Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 90 of 120
Found at i:11909339 original size:64 final size:59
Alignment explanation
Indices: 11909196--11909349 Score: 139
Period size: 64 Copynumber: 2.5 Consensus size: 59
11909186 CTAATTTGGG
* * * *
11909196 CTTGCATGCCAGCTAAACTAGGTTTAAA-TTAGGTGCTAGCTAAACTGGGTTTAAAACTT
1 CTTG-ATGCCAGCTAAACTGGGTTTAAATTTAGGTACTAGCCAAACTAGGTTTAAAACTT
* * **
11909255 CTTGATACTAGCTAATACTGGGTTTAAATTTAATTGGCTACTAGCCAAACTAGGTTTAAATTTT
1 CTTGATGCCAGCTAA-ACTGGGTTTAAATTT-A--GG-TACTAGCCAAACTAGGTTTAAAACTT
* **
11909319 TTTAGATGCCAGCTAAACTGGACTTAAATTT
1 CTT-GATGCCAGCTAAACTGGGTTTAAATTT
11909350 TCGTCGGTAC
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
58 9 0.12
59 15 0.20
60 2 0.03
61 1 0.01
63 2 0.03
64 36 0.48
65 10 0.13
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (59 bp):
CTTGATGCCAGCTAAACTGGGTTTAAATTTAGGTACTAGCCAAACTAGGTTTAAAACTT
Found at i:11909432 original size:33 final size:32
Alignment explanation
Indices: 11909388--11909657 Score: 172
Period size: 32 Copynumber: 8.4 Consensus size: 32
11909378 AAATCAGGGC
*
11909388 ATTGGGCTTAAATTTTCATTGACTGCTAGTTAA
1 ATTGGGCTTAAATTTTCATTGA-TGCTAGCTAA
* * * * *
11909421 ATTGGGTTTAAATTTTTATTGGTGCCAACTAA
1 ATTGGGCTTAAATTTTCATTGATGCTAGCTAA
* * * * *
11909453 ACTAGGCTTAAATTTTCATCGGTGCTAGAT-A
1 ATTGGGCTTAAATTTTCATTGATGCTAGCTAA
** *
11909484 ATCTGGATTTAAATTTTCATTGATG-TCAACTAA
1 AT-TGGGCTTAAATTTTCATTGATGCT-AGCTAA
* *
11909517 ATCGAGCTTAAATTTTCATTGGATGCTAGCTAA
1 ATTGGGCTTAAATTTTCATT-GATGCTAGCTAA
* * * * *
11909550 ACTGGGCTTAAA-TTTCTTTTGGTGCCAGATAA
1 ATTGGGCTTAAATTTTC-ATTGATGCTAGCTAA
* * *
11909582 TTTAGGCCTAAATTTTCATTGATGCTTA-CTAA
1 ATTGGGCTTAAATTTTCATTGATGC-TAGCTAA
* * * * *
11909614 ACTGGACTT-AATTTTCATGGGTGCTAGATAA
1 ATTGGGCTTAAATTTTCATTGATGCTAGCTAA
*
11909645 TATTGAGCTTAAA
1 -ATTGGGCTTAAA
11909658 ACCAGGCACT
Statistics
Matches: 173, Mismatches: 53, Indels: 22
0.70 0.21 0.09
Matches are distributed among these distances:
30 2 0.01
31 19 0.11
32 102 0.59
33 49 0.28
34 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (32 bp):
ATTGGGCTTAAATTTTCATTGATGCTAGCTAA
Found at i:11909657 original size:129 final size:129
Alignment explanation
Indices: 11909388--11909633 Score: 295
Period size: 129 Copynumber: 1.9 Consensus size: 129
11909378 AAATCAGGGC
* * * *
11909388 ATTGGGCTTAAATTTTCATTGACTGCTAGTTAAATTGGGTTTAAATTTTTATTGGTGCCAACTAA
1 ATTGAGCTTAAATTTTCATTGACTGCTAGCTAAACTGGGCTTAAATTTTTATTGGTGCCAACTAA
* * * * *
11909453 ACTAGGCTTAAATTTTCATCGGTGCTAGATAATCTGGATTTAAATTTTCATTGATGTCAACTAA
66 ACTAGGCCTAAATTTTCATCGATGCTAGATAAACTGGACTTAAATTTTCATGGATGTCAACTAA
*
11909517 ATCGAGCTTAAATTTTCATTGGA-TGCTAGCTAAACTGGGCTTAAATTTCTT-TTGGTGCCAGA-
1 ATTGAGCTTAAATTTTCATT-GACTGCTAGCTAAACTGGGCTTAAATTT-TTATTGGTGCCA-AC
** * *
11909579 TAATTTAGGCCTAAATTTTCATTGATGCTTA-CTAAACTGGACTT-AATTTTCATGG
63 TAAACTAGGCCTAAATTTTCATCGATGC-TAGATAAACTGGACTTAAATTTTCATGG
11909634 GTGCTAGATA
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
128 10 0.10
129 82 0.83
130 7 0.07
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.40
Consensus pattern (129 bp):
ATTGAGCTTAAATTTTCATTGACTGCTAGCTAAACTGGGCTTAAATTTTTATTGGTGCCAACTAA
ACTAGGCCTAAATTTTCATCGATGCTAGATAAACTGGACTTAAATTTTCATGGATGTCAACTAA
Found at i:11909768 original size:32 final size:32
Alignment explanation
Indices: 11909665--11909841 Score: 153
Period size: 32 Copynumber: 5.5 Consensus size: 32
11909655 AAAACCAGGC
* * * *
11909665 ACTGGGTTTAAATATTCATTGAGTGTTAGTTAA
1 ACTGGGTTTAAATTTTCATCGA-TGCTAGATAA
** * * * *
11909698 ACTAAGCTTAAATTTTTATTGGATGCTAGCTAA
1 ACTGGGTTTAAATTTTCA-TCGATGCTAGATAA
11909731 ACTGGGTTTAAATTTTCATCGATGCTAGATAA
1 ACTGGGTTTAAATTTTCATCGATGCTAGATAA
* * *
11909763 TCTGGGCTTAAATTTTTATCGATGCTA-ACTAA
1 ACTGGGTTTAAATTTTCATCGATGCTAGA-TAA
* *
11909795 ACTGGGTTT-AATTTTCATGGGTGCTAGATAA
1 ACTGGGTTTAAATTTTCATCGATGCTAGATAA
*
11909826 A-TGGGCTTAAAGTTTT
1 ACTGGGTTTAAA-TTTT
11909842 ATTGTATGCC
Statistics
Matches: 116, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
30 6 0.05
31 21 0.18
32 51 0.44
33 35 0.30
34 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (32 bp):
ACTGGGTTTAAATTTTCATCGATGCTAGATAA
Found at i:11909856 original size:63 final size:63
Alignment explanation
Indices: 11909703--11909885 Score: 224
Period size: 63 Copynumber: 2.9 Consensus size: 63
11909693 GTTAAACTAA
* *
11909703 GCTTAAATTTTTATTGGATGCTAGCTAAACTGGGTTTAAATTTTCATCGATGCTAGATAATCTGG
1 GCTTAAATTTTTATT-GATGCTAACTAAACTGGGTTT-AATTTTCATCGATGCTAGATAATATGG
* * *
11909768 GCTTAAATTTTTATCGATGCTAACTAAACTGGGTTTAATTTTCATGGGTGCTAGATAA-ATGG
1 GCTTAAATTTTTATTGATGCTAACTAAACTGGGTTTAATTTTCATCGATGCTAGATAATATGG
* * * * * *
11909830 GCTTAAAGTTTTATTGTATGCCAACTAAAATGAGCTTAATTTTCATTAGATGCTAG
1 GCTTAAATTTTTATTG-ATGCTAACTAAACTGGGTTTAATTTTCA-TCGATGCTAG
11909886 CTAGAGTAGG
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
62 17 0.17
63 44 0.43
64 28 0.27
65 14 0.14
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (63 bp):
GCTTAAATTTTTATTGATGCTAACTAAACTGGGTTTAATTTTCATCGATGCTAGATAATATGG
Found at i:11909967 original size:32 final size:32
Alignment explanation
Indices: 11909931--11910201 Score: 149
Period size: 32 Copynumber: 8.5 Consensus size: 32
11909921 AATAATCTGT
* *
11909931 GCTTAAATTTGCATTGGTGCTAGATTGTTTAG
1 GCTTAAATTTGCATTGGTGCTAGATTATTTGG
* *
11909963 GCTTAAATTTGCATTGGTGCCA-ACTTGTTTGG
1 GCTTAAATTTGCATTGGTGCTAGA-TTATTTGG
* * * * *
11909995 GGTTAAATTTTCACTGGGTACTAGATAATTTGAG
1 GCTTAAATTTGCA-TTGGTGCTAGATTATTTG-G
* * * * * *
11910029 G-TTAAATTTCCATTAGTACCAGATAATCTGG
1 GCTTAAATTTGCATTGGTGCTAGATTATTTGG
* *
11910060 GCTTAAATTTGTATTAGTGCTAGA-TATTTGG
1 GCTTAAATTTGCATTGGTGCTAGATTATTTGG
* * * *
11910091 GGTTAAATTT-CTATTGGTGCTAGATAATCTAG
1 GCTTAAATTTGC-ATTGGTGCTAGATTATTTGG
* * * * * *
11910123 ACTTCAATTTGCATTTGTACCAG-CTAGTTTGG
1 GCTTAAATTTGCATTGGTGCTAGATTA-TTTGG
** * * *
11910155 GCTTAAATTTTTATTAGGTGCCA-ACTAATTGG
1 GCTTAAATTTGCATT-GGTGCTAGATTATTTGG
*
11910187 GCTTAAATTTTCATT
1 GCTTAAATTTGCATT
11910202 ATGAGGTGCC
Statistics
Matches: 184, Mismatches: 44, Indels: 22
0.74 0.18 0.09
Matches are distributed among these distances:
31 29 0.16
32 122 0.66
33 30 0.16
34 3 0.02
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (32 bp):
GCTTAAATTTGCATTGGTGCTAGATTATTTGG
Found at i:11910143 original size:95 final size:96
Alignment explanation
Indices: 11909990--11910199 Score: 230
Period size: 95 Copynumber: 2.2 Consensus size: 96
11909980 TGCCAACTTG
* *
11909990 TTTGGGGTTAAATTTTCACTGGGTACTAGATAATTTGAGGTTAAATTTCCATTAGTACCAGATAA
1 TTTGGGGTTAAATTTTCACTGGGTACTAGATAATTAGAGCTTAAATTTCCATTAGTACCAGATAA
11910055 TCTGGGCTTAAATTTGTATTAGTGCTAGATA
66 TCTGGGCTTAAATTTGTATTAGTGCTAGATA
* * * * * *
11910086 TTTGGGGTTAAA-TTTCTA-TTGGTGCTAGATAATCTAGA-CTTCAATTTGCATTTGTACCAGCT
1 TTTGGGGTTAAATTTTC-ACTGGGTACTAGATAAT-TAGAGCTTAAATTTCCATTAGTACCAGAT
* * * *
11910148 AGTTTGGGCTTAAATTTTTATTAGGTGCCA-ACTA
64 AATCTGGGCTTAAATTTGTATTA-GTGCTAGA-TA
* *
11910182 ATTGGGCTTAAATTTTCA
1 TTTGGGGTTAAATTTTCA
11910200 TTATGAGGTG
Statistics
Matches: 95, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
95 57 0.60
96 34 0.36
97 4 0.04
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (96 bp):
TTTGGGGTTAAATTTTCACTGGGTACTAGATAATTAGAGCTTAAATTTCCATTAGTACCAGATAA
TCTGGGCTTAAATTTGTATTAGTGCTAGATA
Found at i:11910196 original size:64 final size:64
Alignment explanation
Indices: 11909894--11910201 Score: 223
Period size: 64 Copynumber: 4.8 Consensus size: 64
11909884 AGCTAGAGTA
* * * *
11909894 GGCTTAAATTTTCATTATGGGGTGCCAAATAATCTGTGCTTAAATTTGCATTGGTGCTAGATTGT
1 GGCTTAAATTTCCATTA---GGTGCC-AATAATCTGGGCTTAAATTTGCATTGGTACTAGATAGT
*
11909959 TTA
62 TTG
* ** * * * * *
11909962 GGCTTAAATTTGCATT-GGTGCCAACTTGTTTGGGGTTAAATTTTCACTGGGTACTAGATAATTT
1 GGCTTAAATTTCCATTAGGTGCCAA-TAATCTGGGCTTAAATTTGCA-TTGGTACTAGATAGTTT
11910026 G
64 G
* * * *
11910027 AGG-TTAAATTTCCATTA-GTACCAGATAATCTGGGCTTAAATTTGTATTAGTGCTAGATA-TTT
1 -GGCTTAAATTTCCATTAGGTGCCA-ATAATCTGGGCTTAAATTTGCATTGGTACTAGATAGTTT
11910089 G
64 G
* * * * * * * * *
11910090 GGGTTAAATTTCTATT-GGTGCTAGATAATCTAGACTTCAATTTGCATTTGTACCAGCTAGTTTG
1 GGCTTAAATTTCCATTAGGTGCCA-ATAATCTGGGCTTAAATTTGCATTGGTACTAGATAGTTTG
** *
11910154 GGCTTAAATTTTTATTAGGTGCCAACTAAT-TGGGCTTAAATTTTCATT
1 GGCTTAAATTTCCATTAGGTGCCAA-TAATCTGGGCTTAAATTTGCATT
11910202 ATGAGGTGCC
Statistics
Matches: 189, Mismatches: 41, Indels: 24
0.74 0.16 0.09
Matches are distributed among these distances:
62 2 0.01
63 50 0.26
64 64 0.34
65 55 0.29
66 3 0.02
68 15 0.08
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (64 bp):
GGCTTAAATTTCCATTAGGTGCCAATAATCTGGGCTTAAATTTGCATTGGTACTAGATAGTTTG
Found at i:11910229 original size:36 final size:35
Alignment explanation
