Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 35 of 171
Found at i:15992088 original size:127 final size:129
Alignment explanation
Indices: 15991890--15992227 Score: 334
Period size: 139 Copynumber: 2.6 Consensus size: 129
15991880 ATGTAATCAT
* * * *
15991890 ACCACCTAACGAAATGAGA-TAATATGTTAAATATATTTATTAAAAA--TAAAAAGCTTGAAGCA
1 ACCATCTAACGAAA-GA-ACTAATATGTTAAA-AAATTAATTAAAAATTTAAAAAACTTGAAGCA
* * * * *
15991952 ATATAAAATAAAC-TTTG-TA-GAG-GAATTGAACTCGAGA-TTCAAGAATGTAATTACAACTAT
63 ACATGAAATAAACATATGATAGGAGAGAATTAAACTCGAGACTTAAAG-ATGTAATTACAACTAT
15992012 CTA
127 CTA
* *
15992015 ACCATCTAACGAGAA-AACTAATATGTTAAAAAACATTAATTAAAATTTTAAAAAACTTGAAACA
1 ACCATCTAACGA-AAGAACTAATATGTT-AAAAA-ATTAATTAAAAATTTAAAAAACTTGAAGCA
*
15992079 ACATGAAATAAAAAATACAAATATGAATAGGAGAGAATTAAACTCGAGACTTAAAGATGTAATTG
63 ACATGAAAT----AA-AC--ATATG-ATAGGAGAGAATTAAACTCGAGACTTAAAGATGTAATTA
* *
15992144 TAACTGTCTA
120 CAACTATCTA
* *
15992154 ACTATCTAACTAAAGAACTAATATGTTAAAAAATTAATTAAAAATTTAAAAAACTTGAAGCAACA
1 ACCATCTAACGAAAGAACTAATATGTTAAAAAATTAATTAAAAATTTAAAAAACTTGAAGCAACA
15992219 TGAAATAAA
66 TGAAATAAA
15992228 AATTACAAAT
Statistics
Matches: 175, Mismatches: 18, Indels: 33
0.77 0.08 0.15
Matches are distributed among these distances:
123 1 0.01
124 11 0.06
125 24 0.14
126 2 0.01
127 21 0.12
131 2 0.01
132 3 0.02
133 2 0.01
135 3 0.02
137 39 0.22
138 10 0.06
139 52 0.30
140 5 0.03
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (129 bp):
ACCATCTAACGAAAGAACTAATATGTTAAAAAATTAATTAAAAATTTAAAAAACTTGAAGCAACA
TGAAATAAACATATGATAGGAGAGAATTAAACTCGAGACTTAAAGATGTAATTACAACTATCTA
Found at i:15997682 original size:2 final size:2
Alignment explanation
Indices: 15997677--15997713 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15997667 ATTCAACTTA
15997677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15997714 AGTAATTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16002999 original size:54 final size:54
Alignment explanation
Indices: 16002917--16003021 Score: 210
Period size: 54 Copynumber: 1.9 Consensus size: 54
16002907 ATGTGTTGAG
16002917 TGCTTTTACGTGTTCCCTCATATGGGCTAATTCTGTGTATTTATATGATATGAT
1 TGCTTTTACGTGTTCCCTCATATGGGCTAATTCTGTGTATTTATATGATATGAT
16002971 TGCTTTTACGTGTTCCCTCATATGGGCTAATTCTGTGTATTTATATGATAT
1 TGCTTTTACGTGTTCCCTCATATGGGCTAATTCTGTGTATTTATATGATAT
16003022 AATTCTCCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.47
Consensus pattern (54 bp):
TGCTTTTACGTGTTCCCTCATATGGGCTAATTCTGTGTATTTATATGATATGAT
Found at i:16006716 original size:60 final size:60
Alignment explanation
Indices: 16006635--16006754 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
16006625 CTTTTCACAA
*
16006635 TCTAGCCATCATAGCTTTCTTAACCATAGCTCACTTATCTTATTTGTCCACTTGGCCCAT
1 TCTAACCATCATAGCTTTCTTAACCATAGCTCACTTATCTTATTTGTCCACTTGGCCCAT
16006695 TCTAACCATCATAGCTTTCTTAACCATAGCTCACTTATCTTATTTGTCCACTTGGCCCAT
1 TCTAACCATCATAGCTTTCTTAACCATAGCTCACTTATCTTATTTGTCCACTTGGCCCAT
16006755 AGTAGACTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.38
Consensus pattern (60 bp):
TCTAACCATCATAGCTTTCTTAACCATAGCTCACTTATCTTATTTGTCCACTTGGCCCAT
Found at i:16006982 original size:23 final size:23
Alignment explanation
Indices: 16006810--16006970 Score: 157
Period size: 23 Copynumber: 6.9 Consensus size: 23
16006800 CGAAGTACTT
16006810 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
*
16006836 AACAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * * * *
16006858 ATCAATAGGCGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* *
16006880 AATCAGTAGGCACACGAAGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
*
16006904 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
16006927 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
16006950 AACAGTAAGCACACACAGTGC
1 AACAGTAAGCACACAAAGTGC
16006971 TGAACGGTAA
Statistics
Matches: 116, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
22 18 0.16
23 76 0.66
24 3 0.03
26 14 0.12
27 5 0.04
ACGTcount: A:0.42, C:0.24, G:0.24, T:0.11
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:16014384 original size:16 final size:17
Alignment explanation
Indices: 16014363--16014397 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16014353 AATTAATTTA
*
16014363 AATTAATTAATTTT-TC
1 AATTAAATAATTTTCTC
16014379 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
16014396 AA
1 AA
16014398 CCTAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:16015821 original size:407 final size:408
Alignment explanation
Indices: 16015048--16015863 Score: 1517
Period size: 407 Copynumber: 2.0 Consensus size: 408
16015038 AAGACAAACA
16015048 ACCCATGATAACGTTTATTTTTCATTTATCATGTAATGTCAATGAGAGGATTACCCATGTCTTGG
1 ACCCATGATAACGTTTATTTTTCATTTATCATGTAATGTCAATGAGAGGATTACCCATGTCTTGG
* *
16015113 GTTAAGAATTCTACTATTGTGGATGACATTACATACTGCAGAAATCATATACCCAACACACCAGC
66 GTTAAGAATTCCACTATTGTGGATGACATTACATACTGCAGAAATCATATACCCAACACACCAAC
*
16015178 TTTCAATTTCTTATCTATTCGAACTCAGGTTTTTACTAACATAAAAGTATATGAATTATACATAC
131 TTTCAATTTCTTATCTATTCGAACTCAGGTTTTTACTAACATAAAAGTATATAAATTATACATAC
*
16015243 ATAGTTCATTATCCACTTAGGATTAGGGTATATCACTCTATGAACGTCACAAGTGAATAAATTTA
196 ATAGTTCATTATCCACTTAGGATTAGGGTATATCACTCTATGAACGTCACAAGTGAATAAATTCA
*
16015308 TAAACGAATTTAGGGTCTATTCTACTTAGGTCCAATCCGATGTATTGTCAGTCTAATCAGTCACA
261 TAAACGAATTTAGGGTCTATTCTACTTAGGTCCAATCCGATGTATTGTCAGTCCAATCAGTCACA
* *
16015373 TCTATGTCTCTATCTTTTGGGAGTCATCTGATTCGTTGCCCAAGAAAAGCATCTCCTCAGTTAGA
326 TCTATGTCTCTATCTTTTGGGAGTCATCCGATCCGTTGCCCAAGAAAAGCATCTCCTCAGTTAGA
*
16015438 CTTCATAGGCAACATATT
391 CTTCATAGACAACATATT
16015456 ACCCATGATAACGTTTA-TTTTCATTTATCATGTAATGTCAATGAGAGGATTACCCATGTCTTGG
1 ACCCATGATAACGTTTATTTTTCATTTATCATGTAATGTCAATGAGAGGATTACCCATGTCTTGG
* *
16015520 GTTAAGAATTCCACTATTGTGGATGACATTACATACTGCCGAAATCATATACTCAACACACCAAC
66 GTTAAGAATTCCACTATTGTGGATGACATTACATACTGCAGAAATCATATACCCAACACACCAAC
16015585 TTTCAATTTCTTATCTATTCGAACTCAGGTTTTTACTAACATAAAAGTATATAAATTATACATAC
131 TTTCAATTTCTTATCTATTCGAACTCAGGTTTTTACTAACATAAAAGTATATAAATTATACATAC
*
16015650 ATAGTTCATTATCCACTTAGGATTAGGGTATGTCACTCTATGAACGTCACAAGTGAATAAATTCA
196 ATAGTTCATTATCCACTTAGGATTAGGGTATATCACTCTATGAACGTCACAAGTGAATAAATTCA
16015715 TAAACGAATTTAGGGTCTATTCTACTTAGGTCCAATCCGATGTATTGTCAGTCCAATCAGTCACA
261 TAAACGAATTTAGGGTCTATTCTACTTAGGTCCAATCCGATGTATTGTCAGTCCAATCAGTCACA
*
16015780 TCTATGTCTCTATCTTTTGGGAGTCATCCGGTCCGTTGCCCAAGAAAAGCATCTCCTCAGTTAGA
326 TCTATGTCTCTATCTTTTGGGAGTCATCCGATCCGTTGCCCAAGAAAAGCATCTCCTCAGTTAGA
16015845 CTTCATAGACAACATATT
391 CTTCATAGACAACATATT
16015863 A
1 A
16015864 GTCTTTCAAA
Statistics
Matches: 396, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
407 379 0.96
408 17 0.04
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (408 bp):
ACCCATGATAACGTTTATTTTTCATTTATCATGTAATGTCAATGAGAGGATTACCCATGTCTTGG
GTTAAGAATTCCACTATTGTGGATGACATTACATACTGCAGAAATCATATACCCAACACACCAAC
TTTCAATTTCTTATCTATTCGAACTCAGGTTTTTACTAACATAAAAGTATATAAATTATACATAC
ATAGTTCATTATCCACTTAGGATTAGGGTATATCACTCTATGAACGTCACAAGTGAATAAATTCA
TAAACGAATTTAGGGTCTATTCTACTTAGGTCCAATCCGATGTATTGTCAGTCCAATCAGTCACA
TCTATGTCTCTATCTTTTGGGAGTCATCCGATCCGTTGCCCAAGAAAAGCATCTCCTCAGTTAGA
CTTCATAGACAACATATT
Found at i:16033537 original size:15 final size:16
Alignment explanation
Indices: 16033517--16033549 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
16033507 TTAACCATTT
16033517 TTTAAAT-TTTTTTAA
1 TTTAAATATTTTTTAA
16033532 TTTAAATAATTTTTTAA
1 TTTAAAT-ATTTTTTAA
16033549 T
1 T
16033550 CAAACTGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAAATATTTTTTAA
Found at i:16038087 original size:13 final size:13
Alignment explanation
Indices: 16038068--16038100 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
16038058 AGAAGTATTT
16038068 TTAAAAACATGTAA
1 TTAAAAA-ATGTAA
16038082 -TAAAAAATGTAA
1 TTAAAAAATGTAA
16038094 TTAAAAA
1 TTAAAAA
16038101 TAATATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (13 bp):
TTAAAAAATGTAA
Found at i:16038358 original size:28 final size:28
Alignment explanation
Indices: 16038322--16038383 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
16038312 ATTTTAAAAA
16038322 TTAAA-AATTAAAAAT-AATAAATAATAT
1 TTAAATAATTAAAAATAAATAAA-AATAT
* *
16038349 TTAAATAATTTAATATAAATAAAAATAT
1 TTAAATAATTAAAAATAAATAAAAATAT
*
16038377 TTTAATA
1 TTAAATA
16038384 TTTTTAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 5 0.17
28 19 0.63
29 6 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
TTAAATAATTAAAAATAAATAAAAATAT
Found at i:16044992 original size:32 final size:32
Alignment explanation
Indices: 16044937--16045001 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
16044927 TCAGGAGCAT
* * *
16044937 AATTTCAGCAAACGGGATTTGTTTCTTAGACG
1 AATTTCAGCAAACAGGATGTGTTTATTAGACG
*
16044969 AATTTCAGTAAACAGGATGTGTTTATTAGACG
1 AATTTCAGCAAACAGGATGTGTTTATTAGACG
16045001 A
1 A
16045002 TAAAGCTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (32 bp):
AATTTCAGCAAACAGGATGTGTTTATTAGACG
Found at i:16046247 original size:84 final size:88
Alignment explanation
Indices: 16046097--16046267 Score: 233
Period size: 84 Copynumber: 2.0 Consensus size: 88
16046087 TATATCACCG
* *
16046097 GTAAAATGTTTTAAGGCATATAAAAGAGATGGAAAAATGAATGCAAAAGTAGATAGATCGTAGAT
1 GTAAAATGTTTGAAGGCA-ATAAAAGAGATGGAAAAATG-ATG-AAAAGTAGATAGATCATAGAT
16046162 GAGTCTCTGGA-TTGATCTAGAAGCA
63 GAGTCTCTGGATTTGATCTAGAAGCA
* * * *
16046187 GTAAAATGTTTGAAGGC-ATAAACGAGATGGAGATATG-TG-AAAGTAGATAGATCATGGATGAG
1 GTAAAATGTTTGAAGGCAATAAAAGAGATGGAAAAATGATGAAAAGTAGATAGATCATAGATGAG
16046249 TCTCTGGATTTGATCTAGA
66 TCTCTGGATTTGATCTAGA
16046268 TTCAAGAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
84 29 0.39
85 10 0.14
86 2 0.03
88 17 0.23
90 16 0.22
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (88 bp):
GTAAAATGTTTGAAGGCAATAAAAGAGATGGAAAAATGATGAAAAGTAGATAGATCATAGATGAG
TCTCTGGATTTGATCTAGAAGCA
Found at i:16049372 original size:18 final size:18
Alignment explanation
Indices: 16049341--16049377 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16049331 TCATTCTTTC
*
16049341 AAAAAGTAATTTTTATTT
1 AAAAAGTAAATTTTATTT
*
16049359 AAAAATTAAATTTTATTT
1 AAAAAGTAAATTTTATTT
16049377 A
1 A
16049378 TTCTTATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AAAAAGTAAATTTTATTT
Found at i:16052214 original size:71 final size:71
Alignment explanation
Indices: 16052098--16052240 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
16052088 AGAGACTCCT
*
16052098 AACCAATGTCGAGAGAGTTCGAAGGAGGATTGGTTAAAATGAGTCATGCCCTCTCTGTTGACATG
1 AACCAATGTCGAGAGAGTTCAAAGGAGGATTGGTTAAAATGAGTCATGCCCTCTCTGTTGACATG
16052163 AATATG
66 AATATG
*
16052169 AACCAATGTCGAGAGAGTTCAAAGGAGGATTGGTTAAAATTAGTCATGCCCTCTCTGTTGACATG
1 AACCAATGTCGAGAGAGTTCAAAGGAGGATTGGTTAAAATGAGTCATGCCCTCTCTGTTGACATG
16052234 AATATG
66 AATATG
16052240 A
1 A
16052241 GGATACATTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (71 bp):
AACCAATGTCGAGAGAGTTCAAAGGAGGATTGGTTAAAATGAGTCATGCCCTCTCTGTTGACATG
AATATG
Found at i:16053363 original size:44 final size:44
Alignment explanation
Indices: 16053315--16053402 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
16053305 CTTTTAGATT
16053315 TTTTTTATTAATATTTATTTAAGGGTTAATATATAGTTTATCTC
1 TTTTTTATTAATATTTATTTAAGGGTTAATATATAGTTTATCTC
*
16053359 TTTTTTATTAATATTTATTTAAGGGTTAATTTATAGTTTATCTC
1 TTTTTTATTAATATTTATTTAAGGGTTAATATATAGTTTATCTC
16053403 CTGAACTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (44 bp):
TTTTTTATTAATATTTATTTAAGGGTTAATATATAGTTTATCTC
Found at i:16054447 original size:22 final size:23
Alignment explanation
Indices: 16054396--16054447 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
16054386 GGAACTGGTT
16054396 TAATTT-ATTGGACCGACAAATC
1 TAATTTGATTGGACCGACAAATC
* *
16054418 -AATATTGATTTGACC-ACCAATC
1 TAAT-TTGATTGGACCGACAAATC
16054440 TAATTTGA
1 TAATTTGA
16054448 AAATAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 12 0.48
23 10 0.40
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (23 bp):
TAATTTGATTGGACCGACAAATC
Found at i:16055958 original size:18 final size:18
Alignment explanation
Indices: 16055915--16055976 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
16055905 AAAACTTAGT
*
16055915 AATGC-TTTTATCTCAAA
1 AATGCTTTTTATCCCAAA
* **
16055932 AGTTTTTTTTATCCCAAA
1 AATGCTTTTTATCCCAAA
*
16055950 AATGCTTTTTGTCCCAAA
1 AATGCTTTTTATCCCAAA
*
16055968 AGTGCTTTT
1 AATGCTTTT
16055977 AAGAAGTAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 2 0.06
18 33 0.94
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (18 bp):
AATGCTTTTTATCCCAAA
Found at i:16058034 original size:28 final size:28
Alignment explanation
Indices: 16057985--16058044 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
16057975 AAGTTCAAGA
* *
16057985 TTTAGAGTCCAAAGTTCAAAGTCTAGAG
1 TTTAGAGTCCAAAATTCAAAGTCCAGAG
* ** *
16058013 TTTAGGGTCCAAAATTTTAAGTCCAGGG
1 TTTAGAGTCCAAAATTCAAAGTCCAGAG
16058041 TTTA
1 TTTA
16058045 AAGTTCAAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (28 bp):
TTTAGAGTCCAAAATTCAAAGTCCAGAG
Found at i:16058061 original size:21 final size:22
Alignment explanation
Indices: 16058037--16058086 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
16058027 TTTTAAGTCC
16058037 AGGGTTTAAAG-TTCAAGATCG
1 AGGGTTTAAAGATTCAAGATCG
** *
16058058 AGGG-TCCAAGATTCAAGATTG
1 AGGGTTTAAAGATTCAAGATCG
16058079 AGGGTTTA
1 AGGGTTTA
16058087 GAGTCCAATG
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
20 4 0.18
21 17 0.77
22 1 0.05
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (22 bp):
AGGGTTTAAAGATTCAAGATCG
Found at i:16063583 original size:30 final size:31
Alignment explanation
