*
5186428 TAAT-AATAAA
1 AAATAAATAAA
*
5186438 AAATAAAATCATA
1 AAAT-AAAT-AAA
*
5186451 AAA-AAGTAATA
1 AAATAAATAA-A
5186462 AAATACAATAAA
1 AAATA-AATAAA
5186474 AAATAAATAAA
1 AAATAAATAAA
5186485 CTAAAACCGT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
10 10 0.22
11 16 0.36
12 10 0.22
13 9 0.20
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:5186482 original size:21 final size:20
Alignment explanation
Indices: 5186417--5186484 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 20
5186407 AGGTAAAAAC
*
5186417 AAATAAAT-AAAT-AATAAT
1 AAATAAATAAAATCAATAAA
5186435 AAA-AAATAAAATC-ATAAA
1 AAATAAATAAAATCAATAAA
5186453 AAAGT-AATAAAATACAATAAA
1 AAA-TAAATAAAAT-CAATAAA
5186474 AAATAAATAAA
1 AAATAAATAAA
5186485 CTAAAACCGT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
17 4 0.10
18 14 0.33
19 8 0.19
20 2 0.05
21 14 0.33
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (20 bp):
AAATAAATAAAATCAATAAA
Done.