Indices: 11910151--11910238 Score: 110
Period size: 36 Copynumber: 2.6 Consensus size: 35
11910141 ACCAGCTAGT
* *
11910151 TTGGGCTTAAATT-T--TTATTAGGTGCCAACTAA
1 TTGGGCTTAAATTCTCATTATGAGGTGCCAAATAA
*
11910183 TTGGGCTTAAATTTTCATTATGAGGTGCCAAATAAA
1 TTGGGCTTAAATTCTCATTATGAGGTGCCAAAT-AA
*
11910219 TTGGGTTTAAATTCTCATTA
1 TTGGGCTTAAATTCTCATTA
11910239 AAGCCAGCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
32 13 0.27
33 1 0.02
35 14 0.29
36 20 0.42
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (35 bp):
TTGGGCTTAAATTCTCATTATGAGGTGCCAAATAA
Found at i:11911412 original size:26 final size:26
Alignment explanation
Indices: 11911379--11911432 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11911369 AAACAAGTGT
11911379 TTAATGGTAATTAAAACCAAGGATTA
1 TTAATGGTAATTAAAACCAAGGATTA
11911405 TTAATGGTAATTAAAACCAAGGATTA
1 TTAATGGTAATTAAAACCAAGGATTA
11911431 TT
1 TT
11911433 CTTTCATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (26 bp):
TTAATGGTAATTAAAACCAAGGATTA
Found at i:11912903 original size:26 final size:26
Alignment explanation
Indices: 11912874--11912932 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
11912864 ATAATTTGGT
*
11912874 CTTTTTGAGCTCAGATTTTCATGAAA
1 CTTTTCGAGCTCAGATTTTCATGAAA
* ** *
11912900 CTTTCCCGAGCTTGGATTTTTATGAAA
1 CTTT-TCGAGCTCAGATTTTCATGAAA
11912927 CTTTTC
1 CTTTTC
11912933 AAATATTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (26 bp):
CTTTTCGAGCTCAGATTTTCATGAAA
Found at i:11915108 original size:49 final size:49
Alignment explanation
Indices: 11915054--11915203 Score: 176
Period size: 49 Copynumber: 3.0 Consensus size: 49
11915044 AAAAAATCTT
* *
11915054 AATAGACCAAAATGGTAAAAAATTTAGAAATCAAAAAGAAAAATTTCTA
1 AATAGACCAAAATGGTAGAAAATTTAGAAATAAAAAAGAAAAATTTCTA
* * *
11915103 AATAGACCAAAATGGTAGAAAATTTATAAATAAAAAAGAAGAATTT-TT
1 AATAGACCAAAATGGTAGAAAATTTAGAAATAAAAAAGAAAAATTTCTA
* * * * *
11915151 AATAAACCCAAATGGTGGAAAGTTTAGAAATTAAAAAGAGAATATATTTCTA
1 AATAGACCAAAATGGTAGAAAATTTAGAAA-TAAAAA-AGAA-AAATTTCTA
11915203 A
1 A
11915204 TTTGGCCCAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
48 26 0.31
49 48 0.57
50 4 0.05
51 4 0.05
52 2 0.02
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.25
Consensus pattern (49 bp):
AATAGACCAAAATGGTAGAAAATTTAGAAATAAAAAAGAAAAATTTCTA
Found at i:11920088 original size:73 final size:73
Alignment explanation
Indices: 11919904--11920191 Score: 297
Period size: 79 Copynumber: 3.8 Consensus size: 73
11919894 TCAACATAAC
* * *
11919904 TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGATGAAATTTGTTATAAAATGGA
1 TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGACGAAACTTG-T-T---CT-GA
* *
11919969 TAATGCTGATAAGT
60 TAGTGCTGAGAAGT
* * *
11919983 TTGTGAGTTGTGATCAAATGATTGAAACAATATGGATTAATGGACGAAACTTGTTCTGATAGTGC
1 TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGACGAAACTTGTTCTGATAGTGC
*
11920048 TAAGAAGT
66 TGAGAAGT
*
11920056 TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGACAAAACTTGTTCTGAAATAGC
1 TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGACGAAACTTGTTCTG----A--
*
11920121 TAGTGCTGAGAAGC
60 TAGTGCTGAGAAGT
* * * * * * * *
11920135 CTGTGAATTATGATCAAGTAATGAAAATAATAAGGATCAATTGACGAAACTTGTTCT
1 TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGACGAAACTTGTTCT
11920192 AAAATGGTTA
Statistics
Matches: 179, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
73 67 0.37
74 1 0.01
77 2 0.01
78 1 0.01
79 108 0.60
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (73 bp):
TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGACGAAACTTGTTCTGATAGTGC
TGAGAAGT
Found at i:11920140 original size:152 final size:152
Alignment explanation
Indices: 11919904--11920191 Score: 389
Period size: 152 Copynumber: 1.9 Consensus size: 152
11919894 TCAACATAAC
** * *
11919904 TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGATGAAATTTGTTATAAAATGGA
1 TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGACAAAACTTGTTATAAAATAGA
* ** * * * * *
11919969 TAATGCTGATAAGTTTGTGAGTTGTGATCAAATGATTG-AAACAATATGGATTAATGGACGAAAC
66 TAATGCTGAGAAGCCTGTGAATTATGATCAAAT-AATGAAAACAATAAGGATCAATGGACGAAAC
11920033 TTGTTCTGATAGTGCTAAGAAGT
130 TTGTTCTGATAGTGCTAAGAAGT
* * *
11920056 TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGACAAAACTTGTTCTGAAATAGC
1 TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGACAAAACTTGTTATAAAATAGA
* * * *
11920121 TAGTGCTGAGAAGCCTGTGAATTATGATCAAGTAATGAAAATAATAAGGATCAATTGACGAAACT
66 TAATGCTGAGAAGCCTGTGAATTATGATCAAATAATGAAAACAATAAGGATCAATGGACGAAACT
11920186 TGTTCT
131 TGTTCT
11920192 AAAATGGTTA
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
151 3 0.03
152 113 0.97
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (152 bp):
TTGTGAGTTGTGATCAAATGATGGAAATAATATGGATCAATGGACAAAACTTGTTATAAAATAGA
TAATGCTGAGAAGCCTGTGAATTATGATCAAATAATGAAAACAATAAGGATCAATGGACGAAACT
TGTTCTGATAGTGCTAAGAAGT
Found at i:11920612 original size:33 final size:33
Alignment explanation
Indices: 11920563--11920630 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
11920553 GCTTGACATT
* *
11920563 TGCACGGCATGCATTGCATTTATGAATGTTTAG
1 TGCACGGCATGCATTGCATTTAAGAATGTCTAG
* *
11920596 TGCATGGCATGTATTGCATTTAAGAATGTCTAG
1 TGCACGGCATGCATTGCATTTAAGAATGTCTAG
11920629 TG
1 TG
11920631 TATGAAGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (33 bp):
TGCACGGCATGCATTGCATTTAAGAATGTCTAG
Found at i:11920980 original size:43 final size:43
Alignment explanation
Indices: 11920930--11921202 Score: 294
Period size: 43 Copynumber: 6.3 Consensus size: 43
11920920 AAACCTTATT
* *
11920930 TATTTAGAGGAGTCTTATTTATTTTTCAAAGTCATTGAGCCTT
1 TATTTAGAGGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTC
* * * * * *
11920973 TGTTTAGAGGAACCTTATTTATTTTTCAAAATCGTTAAGTCTC
1 TATTTAGAGGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTC
* *
11921016 TATTAAGATGAGCCTTATTTAATTTTTCAAAGTCATTGAGCCTC
1 TATTTAGAGGAGCCTTATTT-ATTTTTCAAAGTCATTGAGCCTC
** * * *
11921060 TGCTTATAAGAGCCTTATTTATTTTTCAAAATCATTGAGCCTC
1 TATTTAGAGGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTC
* *
11921103 TATTTAGATGAGCCTTATTTATTTTTCAAAAGTCATTGAGCTTC
1 TATTTAGAGGAGCCTTATTTATTTTTC-AAAGTCATTGAGCCTC
* * * * * * *
11921147 TGTTTAGAGGAGCTTTATTTATTTCTTGAAAGTTATGGAGCATT
1 TATTTAGAGGAGCCTTATTTATTT-TTCAAAGTCATTGAGCCTC
*
11921191 TACTTAGAGGAG
1 TATTTAGAGGAG
11921203 TATTTATGTT
Statistics
Matches: 189, Mismatches: 38, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
43 96 0.51
44 91 0.48
45 2 0.01
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.43
Consensus pattern (43 bp):
TATTTAGAGGAGCCTTATTTATTTTTCAAAGTCATTGAGCCTC
Found at i:11921104 original size:87 final size:86
Alignment explanation
Indices: 11920943--11921170 Score: 339
Period size: 87 Copynumber: 2.6 Consensus size: 86
11920933 TTAGAGGAGT
* * *
11920943 CTTATTTATTTTTCAAAGTCATTGAGCCTTTGTTTAGAGGAACCTTATTTATTTTTCAAAATCGT
1 CTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAATCAT
*
11921008 TAAGTCTCTATTAAGATGAGC
66 TAAGCCTCTATTAAGATGAGC
* * *
11921029 CTTATTTAATTTTTCAAAGTCATTGAGCCTCTGCTTATAAGAGCCTTATTTATTTTTCAAAATCA
1 CTTATTT-ATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAATCA
* *
11921094 TTGAGCCTCTATTTAGATGAGC
65 TTAAGCCTCTATTAAGATGAGC
* *
11921116 CTTATTTATTTTTCAAAAGTCATTGAGCTTCTGTTTAGAGGAGCTTTATTTATTT
1 CTTATTTATTTTTC-AAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTTATTT
11921171 CTTGAAAGTT
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
86 14 0.11
87 112 0.89
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (86 bp):
CTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAAATCAT
TAAGCCTCTATTAAGATGAGC
Found at i:11922207 original size:18 final size:19
Alignment explanation
Indices: 11922186--11922242 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 19
11922176 CTTATTTTGG
*
11922186 TATTT-TTTATTTTTTGTT
1 TATTTATTTATTTTTTATT
11922204 TATTTTATTTATTCTATTTATT
1 TA-TTTATTTATT-T-TTTATT
*
11922226 TATTTGTTTATATTTTT
1 TATTTATTTAT-TTTTT
11922243 TTTTGCATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 9 0.28
21 10 0.31
22 8 0.25
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (19 bp):
TATTTATTTATTTTTTATT
Found at i:11922216 original size:4 final size:4
Alignment explanation
Indices: 11922186--11922236 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
11922176 CTTATTTTGG
* *
11922186 TATT T-TT TATT T-TT TGTT TATTT TATT TATT CTATT TATT TATT TGTT
1 TATT TATT TATT TATT TATT TA-TT TATT TATT -TATT TATT TATT TATT
11922234 TAT
1 TAT
11922237 ATTTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
3 6 0.15
4 26 0.65
5 8 0.20
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:11922730 original size:48 final size:48
Alignment explanation