Indices: 16063527--16063584 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
16063517 TTGGTTATTG
*
16063527 AACTATTCTAAAGTTTTCATTTAAGTCACTA
1 AACTATTCAAAAGTTTTCATTTAAGTCACTA
*
16063558 AACTATTCAAAAGTTTTTA-TTAAGTCA
1 AACTATTCAAAAGTTTTCATTTAAGTCA
16063585 ATGAACTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAGTCACTA
Found at i:16066795 original size:12 final size:12
Alignment explanation
Indices: 16066766--16066799 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
16066756 ATCATTAATA
*
16066766 AATAAACGAGTC
1 AATAAACGAGCC
16066778 -ATAAACGAGCC
1 AATAAACGAGCC
16066789 AATAAACGAGC
1 AATAAACGAGC
16066800 TTGTTCGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.12
Consensus pattern (12 bp):
AATAAACGAGCC
Found at i:16067021 original size:2 final size:2
Alignment explanation
Indices: 16067016--16067065 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
16067006 TTGATATTAA
* *
16067016 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AA AA 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
16067057 AT AT AT AT A
1 AT AT AT AT A
16067066 GAGAGAGAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:16067070 original size:2 final size:2
Alignment explanation
Indices: 16067065--16067116 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
16067055 ATATATATAT
16067065 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16067107 AG AG AG AG AG
1 AG AG AG AG AG
16067117 TATGATCCTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16067290 original size:18 final size:18
Alignment explanation
Indices: 16067263--16067308 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
16067253 TTTACTTTAT
*
16067263 TTTATTTTTTAAAATATA
1 TTTATCTTTTAAAATATA
** *
16067281 TTTATCTTTTAATTTATG
1 TTTATCTTTTAAAATATA
16067299 TTTATCTTTT
1 TTTATCTTTT
16067309 TGTATTTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTATCTTTTAAAATATA
Found at i:16070892 original size:6 final size:6
Alignment explanation
Indices: 16070881--16070936 Score: 73
Period size: 6 Copynumber: 9.7 Consensus size: 6
16070871 GCAACCCAAA
*
16070881 TATTTT TATTTT TATTTT TATTTT TA-TTT TA-TTT TATTTAT T-TATT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTT-T TATTTT
16070927 TATTTT TATT
1 TATTTT TATT
16070937 CAGGAAACTC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
5 12 0.27
6 31 0.69
7 2 0.04
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:16073331 original size:20 final size:20
Alignment explanation
Indices: 16073308--16073349 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
16073298 TTCAACTTCT
* *
16073308 TTATTTTTTATTTTTTTTAA
1 TTATATTTTATTTTATTTAA
*
16073328 TTATATTTTCTTTTATTTAA
1 TTATATTTTATTTTATTTAA
16073348 TT
1 TT
16073350 CTGTTTCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (20 bp):
TTATATTTTATTTTATTTAA
Found at i:16079098 original size:38 final size:36
Alignment explanation
Indices: 16079040--16079121 Score: 98
Period size: 38 Copynumber: 2.3 Consensus size: 36
16079030 CTATTTTTCG
16079040 TAAA-TTT-AGAATTTAGTTTATTTATTTTTA-ATTT
1 TAAATTTTAAGAATTTAGTTTA-TTATTTTTAGATTT
* *
16079074 TTAATTTTAAGAATTTAGTTTTTATTCTTTTTAGATTT
1 TAAATTTTAAGAATTTAG--TTTATTATTTTTAGATTT
16079112 TAAATTTTAA
1 TAAATTTTAA
16079122 ATATAATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 3 0.08
35 3 0.08
36 9 0.22
37 8 0.20
38 17 0.43
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (36 bp):
TAAATTTTAAGAATTTAGTTTATTATTTTTAGATTT
Found at i:16105768 original size:16 final size:16
Alignment explanation
Indices: 16105744--16105774 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16105734 AACAAAGTTT
16105744 AATAAAAAATATTTTG
1 AATAAAAAATATTTTG
*
16105760 AATATAAAATATTTT
1 AATAAAAAATATTTT
16105775 ATTTCACCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATAAAAAATATTTTG
Found at i:16110585 original size:3 final size:3
Alignment explanation
Indices: 16110577--16110623 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
16110567 ATATGTACAC
16110577 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16110624 ATTTTTAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16132712 original size:18 final size:17
Alignment explanation
Indices: 16132689--16132734 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
16132679 TAATACTTTT
*
16132689 TAAAAAGCACTTTTGACA
1 TAAAAAGCAATTTTGA-A
*
16132707 TAAAAAGTAATTTTGAA
1 TAAAAAGCAATTTTGAA
*
16132724 TTAAAAGCAAT
1 TAAAAAGCAAT
16132735 GCTAAACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (17 bp):
TAAAAAGCAATTTTGAA
Found at i:16133739 original size:15 final size:16
Alignment explanation
Indices: 16133719--16133761 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
16133709 TAATAATGCA
16133719 TATATATTAACTAA-G
1 TATATATTAACTAATG
*
16133734 TATATATAAACTAATTG
1 TATATATTAACTAA-TG
16133751 TAATATATTAA
1 T-ATATATTAA
16133762 TATTGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 13 0.57
17 2 0.09
18 8 0.35
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
TATATATTAACTAATG
Found at i:16137666 original size:23 final size:21
Alignment explanation
Indices: 16137633--16137757 Score: 99
Period size: 23 Copynumber: 5.3 Consensus size: 21
16137623 TAGCGCGCCT
*
16137633 TCTGTTTAGCACGTTTCGTGCCC
1 TCTGTTCAGCAC-TTT-GTGCCC
16137656 TCTGTTCAGCACTGTGTGTGCCC
1 TCTGTTCAGCACT-T-TGTGCCC
16137679 TCTGTTACTAGCACTTTGTGTGCCC
1 TCTGTT-C-AGCAC-TT-TGTGCCC
16137704 TCTGATT-AGCACTTTGTGTGCCC
1 TCTG-TTCAGCAC-TT-TGTGCCC
16137727 TCTGTTACCCAGCACTTATGTGCCC
1 TCTGTT---CAGCACTT-TGTGCCC
16137752 TCTGTT
1 TCTGTT
16137758 AAATACTTCA
Statistics
Matches: 90, Mismatches: 2, Indels: 18
0.82 0.02 0.16
Matches are distributed among these distances:
22 3 0.03
23 44 0.49
24 2 0.02
25 33 0.37
26 8 0.09
ACGTcount: A:0.11, C:0.30, G:0.21, T:0.38
Consensus pattern (21 bp):
TCTGTTCAGCACTTTGTGCCC
Found at i:16137698 original size:25 final size:25
Alignment explanation
Indices: 16137650--16137758 Score: 138
Period size: 25 Copynumber: 4.5 Consensus size: 25
16137640 AGCACGTTTC
*
16137650 GTGCCCTCTGTT-C-AGCACTGTGT
1 GTGCCCTCTGTTACTAGCACTTTGT
16137673 GTGCCCTCTGTTACTAGCACTTTGT
1 GTGCCCTCTGTTACTAGCACTTTGT
*
16137698 GTGCCCTCTG--ATTAGCACTTTGT
1 GTGCCCTCTGTTACTAGCACTTTGT
* *
16137721 GTGCCCTCTGTTACCCAGCAC-TTAT
1 GTGCCCTCTGTTA-CTAGCACTTTGT
16137746 GTGCCCTCTGTTA
1 GTGCCCTCTGTTA
16137759 AATACTTCAG
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
23 34 0.45
24 1 0.01
25 36 0.47
26 5 0.07
ACGTcount: A:0.12, C:0.30, G:0.21, T:0.37
Consensus pattern (25 bp):
GTGCCCTCTGTTACTAGCACTTTGT
Found at i:16137702 original size:48 final size:47
Alignment explanation
Indices: 16137650--16137758 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 47
16137640 AGCACGTTTC
* *
16137650 GTGCCCTCTGTTCAGCACTGTGTGTGCCCTCTGTTA-CTAGCACTTTGT
1 GTGCCCTCTGTT-AGCACTGTGTGTGCCCTCTGTTACCCAGCAC-TTAT
*
16137698 GTGCCCTCTGATTAGCACTTTGTGTGCCCTCTGTTACCCAGCACTTAT
1 GTGCCCTCTG-TTAGCACTGTGTGTGCCCTCTGTTACCCAGCACTTAT
16137746 GTGCCCTCTGTTA
1 GTGCCCTCTGTTA
16137759 AATACTTCAG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
47 3 0.05
48 45 0.80
49 8 0.14
ACGTcount: A:0.12, C:0.30, G:0.21, T:0.37
Consensus pattern (47 bp):
GTGCCCTCTGTTAGCACTGTGTGTGCCCTCTGTTACCCAGCACTTAT
Found at i:16143700 original size:2 final size:2
Alignment explanation
Indices: 16143687--16143737 Score: 93
Period size: 2 Copynumber: 25.0 Consensus size: 2
16143677 TAATATCAAA
16143687 AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16143730 AT AT AT AT
1 AT AT AT AT
16143738 CTTTGTAACC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16145137 original size:16 final size:15
Alignment explanation
Indices: 16145116--16145165 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
16145106 TGAGCCTCTG
*
16145116 TTCTTTCTTCTTTTGT
1 TTCTTT-TTCTTTTCT
*
16145132 TTCTTTTGTTTTTTCT
1 TTCTTTT-TCTTTTCT
16145148 TTCTTTTTTCTTTTCT
1 TTC-TTTTTCTTTTCT
16145164 TT
1 TT
16145166 TATATATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 24 0.83
17 4 0.14
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (15 bp):
TTCTTTTTCTTTTCT
Found at i:16145156 original size:11 final size:12
Alignment explanation
Indices: 16145131--16145166 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
16145121 TCTTCTTTTG
*
16145131 TTTCTTTTGTTT
1 TTTCTTTTCTTT
16145143 TTTC-TTTCTTT
1 TTTCTTTTCTTT
16145154 TTTCTTTTCTTT
1 TTTCTTTTCTTT
16145166 T
1 T
16145167 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (12 bp):
TTTCTTTTCTTT
Found at i:16146650 original size:11 final size:11
Alignment explanation
Indices: 16146634--16146678 Score: 90
Period size: 11 Copynumber: 4.1 Consensus size: 11
16146624 CACATCTTTT
16146634 TAACTATTTCA
1 TAACTATTTCA
16146645 TAACTATTTCA
1 TAACTATTTCA
16146656 TAACTATTTCA
1 TAACTATTTCA
16146667 TAACTATTTCA
1 TAACTATTTCA
16146678 T
1 T
16146679 TCTTCATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.47
Consensus pattern (11 bp):
TAACTATTTCA
Found at i:16155797 original size:18 final size:18
Alignment explanation
Indices: 16155776--16155815 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
16155766 CGAAGTGTTG
*
16155776 GAGGATGATGGTGATGAT
1 GAGGACGATGGTGATGAT
16155794 GAGGACGATGGTGATGAT
1 GAGGACGATGGTGATGAT
16155812 GAGG
1 GAGG
16155816 GTGGTGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.03, G:0.47, T:0.23
Consensus pattern (18 bp):
GAGGACGATGGTGATGAT
Found at i:16165467 original size:9 final size:9
Alignment explanation
Indices: 16165380--16165540 Score: 66
Period size: 10 Copynumber: 17.2 Consensus size: 9
16165370 CTATAAAAAT
16165380 AATT-TAAA
1 AATTATAAA
*
16165388 AATCATAAAA
1 AATTAT-AAA
16165398 AATTATCAAA
1 AATTAT-AAA
16165408 AA--ATAAA
1 AATTATAAA
16165415 AATTACT--A
1 AATTA-TAAA
*
16165423 AA-TATGAA
1 AATTATAAA
16165431 AATTGATATAA
1 AATT-ATA-AA
*
16165442 ACTTATAAAA
1 AATTAT-AAA
16165452 AATTATAAA
1 AATTATAAA
*
16165461 CATTATAAA
1 AATTATAAA
16165470 AATATATAAAGA
1 AAT-TAT-AA-A
*
16165482 AATCTATTAA
1 AAT-TATAAA
16165492 AATCTA-ATAA
1 AAT-TATA-AA
* *
16165502 ATTGTAAAAA
1 AAT-TATAAA
*
16165512 AAATATAAA
1 AATTATAAA
**
16165521 TTTTATAAA
1 AATTATAAA
16165530 AATTATAAA
1 AATTATAAA
16165539 AA
1 AA
16165541 ATATTAAAAG
Statistics
Matches: 116, Mismatches: 21, Indels: 31
0.69 0.12 0.18
Matches are distributed among these distances:
6 1 0.01
7 7 0.06
8 11 0.09
9 36 0.31
10 44 0.38
11 10 0.09
12 7 0.06
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (9 bp):
AATTATAAA
Found at i:16165477 original size:19 final size:17
Alignment explanation
Indices: 16165436--16165479 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 17
16165426 ATGAAAATTG
16165436 ATATAAACTTATAAAAA
1 ATATAAACTTATAAAAA
16165453 ATTATAAACATTATAAAAA
1 A-TATAAAC-TTATAAAAA
16165472 TATATAAA
1 -ATATAAA
16165480 GAAATCTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.04
18 7 0.29
19 15 0.62
20 1 0.04
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATAAACTTATAAAAA
Found at i:16165519 original size:18 final size:18
Alignment explanation
Indices: 16165498--16165538 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
16165488 TTAAAATCTA
16165498 ATAAATTGTAAAAAAAAT
1 ATAAATTGTAAAAAAAAT
* * *
16165516 ATAAATTTTATAAAAATT
1 ATAAATTGTAAAAAAAAT
16165534 ATAAA
1 ATAAA
16165539 AAATATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAAATTGTAAAAAAAAT
Found at i:16166020 original size:17 final size:17
Alignment explanation
Indices: 16165990--16166031 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16165980 TATATCAATG
** *
16165990 TTAATTTTTTATTTTTT
1 TTAATTTTACATTTTTA
16166007 TTAATTTTACATTTTTA
1 TTAATTTTACATTTTTA
16166024 TT-ATTTTA
1 TTAATTTTA
16166032 AGAATTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTAATTTTACATTTTTA
Found at i:16167653 original size:43 final size:43
Alignment explanation
Indices: 16167592--16167732 Score: 156
Period size: 43 Copynumber: 3.3 Consensus size: 43
16167582 AGTAAATATC
*
16167592 GATGGTGTTAGATGTTTTTGCACATTTAAGGTATTAATGTGTT
1 GATGGTGTTTGATGTTTTTGCACATTTAAGGTATTAATGTGTT
* * *
16167635 GATGGTGTTTGATGTTTTTGTACATTTAAGGTATTAATATGTC
1 GATGGTGTTTGATGTTTTTGCACATTTAAGGTATTAATGTGTT
* ** * * *** * *
16167678 AATAATATTTGATGTTTTTGCACATTCAAAACATCAAAGTGTT
1 GATGGTGTTTGATGTTTTTGCACATTTAAGGTATTAATGTGTT
16167721 GATGGTGTTTGA
1 GATGGTGTTTGA
16167733 AGCTCTCGTA
Statistics
Matches: 77, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.45
Consensus pattern (43 bp):
GATGGTGTTTGATGTTTTTGCACATTTAAGGTATTAATGTGTT
Found at i:16167757 original size:86 final size:86
Alignment explanation
Indices: 16167602--16167763 Score: 198
Period size: 86 Copynumber: 1.9 Consensus size: 86
16167592 GATGGTGTTA
* *** * * * * * * * **
16167602 GATGTTTTTGCACATTTAAGGTATTAATGTGTTGATGGTGTTTGATGTTTTTGTACATTTAAGGT
1 GATGTTTTTGCACATTCAAAACATCAAAGTGTTGATGGTGTTTGAAGCTCTCGTACATCTAAGAC
*
16167667 ATTAATATGTCAATAATATTT
66 ATTAAGATGTCAATAATATTT
16167688 GATGTTTTTGCACATTCAAAACATCAAAGTGTTGATGGTGTTTGAAGCTCTCGTACATCTAAGAC
1 GATGTTTTTGCACATTCAAAACATCAAAGTGTTGATGGTGTTTGAAGCTCTCGTACATCTAAGAC
16167753 ATTAAGATGTC
66 ATTAAGATGTC
16167764 GATAGTGTCC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 62 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (86 bp):
GATGTTTTTGCACATTCAAAACATCAAAGTGTTGATGGTGTTTGAAGCTCTCGTACATCTAAGAC
ATTAAGATGTCAATAATATTT
Found at i:16170363 original size:31 final size:31
Alignment explanation
Indices: 16170328--16170407 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
16170318 TAAAAAAAAT
16170328 CTTATTTGAGCACTTTTAAAAATGATTGACC
1 CTTATTTGAGCACTTTTAAAAATGATTGACC