Indices: 11922678--11922780 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
11922668 TTCCAAAGAT
11922678 AAAAA-AAAAAATTCTAAATAGA-CTCAAATGGTGAAAAATTTAGAAATC
1 AAAAAGAAAAAATTCTAAATAGACCT-AAATGGTG-AAAATTTAGAAATC
* * * * * *
11922726 AAAAAGAAGAATTTTTAAATAGGCCTAAATGGTGAAATTTTAGAAATT
1 AAAAAGAAAAAATTCTAAATAGACCTAAATGGTGAAAATTTAGAAATC
11922774 AAAAAGA
1 AAAAAGA
11922781 GAAGATATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 24 0.51
49 21 0.45
50 2 0.04
ACGTcount: A:0.55, C:0.06, G:0.14, T:0.25
Consensus pattern (48 bp):
AAAAAGAAAAAATTCTAAATAGACCTAAATGGTGAAAATTTAGAAATC
Found at i:11922856 original size:14 final size:13
Alignment explanation
Indices: 11922831--11922860 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
11922821 ATATATTTTC
11922831 AATAAAAATAAAA
1 AATAAAAATAAAA
11922844 AATAAAGAATAAAA
1 AATAAA-AATAAAA
11922858 AAT
1 AAT
11922861 GATTAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:11923024 original size:15 final size:16
Alignment explanation
Indices: 11922983--11923025 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
11922973 ATAATTATTT
*
11922983 TTAATATTTAA-A-CA
1 TTAAAATTTAAGACCA
11922997 TTAAAATTTAAGACCA
1 TTAAAATTTAAGACCA
11923013 TTAAAA-TTAAGAC
1 TTAAAATTTAAGAC
11923026 TTTAAGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 10 0.38
15 8 0.31
16 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (16 bp):
TTAAAATTTAAGACCA
Found at i:11923043 original size:24 final size:23
Alignment explanation
Indices: 11922988--11923048 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
11922978 TATTTTTAAT
*
11922988 ATTTAAACATTAAAATTTAAGACC
1 ATTTAAA-ATTAAAATTTAAGACA
* *
11923012 A-TTAAAATTAAGACTTTAAGATA
1 ATTTAAAATTAA-AATTTAAGACA
11923035 ATTTAAAA-TAAAAT
1 ATTTAAAATTAAAAT
11923049 GGTACCATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
22 7 0.23
23 17 0.55
24 7 0.23
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (23 bp):
ATTTAAAATTAAAATTTAAGACA
Found at i:11924793 original size:15 final size:15
Alignment explanation
Indices: 11924773--11924805 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11924763 TTATTTCATG
*
11924773 TAAAAAAAATAATAA
1 TAAAAAAAAGAATAA
11924788 TAAAAAAAAGAATAA
1 TAAAAAAAAGAATAA
11924803 TAA
1 TAA
11924806 TAATAGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
TAAAAAAAAGAATAA
Found at i:11924801 original size:18 final size:17
Alignment explanation
Indices: 11924774--11924808 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
11924764 TATTTCATGT
11924774 AAAAAAAATAATAATAA
1 AAAAAAAATAATAATAA
11924791 AAAAAAGAATAATAATAA
1 AAAAAA-AATAATAATAA
11924809 TAGTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAAAAATAATAATAA
Found at i:11925347 original size:2 final size:2
Alignment explanation
Indices: 11925340--11925372 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
11925330 TTTATAATAC
*
11925340 AT AT AT AT GT -T 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
11925373 GTTTACTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
AT
Found at i:11926831 original size:46 final size:46
Alignment explanation
Indices: 11926759--11926853 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 46
11926749 GATCAAAGCA
* * * *
11926759 TGAATTATATCCTTGAAGGTAATACAATCTTATATGGAATGTCTTT
1 TGAATTATATCCTTAAAGGCAATACAATCTTATATGGAATATCCTT
* * *
11926805 TGAATTGTATCTTTAAAGGCAATACAATCTTCTATGGAATATCCTT
1 TGAATTATATCCTTAAAGGCAATACAATCTTATATGGAATATCCTT
11926851 TGA
1 TGA
11926854 CCCCATCATA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (46 bp):
TGAATTATATCCTTAAAGGCAATACAATCTTATATGGAATATCCTT
Found at i:11930327 original size:14 final size:14
Alignment explanation
Indices: 11930308--11930337 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11930298 ATATATTTTT
11930308 AAAAAATTAAATTA
1 AAAAAATTAAATTA
11930322 AAAAAATTAAATTA
1 AAAAAATTAAATTA
11930336 AA
1 AA
11930338 TATCAAATAA
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAAATTAAATTA
Found at i:11930930 original size:16 final size:17
Alignment explanation
Indices: 11930909--11930941 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
11930899 TACTTAAAAA
11930909 TAAAAATAAT-ATTATT
1 TAAAAATAATAATTATT
11930925 TAAAAATAATAATTATT
1 TAAAAATAATAATTATT
11930942 AGTGACTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAAATAATAATTATT
Found at i:11931559 original size:19 final size:19
Alignment explanation
Indices: 11931535--11931626 Score: 80
Period size: 19 Copynumber: 4.8 Consensus size: 19
11931525 AATTTAAGAT
11931535 TTTACTTAGGGTTTTAGGG
1 TTTACTTAGGGTTTTAGGG
* *
11931554 TTTACTT-GGGGTTTAGAG
1 TTTACTTAGGGTTTTAGGG
* * * *
11931572 TTTCATTTAAGGTTTTAAGA
1 TTT-ACTTAGGGTTTTAGGG
11931592 TTTACTTAGGG-TTTAGGG
1 TTTACTTAGGGTTTTAGGG
* *
11931610 TTTCATTTATGGTTTTA
1 TTT-ACTTAGGGTTTTA
11931627 TTTTCAGATT
Statistics
Matches: 55, Mismatches: 14, Indels: 7
0.72 0.18 0.09
Matches are distributed among these distances:
18 20 0.36
19 22 0.40
20 13 0.24
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.50
Consensus pattern (19 bp):
TTTACTTAGGGTTTTAGGG
Found at i:11931566 original size:57 final size:56
Alignment explanation
Indices: 11931482--11931612 Score: 147
Period size: 57 Copynumber: 2.3 Consensus size: 56
11931472 TTAGGTTTTG
* * * * *
11931482 CTTAGGGTTTAGGCATTCACCTCGGGTTTAGGGTTTCACCT-AGAATTTAAGATTTTA
1 CTTAGGGTTTAGG-GTTTACTTGGGGTTTAGAGTTTCACCTAAGAATTTAAGA-TTTA
** **
11931539 CTTAGGGTTTTAGGGTTTACTTGGGGTTTAGAGTTTCATTTAAGGTTTTAAGATTTA
1 CTTAGGG-TTTAGGGTTTACTTGGGGTTTAGAGTTTCACCTAAGAATTTAAGATTTA
11931596 CTTAGGGTTTAGGGTTT
1 CTTAGGGTTTAGGGTTT
11931613 CATTTATGGT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
56 10 0.16
57 38 0.60
58 15 0.24
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.44
Consensus pattern (56 bp):
CTTAGGGTTTAGGGTTTACTTGGGGTTTAGAGTTTCACCTAAGAATTTAAGATTTA
Found at i:11931574 original size:18 final size:19
Alignment explanation
Indices: 11931535--11931612 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 19
11931525 AATTTAAGAT
* *
11931535 TTTACTTAGGGTTTTAGGG
1 TTTACTTAGGGGTTTAGAG
11931554 TTTACTT-GGGGTTTAGAG
1 TTTACTTAGGGGTTTAGAG
* * *
11931572 TTTCATTTAAGGTTTTA-AG
1 TTT-ACTTAGGGGTTTAGAG
*
11931591 ATTTACTTA-GGGTTTAGGG
1 -TTTACTTAGGGGTTTAGAG
11931610 TTT
1 TTT
11931613 CATTTATGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
18 21 0.45
19 17 0.36
20 9 0.19
ACGTcount: A:0.19, C:0.05, G:0.27, T:0.49
Consensus pattern (19 bp):
TTTACTTAGGGGTTTAGAG
Found at i:11931596 original size:38 final size:38
Alignment explanation
Indices: 11931544--11931626 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 38
11931534 TTTTACTTAG
* * *
11931544 GGTTTTAGGGTTTACTTGGGGTTTAGAGTTTCATTTAA
1 GGTTTTAAGATTTACTTAGGGTTTAGAGTTTCATTTAA
* *
11931582 GGTTTTAAGATTTACTTAGGGTTTAGGGTTTCATTTAT
1 GGTTTTAAGATTTACTTAGGGTTTAGAGTTTCATTTAA
11931620 GGTTTTA
1 GGTTTTA
11931627 TTTTCAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.19, C:0.05, G:0.27, T:0.49
Consensus pattern (38 bp):
GGTTTTAAGATTTACTTAGGGTTTAGAGTTTCATTTAA
Found at i:11931911 original size:29 final size:30
Alignment explanation
Indices: 11931851--11931927 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 30
11931841 CTAAGTACGG
* *
11931851 ATTTTAAAATTTTTATTATTTTTATACATATT-
1 ATTTTAAAA-TATTATTATTATTAT--ATATTA
*
11931883 TTTTTAAAACTATTATTATTATTAT-TATTA
1 ATTTTAAAA-TATTATTATTATTATATATTA
11931913 ATTTTAAAATATTAT
1 ATTTTAAAATATTAT
11931928 GCTTTTACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 10 0.26
30 8 0.21
32 21 0.54
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (30 bp):
ATTTTAAAATATTATTATTATTATATATTA
Found at i:11932928 original size:29 final size:31
Alignment explanation
Indices: 11932856--11932929 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
11932846 TTTTCGGTTC
11932856 CTTTTCTTATTTTTTTGGTTTTCTGTTCTCTT
1 CTTTTCTT-TTTTTTTGGTTTTCTGTTCTCTT
** * *
11932888 CTTTTC-CCTTTTTTGG-TTTCTTTTTTCTT
1 CTTTTCTTTTTTTTTGGTTTTCTGTTCTCTT
11932917 -TTTTCTTTTTTTT
1 CTTTTCTTTTTTTT
11932930 ACGTGGCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
28 5 0.14
29 16 0.46
30 8 0.23
32 6 0.17
ACGTcount: A:0.01, C:0.16, G:0.07, T:0.76
Consensus pattern (31 bp):
CTTTTCTTTTTTTTTGGTTTTCTGTTCTCTT
Found at i:11937471 original size:29 final size:29
Alignment explanation
Indices: 11937438--11937499 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
11937428 TTGGTATAAA
*
11937438 TTACTTTTAAAGTAGGTTAAAGCTACACC
1 TTACTTTCAAAGTAGGTTAAAGCTACACC
* *
11937467 TTACTTTCAAAGTGGGTTGAAGCTACACC
1 TTACTTTCAAAGTAGGTTAAAGCTACACC
11937496 TTAC
1 TTAC
11937500 AAATTACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (29 bp):
TTACTTTCAAAGTAGGTTAAAGCTACACC