* *
16170359 CTTATTTGAGCA-TTTTCGAAAATGTTTGACC
1 CTTATTTGAGCACTTTT-AAAAATGATTGACC
*
16170390 CTTATTTGAACACTTTTA
1 CTTATTTGAGCACTTTTA
16170408 TAAAGGTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.09
31 35 0.81
32 4 0.09
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (31 bp):
CTTATTTGAGCACTTTTAAAAATGATTGACC
Found at i:16186482 original size:16 final size:16
Alignment explanation
Indices: 16186463--16186497 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
16186453 ATTGAATAAA
16186463 TTTTAAAATAAAATAT
1 TTTTAAAATAAAATAT
*
16186479 TTTTAATATAAAATAT
1 TTTTAAAATAAAATAT
16186495 TTT
1 TTT
16186498 ATTTCACCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTAAAATAAAATAT
Found at i:16187049 original size:27 final size:27
Alignment explanation
Indices: 16186998--16187049 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
16186988 GAATTTTAAA
** *
16186998 AGTTACTAAAATGACTCTTATAAAACT
1 AGTTACTAAAATGACTCGCAAAAAACT
*
16187025 AGTTACTAAAATGACTGGCAAAAAA
1 AGTTACTAAAATGACTCGCAAAAAA
16187050 AAAAAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (27 bp):
AGTTACTAAAATGACTCGCAAAAAACT
Found at i:16187740 original size:79 final size:79
Alignment explanation
Indices: 16187598--16187750 Score: 209
Period size: 79 Copynumber: 1.9 Consensus size: 79
16187588 TAATGTGGGG
* * *
16187598 AACAATTGCCAACTATAGGACCTAACATGGACCCAAAAAATAGTTCAGACCCCAATGTGGAAAAG
1 AACAATTGCCAACTATAGGACCTAACATGGACACAAAAAATAGTTCAGACCCCAATATGGAAAAA
16187663 TTGCCAAGTCCTAT
66 TTGCCAAGTCCTAT
* * * * *
16187677 AACAATTGCCAAGTTTAGGACCTAACTTGGACAGAAAAAA-AGTTTAGACCCCAATATGAGAAAA
1 AACAATTGCCAACTATAGGACCTAACATGGACACAAAAAATAGTTCAGACCCCAATATG-GAAAA
*
16187741 ATTTCCAAGT
65 ATTGCCAAGT
16187751 TTAGGCACCA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 16 0.25
79 48 0.75
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (79 bp):
AACAATTGCCAACTATAGGACCTAACATGGACACAAAAAATAGTTCAGACCCCAATATGGAAAAA
TTGCCAAGTCCTAT
Found at i:16209152 original size:29 final size:29
Alignment explanation
Indices: 16209058--16209155 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 29
16209048 GGTAAAATAA
* *
16209058 TAAAAGTTGA-AAAAAATGAATTTAGATCTCT
1 TAAAAGTTGATAAAAAA--AATTTGGA-CCCT
16209089 TAAAAGTTGATAAAAAAAATTTGGACCCT
1 TAAAAGTTGATAAAAAAAATTTGGACCCT
* *
16209118 TAAAAATTGATAAAAAAAAATTTTGA-CCT
1 TAAAAGTTGAT-AAAAAAAATTTGGACCCT
16209147 GTAAAAGTT
1 -TAAAAGTT
16209156 AAAATTTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
29 16 0.27
30 27 0.46
31 10 0.17
32 6 0.10
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (29 bp):
TAAAAGTTGATAAAAAAAATTTGGACCCT
Found at i:16212246 original size:17 final size:17
Alignment explanation
Indices: 16212206--16212248 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
16212196 TTATTCCATG
16212206 ATAAATTTTTTTATTTT
1 ATAAATTTTTTTATTTT
*
16212223 ATGAATTTTTTATATTTT
1 ATAAATTTTTT-TATTTT
16212241 -TAAATTTT
1 ATAAATTTT
16212249 AGATTTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATAAATTTTTTTATTTT
Found at i:16216837 original size:27 final size:27
Alignment explanation
Indices: 16216800--16216851 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
16216790 AATCATCATA
16216800 TTTTTTCTTTCATGTTTTTTAGCTTTT
1 TTTTTTCTTTCATGTTTTTTAGCTTTT
* * *
16216827 TTTTTTTTTTCATTTTTTTTTGCTT
1 TTTTTTCTTTCATGTTTTTTAGCTT
16216852 CTCTCTCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.06, C:0.10, G:0.06, T:0.79
Consensus pattern (27 bp):
TTTTTTCTTTCATGTTTTTTAGCTTTT
Found at i:16226300 original size:20 final size:20
Alignment explanation
Indices: 16226263--16226301 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16226253 ACTATGTAGC
*
16226263 TAATTTAAATTTAGTACAAA
1 TAATTTAAATATAGTACAAA
16226283 TAATTTATAATATA-TACAA
1 TAATTTA-AATATAGTACAA
16226302 TGTAATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
TAATTTAAATATAGTACAAA
Found at i:16227682 original size:42 final size:41
Alignment explanation
Indices: 16227629--16227720 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 41
16227619 TTTCTTCTTA
16227629 ATGATTTTACATAAAAAAATTCTAATTTATTAATATTTATAT
1 ATGATTTTACAT-AAAAAATTCTAATTTATTAATATTTATAT
* **
16227671 ATGATTTTACATGAGGAATTCTAATTTATTAATATTTATAT
1 ATGATTTTACATAAAAAATTCTAATTTATTAATATTTATAT
*
16227712 ATGAATTTA
1 ATGATTTTA
16227721 TGGTTGTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 34 0.74
42 12 0.26
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (41 bp):
ATGATTTTACATAAAAAATTCTAATTTATTAATATTTATAT
Found at i:16231814 original size:20 final size:20
Alignment explanation
Indices: 16231789--16231941 Score: 153
Period size: 20 Copynumber: 7.2 Consensus size: 20
16231779 AGTACTTGAA
*
16231789 TTGCTTTGATTTATATTACT
1 TTGCTTTGCTTTATATTACT
*
16231809 TTGCTTTGCTTTCCTTTATATTGCT
1 TTGCTTTG-----CTTTATATTACT
*
16231834 TGGCTTTGCTTTATATTACT
1 TTGCTTTGCTTTATATTACT
16231854 TTGCTTTGCTTTATATTACTTTACT
1 TTGCTTTGC-TT-TA-TA--TTACT
*
16231879 TTGCTTTGCTTTATATTGCT
1 TTGCTTTGCTTTATATTACT
*
16231899 TTGCTTTGTTTTATATTACT
1 TTGCTTTGCTTTATATTACT
* *
16231919 TTGCTTTGATTTATATTGCT
1 TTGCTTTGCTTTATATTACT
16231939 TTG
1 TTG
16231942 TTGTGCTGTG
Statistics
Matches: 113, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
20 70 0.62
21 2 0.02
22 4 0.04
23 4 0.04
24 2 0.02
25 31 0.27
ACGTcount: A:0.14, C:0.14, G:0.12, T:0.60
Consensus pattern (20 bp):
TTGCTTTGCTTTATATTACT
Found at i:16231817 original size:5 final size:5
Alignment explanation
Indices: 16231807--16232634 Score: 268
Period size: 5 Copynumber: 159.8 Consensus size: 5
16231797 ATTTATATTA
* * * * *
16231807 CTTTG CTTTG CTTTC CTTT- ATATTG CTTGG CTTTG CTTT- ATATTA CTTTG
1 CTTTG CTTTG CTTTG CTTTG CT-TTG CTTTG CTTTG CTTTG CT-TTG CTTTG
* * * *
16231857 CTTTG CTTT- ATATTA CTTTA CTTTG CTTTG CTTT- ATATTG CTTTG CTTTG
1 CTTTG CTTTG CT-TTG CTTTG CTTTG CTTTG CTTTG CT-TTG CTTTG CTTTG
* * * * * *
16231907 -TTTT ATATTA CTTTG CTTTG ATTT- ATATTG CTTTG -TTGTG CTGTG
1 CTTTG CT-TTG CTTTG CTTTG CTTTG CT-TTG CTTTG CTT-TG CTTTG
* * * * *
16231952 CTTTG CTTTG CTTTG CTGTG CTTTTT ATATTA CTTTA CTTTG CTTTG CTTT-
1 CTTTG CTTTG CTTTG CTTTG C-TTTG CT-TTG CTTTG CTTTG CTTTG CTTTG
* * * * * * *
16232003 ATATTG TTTTG CTGTG CATTG CTTTG TTTTG CTTTG CTTTTT ATATTG
1 CT-TTG CTTTG CTTTG CTTTG CTTTG CTTTG CTTTG C-TTTG CT-TTG
* * * *
16232051 CTTTG GTTTG CTTTG CTGTG CTTT- TTATATG CTTTG CTCTTTG TTTTG
1 CTTTG CTTTG CTTTG CTTTG CTTTG CT-T-TG CTTTG --CTTTG CTTTG
* * *
16232099 CTGTG CTTTTT ATATTG CTTTG CTTTTTG -TATTG CTTTG CTTTG -TATTG
1 CTTTG C-TTTG CT-TTG CTTTG C--TTTG CT-TTG CTTTG CTTTG CT-TTG
* * * * * *
16232148 CTGTG CTTTTT ATATTG CTTTG CTTTG TTTTG -TTGTG CTTTTT ATATTG
1 CTTTG C-TTTG CT-TTG CTTTG CTTTG CTTTG CTT-TG C-TTTG CT-TTG
* * * * *
16232197 CTTTG CTTT- ATATTG CTTTG CTGTG CATTG CTTTG TTTTG CTTTG CTTTTT
1 CTTTG CTTTG CT-TTG CTTTG CTTTG CTTTG CTTTG CTTTG CTTTG C-TTTG
* * * * * *
16232248 ATATTA CTTTG CTTTG TTTTG CTTTG CTTTTT ATATTG CTTTG GTTTG
1 CT-TTG CTTTG CTTTG CTTTG CTTTG C-TTTG CT-TTG CTTTG CTTTG
* * * *
16232296 CTTTG CTGTG CTTTTT ATATTG CTTTG CTTTG TTTTG CTTTG CTCTTTG
1 CTTTG CTTTG C-TTTG CT-TTG CTTTG CTTTG CTTTG CTTTG --CTTTG
* * * *
16232345 -TATTG CTTTG CTTTG TTTTG CTGTG CTTTTT ATATTG CTTTG CTTT-
1 CT-TTG CTTTG CTTTG CTTTG CTTTG C-TTTG CT-TTG CTTTG CTTTG
* *
16232391 CTTTTG CTTTG CTTTG TTTTG CTTTG CTTT- -TTAT- ATTTG CCTTT-
1 C-TTTG CTTTG CTTTG CTTTG CTTTG CTTTG CTT-TG CTTTG -CTTTG
* * * *
16232435 CTTTG TTTTG CTTTG CTCTTTG -TATTA CTTTG CTTTG TTTTG CTGTG
1 CTTTG CTTTG CTTTG --CTTTG CT-TTG CTTTG CTTTG CTTTG CTTTG
* * *
16232482 CTTTTT ATATTG CTTTG CTTTG CTTT- -TTAT- ATTTG CTTTG CTTTG
1 C-TTTG CT-TTG CTTTG CTTTG CTTTG CTT-TG CTTTG CTTTG CTTTG
* * * * *
16232527 TTTTG CTGTG CTTTTT ATATTG CTTTG CTTTG TTTTG CTTTG CTCTTTG
1 CTTTG CTTTG C-TTTG CT-TTG CTTTG CTTTG CTTTG CTTTG --CTTTG
* * * * *
16232576 TTTTG CTGTG CTTTTT ATATTG CTTTG CTTT- -TTAT- ATTTG CTTTG
1 CTTTG CTTTG C-TTTG CT-TTG CTTTG CTTTG CTT-TG CTTTG CTTTG
*
16232621 CTTTG CTGTG CTTT
1 CTTTG CTTTG CTTT
16232635 TTAATATAGA
Statistics
Matches: 605, Mismatches: 140, Indels: 156
0.67 0.16 0.17
Matches are distributed among these distances:
3 6 0.01
4 31 0.05
5 458 0.76
6 83 0.14
7 27 0.04
ACGTcount: A:0.08, C:0.14, G:0.17, T:0.62
Consensus pattern (5 bp):
CTTTG
Found at i:16231833 original size:40 final size:42
Alignment explanation
Indices: 16231789--16231941 Score: 152
Period size: 45 Copynumber: 3.5 Consensus size: 42
16231779 AGTACTTGAA
*
16231789 TTGCTTTGATTTATATTACTTTGCTTTGCTTTCCT-TTA-TATT
1 TTGCTTTGATTTATATTACTTTGCTTTGCTTT-ATATTACTA-T
*
16231831 GCTTGGCTTTGCTTTATATTACTTTGCTTTGCTTTATATTACTTTACT
1 --TT-GCTTTGATTTATATTACTTTGCTTTGCTTTATATTAC--TA-T
* * *
16231879 TTGCTTTGCTTTATATTGCTTTGCTTTGTTTTATATTAC--T
1 TTGCTTTGATTTATATTACTTTGCTTTGCTTTATATTACTAT
*
16231919 TTGCTTTGATTTATATTGCTTTG
1 TTGCTTTGATTTATATTACTTTG
16231942 TTGTGCTGTG
Statistics
Matches: 98, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
40 23 0.23
44 3 0.03
45 67 0.68
46 2 0.02
48 3 0.03
ACGTcount: A:0.14, C:0.14, G:0.12, T:0.60
Consensus pattern (42 bp):
TTGCTTTGATTTATATTACTTTGCTTTGCTTTATATTACTAT
Found at i:16231957 original size:20 final size:20
Alignment explanation
Indices: 16231934--16232420 Score: 109
Period size: 22 Copynumber: 23.4 Consensus size: 20
16231924 TTGATTTATA
16231934 TTGCTTTG-TTGTGCTGTGCT
1 TTGCTTTGCTT-TGCTGTGCT
16231954 TTGCTTTGCTTTGCTGTGCTT
1 TTGCTTTGCTTTGCTGTGC-T
** * * *
16231975 TTTATATTACTTTACTTTGCT
1 TTGCT-TTGCTTTGCTGTGCT
* *
16231996 TTGCTTTATATTGTTTTGCTGTGCA
1 TTGC----T-TTGCTTTGCTGTGCT
* *
16232021 TTGCTTTGTTTTGCTTTGCTT
1 TTGCTTTGCTTTGCTGTGC-T
** * *
16232042 TTTATATTGCTTTGGTTTGCT
1 TTGCT-TTGCTTTGCTGTGCT
* ** *
16232063 TTGCTGTGCTTTTTATATGCT
1 TTGCTTTGC-TTTGCTGTGCT
*
16232084 TTGCTCTTTGTTTTGCTGTGCTT
1 TTG--CTTTGCTTTGCTGTGC-T
**
16232107 TTTATATTGCTTTGCT-T--T
1 TTGCT-TTGCTTTGCTGTGCT
*
16232125 TTG-TATTGCTTTGCTTTG-T
1 TTGCT-TTGCTTTGCTGTGCT
* ** *
16232144 ATTGCTGTGCTTTTTATATTGCT
1 -TTGCTTTGC-TTTGCT-GTGCT
* *
16232167 TTGCTTTGTTTTGTTGTGCT
1 TTGCTTTGCTTTGCTGTGCT
* *
16232187 TT--TTAT--ATTGCTTTGCT
1 TTGCTT-TGCTTTGCTGTGCT
* *
16232204 TT-ATATTGCTTTGCTGTGCA
1 TTGCT-TTGCTTTGCTGTGCT
* *
16232224 TTGCTTTGTTTTGCTTTGCTT
1 TTGCTTTGCTTTGCTGTGC-T
** * * *
16232245 TTTATATTACTTTGCTTTGTT
1 TTGCT-TTGCTTTGCTGTGCT
** *
16232266 TTGCTTTGCTTTTTATATTGCT
1 TTGCTTTGC-TTTGCT-GTGCT
*
16232288 TTGGTTTGCTTTGCTGTGCTT
1 TTGCTTTGCTTTGCTGTGC-T
** * *
16232309 TTTATATTGCTTTGCTTTGTT
1 TTGCT-TTGCTTTGCTGTGCT
*
16232330 TTGCTTTGCTCTTTG-TATTGCT
1 TTGCTTTG--CTTTGCT-GTGCT
*
16232352 TTGCTTTGTTTTGCTGTGCTT
1 TTGCTTTGCTTTGCTGTGC-T
** *
16232373 TTTATATTGCTTTGCT-TTCTT
1 TTGCT-TTGCTTTGCTGTGC-T
* *
16232394 TTGCTTTGCTTTGTTTTGCT
1 TTGCTTTGCTTTGCTGTGCT
16232414 TTGCTTT
1 TTGCTTT
16232421 TTATATTTGC
Statistics
Matches: 344, Mismatches: 83, Indels: 80
0.68 0.16 0.16
Matches are distributed among these distances:
17 22 0.06
18 8 0.02
19 3 0.01
20 99 0.29
21 78 0.23
22 110 0.32
23 8 0.02
25 16 0.05
ACGTcount: A:0.07, C:0.14, G:0.18, T:0.62
Consensus pattern (20 bp):
TTGCTTTGCTTTGCTGTGCT
Found at i:16231996 original size:32 final size:32
Alignment explanation
Indices: 16231950--16232637 Score: 204
Period size: 32 Copynumber: 20.9 Consensus size: 32
16231940 TGTTGTGCTG
16231950 TGCTTTGCTTTGCTTTGCTGTGCTTTTTATAT
1 TGCTTTGCTTTGCTTTGCTGTGCTTTTTATAT
* * ** * *
16231982 TACTTTACTTTGCTTTGCT-TTATATTGTTTTGCT
1 TGCTTTGCTTTGCTTTGCTGTGCT-TT-TTAT-AT
* * *
16232016 GTGCATTGCTTTGTTTTGCTTTGCTTTTTATAT
1 -TGCTTTGCTTTGCTTTGCTGTGCTTTTTATAT
*
16232049 TGCTTTGGTTTGCTTTGCTGTGCTTTTTATA-
1 TGCTTTGCTTTGCTTTGCTGTGCTTTTTATAT
*
16232080 TGCTTTGCTCTTTGTTTTGCTGTGCTTTTTATAT
1 TGCTTTG--CTTTGCTTTGCTGTGCTTTTTATAT
* *
16232114 TGCTTTGCTTTTTG-TATTGCTTTGC--TTTGTAT
1 TGCTTTGC--TTTGCT-TTGCTGTGCTTTTTATAT
* ** * *
16232146 TGCTGTGCTTTTTATATTGCTTTGCTTTGT-T-T
1 TGCTTTGC-TTTGCT-TTGCTGTGCTTTTTATAT
** *
16232178 TG-TTGTGCTTTTTATATTGCTTTGC--TTTATAT
1 TGCTT-TGC-TTTGCT-TTGCTGTGCTTTTTATAT
* * * * * *
16232210 TGCTTTGCTGTGCATTGCTTTGTTTTGCTTTGCTTT
1 TGCTTTGCTTTGCTTTGCTGTG-CTT--TTT-ATAT
** * * *
16232246 TTATATTACTTTGCTTTGTTTTGCTTTGCTT-T-T
1 TGCT-TTGCTTTGCTTTGCTGTGCTTT--TTATAT
* * * *
16232279 T-ATATTGCTTTGGTTTGCTTTGCTGTGCTTTTTA-
1 TGCT-TTGCTTTGCTTTGCTGTGCT-T--TTTATAT
* * * * *
16232313 T-ATTGCTTTGCTTTGTTTTGCTTTGCTCTTTGTAT
1 TGCTT--T--GCTTTGCTTTGCTGTGCTTTTTATAT
*
16232348 TGCTTTGCTTTGTTTTGCTGTGCTTTTTATAT
1 TGCTTTGCTTTGCTTTGCTGTGCTTTTTATAT
* *
16232380 TGCTTTGCTTT-CTTTTGCTTTGCTTTGT-T-T
1 TGCTTTGCTTTGC-TTTGCTGTGCTTTTTATAT
* * * *
16232410 TGCTTTGCTTT--TTAT-ATTTGCCTTTCTTTGTTT
1 TGCTTTGCTTTGCTT-TGCTGTG-C-TT-TTTATAT
* * * *
16232443 TGCTTTGCTCTTTG-TATTACTTTGCTTTGTTTTGCT
1 TGCTTTG--CTTTGCT-TTGCTGTGCTTT-TTAT-AT
** *
16232479 GTGCTTTTTATATTGCTTTGCTTTGCTTTTTATATT
1 -TGC-TTTGCT-TTGCTTTGCTGTGCTTTTTATA-T
*
16232515 TGCTTTGCTTTGTTTTGCTGTGCTTTTTATAT
1 TGCTTTGCTTTGCTTTGCTGTGCTTTTTATAT
* * * * *
16232547 TGCTTTGCTTTGTTTTGCTTTGCTCTTTGTTT
1 TGCTTTGCTTTGCTTTGCTGTGCTTTTTATAT
* ** *
16232579 TGCTGTGCTTTTTATATTGCTTTGCTTTTTATA-
1 TGCTTTGC-TTTGCT-TTGCTGTGCTTTTTATAT
16232612 ---TTTGCTTTGCTTTGCTGTGCTTTTTA
1 TGCTTTGCTTTGCTTTGCTGTGCTTTTTA
16232638 ATATAGACAT
Statistics
Matches: 515, Mismatches: 82, Indels: 122
0.72 0.11 0.17
Matches are distributed among these distances:
28 20 0.04
29 6 0.01
30 28 0.05
31 20 0.04
32 204 0.40
33 68 0.13
34 56 0.11
35 35 0.07
36 21 0.04
37 53 0.10
38 4 0.01
ACGTcount: A:0.07, C:0.14, G:0.17, T:0.62
Consensus pattern (32 bp):
TGCTTTGCTTTGCTTTGCTGTGCTTTTTATAT
Found at i:16232054 original size:27 final size:27