Found at i:11944116 original size:18 final size:19
Alignment explanation
Indices: 11944089--11944128 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
11944079 TTATTGATGT
*
11944089 AATATGAATATTTA-ATAA
1 AATATGAATATATATATAA
*
11944107 AATATTAATATATATATAA
1 AATATGAATATATATATAA
11944126 AAT
1 AAT
11944129 TATAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
AATATGAATATATATATAA
Found at i:11944251 original size:21 final size:19
Alignment explanation
Indices: 11944207--11944253 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
11944197 AAAAAAATTT
*
11944207 TAAAATTTTTTAAAAAATC
1 TAAAATTTTTTAAAAAATA
*
11944226 TAAAATATTTTTAAAAACTA
1 TAAAAT-TTTTTAAAAAATA
11944246 TGAAAATT
1 T-AAAATT
11944254 AAAAAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 13 0.54
21 5 0.21
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAAATTTTTTAAAAAATA
Found at i:11944276 original size:18 final size:18
Alignment explanation
Indices: 11944215--11944276 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
11944205 TTTAAAATTT
11944215 TTTAAAAAATCT-AAAATA
1 TTTAAAAAA-CTAAAAATA
* *
11944233 TTTTTAAAAACTATGAAA-A
1 -TTTAAAAAACTA-AAAATA
*
11944252 TTAAAAAAACTAAAAATA
1 TTTAAAAAACTAAAAATA
11944270 TTTAAAA
1 TTTAAAA
11944277 TATATATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 3 0.09
18 19 0.56
19 9 0.26
20 3 0.09
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (18 bp):
TTTAAAAAACTAAAAATA
Found at i:11944285 original size:37 final size:36
Alignment explanation
Indices: 11944216--11944287 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
11944206 TTAAAATTTT
* * *
11944216 TTAAAAAATCTAAAATATTTTTAAAAACTATGAAAA
1 TTAAAAAAACTAAAATATATTTAAAAAATATGAAAA
11944252 TTAAAAAAACTAAAA-ATATTTAAAATATATATGAAA
1 TTAAAAAAACTAAAATATATTTAAAA-A-ATATGAAA
11944288 GCTTAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 9 0.29
36 15 0.48
37 7 0.23
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (36 bp):
TTAAAAAAACTAAAATATATTTAAAAAATATGAAAA
Found at i:11944449 original size:20 final size:19
Alignment explanation
Indices: 11944424--11944461 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
11944414 TATAAAATAA
11944424 TAAAAATCTAAAAACTTTTG
1 TAAAAATCTAAAAA-TTTTG
11944444 TAAAAATCTAAAAATTTT
1 TAAAAATCTAAAAATTTT
11944462 AAAAAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (19 bp):
TAAAAATCTAAAAATTTTG
Found at i:11944468 original size:20 final size:20
Alignment explanation
Indices: 11944425--11944469 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11944415 ATAAAATAAT
**
11944425 AAAAATCTAAAAACTTTTGT
1 AAAAATCTAAAAACTTTTAA
11944445 AAAAATCTAAAAA-TTTTAA
1 AAAAATCTAAAAACTTTTAA
11944464 AAAAAT
1 AAAAAT
11944470 TGTAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAATCTAAAAACTTTTAA
Found at i:11944605 original size:11 final size:10
Alignment explanation
Indices: 11944591--11944667 Score: 52
Period size: 10 Copynumber: 7.8 Consensus size: 10
11944581 TTAAATCTTT
11944591 ATTTTTTCAAA
1 ATTTTTT-AAA
*
11944602 ATTTTTTTAA
1 ATTTTTTAAA
11944612 ATTTTTTGAAA
1 ATTTTTT-AAA
11944623 A-TTTTT--A
1 ATTTTTTAAA
* *
11944630 ATTTTTCAGA
1 ATTTTTTAAA
*
11944640 TTTTTTTAAA
1 ATTTTTTAAA
* *
11944650 ATATTTTAGA
1 ATTTTTTAAA
*
11944660 TTTTTTTA
1 ATTTTTTA
11944668 TTTTTAATTT
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
10 35 0.69
11 10 0.20
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:11944616 original size:9 final size:9
Alignment explanation
Indices: 11944604--11944869 Score: 72
Period size: 10 Copynumber: 29.0 Consensus size: 9
11944594 TTTTCAAAAT
11944604 TTTTTTAAA
1 TTTTTTAAA
11944613 TTTTTTGAAA
1 TTTTTT-AAA
*
11944623 ATTTTT-AA
1 TTTTTTAAA
* *
11944631 TTTTTCAGAT
1 TTTTTTA-AA
11944641 TTTTTTAAAA
1 TTTTTT-AAA
* *
11944651 TATTTTAGA
1 TTTTTTAAA
*
11944660 TTTTTT-TA
1 TTTTTTAAA
11944668 -TTTTT-AA
1 TTTTTTAAA
*
11944675 TTTTTAAAGA
1 TTTTTTAA-A
11944685 TTTTGTT--A
1 TTTT-TTAAA
11944693 TTTTTT-AA
1 TTTTTTAAA
*
11944701 -TTTTAACAA
1 TTTTTTA-AA
* *
11944710 ATTTTT-AT
1 TTTTTTAAA
11944718 TTTTATTAAA
1 TTTT-TTAAA
*
11944728 -CTTTT--A
1 TTTTTTAAA
11944734 TTTTTTGAAA
1 TTTTTT-AAA
11944744 TTTTTATTAAA
1 -TTTT-TTAAA
*
11944755 CTTTTGATAAA
1 -TTTT-TTAAA
11944766 TTTTTT-AA
1 TTTTTTAAA
*
11944774 TTTTTTTAA
1 TTTTTTAAA
**
11944783 TTTCTAAAAA
1 TTT-TTTAAA
*
11944793 TATTTTAAAA
1 T-TTTTTAAA
*
11944803 TATTTTCAAA
1 T-TTTTTAAA
11944813 TTTTTAATAAA
1 TTTTT--TAAA
*
11944824 TTTTATAAA
1 TTTTTTAAA
* * *
11944833 TATTTCAGA
1 TTTTTTAAA
*
11944842 TTTTTAAAA
1 TTTTTTAAA
*
11944851 TTTTGTAAAA
1 TTTT-TTAAA
11944861 TTTTTTAAA
1 TTTTTTAAA
11944870 ATAATTTTTT
Statistics
Matches: 192, Mismatches: 39, Indels: 52
0.68 0.14 0.18
Matches are distributed among these distances:
6 1 0.01
7 16 0.08
8 31 0.16
9 53 0.28
10 63 0.33
11 26 0.14
12 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:11944665 original size:37 final size:36
Alignment explanation
Indices: 11944583--11944704 Score: 90
Period size: 38 Copynumber: 3.4 Consensus size: 36
11944573 GATTTTTATT
* * *
11944583 AAATCTTTATTTTTTCAAAATTTTTTTAAATTTTTTGA
1 AAATTTTTAATTTTTC--AATTTTTTTAAATATTTTGA
11944621 AAATTTTTAATTTTTCAGATTTTTTTAAAATATTTT-A
1 AAATTTTTAATTTTTCA-ATTTTTTT-AAATATTTTGA
* * * * *
11944658 GATTTTTTTATTTTT-AA--TTTTTAAAGATTTTGT
1 AAATTTTTAATTTTTCAATTTTTTTAAATATTTTGA
* *
11944691 TATTTTTTAATTTT
1 AAATTTTTAATTTT
11944705 AACAAATTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
32 8 0.11
33 17 0.24
35 1 0.01
36 2 0.03
37 21 0.30
38 22 0.31
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (36 bp):
AAATTTTTAATTTTTCAATTTTTTTAAATATTTTGA
Found at i:11944670 original size:28 final size:26
Alignment explanation
Indices: 11944601--11944672 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 26
11944591 ATTTTTTCAA
11944601 AATTTTTTTAAATTTTTTGAAAATTTTT
1 AATTTTTTT--ATTTTTTGAAAATTTTT
** *
11944629 AATTTTTCAGATTTTTTTAAAATATTTT
1 AATTTTT-TTATTTTTTGAAAAT-TTTT
11944657 AGATTTTTTTATTTTT
1 A-ATTTTTTTATTTTT
11944673 AATTTTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
27 12 0.33
28 18 0.50
29 6 0.17
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (26 bp):
AATTTTTTTATTTTTTGAAAATTTTT
Found at i:11944713 original size:26 final size:25
Alignment explanation
Indices: 11944661--11944721 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
11944651 TATTTTAGAT
*
11944661 TTTTTTA-TTTTTAATTTTTAAAGA
1 TTTTTTATTTTTTAATTTTTAAAAA
11944685 TTTTGTTATTTTTTAA-TTTTAACAAA
1 TTTT-TTATTTTTTAATTTTTAA-AAA
11944711 -TTTTTATTTTT
1 TTTTTTATTTTT
11944722 ATTAAACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 12 0.36
25 12 0.36
26 9 0.27
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (25 bp):
TTTTTTATTTTTTAATTTTTAAAAA
Found at i:11944721 original size:25 final size:24
Alignment explanation
Indices: 11944659--11944726 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 24
11944649 AATATTTTAG
*
11944659 ATTTTTTTATTTTTAATTTTTAAAG
1 ATTTTTTT-TTTTTAATTTTTAAAA
11944684 ATTTTGTTATTTTTTAA-TTTTAACAA
1 ATTTT-TT-TTTTTTAATTTTTAA-AA
11944710 ATTTTTATTTTTATTAA
1 ATTTTT-TTTTT-TTAA
11944727 ACTTTTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
25 16 0.43
26 20 0.54
27 1 0.03
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (24 bp):
ATTTTTTTTTTTTAATTTTTAAAA
Found at i:11944737 original size:16 final size:16
Alignment explanation
Indices: 11944712--11944751 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
11944702 TTTAACAAAT
*
11944712 TTTTATTTTTATTAAAC
1 TTTTATTTTT-TGAAAC
*
11944729 TTTTATTTTTTGAAAT
1 TTTTATTTTTTGAAAC
11944745 TTTTATT
1 TTTTATT
11944752 AAACTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTATTTTTTGAAAC
Found at i:11944838 original size:29 final size:27
Alignment explanation
Indices: 11944794--11944863 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 27
11944784 TTCTAAAAAT
11944794 ATTTTA-AAATATTTTCAAATTTTTAATAA
1 ATTTTATAAATA-TTTCAAATTTTT-A-AA
*
11944823 ATTTTATAAATATTTCAGATTTTTAAA
1 ATTTTATAAATATTTCAAATTTTTAAA
*
11944850 ATTTTGTAAA-ATTT
1 ATTTTATAAATATTT
11944864 TTTAAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 4 0.11
27 11 0.29
28 1 0.03
29 17 0.45
30 5 0.13
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (27 bp):
ATTTTATAAATATTTCAAATTTTTAAA
Found at i:11947660 original size:2 final size:2
Alignment explanation
Indices: 11947655--11947686 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11947645 AAAAAAACAA
11947655 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
11947687 TTAAAGCAAA
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:11965925 original size:34 final size:32
Alignment explanation
Indices: 11965871--11965934 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 32