Alignment explanation
Indices: 16232020--16232607 Score: 250
Period size: 27 Copynumber: 20.5 Consensus size: 27
16232010 TTTGCTGTGC
16232020 ATTGCTTTGTTTTGCTTTGCTTTTTAT
1 ATTGCTTTGTTTTGCTTTGCTTTTTAT
*
16232047 ATTGCTTTGGTTTGCTTTGCTGTGCTTTTTAT
1 ATTGCTTT-G--T--TTTGCTTTGCTTTTTAT
*
16232079 ATGCTTTGCTCTTTGTTTTGCTGTGCTTTTTAT
1 A----TTG--CTTTGTTTTGCTTTGCTTTTTAT
**
16232112 ATTGCTTTGCTTTTTG-TATTGC-TTTGCT
1 ATTGCTTTG--TTTTGCT-TTGCTTTTTAT
* * *
16232140 -TTG-TATTGCTGTGCTTT--TTATATTGCT
1 ATTGCT-TTGTTTTGCTTTGCTT-T-TT-AT
16232167 -TTGCTTTGTTTTG-TTGTGCTTTTTAT
1 ATTGCTTTGTTTTGCTT-TGCTTTTTAT
* * **
16232193 ATTGCTTTGCTTT-ATATTGCTTTGCTGTGC
1 ATTGCTTTGTTTTGCT-TTGCTTT--T-TAT
16232223 ATTGCTTTGTTTTGCTTTGCTTTTTATATT
1 ATTGCTTTGTTTTGCTTTGC-TTTT-TA-T
16232253 ACTTTGCTTTGTTTTGCTTTGCTTTTTAT
1 A--TTGCTTTGTTTTGCTTTGCTTTTTAT
*
16232282 ATTGCTTTGGTTTGCTTTGCTGTGCTTTTTAT
1 ATTGCTTT-G--T--TTTGCTTTGCTTTTTAT
16232314 ATTGCTTTGCTTTGTTTTGCTTTGCTCTTTGTATT
1 A-----TTGCTTTGTTTTGCTTTGCT-TTT-TA-T
* *
16232349 GCTTTGCTTTGTTTTGCTGTGCTTTTTAT
1 -AT-TGCTTTGTTTTGCTTTGCTTTTTAT
**
16232378 ATTGC-----TTTGCTTT-CTTTTGCT
1 ATTGCTTTGTTTTGCTTTGCTTTTTAT
16232399 -TTGCTTTGTTTTGCTTTGCTTTTTAT
1 ATTGCTTTGTTTTGCTTTGCTTTTTAT
16232425 ATTTGCCTTTCTTTGTTTTGCTTTGCTCTTTGTATT
1 A-TTG-----CTTTGTTTTGCTTTGCT-TTT-TA-T
* *
16232461 ACTTTGCTTTGTTTTGCTGTGCTTTTTAT
1 A-TTG-CTTTGTTTTGCTTTGCTTTTTAT
* * *
16232490 ATTGCTTTGCTTTGCTTT-TTATATTTGCT
1 ATTGCTTTGTTTTGCTTTGCT-T-TTT-AT
*
16232519 -TTGCTTTGTTTTGCTGTGCTTTTTAT
1 ATTGCTTTGTTTTGCTTTGCTTTTTAT
* *
16232545 ATTGCTTTGCTTTGTTTTGC---TT-T
1 ATTGCTTTGTTTTGCTTTGCTTTTTAT
** *
16232568 GCT-CTTTGTTTTGCTGTGCTTTTTAT
1 ATTGCTTTGTTTTGCTTTGCTTTTTAT
16232594 ATTGCTTTGCTTTT
1 ATTGCTTTG-TTTT
16232608 TATATTTGCT
Statistics
Matches: 433, Mismatches: 51, Indels: 153
0.68 0.08 0.24
Matches are distributed among these distances:
20 4 0.01
21 6 0.01
22 20 0.05
23 2 0.00
24 3 0.01
25 16 0.04
26 16 0.04
27 98 0.23
28 39 0.09
29 23 0.05
30 26 0.06
31 15 0.03
32 97 0.22
33 38 0.09
34 6 0.01
35 4 0.01
36 8 0.02
37 8 0.02
38 4 0.01
ACGTcount: A:0.06, C:0.13, G:0.17, T:0.63
Consensus pattern (27 bp):
ATTGCTTTGTTTTGCTTTGCTTTTTAT
Found at i:16232196 original size:64 final size:64
Alignment explanation
Indices: 16232063--16232625 Score: 465
Period size: 64 Copynumber: 8.7 Consensus size: 64
16232053 TTGGTTTGCT
* * * * * * *
16232063 TTGCTGTGCTTTTTATATGCTTTGCTCTTTGTTTTGCTGTGCTTTTTATATTGCTT-TGCTTTTT
1 TTGCTTTGCTTTGTAT-TGCTTTGCTTTTTATATTGCTTTGCTTTGT-T-TTG-TTGTGCTTTTT
*
16232127 GTA
62 ATA
*
16232130 TTGCTTTGCTTTGTATTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGTTGTGCTTTTTATA
1 TTGCTTTGCTTTGTATTGCTTTGCTTTTTATATTGCTTTGCTTTGTTTTGTTGTGCTTTTTATA
* * *
16232194 TTGCTTTGCTTTATATTGCTTTGC------T-GTGCATTGCTTTGTTTTGCTT-TGCTTTTTATA
1 TTGCTTTGCTTTGTATTGCTTTGCTTTTTATATTGCTTTGCTTTGTTTTG-TTGTGCTTTTTATA
* * * * *
16232251 TTACTTTGCTTTGTTTTGCTTTGCTTTTTATATTGCTTTGGTTTGCTTTGCTGTGCTTTTTATA
1 TTGCTTTGCTTTGTATTGCTTTGCTTTTTATATTGCTTTGCTTTGTTTTGTTGTGCTTTTTATA
* * * *
16232315 TTGCTTTGCTTTGTTTTGCTTTGCTCTTTGTATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA
1 TTGCTTTGCTTTGTATTGCTTTGCTTTTTATATTGCTTTGCTTTGTTTTGTTGTGCTTTTTATA
* * * * * *
16232379 TTGCTTTGCTTTCTTTTGCTTTGCTTTGT-T-TTGCTTTGCTTT-TTATATT-TGCCTTTCTTTG
1 TTGCTTTGCTTTGTATTGCTTTGCTTTTTATATTGCTTTGCTTTGTTTTGTTGTG-C-TT-TTTA
*
16232440 TT
63 TA
* * * *
16232442 TTGCTTTGCTCTTTGTATTACTTTGCTTTGT-T-TTGCTGTGCTTTTTATATTGCTTTGCTTTGC
1 TTGCTTTG--CTTTGTATTGCTTTGCTTTTTATATTGCTTTGCTTTGT-T-TTG--TTG---TGC
16232505 TTTTTATA
57 TTTTTATA
* * * *
16232513 TTTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTT-TGCTCTTTGT
1 -TTGCTTTGCTTTGTATTGCTTTGCTTTTTATATTGCTTTGCTTTGTTTTG-TTGTGCTTTTTAT
*
16232577 T
64 A
* *
16232578 TTGCTGTGCTTTTTATATTGCTTTGCTTTTTATATTTGCTTTGCTTTG
1 TTGCTTTGC--TTTGTATTGCTTTGCTTTTTATA-TTGCTTTGCTTTG
16232626 CTGTGCTTTT
Statistics
Matches: 410, Mismatches: 56, Indels: 60
0.78 0.11 0.11
Matches are distributed among these distances:
57 48 0.12
58 3 0.01
60 2 0.00
61 5 0.01
62 14 0.03
63 17 0.04
64 153 0.37
65 39 0.10
66 45 0.11
67 28 0.07
68 1 0.00
69 2 0.00
70 22 0.05
71 6 0.01
72 22 0.05
73 1 0.00
74 2 0.00
ACGTcount: A:0.07, C:0.13, G:0.17, T:0.63
Consensus pattern (64 bp):
TTGCTTTGCTTTGTATTGCTTTGCTTTTTATATTGCTTTGCTTTGTTTTGTTGTGCTTTTTATA
Found at i:16232530 original size:22 final size:23
Alignment explanation
Indices: 16232468--16232530 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
16232458 ATTACTTTGC
* *
16232468 TTTGTTTTGCTGTGCTTTTTATA
1 TTTGCTTTGCTTTGCTTTTTATA
16232491 -TTGCTTTGCTTTGCTTTTTATA
1 TTTGCTTTGCTTTGCTTTTTATA
16232513 TTTGCTTTGCTTTG-TTTT
1 TTTGCTTTGCTTTGCTTTT
16232531 GCTGTGCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 24 0.65
23 13 0.35
ACGTcount: A:0.06, C:0.11, G:0.16, T:0.67
Consensus pattern (23 bp):
TTTGCTTTGCTTTGCTTTTTATA
Found at i:16234792 original size:20 final size:20
Alignment explanation
Indices: 16234767--16234960 Score: 139
Period size: 20 Copynumber: 9.5 Consensus size: 20
16234757 AGTACTTGAA
* *
16234767 TTGCTTTGCTCTATATTGCT
1 TTGCTTTGCTTTATATTACT
*
16234787 TTGCTTTGCTTTTTATTACT
1 TTGCTTTGCTTTATATTACT
*
16234807 TTG-TTTTCTTTATATTGATTTGCT
1 TTGCTTTGCTTTATATT-A----CT
* *
16234831 TTTCTTTGCTTCATATTACT
1 TTGCTTTGCTTTATATTACT
*
16234851 ATGCTTTGC-TT-TA-TA--
1 TTGCTTTGCTTTATATTACT
*
16234866 TTGCTTTGCTTCATATTACT
1 TTGCTTTGCTTTATATTACT
* *
16234886 TTGCTTTGTTTTATATTTCT
1 TTGCTTTGCTTTATATTACT
*
16234906 TTGCTTTTCTTTATATTACTTT
1 TTGCTTTGCTTTATATTAC--T
*
16234928 ACTCTGCTTTGCTTTATATTGCT
1 --T-TGCTTTGCTTTATATTACT
*
16234951 TTGCTGTGCT
1 TTGCTTTGCT
16234961 GTGCTTTTTA
Statistics
Matches: 136, Mismatches: 22, Indels: 32
0.72 0.12 0.17
Matches are distributed among these distances:
15 8 0.06
16 1 0.01
17 4 0.03
18 4 0.03
19 12 0.09
20 71 0.52
21 1 0.01
22 1 0.01
23 1 0.01
24 6 0.04
25 27 0.20
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.60
Consensus pattern (20 bp):
TTGCTTTGCTTTATATTACT
Found at i:16234880 original size:35 final size:35
Alignment explanation
Indices: 16234834--16234911 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
16234824 ATTTGCTTTT
16234834 CTTTGCTTCATATTACTATGCTTTGCTTTATATTG
1 CTTTGCTTCATATTACTATGCTTTGCTTTATATTG
* * *
16234869 CTTTGCTTCATATTACTTTGCTTTGTTTTATATTT
1 CTTTGCTTCATATTACTATGCTTTGCTTTATATTG
16234904 CTTTGCTT
1 CTTTGCTT
16234912 TTCTTTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.14, C:0.17, G:0.10, T:0.59
Consensus pattern (35 bp):
CTTTGCTTCATATTACTATGCTTTGCTTTATATTG
Found at i:16234940 original size:5 final size:5
Alignment explanation
Indices: 16234932--16236155 Score: 373
Period size: 5 Copynumber: 232.2 Consensus size: 5
16234922 TACTTTACTC
* * * **
16234932 TGCTT TGCTT T-ATAT TGCTT TGCTG TGCTG TGCTTT TTATAT TGCTT
1 TGCTT TGCTT TGCT-T TGCTT TGCTT TGCTT TGC-TT TGCT-T TGCTT
** *
16234979 TGCTTTT TG-TAT TGCTT TGCTT TTTTT TGCTT TGCTT TG-TT CTGCTG
1 TGC--TT TGCT-T TGCTT TGCTT TGCTT TGCTT TGCTT TGCTT -TGCTT
** * *
16235026 TGCTTT TTATAT TGCTT TGCTT TGTTT TGCTT TGCTT TGCTG TGCTTT
1 TGC-TT TGCT-T TGCTT TGCTT TGCTT TGCTT TGCTT TGCTT TGC-TT
** * ** *
16235074 TTATAT TGCTT TGCTT TGTTT TG-TT GTGCTTT TTATAT TGCTT TGCTG
1 TGCT-T TGCTT TGCTT TGCTT TGCTT -TGC-TT TGCT-T TGCTT TGCTT
** * *
16235122 TGCTTT TTATAT TGCTT TGCTT TGTTT TGCTG TGCTTTT TG-TAT TGCTT
1 TGC-TT TGCT-T TGCTT TGCTT TGCTT TGCTT TGC--TT TGCT-T TGCTT
* * ** *
16235171 TGCTT TGTTT TGCTG TGCTT TTATAT TGCTT TGCTT TGTTT TGCTT TGCTT
1 TGCTT TGCTT TGCTT TGCTT TGCT-T TGCTT TGCTT TGCTT TGCTT TGCTT
* * ** * * **
16235222 TCCTG TGCTTT TTATAT TGCTT TGCTT TGCTG TGTTT TTATAT TGCTT
1 TGCTT TGC-TT TGCT-T TGCTT TGCTT TGCTT TGCTT TGCT-T TGCTT
* * * * ** *
16235270 TACTT TGTTT TGCTT TGCTCTT TGTTT TGCTG TGCTTT TTATAT TGCTG
1 TGCTT TGCTT TGCTT TG--CTT TGCTT TGCTT TGC-TT TGCT-T TGCTT
* * * **
16235319 TGCTT TGTTT TGCTT TGCTT TCCTG TGCTTT TTATAT TGCTT TGCTCTT
1 TGCTT TGCTT TGCTT TGCTT TGCTT TGC-TT TGCT-T TGCTT TG--CTT
* * ** * *
16235368 TGTTT TGCTG TGCTTT TTATAT TGCTT TGCTT TGCTT TGTTT TGCTG TGCTTT
1 TGCTT TGCTT TGC-TT TGCT-T TGCTT TGCTT TGCTT TGCTT TGCTT TGC-TT
** * * ** *
16235421 TTATAT TGCTT TGCTT TCCTG TGCTTT TTATAT TGCTT TGCTT TGCTG
1 TGCT-T TGCTT TGCTT TGCTT TGC-TT TGCT-T TGCTT TGCTT TGCTT
** * * * *
16235469 TGCTTT TTATAT TGCTT TACTT TGTTT TGCTT TGCTCTT TGTTT TGCTG
1 TGC-TT TGCT-T TGCTT TGCTT TGCTT TGCTT TG--CTT TGCTT TGCTT
** * * **
16235518 TGCTTT TTATAT TGCTT TGCTT TGCTT TGTTT TGCTG TGCTTT TTATAT
1 TGC-TT TGCT-T TGCTT TGCTT TGCTT TGCTT TGCTT TGC-TT TGCT-T
* * ** * *
16235567 TGCTT TGCTT TGTTT TGCTG TGCTTT TTATAT TACTT TGCTT TGTTT TGCTT
1 TGCTT TGCTT TGCTT TGCTT TGC-TT TGCT-T TGCTT TGCTT TGCTT TGCTT
* * ** * **
16235619 TGCTT TCCTG TGCTTT TTATAT TGCTT TGCTT TGCTG TGCTTT TTATGT
1 TGCTT TGCTT TGC-TT TGCT-T TGCTT TGCTT TGCTT TGC-TT TGCT-T
* * * * **
16235668 TGCTT TACTT TGTTT TGCTT TGCTATT TGTTT TGCTG TGCTTT TTATAT
1 TGCTT TGCTT TGCTT TGCTT TGC--TT TGCTT TGCTT TGC-TT TGCT-T
* ** * *
16235717 TGCTT TGCTT TGCTG TGCTTT TTATAT TGCTT TACTT TGTTT TGCTT TGCTCTT
1 TGCTT TGCTT TGCTT TGC-TT TGCT-T TGCTT TGCTT TGCTT TGCTT TG--CTT
* * ** * *
16235771 TGTTT TGCTG TGCTTT TTATAT TGCTT TGCTT TGCTT TGTTT TGCTG TGCTTT
1 TGCTT TGCTT TGC-TT TGCT-T TGCTT TGCTT TGCTT TGCTT TGCTT TGC-TT
** * * *
16235824 TTATAT TGCTT TGCTT TGTTT TGCTT TGCTCTT TGTTT TGCTG TGCTTT
1 TGCT-T TGCTT TGCTT TGCTT TGCTT TG--CTT TGCTT TGCTT TGC-TT
** ** * **
16235873 TTATAT TATTT TGCTG TGCTTT TTATAT TGCTT TGCTT T-CTTT TGCTT
1 TGCT-T TGCTT TGCTT TGC-TT TGCT-T TGCTT TGCTT TGC-TT TGCTT
* * * *
16235921 TGCTT T--TT AT-ATT TGTTT TGCTT TGTTT TGCTT TGCTT T--TT AT-ATT
1 TGCTT TGCTT -TGCTT TGCTT TGCTT TGCTT TGCTT TGCTT TGCTT -TGCTT
* *
16235967 TGCTT TGCTT TGTTT TGCTT TGCTCTT TG-TAT TGCTT TGCTT TGTTT
1 TGCTT TGCTT TGCTT TGCTT TG--CTT TGCT-T TGCTT TGCTT TGCTT
* ** *
16236014 TGCTG TGCTT TTATAT TGCTT TGCTT T-CTTT TGCTT TGCTT T--TT AT-ATT
1 TGCTT TGCTT TGCT-T TGCTT TGCTT TGC-TT TGCTT TGCTT TGCTT -TGCTT
* * *
16236063 TGCTT TGCTT TGTTT TGCTG TGCTT T--TT AT-ATT TGCTT TGCTT TGCTTT
1 TGCTT TGCTT TGCTT TGCTT TGCTT TGCTT -TGCTT TGCTT TGCTT TGC-TT
* ** * *
16236112 TGCTG TGCTTT TTATAT TGCTT TGGTT TGCTTT TGCTG TGCTT T
1 TGCTT TGC-TT TGCT-T TGCTT TGCTT TGC-TT TGCTT TGCTT T
16236156 TTATATTTAC
Statistics
Matches: 868, Mismatches: 252, Indels: 198
0.66 0.19 0.15
Matches are distributed among these distances:
3 8 0.01
4 18 0.02
5 654 0.75
6 145 0.17
7 43 0.05
ACGTcount: A:0.06, C:0.14, G:0.18, T:0.62
Consensus pattern (5 bp):
TGCTT
Found at i:16234983 original size:32 final size:32
Alignment explanation
Indices: 16234946--16236162 Score: 861
Period size: 32 Copynumber: 37.9 Consensus size: 32
16234936 TTGCTTTATA
* *
16234946 TTGCTTTGCTGTGCTGTGCTTTTTATATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* *
16234978 TTGCTTTTTGTATTGCTTTGCTTTTT-T-TTGCT
1 TTGC--TTTGTTTTGCTGTGCTTTTTATATTGCT
*
16235010 TTGCTTTGTTCTGCTGTGCTTTTTATATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* ** *
16235042 TTGCTTTGTTTTGCTTTGC-TTTGCT-GTGCTT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGC-T
** * * *
16235073 TTTATATTGCTTTGCTTTG-TTTTGT-T-GTGCTT
1 TTGCT-TTGTTTTGCTGTGCTTTT-TATATTGC-T
** *
16235105 TTTATATTGCTTTGCTGTGCTTTTTATATTGCT
1 TTGCT-TTGTTTTGCTGTGCTTTTTATATTGCT
*
16235138 TTGCTTTGTTTTGCTGTGCTTTTTGTATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
16235170 TTGCTTTGTTTTGCTGTGC-TTTTATATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* * * **
16235201 TTGCTTTGTTTTGCTTTGCTTTCCTGTGCTTTTTAT
1 TTGCTTTGTTTTGCTGTGCTTT--T-T-ATATTGCT
*
16235237 ATTGCTTTGCTTTGCTGTG-TTTTTATATTGCT
1 -TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* * * * *
16235269 TTACTTTGTTTTGCTTTGCTCTTTGTTTTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* * *
16235301 GTGCTTTTTATATTGCTGTGCTTTGT-T-TTGCT
1 TTGCTTTGT-T-TTGCTGTGCTTTTTATATTGCT
*
16235333 TTGC-----TTTCCTGTGCTTTTTATATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
16235360 TTGCTCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCT
1 TTG--CTTTGTTTTGCTGTGCTTTTTATA-----TTGCT
16235399 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
*
16235431 TTGC-----TTTCCTGTGCTTTTTATATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
16235458 TTGC-----TTTGCTGTGCTTTTTATATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* * * * *
16235485 TTACTTTGTTTTGCTTTGCTCTTTGTTTTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* * * * *
16235517 GTGCTTTTTATATTGCTTTGCTTTGCTTTGTTTTGCT
1 TTGCTTTGT-T-TTGCTGTGC-TT--TTTATATTGCT
* * * *
16235554 GTGCTTTTTATATTGCTTTGCTTTGT-T-TTGCT
1 TTGCTTTGT-T-TTGCTGTGCTTTTTATATTGCT
* * * * ** *
16235586 GTGCTTT-TTAT-AT-TAC-TTTGCT-TTGTT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* *
16235613 TTGCTTTGCTTTCCTGTGCTTTTTATATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
*
16235645 TTGC-----TTTGCTGTGCTTTTTATGTTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* * * * *
16235672 TTACTTTGTTTTGCTTTGCTATTTGTTTTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* * * **
16235704 GTGCTTT-TTAT-AT-TGC-TTTGCT-TTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* * * * *
16235731 GTGCTTTTTATATTGCTTTACTTTGT-T-TTGCT
1 TTGCTTTGT-T-TTGCTGTGCTTTTTATATTGCT
16235763 TTGCTCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCT
1 TTG--CTTTGTTTTGCTGTGCTTTTTATA-----TTGCT
16235802 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* * *
16235834 TTGCTTTGTTTTGCTTTGCTCTTTGTTTTGCTGTGCTT
1 TTGCTTTGTTTTGCTGTG--CTTT-TTAT-AT-TGC-T
** *
16235872 TTTATATTATTTTGCTGTGCTTTTTATATTGCT