11965861 AAAATGAAAG
*
11965871 AACAAAAAATCAAAACAAATAAATGAATAATC
1 AACAAAAAATCAAAACAAATAAATAAATAATC
11965903 AACAAAAAGAT-AAAACCAAAATAAATAAATAA
1 AACAAAAA-ATCAAAA-C-AAATAAATAAATAA
11965935 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 12 0.43
33 3 0.11
34 13 0.46
ACGTcount: A:0.72, C:0.11, G:0.03, T:0.14
Consensus pattern (32 bp):
AACAAAAAATCAAAACAAATAAATAAATAATC
Found at i:11965930 original size:4 final size:4
Alignment explanation
Indices: 11965921--11965951 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
11965911 GATAAAACCA
*
11965921 AAAT AAAT AAAT AAAT AGAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
11965952 CACAAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:11966396 original size:19 final size:18
Alignment explanation
Indices: 11966363--11966409 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 18
11966353 ATTTATTTTT
11966363 TTTTCATTTTATTTT-CTA
1 TTTT-ATTTTATTTTCCTA
11966381 TTTTGATTTTATTTTTCCTA
1 TTTT-ATTTTA-TTTTCCTA
11966401 TTTTATTTT
1 TTTTATTTT
11966410 CATTATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.38
19 9 0.35
20 7 0.27
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTATTTTATTTTCCTA
Found at i:11968146 original size:3 final size:3
Alignment explanation
Indices: 11968138--11968171 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11968128 TTTGAAATGC
11968138 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11968172 TAAAATTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11970027 original size:8 final size:8
Alignment explanation
Indices: 11970014--11970048 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
11970004 TAATACACTC
11970014 ACAAACAT
1 ACAAACAT
11970022 ACAAACAT
1 ACAAACAT
11970030 ACAAACAT
1 ACAAACAT
*
11970038 ACAAATAT
1 ACAAACAT
11970046 ACA
1 ACA
11970049 CCCTTATAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.14
Consensus pattern (8 bp):
ACAAACAT
Found at i:11970205 original size:17 final size:19
Alignment explanation
Indices: 11970183--11970228 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
11970173 TTATCTATTA
11970183 AAAATTATATTTT-TTT-T
1 AAAATTATATTTTATTTAT
11970200 AAAATT-T-TTTTATTTAT
1 AAAATTATATTTTATTTAT
*
11970217 AAAATAATATTT
1 AAAATTATATTT
11970229 AAATAATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 4 0.17
16 4 0.17
17 12 0.50
18 1 0.04
19 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AAAATTATATTTTATTTAT
Found at i:11971262 original size:2 final size:2
Alignment explanation
Indices: 11971216--11971249 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11971206 AAGATCCAAG
11971216 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
11971250 TGGTTATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11974075 original size:4 final size:4
Alignment explanation
Indices: 11974066--11974098 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
11974056 GAGAAGGGGA
11974066 AAAT AAAT AAAT AAAT AAA- AAAT -AAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
11974099 AAAAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:11974092 original size:18 final size:19
Alignment explanation
Indices: 11974065--11974106 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
11974055 AGAGAAGGGG
*
11974065 AAAATAAATAAATAAATAA
1 AAAATAAATAAATAAAAAA
11974084 AAAAT-AATAAATAAAAAA
1 AAAATAAATAAATAAAAAA
11974102 AAAAT
1 AAAAT
11974107 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATAAATAAATAAAAAA
Found at i:11974094 original size:14 final size:15
Alignment explanation
Indices: 11974070--11974106 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
11974060 AGGGGAAAAT
11974070 AAATAAATAAATAAA
1 AAATAAATAAATAAA
11974085 AAAT-AATAAATAAA
1 AAATAAATAAATAAA
*
11974099 AAAAAAAT
1 AAATAAAT
11974107 TATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATAAATAAATAAA
Found at i:11975504 original size:18 final size:20
Alignment explanation
Indices: 11975461--11975509 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
11975451 AATTATTGTA
*
11975461 ATAATAAAATTAATTATTAT
1 ATAATAAAATTAATAATTAT
11975481 AATAATAAAATTAA-AATTAT
1 -ATAATAAAATTAATAATTAT
*
11975501 -TAATGAAAT
1 ATAATAAAAT
11975510 ATACATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 8 0.31
20 5 0.19
21 13 0.50
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATAATAAAATTAATAATTAT
Found at i:11975504 original size:21 final size:21
Alignment explanation
Indices: 11975448--11975500 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
11975438 CAAAATTAAT
* *
11975448 ATTAATTATTGTAATAATAAA
1 ATTAATAATTATAATAATAAA
*
11975469 ATTAATTATTATAATAATAAA
1 ATTAATAATTATAATAATAAA
11975490 ATTAA-AATTAT
1 ATTAATAATTAT
11975501 TAATGAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTAATAATTATAATAATAAA
Found at i:11975510 original size:23 final size:21
Alignment explanation
Indices: 11975448--11975494 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
11975438 CAAAATTAAT
*
11975448 ATTAATTATTGTAATAATAAA
1 ATTAATTATTATAATAATAAA
11975469 ATTAATTATTATAATAATAAA
1 ATTAATTATTATAATAATAAA
11975490 ATTAA
1 ATTAA
11975495 AATTATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTAATTATTATAATAATAAA
Found at i:11975565 original size:15 final size:15
Alignment explanation
Indices: 11975545--11975582 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
11975535 TGGCAATAAG
*
11975545 ATAAATTATTATTAA
1 ATAAATTATCATTAA
11975560 ATAAATTATCATTAA
1 ATAAATTATCATTAA
11975575 ATAAATTA
1 ATAAATTA
11975583 ATTTCAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATTATCATTAA
Found at i:11977556 original size:2 final size:2
Alignment explanation
Indices: 11977510--11977539 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11977500 TTTTAGAGTT
11977510 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
11977540 GCTTATTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11978621 original size:24 final size:24
Alignment explanation
Indices: 11978525--11978630 Score: 108
Period size: 24 Copynumber: 4.3 Consensus size: 24
11978515 ACTTTATGCA
* *
11978525 AAATATCATAATAAATCATGAAAAT
1 AAATATAATAA-AAATCATGCAAAT
* *
11978550 AAATATAATAAAAATCATGTAAGT
1 AAATATAATAAAAATCATGCAAAT
* *
11978574 -AATCATGCAA-AAATATCATACAAAT
1 AAAT-AT--AATAAAAATCATGCAAAT
11978599 AAATATAATAAAAATCATGCAAAT
1 AAATATAATAAAAATCATGCAAAT
11978623 AAATATAA
1 AAATATAA
11978631 AAATAAAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
23 5 0.07
24 34 0.51
25 23 0.34
26 5 0.07
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.26
Consensus pattern (24 bp):
AAATATAATAAAAATCATGCAAAT
Found at i:11978674 original size:12 final size:12
Alignment explanation
Indices: 11978657--11978681 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11978647 AAACTTTCCC
11978657 TTTTTTTCTTTT
1 TTTTTTTCTTTT
11978669 TTTTTTTCTTTT
1 TTTTTTTCTTTT
11978681 T
1 T
11978682 CTGATCACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:11978761 original size:16 final size:16
Alignment explanation
Indices: 11978715--11978761 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
11978705 AATAATAATG
11978715 AAAA-CAAAATAATAAA
1 AAAACCAAAAT-ATAAA
11978731 AAAACCATAAA-ATAAA
1 AAAACCA-AAATATAAA
*
11978747 AAACCCAAAATATAA
1 AAAACCAAAATATAA
11978762 CATATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 3 0.11
16 19 0.70
17 2 0.07
18 3 0.11
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAACCAAAATATAAA
Found at i:11978793 original size:24 final size:24
Alignment explanation
Indices: 11978766--11978829 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
11978756 ATATAACATA
*
11978766 TAAAATAAGTAAAAAACCAAAAAT
1 TAAAATAAATAAAAAACCAAAAAT
* **
11978790 TAAAATAAATTAAAAATTAAAAAT
1 TAAAATAAATAAAAAACCAAAAAT
11978814 TAAAA-AAA-AAAAAACC
1 TAAAATAAATAAAAAACC
11978830 TACGATTCGG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 5 0.15
23 3 0.09
24 25 0.76
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (24 bp):
TAAAATAAATAAAAAACCAAAAAT
Found at i:11980139 original size:43 final size:43
Alignment explanation
Indices: 11980085--11980203 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
11980075 AAGGCTTCTT
*** *
11980085 TTAACAAAGGCTTTGAAACTTTTTGAAAATAAAAT-GCTTCCCC
1 TTAACAAAGGCTTTGAAACTTTCAAAAAATAAAATAG-TCCCCC
*
11980128 TTAACAGAGGCTTTGAAACTTTCAAAAAATAAAATAGTCCCCC
1 TTAACAAAGGCTTTGAAACTTTCAAAAAATAAAATAGTCCCCC
* * * *
11980171 TCAACAAAGGTTTTGAAACTTTGAAAAATTAAA
1 TTAACAAAGGCTTTGAAACTTTCAAAAAATAAA
11980204 GAGCACTTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 64 0.98
44 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (43 bp):
TTAACAAAGGCTTTGAAACTTTCAAAAAATAAAATAGTCCCCC
Found at i:11980248 original size:41 final size:41