1 TTGCT-TTGTTTTGCTGTGCTTTTTATATTGCT
* * *
16235905 TTGCTTTCTTTTGCTTTGCTTTTTATATTTGTT
1 TTGCTTTGTTTTGCTGTGCTTTTTATA-TTGCT
*
16235938 TTGCTTTGTTTTGCTTTGCTTTTTATATTTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATA-TTGCT
* * *
16235971 TTGCTTTGTTTTGCTTTGCTCTTTGTATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
16236003 TTGCTTTGTTTTGCTGTGC-TTTTATATTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
* *
16236034 TTGCTTTCTTTTGCTTTGCTTTTTATATTTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATA-TTGCT
16236067 TTGCTTTGTTTTGCTGTGCTTTTTATATTTGCT
1 TTGCTTTGTTTTGCTGTGCTTTTTATA-TTGCT
16236100 TTGCTTTGCTTTTGCTGTGCTTTTTATATTGCT
1 TTGCTTTG-TTTTGCTGTGCTTTTTATATTGCT
*
16236133 TTGGTTTGCTTTTGCTGTGCTTTTTATATT
1 TTGCTTTG-TTTTGCTGTGCTTTTTATATT
16236163 TACCAAAGCA
Statistics
Matches: 978, Mismatches: 126, Indels: 161
0.77 0.10 0.13
Matches are distributed among these distances:
25 12 0.01
26 4 0.00
27 108 0.11
28 7 0.01
29 7 0.01
30 25 0.03
31 89 0.09
32 321 0.33
33 161 0.16
34 91 0.09
35 6 0.01
36 13 0.01
37 103 0.11
38 4 0.00
39 27 0.03
ACGTcount: A:0.06, C:0.14, G:0.18, T:0.62
Consensus pattern (32 bp):
TTGCTTTGTTTTGCTGTGCTTTTTATATTGCT
Found at i:16235380 original size:76 final size:74
Alignment explanation
Indices: 16235111--16236162 Score: 837
Period size: 76 Copynumber: 14.8 Consensus size: 74
16235101 GCTTTTTATA
*
16235111 TTGCTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTGTATTGCTTTGCTT
1 TTGCTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCTT
16235176 TGTTTTGCT
66 TGTTTTGCT
* ** * ** * * *
16235185 GTGCTTTTATATTGC-TTTGCT-TTGTTTTGCTTTGCTTTCCTGTGCTTTTTATATTGCTTTGCT
1 TTGCTTTGCT-GTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCT
* * *
16235248 TTGCTGTGTT
65 TTGTTTTGCT
** * * * *
16235258 TTTATATTGCTTTACTTTGT-T-TTGCTTTGCTCTTTGTTTTGCTGTGCTTTTTATATTGCTGTG
1 TTGCT-TTGCTGTGCTTTTTATATTGCTTTG--CTTTGTTTTGCTGTGCTTTTTATATTGCTTTG
16235321 CTTTGTTTTGCT
63 CTTTGTTTTGCT
*
16235333 TTGCTTTCCTGTGCTTTTTATATTGCTTTGCTCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGC
1 TTGCTTTGCTGTGCTTTTTATATTGCTTTG--CTTTGTTTTGCTGTGCTTTTTATATTGCTTTGC
16235398 -----TTTGCT
64 TTTGTTTTGCT
* *
16235404 TTGTTTTGCTGTGCTTTTTATATTGCTTTGC-----TTTCCTGTGCTTTTTATATTGCTTTGCTT
1 TTGCTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCTT
* *
16235464 TGCTGTGCTT
66 TGTTTTGC-T
** * * *
16235474 TTTATATTGCTTTACTTTGT-T-TTGCTTTGCTCTTTGTTTTGCTGTGCTTTTTATATTGCTTTG
1 TTGCT-TTGCTGTGCTTTTTATATTGCTTTG--CTTTGTTTTGCTGTGCTTTTTATATTGCTTTG
16235537 C-----TTTGCT
63 CTTTGTTTTGCT
* *
16235544 TTGTTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTACTTTGCTT
1 TTGCTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCTT
16235609 TGTTTTGCT
66 TGTTTTGCT
* * *
16235618 TTGCTTTCCTGTGCTTTTTATATTGCTTTGC-----TTTGCTGTGCTTTTTATGTTGCTTTACTT
1 TTGCTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCTT
16235678 TGTTTTGCT
66 TGTTTTGCT
16235687 TTGCTATTTGTTTTGCTGTGCTTTTTATATTGCTTTGC-----TTTGCTGTGCTTTTTATATTGC
1 TTGC-------TTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTGC
*
16235747 TTTACTTTGTTTTGCT
59 TTTGCTTTGTTTTGCT
16235763 TTGCTCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCTTTGCTTTGTTTTGCTGTGCTTTTTAT
1 TTG--C-----TTTGCTGTGCTTTTTATA-----TTGCTTTGCTTTGTTTTGCTGTGCTTTTTAT
16235828 ATTGCTTTGCTTTGTTTTGCT
54 ATTGCTTTGCTTTGTTTTGCT
* ** * ** *
16235849 TTGC--T-CTTTG-TTTTGCT-GTGCTTTTTATATTATTTTGCTGTGCTTTTTATATTGCTTTGC
1 TTGCTTTGCTGTGCTTTTTATATTGC-TTTGCT-TTGTTTTGCTGTGCTTTTTATATTGCTTTGC
*
16235909 --T-TTCT--T
64 TTTGTTTTGCT
* * *
16235915 TTGCTTTGCT-T--TTTATAT-TTGTTTTGCTTTGTTTTGCTTTGCTTTTTATATTTGCTTTGCT
1 TTGCTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA-TTGCTTTGCT
16235976 TTG---T--T
65 TTGTTTTGCT
*
16235981 TTGCTTTGC--T-C--TTTGTATTGCTTTGCTTTGTTTTGCTGTGC-TTTTATATTGCTTTGC--
1 TTGCTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCTT
*
16236038 T-TTCT--T
66 TGTTTTGCT
*
16236044 TTGCTTTGCT-T--TTTATAT-TTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA----TTTGCTT
1 TTGCTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCTT
*
16236101 TGCTTTGC-
66 TGTTTTGCT
*
16236109 -T--TTTGCTGTGCTTTTTATATTGCTTTGGTTTGCTTTTGCTGTGCTTTTTATATT
1 TTGCTTTGCTGTGCTTTTTATATTGCTTTGCTTTG-TTTTGCTGTGCTTTTTATATT
16236163 TACCAAAGCA
Statistics
Matches: 814, Mismatches: 87, Indels: 159
0.77 0.08 0.15
Matches are distributed among these distances:
61 6 0.01
62 6 0.01
63 22 0.03
64 64 0.08
65 59 0.07
66 41 0.05
67 25 0.03
68 6 0.01
69 101 0.12
70 14 0.02
71 88 0.11
73 58 0.07
74 61 0.07
75 50 0.06
76 161 0.20
77 1 0.00
78 1 0.00
81 9 0.01
84 1 0.00
86 40 0.05
ACGTcount: A:0.06, C:0.14, G:0.17, T:0.62
Consensus pattern (74 bp):
TTGCTTTGCTGTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATATTGCTTTGCTT
TGTTTTGCT
Found at i:16235429 original size:27 final size:27
Alignment explanation
Indices: 16235399--16236142 Score: 318
Period size: 27 Copynumber: 26.6 Consensus size: 27
16235389 TTGCTTTGCT
16235399 TTGCTTTGTTTTGCTGTGCTTTTTATA
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
* *
16235426 TTGCTTTGCTTTCCTGTGCTTTTTATA
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
*
16235453 TTGCTTTGCTTTGCTGTGCTTTTTATA
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
** * * *
16235480 TTGCTTTACTTTGTTTTGC---TT-TG
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
*
16235503 CT-CTTTGTTTTGCTGTGCTTTTTATA
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
* * **
16235529 TTGCTTTGCTTTGCTTTG-TTTTGCT-
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
* * * * *
16235554 GTGCTTTTTATATTGCTTTGCTTTGTTTTGC
1 TTGCTTTGT-T-TTGCTGTGCTTT-TTAT-A
* * * *
16235585 TGTGCTTTTTATATTACTTTGCTTTGT-T-
1 T-TGCTTTGT-T-TTGCTGTGCTTTTTATA
* *
16235613 TTGCTTTGCTTTCCTGTGCTTTTTATA
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
* *
16235640 TTGCTTTGCTTTGCTGTGCTTTTTATG
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
** * * **
16235667 TTGCTTTACTTTGTTTTGC-TTTGCTA
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
16235693 ----TTTGTTTTGCTGTGCTTTTTATA
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
*
16235716 TTGCTTTGCTTTGCTGTGCTTTTTATA
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
** * * *
16235743 TTGCTTTACTTTGTTTTGC---TT-TG
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
*
16235766 CT-CTTTGTTTTGCTGTGCTTTTTATA
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
* * **
16235792 TTGCTTTGCTTTGCTTTG-TTTTGCT-
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
* * * * *
16235817 GTGCTTTTTATATTGCTTTGCTTTGTTTTGCT
1 TTGCTTTGT-T-TTGCTGTGCTTT-TTAT--A
16235849 TTGCTCTTTGTTTTGCTGTGCTTTTTATA
1 TTG--CTTTGTTTTGCTGTGCTTTTTATA
*
16235878 -----TTATTTTGCTGTGCTTTTTATA
1 TTGCTTTGTTTTGCTGTGCTTTTTATA
*
16235900 TTGCTTTGCTTTCTTTTGCTTTGCTTTTTATA
1 TTGCTTTG-----TTTTGCTGTGCTTTTTATA
*
16235932 TTTGTTTTGCTTTGTTTTGCTTTGCTTTTTATA
1 ------TTGCTTTGTTTTGCTGTGCTTTTTATA
* *
16235965 TTTGCTTTGCTTTGTTTTGCTTTGCTCTTTGTATTGC
1 ------TTGCTTTGTTTTGCTGTGCT-TTT-TA-T-A
16236002 TTTGCTTTGTTTTGCTGTGC-TTTTATA
1 T-TGCTTTGTTTTGCTGTGCTTTTTATA
*
16236029 TTGCTTTGCTTTCTTTTGCTTTGCTTTTTATA
1 TTGCTTTG-----TTTTGCTGTGCTTTTTATA
16236061 TTTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA
1 ------TTGCTTTGTTTTGCTGTGCTTTTTATA
16236094 TTTGCTTTGCTTTGCTTTTGCTGTGCTTTTTATA
1 ------TTGCTTTG-TTTTGCTGTGCTTTTTATA
*
16236128 TTGCTTTGGTTTGCT
1 TTGCTTTGTTTTGCT
16236143 TTTGCTGTGC
Statistics
Matches: 569, Mismatches: 81, Indels: 134
0.73 0.10 0.17
Matches are distributed among these distances:
22 56 0.10
23 9 0.02
24 4 0.01
25 27 0.05
26 29 0.05
27 203 0.36
28 16 0.03
29 6 0.01
30 4 0.01
31 15 0.03
32 77 0.14
33 77 0.14
34 27 0.05
35 2 0.00
36 1 0.00
38 16 0.03
ACGTcount: A:0.06, C:0.14, G:0.17, T:0.63
Consensus pattern (27 bp):
TTGCTTTGTTTTGCTGTGCTTTTTATA
Found at i:16241915 original size:23 final size:23
Alignment explanation
Indices: 16241889--16242006 Score: 124
Period size: 23 Copynumber: 5.4 Consensus size: 23
16241879 AGTGCTGGGT
16241889 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
16241912 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
16241931 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
16241951 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
16241974 ATCAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
16241997 ATCAGAGAGC
1 AACAGAGAGC
16242007 GCGCTAGTGT
Statistics
Matches: 80, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
16 10 0.12
18 3 0.04
19 1 0.01
20 1 0.01
21 2 0.03
23 63 0.79
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:16241949 original size:39 final size:39
Alignment explanation
Indices: 16241895--16241969 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
16241885 GGGTAACAGA
*
16241895 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
16241934 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
16241970 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:16244782 original size:23 final size:23
Alignment explanation
Indices: 16244734--16244899 Score: 169
Period size: 23 Copynumber: 7.3 Consensus size: 23
16244724 ACCAAAAAAA
16244734 CAGAGAGTAC-CAAAGTACTAA-
1 CAGAGAGTACACAAAGTACTAAT
16244755 CAGAGAGTAC-CAAAGTACTAA-
1 CAGAGAGTACACAAAGTACTAAT
* * * *
16244776 CAGAGAGCACACACAGTGCTAAA
1 CAGAGAGTACACAAAGTACTAAT
16244799 CAGAGAGTACACAAAGTACTAAT
1 CAGAGAGTACACAAAGTACTAAT
* * *
16244822 CAGAGAGCACGCAAAATACTAAT
1 CAGAGAGTACACAAAGTACTAAT
* * *
16244845 CAGAGAGCATACAAAGTGCTAAT
1 CAGAGAGTACACAAAGTACTAAT
* * *
16244868 CAGAGAGCACACACAGTGCTAAT
1 CAGAGAGTACACAAAGTACTAAT
16244891 AACAGAGAG
1 --CAGAGAG
16244900 CACGAGACGT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
21 30 0.24
22 9 0.07
23 79 0.63
25 7 0.06
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (23 bp):
CAGAGAGTACACAAAGTACTAAT
Found at i:16244917 original size:23 final size:23
Alignment explanation
Indices: 16244731--16244923 Score: 144
Period size: 23 Copynumber: 8.5 Consensus size: 23
16244721 TATACCAAAA
* * *
16244731 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACACAGTGCT
* * *
16244753 -AACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACACAGTGCT
16244774 -AACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACACAGTGCT
* * *
16244796 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACACAGTGCT
* * * * *
16244819 AATCAGAGAGCACGCAAAATACT
1 AAACAGAGAGCACACACAGTGCT
* * *
16244842 AATCAGAGAGCATACAAAGTGCT
1 AAACAGAGAGCACACACAGTGCT
*
16244865 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACACAGTGCT
*
16244888 AATAACAGAGAGCACGAGAC-GTGCT
1 -A-AACAGAGAGCAC-ACACAGTGCT
*
16244913 AAACAAAGAGC
1 AAACAGAGAGC
16244924 GCGCTAGTGT
Statistics
Matches: 147, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
21 32 0.22
22 7 0.05
23 87 0.59
24 2 0.01
25 16 0.11
26 3 0.02
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACACAGTGCT
Found at i:16245402 original size:11 final size:11
Alignment explanation
Indices: 16245369--16245405 Score: 58
Period size: 10 Copynumber: 3.4 Consensus size: 11
16245359 TAAATTTTAG
16245369 TTTCTAATAATT
1 TTTCT-ATAATT
16245381 TTTCTAT-ATT
1 TTTCTATAATT
16245391 TTTCTATAATT
1 TTTCTATAATT
16245402 TTTC
1 TTTC
16245406 AAAGTCAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 9 0.38
12 5 0.21
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTCTATAATT
Found at i:16247448 original size:22 final size:22
Alignment explanation
Indices: 16247400--16247448 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
16247390 TTTTATGATT
16247400 TAATTATATATATATAGGAAAA
1 TAATTATATATATATAGGAAAA
* *
16247422 T-ATTA-ATATTTATTGTGAAAA
1 TAATTATATATATATAG-GAAAA
16247443 TAATTA
1 TAATTA
16247449 GAAAGAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.35
21 10 0.43
22 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (22 bp):
TAATTATATATATATAGGAAAA
Found at i:16248300 original size:2 final size:2
Alignment explanation
Indices: 16248293--16248339 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
16248283 AGATAAGAGG
16248293 TA TA TA TA TA 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 TA TA TA TA TA
16248335 TA TA T
1 TA TA T
16248340 TATGGCATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16250299 original size:5 final size:5
Alignment explanation
Indices: 16250291--16250448 Score: 103
Period size: 5 Copynumber: 31.6 Consensus size: 5
16250281 TTTATATTGT
* * * *
16250291 TTTGC TTTGC TTTGC TTT-A TATTGC TTTGC TTTGC TTTAC TTTAC TTTAC
1 TTTGC TTTGC TTTGC TTTGC T-TTGC TTTGC TTTGC TTTGC TTTGC TTTGC
* * * *
16250341 TTTGC TTTGC TTT-A TATTGC TTTGC TTTGC TTT-A TATGGC TTTGC TTT-A
1 TTTGC TTTGC TTTGC T-TTGC TTTGC TTTGC TTTGC T-TTGC TTTGC TTTGC
* * * * *
16250390 TATTAC TTTGC TTTGC TTTGC TTT-A TATAGC TTTGC TTT-A TATTAC
1 T-TTGC TTTGC TTTGC TTTGC TTTGC T-TTGC TTTGC TTTGC T-TTGC
16250436 TTTGC TTTGC TTT
1 TTTGC TTTGC TTT
16250449 ATATAGCTTT
Statistics
Matches: 121, Mismatches: 20, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
4 6 0.05
5 109 0.90
6 6 0.05
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.59
Consensus pattern (5 bp):
TTTGC
Found at i:16250317 original size:15 final size:15
Alignment explanation
Indices: 16250297--16250488 Score: 146
Period size: 15 Copynumber: 12.5 Consensus size: 15
16250287 TTGTTTTGCT
16250297 TTGCTTTGCTTTATA
1 TTGCTTTGCTTTATA
*
16250312 TTGCTTTGCTTTGCT-
1 TTGCTTTGCTTT-ATA
* *
16250327 TTACTTTACTTTACT-
1 TTGCTTTGCTTTA-TA
16250342 TTGCTTTGCTTTATA
1 TTGCTTTGCTTTATA
16250357 TTGCTTTGCTTTGCTTTATA
1 -----TTGCTTTGCTTTATA
*
16250377 TGGCTTTGCTTTATA