Alignment explanation
Indices: 11980175--11980281 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 41
11980165 TCCCCCTCAA
* * *
11980175 CAAAGGTTTTGAAACTTTGAAAAATTAAAGAGCACTTATCAC
1 CAAAGATTATGAAACTTT-AAAAATTAAAGAGCACATATCAC
* * *
11980217 CAAAGATTATGAAACTTTAAAAATTAAAGAGCTCATCTTAC
1 CAAAGATTATGAAACTTTAAAAATTAAAGAGCACATATCAC
11980258 CAAAGATTATGAAACTTTAAAAAT
1 CAAAGATTATGAAACTTTAAAAAT
11980282 AAAAAAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 43 0.73
42 16 0.27
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (41 bp):
CAAAGATTATGAAACTTTAAAAATTAAAGAGCACATATCAC
Found at i:11983466 original size:25 final size:25
Alignment explanation
Indices: 11983438--11983487 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11983428 TCTTTAATCA
* *
11983438 ATTTTTAAGTTACATAGACGATGTC
1 ATTTCTAAGTTACATAGACAATGTC
*
11983463 ATTTCTAGGTTACATAGACAATGTC
1 ATTTCTAAGTTACATAGACAATGTC
11983488 TTATTCCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (25 bp):
ATTTCTAAGTTACATAGACAATGTC
Found at i:11989804 original size:17 final size:19
Alignment explanation
Indices: 11989769--11989805 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
11989759 ATATAAAAAG
11989769 ACATTACAACATAAATAAA
1 ACATTACAACATAAATAAA
*
11989788 ACATTA-AA-ATAACTAAA
1 ACATTACAACATAAATAAA
11989805 A
1 A
11989806 TAACAACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.22
Consensus pattern (19 bp):
ACATTACAACATAAATAAA
Found at i:11989822 original size:25 final size:22
Alignment explanation
Indices: 11989781--11989831 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 22
11989771 ATTACAACAT
*
11989781 AAATAAAACATTAAAATAACTA
1 AAATAAAACATTAAAATAAATA
11989803 AAATAACAACATGATAAAATAAATA
1 AAATAA-AACAT--TAAAATAAATA
11989828 AAAT
1 AAAT
11989832 GGTAAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 5 0.20
25 14 0.56
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.22
Consensus pattern (22 bp):
AAATAAAACATTAAAATAAATA
Found at i:11990135 original size:19 final size:19
Alignment explanation
Indices: 11990108--11990144 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11990098 CTTCCCTTTA
*
11990108 TTTTGTTTTTCTTCTTTTC
1 TTTTGTTTTTCCTCTTTTC
*
11990127 TTTTTTTTTTCCTCTTTT
1 TTTTGTTTTTCCTCTTTT
11990145 ACCTTCTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTTGTTTTTCCTCTTTTC
Found at i:11990236 original size:15 final size:15
Alignment explanation
Indices: 11990213--11990260 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
11990203 TCTCTTCATC
11990213 TCTTCTCTTTTTTTTT
1 TCTT-TCTTTTTTTTT
11990229 TCTTTC-TTTTTTTT
1 TCTTTCTTTTTTTTT
*
11990243 TCATTTCTTTCTTTTT
1 TC-TTTCTTTTTTTTT
11990259 TC
1 TC
11990261 ATTTAACACT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 10 0.34
15 6 0.21
16 13 0.45
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (15 bp):
TCTTTCTTTTTTTTT
Found at i:11990249 original size:19 final size:17
Alignment explanation
Indices: 11990215--11990259 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
11990205 TCTTCATCTC
*
11990215 TTCTCTTTTTTTTTTCT
1 TTCTTTTTTTTTTTTCT
11990232 TTCTTTTTTTTTCATTTCT
1 TTCTTTTTTTTT--TTTCT
11990251 TTCTTTTTT
1 TTCTTTTTT
11990260 CATTTAACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.44
19 14 0.56
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (17 bp):
TTCTTTTTTTTTTTTCT
Found at i:11990260 original size:16 final size:15
Alignment explanation
Indices: 11990221--11990264 Score: 72
Period size: 16 Copynumber: 2.9 Consensus size: 15
11990211 TCTCTTCTCT
11990221 TTTTTTTTTC-TTTC
1 TTTTTTTTTCATTTC
11990235 TTTTTTTTTCATTTC
1 TTTTTTTTTCATTTC
11990250 TTTCTTTTTTCATTT
1 TTT-TTTTTTCATTT
11990265 AACACTCCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.36
15 7 0.25
16 11 0.39
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTCATTTC
Found at i:11990338 original size:20 final size:20
Alignment explanation
Indices: 11990289--11990341 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
11990279 CGAACTGTGG
*
11990289 TTTT-TTTTTCTTCATCTTTT
1 TTTTCTTTTT-TTCATCTTTA
*
11990309 TTTATCTTTTTTTCCTCTTTA
1 TTT-TCTTTTTTTCATCTTTA
11990330 TTTTCTTTTTTT
1 TTTTCTTTTTTT
11990342 TCCTTTTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.41
21 12 0.41
22 5 0.17
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCTTTTTTTCATCTTTA
Found at i:11990342 original size:21 final size:20
Alignment explanation
Indices: 11990292--11990345 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
11990282 ACTGTGGTTT
*
11990292 TTTTTTCTTCATCTTTTTTTA
1 TTTTTT-TTCCTCTTTTTTTA
*
11990313 TCTTTTTTTCCTCTTTATTTTC
1 T-TTTTTTTCCTCTTT-TTTTA
11990335 TTTTTTTTCCT
1 TTTTTTTTCCT
11990346 TTTGCTGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTTTCCTCTTTTTTTA
Found at i:11991430 original size:14 final size:14
Alignment explanation
Indices: 11991413--11991447 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11991403 TTTTCAAAAG
11991413 TTTTTTTATTTGGA
1 TTTTTTTATTTGGA
* *
11991427 TTTTTGTATTTGTA
1 TTTTTTTATTTGGA
11991441 TTTTTTT
1 TTTTTTT
11991448 TTTTTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (14 bp):
TTTTTTTATTTGGA
Found at i:11991596 original size:45 final size:44
Alignment explanation
Indices: 11991470--11991602 Score: 133
Period size: 45 Copynumber: 3.0 Consensus size: 44
11991460 ATTTCTAAAG
* *
11991470 AACTCATCTTATTAGAGGCTCTACAACTTTTGAAAATAAATCAAA
1 AACTCCTCTCATTAGAGGCTCTACAAC-TTTGAAAATAAATCAAA
* * * * *
11991515 AAGCTCCTCACAAATGGAGGCTCCACAA-TTTGAAAATAAATCTTAA
1 AA-CTCCTCTC-ATTAGAGGCTCTACAACTTTGAAAATAAATC-AAA
* * *
11991561 AACTCCTCTCATTAGAGGCTGTACAACTTTAAAAATAGATCA
1 AACTCCTCTCATTAGAGGCTCTACAACTTTGAAAATAAATCA
11991603 TGATGACTTG
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
44 12 0.17
45 35 0.51
46 9 0.13
47 13 0.19
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (44 bp):
AACTCCTCTCATTAGAGGCTCTACAACTTTGAAAATAAATCAAA
Found at i:11991847 original size:23 final size:23
Alignment explanation
Indices: 11991809--11991854 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11991799 GAATCTTACC
*
11991809 TGGAGGATTTTAGAGACTATGCT
1 TGGAGGACTTTAGAGACTATGCT
* *
11991832 TGGAGGACTTTGGAGATTATGCT
1 TGGAGGACTTTAGAGACTATGCT
11991855 CGAAGATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.35
Consensus pattern (23 bp):
TGGAGGACTTTAGAGACTATGCT
Found at i:11992435 original size:17 final size:18
Alignment explanation
Indices: 11992398--11992439 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
11992388 ATATTTTAAA
11992398 TTTCATACTAGTTTTTTT
1 TTTCATACTAGTTTTTTT
11992416 TTTCAT-CTA-TTTTTTCT
1 TTTCATACTAGTTTTTT-T
11992433 TTTCATA
1 TTTCATA
11992440 AATCTTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.27
17 10 0.45
18 6 0.27
ACGTcount: A:0.17, C:0.14, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTCATACTAGTTTTTTT
Found at i:11994300 original size:18 final size:17
Alignment explanation
Indices: 11994276--11994335 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
11994266 CACTCAATCA
11994276 TTTCTTTTCTTTTCTTT
1 TTTCTTTTCTTTTCTTT
11994293 TGTTC-TTTC-TTTCATTTT
1 T-TTCTTTTCTTTTC--TTT
*
11994311 TTTCCTTTTTTTTTCTTT
1 TTT-CTTTTCTTTTCTTT
11994329 TTTCTTT
1 TTTCTTT
11994336 GAATAAATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
16 4 0.11
17 11 0.31
18 14 0.39
19 3 0.08
20 4 0.11
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTCTTTTCTTTTCTTT
Found at i:11994308 original size:31 final size:31
Alignment explanation
Indices: 11994273--11994335 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
11994263 CTTCACTCAA
*
11994273 TCATTTCTTTT-CTTTTCTTTTGTTCTTTCTT
1 TCATTT-TTTTCCTTTTCTTTTCTTCTTTCTT
* *
11994304 TCATTTTTTTCCTTTTTTTTTCTTTTTTCTT
1 TCATTTTTTTCCTTTTCTTTTCTTCTTTCTT
11994335 T
1 T
11994336 GAATAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (31 bp):
TCATTTTTTTCCTTTTCTTTTCTTCTTTCTT
Found at i:11994323 original size:11 final size:10
Alignment explanation
Indices: 11994280--11994331 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
11994270 CAATCATTTC
*
11994280 TTTTCTTTTC
1 TTTTCTTTTT
*
11994290 TTTTGTTCTTT
1 TTTTCTT-TTT
* *
11994301 CTTTCATTTT
1 TTTTCTTTTT
*
11994311 TTTCCTTTTT
1 TTTTCTTTTT
11994321 TTTTCTTTTT
1 TTTTCTTTTT
11994331 T
1 T
11994332 CTTTGAATAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
10 26 0.81
11 6 0.19
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:12003757 original size:16 final size:16
Alignment explanation
Indices: 12003738--12003771 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12003728 TAAATCAACC
*
12003738 AAATTATAAAACCCTA
1 AAATAATAAAACCCTA
*
12003754 AAATAATGAAACCCTA
1 AAATAATAAAACCCTA
12003770 AA
1 AA