1 TTGCTTTGCTTTATA
*
16250392 TTACTTTGC----T-
1 TTGCTTTGCTTTATA
16250402 TTGCTTTGCTTTATA
1 TTGCTTTGCTTTATA
*
16250417 TAGCTTTGCTTTATATTA
1 TTGCTTTGC-TT-TA-TA
16250435 CTTTGCTTTGCTTTATA
1 --TTGCTTTGCTTTATA
* *
16250452 TAGCTTTGATTTATA
1 TTGCTTTGCTTTATA
*
16250467 TTACTTTGCTTTATA
1 TTGCTTTGCTTTATA
16250482 TTGCTTT
1 TTGCTTT
16250489 ATATAGCTTT
Statistics
Matches: 141, Mismatches: 18, Indels: 36
0.72 0.09 0.18
Matches are distributed among these distances:
10 8 0.06
11 1 0.01
14 2 0.01
15 94 0.67
16 3 0.02
17 4 0.03
18 4 0.03
19 2 0.01
20 23 0.16
ACGTcount: A:0.14, C:0.15, G:0.12, T:0.59
Consensus pattern (15 bp):
TTGCTTTGCTTTATA
Found at i:16250317 original size:20 final size:20
Alignment explanation
Indices: 16250292--16250459 Score: 170
Period size: 20 Copynumber: 8.4 Consensus size: 20
16250282 TTATATTGTT
16250292 TTGCTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
16250312 TTGCTTTGCTTTGCTTTACTTTA
1 TTGCTTTGCTTTGCTTTA---TA
*
16250335 CTTTACTTTGCTTTGCTTTATA
1 --TTGCTTTGCTTTGCTTTATA
16250357 TTGCTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16250377 TGGCTTTGCTTT-ATATTACT-
1 TTGCTTTGCTTTGCT-TTA-TA
16250397 TTGCTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16250417 -----TAGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16250432 TTACTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16250452 TAGCTTTG
1 TTGCTTTG
16250460 ATTTATATTA
Statistics
Matches: 124, Mismatches: 10, Indels: 28
0.77 0.06 0.17
Matches are distributed among these distances:
15 14 0.11
19 2 0.02
20 85 0.69
21 2 0.02
22 2 0.02
23 2 0.02
25 17 0.14
ACGTcount: A:0.12, C:0.15, G:0.14, T:0.58
Consensus pattern (20 bp):
TTGCTTTGCTTTGCTTTATA
Found at i:16250361 original size:35 final size:35
Alignment explanation
Indices: 16250337--16250488 Score: 80
Period size: 35 Copynumber: 4.2 Consensus size: 35
16250327 TTACTTTACT
*
16250337 TTACTTTGCTTTGCTTTATATTGCTTTGCTTTGCT-
1 TTACTTTGCTTTGCTTTATATTGCTTTGCTTT-ATA
* * *
16250372 TTA-TATGGCTTTGCTTTATATTACTTTGCTTTGCT-
1 TTACT-TTGCTTTGCTTTATATTGCTTTGCTTT-ATA
* * *
16250407 TTGCTTTATATAGCTTTGCTTTATATTACTTTGCTTTGCT-
1 TTAC--T-T-T-GCTTTGCTTTATATTGCTTTGCTTT-ATA
* * *
16250447 TTA-TATAGCTTTGATTTATATTACTTTGCTTTATA
1 TTACT-TTGCTTTGCTTTATATTGCTTTGCTTTATA
*
16250482 TTGCTTT
1 TTACTTT
16250489 ATATAGCTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
34 2 0.02
35 60 0.61
36 1 0.01
37 3 0.03
38 3 0.03
40 30 0.30
ACGTcount: A:0.15, C:0.14, G:0.12, T:0.59
Consensus pattern (35 bp):
TTACTTTGCTTTGCTTTATATTGCTTTGCTTTATA
Found at i:16250428 original size:25 final size:25
Alignment explanation
Indices: 16250281--16250373 Score: 124
Period size: 25 Copynumber: 3.9 Consensus size: 25
16250271 TTTATATTAT
*
16250281 TTTATATTGTTTTGCTTTGCTTTGC
1 TTTATATTGCTTTGCTTTGCTTTGC
*
16250306 TTTATATTGCTTTGCTTTGCTTTAC
1 TTTATATTGCTTTGCTTTGCTTTGC
*
16250331 -TT-TA---CTTTACTTTGCTTTGC
1 TTTATATTGCTTTGCTTTGCTTTGC
16250351 TTTATATTGCTTTGCTTTGCTTT
1 TTTATATTGCTTTGCTTTGCTTT
16250374 ATATGGCTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
20 14 0.24
21 2 0.03
22 2 0.03
23 2 0.03
24 2 0.03
25 36 0.62
ACGTcount: A:0.10, C:0.15, G:0.13, T:0.62
Consensus pattern (25 bp):
TTTATATTGCTTTGCTTTGCTTTGC
Found at i:16250477 original size:20 final size:20
Alignment explanation
Indices: 16250295--16250478 Score: 167
Period size: 20 Copynumber: 9.4 Consensus size: 20
16250285 TATTGTTTTG
*
16250295 CTTTGCTTTGCTTTATATTG
1 CTTTGCTTTGCTTTATATTA
16250315 CTTTGCTTTGCTTTACTTTACTTTA
1 CTTTGCTTTGCTTTA---TA--TTA
*
16250340 CTTTGCTTTGCTTTATATTG
1 CTTTGCTTTGCTTTATATTA
16250360 CTTTGCTTTGC-TT-TA-TA
1 CTTTGCTTTGCTTTATATTA
*
16250377 --TGGCTTTGCTTTATATTA
1 CTTTGCTTTGCTTTATATTA
*
16250395 CTTTGCTTTGCTTTGCT-TTA
1 CTTTGCTTTGCTTT-ATATTA
*
16250415 -TATAGCTTTGCTTTATATTA
1 CT-TTGCTTTGCTTTATATTA
16250435 CTTTGCTTTGCTTTATA-TA
1 CTTTGCTTTGCTTTATATTA
*
16250454 ----GCTTTGATTTATATTA
1 CTTTGCTTTGCTTTATATTA
16250470 CTTTGCTTT
1 CTTTGCTTT
16250479 ATATTGCTTT
Statistics
Matches: 135, Mismatches: 10, Indels: 38
0.74 0.05 0.21
Matches are distributed among these distances:
15 20 0.15
16 4 0.03
17 3 0.02
18 4 0.03
19 6 0.04
20 75 0.56
21 2 0.01
22 2 0.01
23 2 0.01
25 17 0.13
ACGTcount: A:0.14, C:0.15, G:0.12, T:0.59
Consensus pattern (20 bp):
CTTTGCTTTGCTTTATATTA
Found at i:16250486 original size:40 final size:38
Alignment explanation
Indices: 16250299--16250503 Score: 206
Period size: 40 Copynumber: 5.3 Consensus size: 38
16250289 GTTTTGCTTT
* * *
16250299 GCTTTGCTTTATATTGCTTTGCTTTGCTTTACTTTACTTTA
1 GCTTTGCTTTATATTACTTTGCTTT--TTTGCTTTA-TATA
* *
16250340 -CTTTGCTTTGCT-TTA-TATTGCTTTGCTTTGCTTTATATG
1 GCTTTGCTTT-ATATTACT-TTGCTTT--TTTGCTTTATATA
16250379 GCTTTGCTTTATATTACTTTGCTTTGCTTTGCTTTATATA
1 GCTTTGCTTTATATTACTTTGCTTT--TTTGCTTTATATA
16250419 GCTTTGCTTTATATTACTTTGC---TTTGCTTTATATA
1 GCTTTGCTTTATATTACTTTGCTTTTTTGCTTTATATA
*
16250454 GCTTTGATTTATATTACTTTGCTTTATATTGCTTTATATA
1 GCTTTGCTTTATATTACTTTGCTTT-T-TTGCTTTATATA
*
16250494 GCTTTTCTTT
1 GCTTTGCTTT
16250504 TCTTTGCTTT
Statistics
Matches: 144, Mismatches: 10, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
35 34 0.24
39 5 0.03
40 103 0.72
41 2 0.01
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (38 bp):
GCTTTGCTTTATATTACTTTGCTTTTTTGCTTTATATA
Found at i:16250552 original size:20 final size:20
Alignment explanation
Indices: 16250527--16251119 Score: 353
Period size: 20 Copynumber: 29.4 Consensus size: 20
16250517 TTGGTTTGAT
16250527 AGCAAAGCAAAGCAATATAA
1 AGCAAAGCAAAGCAATATAA
16250547 AGC--A--AAA-CAATATAA
1 AGCAAAGCAAAGCAATATAA
*
16250562 AGCAAAGCAAAGTAATATAA
1 AGCAAAGCAAAGCAATATAA
*
16250582 AGCAAAGCAAGGCAATATAA
1 AGCAAAGCAAAGCAATATAA
*
16250602 AGCAAAACAAAGCAAAGTAATATA
1 AGCAAAGCAAAGC-AA-T-ATA-A
* *
16250626 A-TATGAAGCAAAGTAATATAA
1 AGCA--AAGCAAAGCAATATAA
*
16250647 AGAAAAGCAAAG-----TAA
1 AGCAAAGCAAAGCAATATAA
16250662 AGCAAAGCAAAGCAA-AGTAA
1 AGCAAAGCAAAGCAATA-TAA
* * *
16250682 AGTAATA-TAAAGCAATGTAA
1 AGCAA-AGCAAAGCAATATAA
* *
16250702 AGCAAAGCAATGCAA-A-GA
1 AGCAAAGCAAAGCAATATAA
* *
16250720 A--ATA-TAAAGCAATATAA
1 AGCAAAGCAAAGCAATATAA
16250737 AGCAAAGCAAAGCAATATAA
1 AGCAAAGCAAAGCAATATAA
*
16250757 AGCAAAGCAAAGAAAAGTAATATA
1 AGCAAAGCAAAG-CAA-T-ATA-A
**
16250781 ATATAAAGCAAAGCAATATAA
1 A-GCAAAGCAAAGCAATATAA
16250802 AGCAAAGCAAAGCAA-AGTAA
1 AGCAAAGCAAAGCAATA-TAA
* *
16250822 TA-TAAAGAAAAGCAA-AGTAA
1 -AGCAAAGCAAAGCAATA-TAA
* *
16250842 AGTAAAGCAAAGTAATATAA
1 AGCAAAGCAAAGCAATATAA
*
16250862 AGCAAAGCAAAGAAAAGTAATATA
1 AGCAAAGCAAAG-CAA-T-ATA-A
**
16250886 ATATAAAGCAAAGCAATATAA
1 A-GCAAAGCAAAGCAATATAA
16250907 AGCAAAGCAAAGCAA-AGTAA
1 AGCAAAGCAAAGCAATA-TAA
* *
16250927 TA-TAAAGAAAAGCAA-AGTAA
1 -AGCAAAGCAAAGCAATA-TAA
* *
16250947 AGTAAAGCAAAGTAATATAA
1 AGCAAAGCAAAGCAATATAA
*
16250967 AGCAATGCAAAGCAA-AGTAA
1 AGCAAAGCAAAGCAATA-TAA
* *
16250987 TA-TAAAGAAAAGCAA-AGTAA
1 -AGCAAAGCAAAGCAATA-TAA
* *
16251007 AACAAAGCAAAGTAATATAA
1 AGCAAAGCAAAGCAATATAA
16251027 AGCAAAGCAAAGCAAAGTAATATAA
1 AGCAAAGCAAAGC-----AATATAA
* *
16251052 AGCAATGCAAAGCAA-AGCAA
1 AGCAAAGCAAAGCAATA-TAA
**
16251072 AG-AAATATAAAGCAATATAA
1 AGCAAA-GCAAAGCAATATAA
16251092 AGCAAAGCAAAGCAATATAA
1 AGCAAAGCAAAGCAATATAA
16251112 AGCAAAGC
1 AGCAAAGC
16251120 TTCTTTGATA
Statistics
Matches: 453, Mismatches: 64, Indels: 112
0.72 0.10 0.18
Matches are distributed among these distances:
15 31 0.07
16 6 0.01
17 3 0.01
18 3 0.01
19 15 0.03
20 290 0.64
21 23 0.05
22 13 0.03
23 13 0.03
24 12 0.03
25 44 0.10
ACGTcount: A:0.61, C:0.11, G:0.15, T:0.13
Consensus pattern (20 bp):
AGCAAAGCAAAGCAATATAA
Found at i:16250613 original size:45 final size:45
Alignment explanation
Indices: 16250564--16251117 Score: 309
Period size: 45 Copynumber: 13.0 Consensus size: 45
16250554 CAATATAAAG
*
16250564 CAAAGCAAAGTAATATAAAGCAAAGCAAGGCAATATAAAGCAAAA
1 CAAAGCAAAGTAATATAAAGCAAAGCAAAGCAATATAAAGCAAAA
*
16250609 CAAAGCAAAGTAATATAATATG--AAGCAAAGTAATATAAAG-AAAA
1 CAAAGCAAAGTAATATAA-A-GCAAAGCAAAGCAATATAAAGCAAAA
* * * * * **
16250653 GCAAAGTAAAGCAA-AGCAAAGCAAAGTAAAGTAATATAAAGCAATG
1 -CAAAGCAAAGTAATA-TAAAGCAAAGCAAAGCAATATAAAGCAAAA
* * ** **
16250699 TAAAGCAAAGCAATGCAAAG-AAATATAAAGCAATATAAAG-----
1 CAAAGCAAAGTAATATAAAGCAAA-GCAAAGCAATATAAAGCAAAA
* * * *
16250739 CAAAGCAAAGCAATATAAAGCAAAGCAAAG-AAAAGTAATA-TAATA
1 CAAAGCAAAGTAATATAAAGCAAAGCAAAGCAATA-TAA-AGCAAAA
* * *
16250784 TAAAGCAAAGCAATATAAAGCAAAGCAAAGCAA-AGTAATA-TAAAGA
1 CAAAGCAAAGTAATATAAAGCAAAGCAAAGCAATA-TAA-AGCAAA-A
* * *
16250830 -AAAGCAAAG-----TAAAGTAAAGCAAAGTAATATAAAGCAAAG
1 CAAAGCAAAGTAATATAAAGCAAAGCAAAGCAATATAAAGCAAAA
* * *
16250869 CAAAGAAAAGTAATATAATA-TAAAGCAAAGCAATATAAAGCAAAG
1 CAAAGCAAAGTAATATAA-AGCAAAGCAAAGCAATATAAAGCAAAA
*
16250914 CAAAGCAAAGTAATATAAAGAAAAGCAAAG-----TAAAG-----
1 CAAAGCAAAGTAATATAAAGCAAAGCAAAGCAATATAAAGCAAAA
* * *
16250949 TAAAGCAAAGTAATATAAAGCAATGCAAAGCAA-AGTAATA-TAAAGA
1 CAAAGCAAAGTAATATAAAGCAAAGCAAAGCAATA-TAA-AGCAAA-A
* *
16250995 -AAAGCAAAG---TA-AAA-CAAAGCAAAGTAATATAAAGCAAAG
1 CAAAGCAAAGTAATATAAAGCAAAGCAAAGCAATATAAAGCAAAA
*
16251034 CAAAGCAAAGTAATATAAAGCAATGCAAAGC-----AAAGCAAAGA
1 CAAAGCAAAGTAATATAAAGCAAAGCAAAGCAATATAAAGCAAA-A
* *
16251075 -AATA-TAAAGCAATATAAAGCAAAGCAAAGCAATATAAAGCAAA
1 CAA-AGCAAAGTAATATAAAGCAAAGCAAAGCAATATAAAGCAAA
16251118 GCTTCTTTGA
Statistics
Matches: 411, Mismatches: 42, Indels: 112
0.73 0.07 0.20
Matches are distributed among these distances:
35 27 0.07
39 5 0.01
40 121 0.29
41 11 0.03
42 2 0.00
43 3 0.01
44 13 0.03
45 221 0.54
46 7 0.02
47 1 0.00
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.14
Consensus pattern (45 bp):
CAAAGCAAAGTAATATAAAGCAAAGCAAAGCAATATAAAGCAAAA
Found at i:16250709 original size:105 final size:105
Alignment explanation
Indices: 16250565--16251018 Score: 461
Period size: 105 Copynumber: 4.2 Consensus size: 105
16250555 AATATAAAGC
* * * *
16250565 AAAGCAAAGTAATATAAAGCAAAGCAAGGCAATATAAAGCAAAACAAAGCAAAGTAATA-TAATA
1 AAAGCAAAGCAATATAAAGCAAAGCAAAGC-----AAAGCAATACAAAGAAAAGTAA-AGTAA-A
* * * * * *
16250629 -TGAAGCAAAGTAATATAAAGAAAAGCAAAGTAAAGCAA-AGCAA-AGC
59 GTAAAGCAAAGTAATATAAAGCAAAGCAAAGAAAAGTAATA-TAATA-T
* * * * *
16250675 AAAGTAAAGTAATATAAAGCAATGTAAAGCAAAGCAATGCAAAGAAATA-TAAAGCAATATAAAG
1 AAAGCAAAGCAATATAAAGCAAAGCAAAGCAAAGCAATACAAAGAAA-AGTAAAG-----TAAAG
* *
16250739 CAAAGCAAAGCAATATAAAGCAAAGCAAAGAAAAGTAATATAATAT
60 TAAAGCAAAGTAATATAAAGCAAAGCAAAGAAAAGTAATATAATAT
* * *
16250785 AAAGCAAAGCAATATAAAGCAAAGCAAAGCAAAGTAATATAAAGAAAAGCAAAGTAAAGTAAAGC
1 AAAGCAAAGCAATATAAAGCAAAGCAAAGCAAAGCAATACAAAGAAAAGTAAAGTAAAGTAAAGC
16250850 AAAGTAATATAAAGCAAAGCAAAGAAAAGTAATATAATAT
66 AAAGTAATATAAAGCAAAGCAAAGAAAAGTAATATAATAT
* * *
16250890 AAAGCAAAGCAATATAAAGCAAAGCAAAGCAAAGTAATATAAAGAAAAGCAAAGTAAAGTAAAGC
1 AAAGCAAAGCAATATAAAGCAAAGCAAAGCAAAGCAATACAAAGAAAAGTAAAGTAAAGTAAAGC
* * *
16250955 AAAGTAATATAAAGCAATGCAAAGCAAAGTAATATAA-AGA
66 AAAGTAATATAAAGCAAAGCAAAGAAAAGTAATATAATA-T
* * *
16250995 AAAGCAAAGTAAAACAAAGCAAAG
1 AAAGCAAAGCAATATAAAGCAAAG
16251019 TAATATAAAG
Statistics
Matches: 301, Mismatches: 31, Indels: 29
0.83 0.09 0.08
Matches are distributed among these distances:
104 2 0.01
105 187 0.62
106 1 0.00
109 2 0.01
110 107 0.36
111 2 0.01
ACGTcount: A:0.61, C:0.10, G:0.16, T:0.14
Consensus pattern (105 bp):
AAAGCAAAGCAATATAAAGCAAAGCAAAGCAAAGCAATACAAAGAAAAGTAAAGTAAAGTAAAGC
AAAGTAATATAAAGCAAAGCAAAGAAAAGTAATATAATAT
Found at i:16250941 original size:30 final size:30
Alignment explanation
Indices: 16250905--16251119 Score: 206
Period size: 30 Copynumber: 7.2 Consensus size: 30
16250895 AAAGCAATAT
*
16250905 AAAGCAAAGCAAAGCAAAGTAATATAAAGA
1 AAAGCAAAGCAAAGCAAAGCAATATAAAGA
* * *
16250935 AAAGCAAAGTAAAGTAAAGCAA-AGTAATA-T
1 AAAGCAAAGCAAAGCAAAGCAATA-TAA-AGA
* *
16250965 AAAGCAATGCAAAGCAAAGTAATATAAAGA
1 AAAGCAAAGCAAAGCAAAGCAATATAAAGA
* * *
16250995 AAAGCAAAGTAAAACAAAGCAA-AGTAATA-T
1 AAAGCAAAGCAAAGCAAAGCAATA-TAA-AGA
* *
16251025 AAAGCAAAGCAAAGCAAAGTAATATAAAGC
1 AAAGCAAAGCAAAGCAAAGCAATATAAAGA
* *
16251055 AATGCAAAGCAAAGCAAAGAAATATAAAGCA
1 AAAGCAAAGCAAAGCAAAGCAATATAAAG-A
* * *
16251086 ATA-TAAAGCAAAGCAAAGCAATATAAAGC
1 AAAGCAAAGCAAAGCAAAGCAATATAAAGA
16251115 AAAGC
1 AAAGC
16251120 TTCTTTGATA
Statistics
Matches: 147, Mismatches: 28, Indels: 20
0.75 0.14 0.10
Matches are distributed among these distances:
29 6 0.04
30 136 0.93
31 5 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (30 bp):
AAAGCAAAGCAAAGCAAAGCAATATAAAGA
Found at i:16251086 original size:25 final size:25
Alignment explanation
Indices: 16250735--16251119 Score: 185
Period size: 25 Copynumber: 15.2 Consensus size: 25
16250725 AAAGCAATAT
*
16250735 AAAGCAAAGCAAAGCAATATAAAGC
1 AAAGCAAAGCAAAGAAATATAAAGC
* * *
16250760 AAAGCAAAGAAAAGTAATATAATA-T
1 AAAGCAAAGCAAAGAAATATAA-AGC
16250785 AAAGCAAAGC-----AATATAAAGC
1 AAAGCAAAGCAAAGAAATATAAAGC
* *
16250805 AAAGCAAAGCAAAGTAATATAAAGA
1 AAAGCAAAGCAAAGAAATATAAAGC
* * *
16250830 AAAGCAAAGTAAAGTAAAGCAAAGTAATA-T
1 AAAGCAAAGCAAAG--AA--ATA-TAA-AGC
*
16250860 AAAGCAAAGCAAAGAAA-AGTAATA-T
1 AAAGCAAAGCAAAGAAATA-TAA-AGC
* *
16250885 AATA-TAAAGCAAAGCAATATAAAGC
1 AA-AGCAAAGCAAAGAAATATAAAGC
* *
16250910 AAAGCAAAGCAAAGTAATATAAAGA
1 AAAGCAAAGCAAAGAAATATAAAGC
*
16250935 AAAGCAAAGTAAAG-----TAAAGC
1 AAAGCAAAGCAAAGAAATATAAAGC
* * * **
16250955 AAAGTAATA-TAAAGCAATGCAAAGC
1 AAAGCAA-AGCAAAGAAATATAAAGC
* * * *
16250980 AAAGTAATA-TAAAGAAA-AGCAAAGT
1 AAAGCAA-AGCAAAGAAATA-TAAAGC
* *
16251005 AAAACAAAGCAAAGTAATATAAAGC
1 AAAGCAAAGCAAAGAAATATAAAGC
*
16251030 AAAGCAAAGCAAAGTAATATAAAGCAATGC
1 AAAGCAAAGCAAAG-AA-ATATA--AA-GC
16251060 AAAGCAAAGCAAAGAAATATAAAGC
1 AAAGCAAAGCAAAGAAATATAAAGC