12003772 CTTTATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.18, G:0.03, T:0.21
Consensus pattern (16 bp):
AAATAATAAAACCCTA
Found at i:12009560 original size:12 final size:12
Alignment explanation
Indices: 12009543--12009577 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
12009533 GGGTTGAATA
12009543 GAAAAAAAAATT
1 GAAAAAAAAATT
*
12009555 GAAAAAAAATTT
1 GAAAAAAAAATT
12009567 GAAAAACAAAA
1 GAAAAA-AAAA
12009578 AAGTCATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 17 0.85
13 3 0.15
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (12 bp):
GAAAAAAAAATT
Found at i:12011914 original size:16 final size:17
Alignment explanation
Indices: 12011878--12011922 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
12011868 CTTTCTTTTT
*
12011878 TTTTTTTCCTTCTTCTCA
1 TTTTTTT-CTTCATCTCA
12011896 TTTTTTTCTTCATCT-A
1 TTTTTTTCTTCATCTCA
*
12011912 TTTTCTTCTTC
1 TTTTTTTCTTC
12011923 TTTATAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.44
17 7 0.28
18 7 0.28
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTTCTTCATCTCA
Found at i:12011980 original size:16 final size:15
Alignment explanation
Indices: 12011943--12012005 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 15
12011933 CTAAAACTGT
12011943 TCTCTTTTT-TTTTC
1 TCTCTTTTTCTTTTC
12011957 TCCATCTTTTTCTTTTC
1 T-C-TCTTTTTCTTTTC
12011974 TCTTCTTCTTTCTTTAT-
1 TC-TCTT-TTTCTTT-TC
12011991 TCTCTTTATTCTTTT
1 TCTCTTT-TTCTTTT
12012006 TTTTCTCCGT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
14 1 0.02
15 3 0.07
16 22 0.52
17 15 0.36
18 1 0.02
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTCTTTTTCTTTTC
Found at i:12011983 original size:19 final size:18
Alignment explanation
Indices: 12011945--12012009 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
12011935 AAAACTGTTC
*
12011945 TCTTTTTTTTTCTC--CA
1 TCTTTTTTTTTCTCTTCT
12011961 TCTTTTTCTTTTCTCTTCT
1 TCTTTTT-TTTTCTCTTCT
* *
12011980 TCTTTCTTTATTCTCTTTAT
1 TCTTT-TTTTTTCTC-TTCT
12012000 TCTTTTTTTT
1 TCTTTTTTTT
12012010 CTCCGTCATT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 7 0.17
17 7 0.17
19 16 0.40
20 10 0.25
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.74
Consensus pattern (18 bp):
TCTTTTTTTTTCTCTTCT
Found at i:12012086 original size:13 final size:13
Alignment explanation
Indices: 12012070--12012101 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
12012060 ATTCTATTTT
12012070 TCTTCTTTTTGTC
1 TCTTCTTTTTGTC
12012083 TCTTCTTTTTGTC
1 TCTTCTTTTTGTC
12012096 TCTTCT
1 TCTTCT
12012102 CTTATCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.25, G:0.06, T:0.69
Consensus pattern (13 bp):
TCTTCTTTTTGTC
Found at i:12015593 original size:21 final size:21
Alignment explanation
Indices: 12015546--12015600 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
12015536 AAAAAAATTT
*
12015546 ATTCA-AAATATCAAAGAAAA
1 ATTCATAAATATCATAGAAAA
12015566 ATT-ATAAATATCATAGAAAA
1 ATTCATAAATATCATAGAAAA
12015586 ATTCATAAATATCAT
1 ATTCATAAATATCAT
12015601 GCAATAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 1 0.03
20 20 0.62
21 11 0.34
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (21 bp):
ATTCATAAATATCATAGAAAA
Found at i:12015850 original size:17 final size:15
Alignment explanation
Indices: 12015823--12015876 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 15
12015813 GTAAGCCCAA
*
12015823 TTTTGTTTTATATTT
1 TTTTATTTTATATTT
12015838 TTGTTATTTT-TATTTT
1 TT-TTATTTTATA-TTT
12015854 ATTTTATTTTATATTT
1 -TTTTATTTTATATTT
12015870 TATTTAT
1 T-TTTAT
12015877 ATTTTTTCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
15 5 0.15
16 24 0.73
17 4 0.12
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTTATTTTATATTT
Found at i:12015855 original size:5 final size:5
Alignment explanation
Indices: 12015822--12015881 Score: 50
Period size: 5 Copynumber: 11.0 Consensus size: 5
12015812 GGTAAGCCCA
*
12015822 ATTTT GTTTT ATATTT -TTGTT ATTTTT ATTTT ATTTT ATTTTAT ATTTT
1 ATTTT ATTTT AT-TTT ATT-TT A-TTTT ATTTT ATTTT A-TTT-T ATTTT
12015871 ATTTAT ATTTT
1 ATTT-T ATTTT
12015882 TTCCTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
4 1 0.02
5 24 0.52
6 17 0.37
7 4 0.09
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:12015882 original size:12 final size:11
Alignment explanation
Indices: 12015823--12015882 Score: 61
Period size: 12 Copynumber: 5.4 Consensus size: 11
12015813 GTAAGCCCAA
*
12015823 TTTTGTTTTAT
1 TTTTATTTTAT
*
12015834 ATTTT-TGTTAT
1 -TTTTATTTTAT
12015845 TTTTATTTTA-
1 TTTTATTTTAT
12015855 TTTTATTTTAT
1 TTTTATTTTAT
12015866 ATTTTATTTATAT
1 -TTTTATTT-TAT
12015879 TTTT
1 TTTT
12015883 TCCTTTATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 14 0.33
11 9 0.21
12 16 0.38
13 3 0.07
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.78
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:12015973 original size:16 final size:18
Alignment explanation
Indices: 12015947--12015979 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12015937 TATATTTTTA
12015947 TTTTATTTTTCC-CTTTC
1 TTTTATTTTTCCTCTTTC
12015964 TTTT-TTTTTCCTCTTT
1 TTTTATTTTTCCTCTTT
12015980 TTCATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTCCTCTTTC
Found at i:12016045 original size:16 final size:17
Alignment explanation
Indices: 12015984--12016046 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 17
12015974 CTCTTTTTCA
*
12015984 TTTTATTTTATATG-TAT
1 TTTTA-TTTATCTGTTAT
*
12016001 TTTTATTTATCTAATTAT
1 TTTTATTTATCT-GTTAT
12016019 ATGTTTATTTATCTGTTAT
1 -T-TTTATTTATCTGTTAT
12016038 TTTT-TTTAT
1 TTTTATTTAT
12016047 TTATTTATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 11 0.28
17 8 0.21
18 4 0.10
19 5 0.13
20 11 0.28
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTTATTTATCTGTTAT
Found at i:12016045 original size:20 final size:20
Alignment explanation
Indices: 12015998--12016116 Score: 64
Period size: 20 Copynumber: 6.0 Consensus size: 20
12015988 ATTTTATATG
12015998 TATTTTTATTTATCTAATTA
1 TATTTTTATTTATCTAATTA
* *
12016018 TATGTTTATTTATCT-GTTA
1 TATTTTTATTTATCTAATTA
* * *
12016037 TTTTTTTTATTTATTTATCTTA
1 -TATTTTTATTTATCTA-ATTA
* * * * *
12016059 TAATATTGTTGAT-TTATCT-
1 TATTTTTATTTATCTAAT-TA
* *
12016078 TATTATTATTTTTCTAATTA
1 TATTTTTATTTATCTAATTA
* *
12016098 TCTTTTTTTTTATCTAATT
1 TATTTTTATTTATCTAATT
12016117 TTTATTTTAA
Statistics
Matches: 71, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
19 14 0.20
20 46 0.65
21 8 0.11
22 3 0.04
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (20 bp):
TATTTTTATTTATCTAATTA
Found at i:12017010 original size:4 final size:4
Alignment explanation
Indices: 12016931--12016994 Score: 92
Period size: 4 Copynumber: 15.8 Consensus size: 4
12016921 TTTTTTAAAA
* * *
12016931 ATTT TTTT ATTT ATTT GTTT ATTT ATTT ATTT GTTT ATTT ATTT ATTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT
12016980 ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATT
12016995 AGATTAGGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
4 49 0.92
5 4 0.08
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:12017049 original size:17 final size:17
Alignment explanation
Indices: 12017029--12017071 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
12017019 TTTATCTTCA
12017029 TTTTATTTTTATTT-TT
1 TTTTATTTTTATTTATT
* *
12017045 GTTTTATTGTTCTTTATT
1 -TTTTATTTTTATTTATT
12017063 TTTTATTTT
1 TTTTATTTT
12017072 CACTTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (17 bp):
TTTTATTTTTATTTATT
Found at i:12017168 original size:57 final size:56
Alignment explanation
Indices: 12017092--12017307 Score: 299
Period size: 61 Copynumber: 3.7 Consensus size: 56
12017082 AAAAATCAAA
*
12017092 AAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCC
1 AAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCC
* *
12017149 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAA
1 AAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC--C
12017210 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCC
1 AAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCC
*
12017266 AAAAAAAATATTTTTGGGAAAATTTGAAAGTATCAATTTTCC
1 ---AAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
12017308 CTGCACAAGA
Statistics
Matches: 144, Mismatches: 7, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
57 43 0.30
58 35 0.24
59 17 0.12
60 3 0.02
61 46 0.32
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (56 bp):
AAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCC
Found at i:12017215 original size:118 final size:117
Alignment explanation
Indices: 12017087--12017307 Score: 372
Period size: 118 Copynumber: 1.9 Consensus size: 117
12017077 TTATTAAAAA
*
12017087 TCAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCC-AA