*
16251085 AATATAAAGCAAAGCAAAGCAATATAAAGC
1 -----AAAGCAAAGCAAAGAAATATAAAGC
16251115 AAAGC
1 AAAGC
16251120 TTCTTTGATA
Statistics
Matches: 289, Mismatches: 35, Indels: 72
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.00
20 33 0.11
21 1 0.00
24 3 0.01
25 169 0.58
26 8 0.03
27 5 0.02
28 6 0.02
29 6 0.02
30 56 0.19
31 1 0.00
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.13
Consensus pattern (25 bp):
AAAGCAAAGCAAAGAAATATAAAGC
Found at i:16251094 original size:10 final size:10
Alignment explanation
Indices: 16251040--16251116 Score: 68
Period size: 10 Copynumber: 7.7 Consensus size: 10
16251030 AAAGCAAAGC
*
16251040 AAAGTAATAT
1 AAAGCAATAT
**
16251050 AAAGCAATGC
1 AAAGCAATAT
*
16251060 AAAGCAA-AGC
1 AAAGCAATA-T
*
16251070 AAAGAAATAT
1 AAAGCAATAT
16251080 AAAGCAATAT
1 AAAGCAATAT
*
16251090 AAAGCAA-AGC
1 AAAGCAATA-T
16251100 AAAGCAATAT
1 AAAGCAATAT
16251110 AAAGCAA
1 AAAGCAA
16251117 AGCTTCTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
9 1 0.02
10 51 0.94
11 2 0.04
ACGTcount: A:0.61, C:0.12, G:0.14, T:0.13
Consensus pattern (10 bp):
AAAGCAATAT
Found at i:16251763 original size:107 final size:107
Alignment explanation
Indices: 16251518--16251914 Score: 663
Period size: 106 Copynumber: 3.7 Consensus size: 107
16251508 TGGAAATATG
*
16251518 CCTTATTTTTTAGAAACTCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
1 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
* * *
16251583 TATTAAGCTATTAAGCATCATCGTGAT-AACCATTTTCTTTT
66 TATGAAGCTATTAAGCATCATCCTGATGAACCCTTTTCTTTT
* *
16251624 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAATTATTAGAAATCCTTCTAACAAACAAAAAA
1 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
* *
16251689 TATGAAGCTATTAAGCATCATCCTCATGAACCCTTTTTTTTT
66 TATGAAGCTATTAAGCATCATCCTGATGAACCCTTTTCTTTT
16251731 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAACTATTAGAAATCCTTCTAACAGACAAAAA
1 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAA-TATTAGAAATCCTTCTAACAGACAAAAA
16251796 ATATGAAGCTATTAAGCATCATCCTGATGAACCC-TTTCTTTT
65 ATATGAAGCTATTAAGCATCATCCTGATGAACCCTTTTCTTTT
* *
16251838 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTACTCACAGACAAAAAA
1 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGAC-AAAAA
*
16251903 ATATGAATCTAT
65 ATATGAAGCTAT
16251915 CACCATAGAG
Statistics
Matches: 273, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
106 107 0.39
107 106 0.39
108 60 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (107 bp):
CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
TATGAAGCTATTAAGCATCATCCTGATGAACCCTTTTCTTTT
Found at i:16251886 original size:214 final size:214
Alignment explanation
Indices: 16251518--16251914 Score: 681
Period size: 214 Copynumber: 1.9 Consensus size: 214
16251508 TGGAAATATG
*
16251518 CCTTATTTTTTAGAAACTCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
1 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
* * *
16251583 TATTAAGCTATTAAGCATCATCGTGATAACCATTTTCTTTTCCTTATTTTTTAGAAAATCCTAAT
66 TATGAAGCTATTAAGCATCATCCTGATAACCACTTTCTTTTCCTTATTTTTTAGAAAATCCTAAT
* *
16251648 TAATCAGAAAATTATTAGAAATCCTTCTAACAAAC-AAAAAATATGAAGCTATTAAGCATCATCC
131 TAATCAGAAAAATATTAGAAATCCTACTAACAAACAAAAAAATATGAAGCTATTAAGCATCATCC
16251712 TCATGAACCCTTTTTTTTT
196 TCATGAACCCTTTTTTTTT
16251731 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAACTATTAGAAATCCTTCTAACAGACAAAAA
1 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAA-TATTAGAAATCCTTCTAACAGACAAAAA
16251796 ATATGAAGCTATTAAGCATCATCCTGATGAACC-CTTTCTTTTCCTTATTTTTTAGAAAATCCTA
65 ATATGAAGCTATTAAGCATCATCCTGAT-AACCACTTTCTTTTCCTTATTTTTTAGAAAATCCTA
* * *
16251860 ATTAATCAGAAAAATATTAGAAATCCTACTCACAGACAAAAAAATATGAATCTAT
129 ATTAATCAGAAAAATATTAGAAATCCTACTAACAAACAAAAAAATATGAAGCTAT
16251915 CACCATAGAG
Statistics
Matches: 172, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
213 35 0.20
214 117 0.68
215 20 0.12
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (214 bp):
CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
TATGAAGCTATTAAGCATCATCCTGATAACCACTTTCTTTTCCTTATTTTTTAGAAAATCCTAAT
TAATCAGAAAAATATTAGAAATCCTACTAACAAACAAAAAAATATGAAGCTATTAAGCATCATCC
TCATGAACCCTTTTTTTTT
Found at i:16252535 original size:105 final size:107
Alignment explanation
Indices: 16252247--16252561 Score: 508
Period size: 105 Copynumber: 2.9 Consensus size: 107
16252237 TGGAGATATG
16252247 CCTTATTTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAA
1 CCTTA-TTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGAC-AAAA
* * *
16252312 AATATGAAGCTATTAAGCAACAACCTGATGAACCCTTTTTTTTTTTTT
64 AATATGAAGCTATTAAGCATCATCCTGATGAACCC----TTTTCTTTT
16252360 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
1 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
*
16252425 TATGAAGCTATTGAGCATCATCCTGATGAACCC-TTTCTTTT
66 TATGAAGCTATTAAGCATCATCCTGATGAACCCTTTTCTTTT
* *
16252466 CCTTATTTTTTAG-AAATCCTAATTAATTAGAAAAATATTAGAAATCCTTCTCACAGACAAAAAA
1 CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
16252530 TATGAAGCTATTAAGCATCATCCTGATGAACC
66 TATGAAGCTATTAAGCATCATCCTGATGAACC
16252562 AATTTTTGAT
Statistics
Matches: 195, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
105 80 0.41
106 20 0.10
111 36 0.18
112 54 0.28
113 5 0.03
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (107 bp):
CCTTATTTTTTAGAAAATCCTAATTAATCAGAAAAATATTAGAAATCCTTCTAACAGACAAAAAA
TATGAAGCTATTAAGCATCATCCTGATGAACCCTTTTCTTTT
Found at i:16257614 original size:30 final size:30
Alignment explanation
Indices: 16257571--16257631 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
16257561 AGTACTTGAA
*
16257571 TTGCTTTGATTTATATTACTTTGCTTTGCT
1 TTGCTTAGATTTATATTACTTTGCTTTGCT
*
16257601 TTGCTTAGCTTTATATTACTTTGCTTTGCT
1 TTGCTTAGATTTATATTACTTTGCTTTGCT
16257631 T
1 T
16257632 CATATTACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGCTTAGATTTATATTACTTTGCTTTGCT
Found at i:16257622 original size:20 final size:20
Alignment explanation
Indices: 16257596--16258255 Score: 431
Period size: 20 Copynumber: 32.6 Consensus size: 20
16257586 TTACTTTGCT
*
16257596 TTGCTTTGCTTAGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16257616 TTACTTTGCTTTGCTTCATA
1 TTGCTTTGCTTTGCTTTATA
* *
16257636 TTACTTTGCTTTGTTTTATA
1 TTGCTTTGCTTTGCTTTATA
16257656 TTGCTTTGCTTTTCTTTGCTTTATA
1 TTGCTTTG-----CTTTGCTTTATA
* *
16257681 CTGCTTTCCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16257701 TTACTTTGGTTTGCTCTGCTTCATA
1 TTGCTTTGCTTTG--CT--TT-ATA
* *
16257726 TTACTATGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
16257746 -----TTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16257761 TTACTTTGCTTTGTTTTATA
1 TTGCTTTGCTTTGCTTTATA
16257781 TTGCTTTGCTTTGCTTTGCTTTATA
1 -----TTGCTTTGCTTTGCTTTATA
*
16257806 CTGCTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16257826 TTACTTTGGTTTGCTCTGCTTCATA
1 TTGCTTTGCTTTG--CT--TT-ATA
* *
16257851 TTACTATGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16257871 TTGCTTTAC-TT-C---ATA
1 TTGCTTTGCTTTGCTTTATA
* *
16257886 TTACTTTGCTTTGTTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16257906 TTGTTTTGCTTTGC----T-
1 TTGCTTTGCTTTGCTTTATA
16257921 TTGCTTTGCTTTG-TTTCATA
1 TTGCTTTGCTTTGCTTT-ATA
* *
16257941 TTACTATGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
16257961 TTGCTTTGC-TT-C---ATA
1 TTGCTTTGCTTTGCTTTATA
*
16257976 TTACTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
16257996 TTGCTTTGCTTTGC----T-
1 TTGCTTTGCTTTGCTTTATA
* * * *
16258011 TTGCTTT-ATATTACTTTGTG
1 TTGCTTTGCT-TTGCTTTATA
*
16258031 TTGCTTTGTTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16258051 TTGCTTTGCTTTGCTTTTTA
1 TTGCTTTGCTTTGCTTTATA
*
16258071 TTGCTTTGCTTTTCTTTATA
1 TTGCTTTGCTTTGCTTTATA
* *
16258091 TTGTTTTGCATTGCTTTGCTTTATG
1 -----TTGCTTTGCTTTGCTTTATA
* *
16258116 TTGCTTTGCTTTGTTTTTTA
1 TTGCTTTGCTTTGCTTTATA
16258136 TTGCTTTGCTTTGCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16258156 TTGCTTTGCTTTTCTTTATA
1 TTGCTTTGCTTTGCTTTATA
*
16258176 TTGTTTTGCATTACTTTGCTTTATA
1 TTGCTTTG-----CTTTGCTTTATA
* *
16258201 TTACTTTGCTTTGCTTTGCT-
1 TTGCTTTGCTTTGCTTT-ATA
**
16258221 TTATTTTGCTTTGCTTTTTATA
1 TTGCTTTGCTTTGC--TTTATA
16258243 TTGCTTTGCTTTG
1 TTGCTTTGCTTTG
16258256 TTTTGCTGTG
Statistics
Matches: 507, Mismatches: 70, Indels: 124
0.72 0.10 0.18
Matches are distributed among these distances:
14 1 0.00
15 57 0.11
16 6 0.01
17 1 0.00
18 2 0.00
19 6 0.01
20 301 0.59
21 10 0.02
22 18 0.04
23 4 0.01
24 4 0.01
25 97 0.19
ACGTcount: A:0.12, C:0.15, G:0.13, T:0.60
Consensus pattern (20 bp):
TTGCTTTGCTTTGCTTTATA
Found at i:16257626 original size:15 final size:15
Alignment explanation
Indices: 16257574--16257627 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
16257564 ACTTGAATTG
*
16257574 CTTTGATTTATATTA
1 CTTTGCTTTATATTA
* *
16257589 CTTTGCTTTGCT-TTG
1 CTTTGCTTT-ATATTA
*
16257604 CTTAGCTTTATATTA
1 CTTTGCTTTATATTA
16257619 CTTTGCTTT
1 CTTTGCTTT
16257628 GCTTCATATT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.59
Consensus pattern (15 bp):
CTTTGCTTTATATTA
Found at i:16257659 original size:15 final size:15
Alignment explanation
Indices: 16257640--16257677 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16257630 TTCATATTAC
16257640 TTTGCTTTG-TTTTA
1 TTTGCTTTGCTTTTA
*
16257654 TATTGCTTTGCTTTTC
1 T-TTGCTTTGCTTTTA
16257670 TTTGCTTT
1 TTTGCTTT
16257678 ATACTGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.71
16 5 0.24
ACGTcount: A:0.05, C:0.13, G:0.13, T:0.68
Consensus pattern (15 bp):
TTTGCTTTGCTTTTA
Found at i:16257788 original size:125 final size:125
Alignment explanation
Indices: 16257621--16258078 Score: 578
Period size: 125 Copynumber: 3.7 Consensus size: 125
16257611 TTATATTACT
*
16257621 TTGCTTTGCTTCATATTACTTTGCTTTGTTTTATATTGCTTTGCTTTTCTTTGCTTTATACTGCT
1 TTGCTTTGCTTCATATTACTTTGCTTTGTTTTATATTGCTTTGCTTTGCTTTGCTTTATACTGCT
16257686 TTCCTTTGCTTTATATTACTTTGGTTTGCTCTGCTTCATATTACTATGCTTTGCTTTATA
66 TTCCTTTGCTTTATATTACTTTGGTTTGCTCTGCTTCATATTACTATGCTTTGCTTTATA
*
16257746 TTGCTTTGCTTTATATTACTTTGCTTTGTTTTATATTGCTTTGCTTTGCTTTGCTTTATACTGCT
1 TTGCTTTGCTTCATATTACTTTGCTTTGTTTTATATTGCTTTGCTTTGCTTTGCTTTATACTGCT
*
16257811 TTGCTTTGCTTTATATTACTTTGGTTTGCTCTGCTTCATATTACTATGCTTTGCTTTATA
66 TTCCTTTGCTTTATATTACTTTGGTTTGCTCTGCTTCATATTACTATGCTTTGCTTTATA
* * * *
16257871 TTGCTTTACTTCATATTACTTTGCTTTGTTTTATATTGTTTTGCTTTGCTTTGCTTTGCT-TTG-
1 TTGCTTTGCTTCATATTACTTTGCTTTGTTTTATATTGCTTTGCTTTGCTTTGCTTT-ATACTGC
* * ** * * * *
16257934 TTTCATATTACTATGCT-TTGCTTT-ATATTGCTTTGCTTCATATTACTTTGCTTTGCTTTATA
65 TTTCCT-TTGCT-TTATATTACTTTGGT-TTGCTCTGCTTCATATTACTATGCTTTGCTTTATA
* * * * *
16257996 TTGCTTTG---C-T-TTGCTTTGCTTTATATTACT-TTG-TGTTGCTTTGTTTTGCTTTATATTG
1 TTGCTTTGCTTCATATTACTTTGCTTTGTTTTA-TATTGCT-TTGCTTTGCTTTGCTTTATACTG
* * *
16258054 CTTTGCTTTGCTTTTTATTGCTTTG
64 CTTTCCTTTGCTTTATATTACTTTG
16258079 CTTTTCTTTA
Statistics
Matches: 295, Mismatches: 28, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
119 4 0.01
120 48 0.16
121 6 0.02
122 1 0.00
124 5 0.02
125 228 0.77
126 3 0.01
ACGTcount: A:0.12, C:0.16, G:0.13, T:0.59
Consensus pattern (125 bp):
TTGCTTTGCTTCATATTACTTTGCTTTGTTTTATATTGCTTTGCTTTGCTTTGCTTTATACTGCT
TTCCTTTGCTTTATATTACTTTGGTTTGCTCTGCTTCATATTACTATGCTTTGCTTTATA
Found at i:16257798 original size:90 final size:90
Alignment explanation
Indices: 16257726--16258352 Score: 247
Period size: 90 Copynumber: 6.8 Consensus size: 90
16257716 CTGCTTCATA
* * * * *
16257726 TTACTATGCTTTGCTTTATATTGCTTTGCTTT-ATATT-ACTTTGCTTTGTTTTATATTGCTTTG
1 TTACTTTGCTTTGCTTCATATTGCTTTGCTTTGCT-TTGA-TTTGCTTTGCTTTATA-----TTA
*
16257789 CTTTGCTTTGCTTTATACTGCTTTGCTTTGCTTTAT
59 CTTTGCTTTGCTTTATATTGCTTTGCTTTGC----T
* * * * *
16257825 ATTACTTTGGTTTGCTCTGCTTCATATTACTATGCTTTGCTTT-ATATTGCTTTACTTCATATTA
1 -TTAC--T--T-TGCTTTGCTTCATATTGCTTTGCTTTGCTTTGAT-TTGCTTTGCTTTATATTA
* *
16257889 CTTTGCTTTGTTTTATATTGTTTTGCTTTGCT
59 CTTTGCTTTGCTTTATATTGCTTTGCTTTGCT
* * * * *
16257921 TTGCTTTGCTTTGTTTCATATTACTATGCTTTGCTTT-ATATTGCTTTGCTTCATATTACTTTGC
1 TTACTTTGCTTTGCTTCATATTGCTTTGCTTTGCTTTGAT-TTGCTTTGCTTTATATTACTTTGC
16257985 TTTGCTTTATATTGCTTTGCTTTGCT
65 TTTGCTTTATATTGCTTTGCTTTGCT
* * * ** * * * * *
16258011 TTGCTTT-ATATTACTTTGTGTTGCTTTGTTTTGCTTTATATTGCTTTGCTTTGCTTTTTATTGC
1 TTACTTTGCT-TTGCTTCATATTGCTTTGCTTTGC----T-TTGATTTGCTTTGCTTTATATTAC
* *
16258075 TTTGCTTTTCTTTATATTGTTTTGCATTGCTTTGCT
60 TTTGCTTTGCTTTATA-----TTGCTTTGCTTTGCT
* ** *
16258111 TTATGTTGCTTTGCTTTGTTTTTTATTGCTTTGCTTTGCTTT-ATATTGCTTTGCTTT-TCTTTA
1 TTA-----CTTTGCTTTGCTTCATATTGCTTTGCTTTGCTTTGAT-TTGCTTTGCTTTAT-ATTA
* * * *
16258174 -TATTGTTTTGCATTACT-TTGCTTT-ATATTACT
59 CT-TTGCTTTGCTTTA-TATTGCTTTGCT-TTGCT
* * * * * * *
16258206 TTGCTTTGCTTTGCTTTATTTTGCTTTGC-TT--TTT-ATATTGCTTTGCTTTGTTTTGCTGTGC
1 TTACTTTGCTTTGCTTCATATTGCTTTGCTTTGCTTTGAT-TTGCTTTGCTTTATATTACTTTGC
*
16258267 -TT--TTTATATTACTTTGCTTTGCTT
65 TTTGCTTTATATTGCTTTGCTTTGC-T
* * * * * *
16258291 TTGCTGTGCTTT--TT-ATATTGCTTTGCTTTGTTTTGCTTTGC--T-CTTTGTATTGCTTTGCT
1 TTACTTTGCTTTGCTTCATATTGCTTTGCTTTGCTTTGATTTGCTTTGCTTTATATTACTTTGCT
16258350 TTG
66 TTG
16258353 TTTTGCTGTG
Statistics
Matches: 420, Mismatches: 66, Indels: 98
0.72 0.11 0.17
Matches are distributed among these distances:
82 25 0.06
83 8 0.02
84 12 0.03
85 20 0.05
86 3 0.01
87 23 0.05
88 2 0.00
89 3 0.01
90 125 0.30
91 1 0.00
93 1 0.00
94 2 0.00
95 48 0.11
96 2 0.00
99 3 0.01
100 76 0.18
101 2 0.00
102 1 0.00
104 1 0.00
105 60 0.14
106 2 0.00
ACGTcount: A:0.11, C:0.15, G:0.14, T:0.61
Consensus pattern (90 bp):
TTACTTTGCTTTGCTTCATATTGCTTTGCTTTGCTTTGATTTGCTTTGCTTTATATTACTTTGCT