1 TCAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCCAAA
12017151 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT
65 AAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT
*
12017205 TCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAA
1 TCAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC--AA
*
12017270 AAAATATTTTTGGGAAAATTTGAAAGTATCAATTTTCC
64 AAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
12017308 CTGCACAAGA
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
117 5 0.05
118 54 0.56
119 26 0.27
120 12 0.12
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (117 bp):
TCAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAA
AATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT
Found at i:12019732 original size:48 final size:46
Alignment explanation
Indices: 12019635--12019736 Score: 132
Period size: 48 Copynumber: 2.2 Consensus size: 46
12019625 ATTATTATTT
* * * * *
12019635 TTATTTATCTAATTATATGTTTATTTATCTGTTATTATTTTTTTTA
1 TTATTTATCTAATAATATGTTGATTTATCTATTATTATTTTTCTAA
*
12019681 TTATTTATCTTATAATATTGTTGATTTATCTTATTATTATTTTTCTAA
1 TTATTTATCTAATAATA-TGTTGATTTATC-TATTATTATTTTTCTAA
12019729 TTATTTAT
1 TTATTTAT
12019737 TTTTTTATCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 15 0.31
47 11 0.23
48 22 0.46
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (46 bp):
TTATTTATCTAATAATATGTTGATTTATCTATTATTATTTTTCTAA
Found at i:12019757 original size:19 final size:19
Alignment explanation
Indices: 12019714--12019758 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
12019704 ATTTATCTTA
*
12019714 TTATTATTTTTCTAATTAT
1 TTATTTTTTTTCTAATTAT
12019733 TTATTTTTTTATCTAATT-T
1 TTATTTTTTT-TCTAATTAT
12019752 TTATTTT
1 TTATTTT
12019759 AAAAGGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTTTTTTCTAATTAT
Found at i:12020587 original size:11 final size:11
Alignment explanation
Indices: 12020571--12020636 Score: 57
Period size: 12 Copynumber: 5.8 Consensus size: 11
12020561 CCGTTCCAGG
12020571 TTTTTT-TTTAA
1 TTTTTTATTT-A
12020582 TTTTTTATTTA
1 TTTTTTATTTA
*
12020593 --TTTTGTTTA
1 TTTTTTATTTA
12020602 TTTGTTTATTTA
1 TTT-TTTATTTA
12020614 TTTATTTATTTTA
1 TTT-TTTA-TTTA
12020627 TTTATTTATT
1 TTT-TTTATT
12020637 AGATTAGGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
9 8 0.17
11 8 0.17
12 19 0.40
13 12 0.26
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:12020601 original size:21 final size:22
Alignment explanation
Indices: 12020572--12020636 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 22
12020562 CGTTCCAGGT
*
12020572 TTTTTTTTAATTT-TTTATTTA
1 TTTTATTTAATTTATTTATTTA
* *
12020593 TTTTGTTT-ATTTGTTTATTTA
1 TTTTATTTAATTTATTTATTTA
*
12020614 -TTTATTTATTTTATTTATTTA
1 TTTTATTTAATTTATTTATTTA
12020635 TT
1 TT
12020637 AGATTAGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.78
Consensus pattern (22 bp):
TTTTATTTAATTTATTTATTTA
Found at i:12020613 original size:25 final size:25
Alignment explanation
Indices: 12020585--12020636 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
12020575 TTTTTAATTT
*
12020585 TTTATTTATTT-TGTTTATTTGTTTA
1 TTTATTTATTTAT-TTTATTTATTTA
12020610 TTTATTTATTTATTTTATTTATTTA
1 TTTATTTATTTATTTTATTTATTTA
12020635 TT
1 TT
12020637 AGATTAGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (25 bp):
TTTATTTATTTATTTTATTTATTTA
Found at i:12020652 original size:4 final size:4
Alignment explanation
Indices: 12020581--12020636 Score: 69
Period size: 4 Copynumber: 13.8 Consensus size: 4
12020571 TTTTTTTTTA
* *
12020581 ATTT -TTT ATTT ATTTT GTTT ATTT GTTT ATTT ATTT ATTT ATTTT ATTT
1 ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT
12020630 ATTT ATT
1 ATTT ATT
12020637 AGATTAGGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
3 3 0.07
4 35 0.78
5 7 0.16
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:12020679 original size:17 final size:17
Alignment explanation
Indices: 12020657--12020690 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12020647 TATTTAATAT
12020657 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
12020674 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
12020691 CTCTTCTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:12020949 original size:52 final size:52
Alignment explanation
Indices: 12020886--12021017 Score: 174
Period size: 52 Copynumber: 2.5 Consensus size: 52
12020876 AATTTCAAGA
* **
12020886 GAAAGAGGATTCTTAATAGGTAAGTTTGACTTGTAAGAGAAGAATTCTAAAAG
1 GAAAGA-GATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAG
* * *
12020939 GAAAGAGATTCTTAATAGACAAGTTTGACTTACAGGAGAAGAATTCTAAGAG
1 GAAAGAGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAG
* * *
12020991 GAGAGGGATTCTTAATGGGCAAGTTTG
1 GAAAGAGATTCTTAATAGGCAAGTTTG
12021018 TATAGTTATA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
52 63 0.91
53 6 0.09
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.27
Consensus pattern (52 bp):
GAAAGAGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAG
Found at i:12021546 original size:31 final size:30
Alignment explanation
Indices: 12021503--12021586 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
12021493 GGCTTTTAGC
* *
12021503 CCAACAAATGGTATTAGAGCTGTGGTGTTT
1 CCAACAAGTGGTATCAGAGCTGTGGTGTTT
12021533 CTCAACAAGTGGTATCAGAGCTGTGGTGTTT
1 C-CAACAAGTGGTATCAGAGCTGTGGTGTTT
*
12021564 CCTAATAAGTGGTATCAGAGCTG
1 CC-AACAAGTGGTATCAGAGCTG
12021587 AAGGTTTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 2 0.04
31 47 0.96
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (30 bp):
CCAACAAGTGGTATCAGAGCTGTGGTGTTT
Found at i:12021941 original size:11 final size:12
Alignment explanation
Indices: 12021924--12021965 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
12021914 ATCTCATAAA
12021924 AGATTTGTTTAG
1 AGATTTGTTTAG
12021936 -GATTTG-TTAG
1 AGATTTGTTTAG
*
12021946 AAATTTGTTT-G
1 AGATTTGTTTAG
12021957 AGATTTGTT
1 AGATTTGTT
12021966 AGATATTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 4 0.15
11 20 0.77
12 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (12 bp):
AGATTTGTTTAG
Found at i:12021954 original size:22 final size:22
Alignment explanation
Indices: 12021926--12021968 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12021916 CTCATAAAAG
12021926 ATTTGTTT-AGGATTTGTTAGAA
1 ATTTGTTTGA-GATTTGTTAGAA
12021948 ATTTGTTTGAGATTTGTTAGA
1 ATTTGTTTGAGATTTGTTAGA
12021969 TATTGCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (22 bp):
ATTTGTTTGAGATTTGTTAGAA
Found at i:12022134 original size:52 final size:52
Alignment explanation
Indices: 12022013--12022144 Score: 174
Period size: 52 Copynumber: 2.5 Consensus size: 52
12022003 AAATTTCAAG
* *
12022013 AGAAAGAGGATTCTTAATAGGTAAGTTTGACTTACAAGAGAAGAATTCTAAA
1 AGAAAAAGGATTCTTAATAGGTAAGTTTAACTTACAAGAGAAGAATTCTAAA
* * *
12022065 AGAAAAAAGATTCTTAATAGGTAAGTTTAACTTACAGGAGAAGAATTCTAAG
1 AGAAAAAGGATTCTTAATAGGTAAGTTTAACTTACAAGAGAAGAATTCTAAA
* * * * *
12022117 AGGAGAGGGATTTTTAATGGGTAAGTTT
1 AGAAAAAGGATTCTTAATAGGTAAGTTT
12022145 GTATGGTTAT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (52 bp):
AGAAAAAGGATTCTTAATAGGTAAGTTTAACTTACAAGAGAAGAATTCTAAA
Found at i:12022702 original size:30 final size:31
Alignment explanation
Indices: 12022631--12022712 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
12022621 GCTTTTAGCC
* * *
12022631 CAACAAATGGTATTAGAGCTGTGGTGTTTCT
1 CAACAAGTGGTATCAGAGCTGTGGTGTTCCT
12022662 CAACAAGTGGTATCAGAGCTGTGGTGTTCCT
1 CAACAAGTGGTATCAGAGCTGTGGTGTTCCT
*
12022693 -AATAAGTGGTATCAGAGCTG
1 CAACAAGTGGTATCAGAGCTG
12022713 AAGGTTTGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 19 0.40
31 28 0.60
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (31 bp):
CAACAAGTGGTATCAGAGCTGTGGTGTTCCT
Found at i:12022783 original size:25 final size:25
Alignment explanation
Indices: 12022755--12022808 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
12022745 AAGATGTGGA
**
12022755 AAGAATCGATGGTTCGAGACATGGG
1 AAGAATCGACAGTTCGAGACATGGG
* * *
12022780 AAGAGTTGACAGTTCGAGATATGGG
1 AAGAATCGACAGTTCGAGACATGGG
12022805 AAGA
1 AAGA
12022809 GCTCAGTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.20
Consensus pattern (25 bp):
AAGAATCGACAGTTCGAGACATGGG
Found at i:12022821 original size:23 final size:24
Alignment explanation
Indices: 12022766--12022825 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
12022756 AGAATCGATG
*
12022766 GTTCGAGACATGGGAAGAGTTGACA
1 GTTCGAGACATGGGAAGAGCT-ACA
*
12022791 GTTCGAGATATGGGAAGAGCT-CA
1 GTTCGAGACATGGGAAGAGCTACA
*
12022814 GTTTGAGACATG
1 GTTCGAGACATG
12022826 AGAAAAAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 12 0.39
25 19 0.61
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (24 bp):
GTTCGAGACATGGGAAGAGCTACA
Done.