TTGCTTTATATTGCTTTGCTTTGCT
Found at i:16257879 original size:25 final size:25
Alignment explanation
Indices: 16257761--16258237 Score: 142
Period size: 25 Copynumber: 20.3 Consensus size: 25
16257751 TTGCTTTATA
*
16257761 TTACTTTGCTTTGTTTTATATTGCT
1 TTACTTTGCTTTGCTTTATATTGCT
*
16257786 TTGCTTTGCTTTGCTTTATA---C-
1 TTACTTTGCTTTGCTTTATATTGCT
* *
16257807 -TGCTTTGCTTTGCTTTATATTACT
1 TTACTTTGCTTTGCTTTATATTGCT
** * *
16257831 TTGGTTTGCTCTGCTTCATA-----
1 TTACTTTGCTTTGCTTTATATTGCT
*
16257851 TTACTATGCTTTGCTTTATATTGCT
1 TTACTTTGCTTTGCTTTATATTGCT
* * *
16257876 TTAC-TT-CATATTACTTTGCT-TTGTT
1 TTACTTTGC-T-TTGCTTT-ATATTGCT
* *
16257901 TTA-TATTGTTTTGCTTTGCT-TTGCT
1 TTACT-TTGCTTTGCTTT-ATATTGCT
*
16257926 TTGCTTTG-TTT-CATATTACTA-TGCT
1 TTACTTTGCTTTGC-T-TTA-TATTGCT
* * **
16257951 TTGCTTT-ATATTGCTTT-GCTT-CAT
1 TTACTTTGCT-TTGCTTTATATTGC-T
16257975 ATTACTTTGCTTTGCTTTATATTGCT
1 -TTACTTTGCTTTGCTTTATATTGCT
* *
16258001 TTGCTTTGCTTTGCTTTATATTACT
1 TTACTTTGCTTTGCTTTATATTGCT
* * **
16258026 TT-GTGTTGCTTTG-TTT-TGCTTTAT
1 TTACT-TTGCTTTGCTTTAT-ATTGCT
* *
16258050 ATTGCTTTGCTTTGCTTTTTATTGC-
1 -TTACTTTGCTTTGCTTTATATTGCT
* *
16258075 TT--T--GCTTTTCTTTATATTGTT
1 TTACTTTGCTTTGCTTTATATTGCT
* * *
16258096 TTGCATTGCTTTGCTTTATGTTGCT
1 TTACTTTGCTTTGCTTTATATTGCT
*
16258121 TTGCTTTG--TT--TTT-TATTGC-
1 TTACTTTGCTTTGCTTTATATTGCT
16258140 TT--T--GCTTTGCTTTATATTGC-
1 TTACTTTGCTTTGCTTTATATTGCT
* *
16258160 TT--T--GCTTTTCTTTATATTGTT
1 TTACTTTGCTTTGCTTTATATTGCT
* * * *
16258181 TTGCATTACTTTGCTTTATATTACT
1 TTACTTTGCTTTGCTTTATATTGCT
* *
16258206 TTGCTTTGCTTTGCTTTATTTTGCT
1 TTACTTTGCTTTGCTTTATATTGCT
*
16258231 TTGCTTT
1 TTACTTT
16258238 TTATATTGCT
Statistics
Matches: 346, Mismatches: 55, Indels: 102
0.69 0.11 0.20
Matches are distributed among these distances:
15 1 0.00
17 3 0.01
19 5 0.01
20 77 0.22
21 7 0.02
22 2 0.01
23 7 0.02
24 17 0.05
25 206 0.60
26 18 0.05
27 3 0.01
ACGTcount: A:0.11, C:0.15, G:0.14, T:0.61
Consensus pattern (25 bp):
TTACTTTGCTTTGCTTTATATTGCT
Found at i:16258075 original size:30 final size:29
Alignment explanation
Indices: 16257985--16258388 Score: 143
Period size: 30 Copynumber: 13.0 Consensus size: 29
16257975 ATTACTTTGC
16257985 TTTGCTTTATATTGCTTTGCTTTGC----
1 TTTGCTTTATATTGCTTTGCTTTGCTTTT
*
16258010 TTTGCTTTATATTACTTTG-TGTTGCTTTGT
1 TTTGCTTTATATTGCTTTGCT-TTGCTTT-T
16258040 TTTGCTTTATATTGCTTTGCTTTGCTTTT
1 TTTGCTTTATATTGCTTTGCTTTGCTTTT
* * * **
16258069 TATTGCTTTGCT-TTTCTTTATATTGTTTTGCATTGC
1 T-TTGCTTT-ATATTGC----T-TTGCTTTGC-TTTT
* *
16258105 TTTGCTTTATGTTGCTTTGCTTTGTTTTT
1 TTTGCTTTATATTGCTTTGCTTTGCTTTT
* *
16258134 TATTGCTTTGCT-TTGCTTT-ATATTGCTTTGCT
1 T-TTGCTTT-ATATTGCTTTGCT-TTGCTTT--T
* * * *
16258166 TTT-CTTTATATTGTTTTGCATTACTTTGC
1 TTTGCTTTATATTGCTTTGCTTTGCTTT-T
*
16258195 TTT-ATATTACT-TTGCTTTGCTTTGCTTTATTT
1 TTTGCT-TTA-TATTGCTTTGCTTTGC--T-TTT
16258227 TGCTTTGCTTTTTATATTGCTTTGCTTTG-TTTT
1 T---TTGC--TTTATATTGCTTTGCTTTGCTTTT
* *
16258260 GCTGTGCTTTTTATATTACTTTGCTTTGCTTTT
1 --TTTGC--TTTATATTGCTTTGCTTTGCTTTT
*
16258293 GCTGTGCTTTTTATATTGCTTTGCTTTG-TTTT
1 --TTTGC--TTTATATTGCTTTGCTTTGCTTTT
*
16258325 GCTTTGCTCTTTGTATTGCTTTGCTTTG-TTTT
1 --TTTG--CTTTATATTGCTTTGCTTTGCTTTT
* *
16258357 GCTGTGCTTTTTATATTGATTTGCTTTGCTTT
1 --TTTGC--TTTATATTGCTTTGCTTTGCTTT
16258389 GCTGTGCTTT
Statistics
Matches: 299, Mismatches: 37, Indels: 78
0.72 0.09 0.19
Matches are distributed among these distances:
24 1 0.00
25 22 0.07
29 11 0.04
30 93 0.31
31 7 0.02
32 80 0.27
33 39 0.13
34 4 0.01
35 21 0.07
36 4 0.01
37 16 0.05
38 1 0.00
ACGTcount: A:0.08, C:0.13, G:0.15, T:0.63
Consensus pattern (29 bp):
TTTGCTTTATATTGCTTTGCTTTGCTTTT
Found at i:16258195 original size:55 final size:54
Alignment explanation
Indices: 16257746--16258255 Score: 239
Period size: 55 Copynumber: 9.1 Consensus size: 54
16257736 TTGCTTTATA
*
16257746 TTGCTTTGCTTTATATTACTTTGCTTTGTTTTATATTGCTTTGCTTTGCTTTGCTTTATACTGCT
1 TTGCTTTGCTTTATATTACTTTGCTTTGCTTTATA-----TTGCTTTGC-TT-C--TAT--TGCT
* * * *
16257811 TTGCTTTGCTTTATATTACTTTGGTTTGCTCTGCTTCATATTACTATGCTTTGCT-TT-AT
1 TTGCTTTGCTTTATATTACTTTGCTTTG--CT--TT-ATATTGCTTTGC-TT-CTATTGCT
* * * *
16257870 ATTGCTTTACTTCATATTACTTTGCTTTGTTTTATATTGTTTTGCTTTGCT-TTGCT
1 -TTGCTTTGCTTTATATTACTTTGCTTTGCTTTATATTGCTTTGC-TT-CTATTGCT
* *
16257926 TTGCTTTG-TTTCATATTACTATGCTTTGCTTTATATTGCTTTGCTTCATATTACT
1 TTGCTTTGCTTT-ATATTACTTTGCTTTGCTTTATATTGCTTTGCTTC-TATTGCT
* * * * * *
16257981 TTGCTTTGCTTTATATTGCTTTGCTTTGCTTTGCT-TT-ATATTACTTTGTGTTGCT
1 TTGCTTTGCTTTATATTACTTTGCTTTGCTTT-ATATTGCT-TTGC-TTCTATTGCT
* * *
16258036 TTGTTTTGCTTTATATTGCTTTGCTTTGCTTTTTATTGCTTTGC-T-T-TT-CT
1 TTGCTTTGCTTTATATTACTTTGCTTTGCTTTATATTGCTTTGCTTCTATTGCT
* * ** * ** * *
16258086 TT-ATATTGTTTTGCATTGCTTTGCTTTATG-TTGCT-TTGCTTTGTTTTTTATTGCT
1 TTGCT-TTGCTTTATATTACTTTGC-TT-TGCTTTATATTGCTTTG-CTTCTATTGCT
* * * *
16258141 TTGCTTTGCTTTATATTGCTTTGCTTTTCTTTATATTG-TTT--TGC-ATTACT
1 TTGCTTTGCTTTATATTACTTTGCTTTGCTTTATATTGCTTTGCTTCTATTGCT
* * * *
16258191 TTGCTTT-ATATTACT-TTGCTTTGCTTTGCTTTATTTTGCTTTGCTTTTTATATTGCT
1 TTGCTTTGCT-TTA-TATTACTTTGCTTTGCTTTATATTGCTTTGC---TTCTATTGCT
16258248 TTGCTTTG
1 TTGCTTTG
16258256 TTTTGCTGTG
Statistics
Matches: 354, Mismatches: 54, Indels: 81
0.72 0.11 0.17
Matches are distributed among these distances:
49 2 0.01
50 64 0.18
51 12 0.03
52 4 0.01
53 4 0.01
54 17 0.05
55 152 0.43
56 12 0.03
57 12 0.03
58 1 0.00
59 1 0.00
60 26 0.07
62 1 0.00
63 1 0.00
65 39 0.11
67 1 0.00
69 2 0.01
70 3 0.01
ACGTcount: A:0.11, C:0.15, G:0.14, T:0.61
Consensus pattern (54 bp):
TTGCTTTGCTTTATATTACTTTGCTTTGCTTTATATTGCTTTGCTTCTATTGCT
Found at i:16258252 original size:32 final size:32
Alignment explanation
Indices: 16258211--16258401 Score: 301
Period size: 32 Copynumber: 5.9 Consensus size: 32
16258201 TTACTTTGCT
* *
16258211 TTGCTTTGCTTTATTTTGCTTTGCTTTTTATA
1 TTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA
16258243 TTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA
1 TTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA
*
16258275 TTACTTTGCTTTGCTTTTGCTGTGCTTTTTATA
1 TTGCTTTGCTTTG-TTTTGCTGTGCTTTTTATA
* * *
16258308 TTGCTTTGCTTTGTTTTGCTTTGCTCTTTGTA
1 TTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA
16258340 TTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA
1 TTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA
* *
16258372 TTGATTTGCTTTGCTTTGCTGTGCTTTTTA
1 TTGCTTTGCTTTGTTTTGCTGTGCTTTTTA
16258402 ATATAGACAT
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
32 115 0.79
33 31 0.21
ACGTcount: A:0.07, C:0.14, G:0.17, T:0.62
Consensus pattern (32 bp):
TTGCTTTGCTTTGTTTTGCTGTGCTTTTTATA
Found at i:16258332 original size:97 final size:96
Alignment explanation
Indices: 16258211--16258401 Score: 330
Period size: 97 Copynumber: 2.0 Consensus size: 96
16258201 TTACTTTGCT
*
16258211 TTGCTTTGCTTTATTTTGCTTTGCTTTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATAT
1 TTGCTTTGCTTTATTTTGCTTTGCTCTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATAT
16258276 T-ACTTTGCTTTGCTTTTGCTGTGCTTTTTATA
66 TGA-TTTGCTTTGC-TTTGCTGTGCTTTTTATA
* *
16258308 TTGCTTTGCTTTGTTTTGCTTTGCTCTTTGTATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATAT
1 TTGCTTTGCTTTATTTTGCTTTGCTCTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATAT
16258373 TGATTTGCTTTGCTTTGCTGTGCTTTTTA
66 TGATTTGCTTTGCTTTGCTGTGCTTTTTA
16258402 ATATAGACAT
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
96 16 0.18
97 73 0.81
98 1 0.01
ACGTcount: A:0.07, C:0.14, G:0.17, T:0.62
Consensus pattern (96 bp):
TTGCTTTGCTTTATTTTGCTTTGCTCTTTATATTGCTTTGCTTTGTTTTGCTGTGCTTTTTATAT
TGATTTGCTTTGCTTTGCTGTGCTTTTTATA
Found at i:16260971 original size:16 final size:18
Alignment explanation
Indices: 16260946--16260981 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16260936 TGTTTTTCAG
16260946 AAATATTTTTAGA-TAAA
1 AAATATTTTTAGAGTAAA
16260963 AAATATTTTT-GAGTAAA
1 AAATATTTTTAGAGTAAA
16260980 AA
1 AA
16260982 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
AAATATTTTTAGAGTAAA
Found at i:16263688 original size:79 final size:79
Alignment explanation
Indices: 16263557--16263715 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
16263547 AGCTATTCTC
16263557 ATGGTTAAATATCAATGAAAATCAACAATGAGATCAGCCATTACTTGGTGAATTTTTATATTTTA
1 ATGGTTAAATATCAATGAAAATCAACAATGAGATCAGCCATTACTTGGTGAATTTTTATATTTTA
16263622 GTTTTTCTTTTTTA
66 GTTTTTCTTTTTTA
*
16263636 ATGGTTAAATTTCAATGAAAATCAACAATGAGATCAGCCATTACTTGGTGAATTTTTATATTTTA
1 ATGGTTAAATATCAATGAAAATCAACAATGAGATCAGCCATTACTTGGTGAATTTTTATATTTTA
16263701 GTTTTTCTTTTTTA
66 GTTTTTCTTTTTTA
16263715 A
1 A
16263716 CTTTTAGAAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.45
Consensus pattern (79 bp):
ATGGTTAAATATCAATGAAAATCAACAATGAGATCAGCCATTACTTGGTGAATTTTTATATTTTA
GTTTTTCTTTTTTA
Found at i:16273548 original size:23 final size:22
Alignment explanation
Indices: 16273522--16273591 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
16273512 TTCTCATGGC
16273522 TGCTGGTTTGGTTGTAATTTTGT
1 TGCT-GTTTGGTTGTAATTTTGT
* *
16273545 TGC--TTTGGTTGTAACTTTGG
1 TGCTGTTTGGTTGTAATTTTGT
*
16273565 GGCTAGTTTGGTTGTAATTTTGT
1 TGCT-GTTTGGTTGTAATTTTGT
16273588 TGCT
1 TGCT
16273592 TGAAAGTAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 17 0.45
23 21 0.55
ACGTcount: A:0.10, C:0.07, G:0.30, T:0.53
Consensus pattern (22 bp):
TGCTGTTTGGTTGTAATTTTGT
Found at i:16273553 original size:20 final size:20
Alignment explanation
Indices: 16273528--16273592 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
16273518 TGGCTGCTGG
16273528 TTTGGTTGTAATTTTGTTGC
1 TTTGGTTGTAATTTTGTTGC
* **
16273548 TTTGGTTGTAACTTTGGGGC
1 TTTGGTTGTAATTTTGTTGC
16273568 TAGTTTGGTTGTAATTTTGTTGC
1 ---TTTGGTTGTAATTTTGTTGC
16273591 TT
1 TT
16273593 GAAAGTAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
20 19 0.53
23 17 0.47
ACGTcount: A:0.11, C:0.06, G:0.28, T:0.55
Consensus pattern (20 bp):
TTTGGTTGTAATTTTGTTGC
Found at i:16275133 original size:41 final size:41
Alignment explanation
Indices: 16275085--16275187 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 41
16275075 CTTCGACCTT
* ** *
16275085 GATTCGATGAGGCACTGGGTGTCATTATTTTACTTCGGATA
1 GATTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATA
* * *
16275126 TATTCGATGAGATACT-GG-GT-ACCACTTTACTTCGGCTA
1 GATTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATA
16275164 GA-TCGATGAGACACTGGGTGTCAC
1 GATTCGATGAGACACTGGGTGTCAC
16275188 TTTATTGCTT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
37 12 0.24
38 17 0.34
39 4 0.08
40 4 0.08
41 13 0.26
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
GATTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATA
Found at i:16275180 original size:37 final size:38
Alignment explanation
Indices: 16275113--16275191 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
16275103 GTGTCATTAT
* *
16275113 TTTACTTCGGATATATTCGATGAGATACTGGGTACCAC
1 TTTACTTCGGATAGATTCGATGAGACACTGGGTACCAC
* **
16275151 TTTACTTCGGCTAGA-TCGATGAGACACTGGGTGTCAC
1 TTTACTTCGGATAGATTCGATGAGACACTGGGTACCAC
16275188 TTTA
1 TTTA
16275192 TTGCTTCGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 23 0.64
38 13 0.36
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (38 bp):
TTTACTTCGGATAGATTCGATGAGACACTGGGTACCAC
Found at i:16277380 original size:11 final size:11
Alignment explanation
Indices: 16277351--16277419 Score: 72
Period size: 11 Copynumber: 6.3 Consensus size: 11
16277341 ATCATTCAAT
16277351 ATAAAGCCAAC
1 ATAAAGCCAAC
16277362 ATTAAAGCCAAC
1 A-TAAAGCCAAC
16277374 ATAAAG-CAGAC
1 ATAAAGCCA-AC
* *
16277385 ATAAAGTCATC
1 ATAAAGCCAAC
16277396 ATAAAGCCAAC
1 ATAAAGCCAAC
16277407 A-AAA-CACAAC
1 ATAAAGC-CAAC
16277417 ATA
1 ATA
16277420 CAAGTTAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
9 1 0.02
10 10 0.20
11 26 0.52
12 13 0.26
ACGTcount: A:0.55, C:0.23, G:0.09, T:0.13
Consensus pattern (11 bp):
ATAAAGCCAAC
Found at i:16277497 original size:24 final size:24
Alignment explanation
Indices: 16277441--16277498 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
16277431 AGGTTTAGGG
* *
16277441 TATTAAAAAATAATATACAAAAAAA
1 TATT-AAAAACAACATACAAAAAAA
* * *
16277466 AATAAAAAACAACATACAAAAGAA
1 TATTAAAAACAACATACAAAAAAA
16277490 TATTAAAAA
1 TATTAAAAA
16277499 ACAGAATACA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (24 bp):
TATTAAAAACAACATACAAAAAAA
Found at i:16277518 original size:27 final size:25
Alignment explanation
Indices: 16277441--16277510 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
16277431 AGGTTTAGGG
* *
16277441 TATTAAAAAATAATATACAAAA-AA
1 TATTAAAAAACAACATACAAAAGAA
* *
16277465 AAATAAAAAACAACATACAAAAGAA
1 TATTAAAAAACAACATACAAAAGAA
16277490 TATTAAAAAACAGA-ATACAAA
1 TATTAAAAAACA-ACATACAAA
16277511 TCAGAATAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 18 0.47
25 19 0.50
26 1 0.03
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.17
Consensus pattern (25 bp):
TATTAAAAAACAACATACAAAAGAA
Found at i:16279617 original size:29 final size:29
Alignment explanation
Indices: 16279584--16279640 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
16279574 AATTACCCTA
*
16279584 AATCCCAAACGGTGTTAACAGATCAAACG
1 AATCCCAAACAGTGTTAACAGATCAAACG
*
16279613 AATCCCAAATAGTGTTAACAGATCAAAC
1 AATCCCAAACAGTGTTAACAGATCAAAC
16279641 AAGTTTTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.19
Consensus pattern (29 bp):
AATCCCAAACAGTGTTAACAGATCAAACG
Found at i:16279651 original size:19 final size:19
Alignment explanation
Indices: 16279625--16279673 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
16279615 TCCCAAATAG
*
16279625 TGTTAACAGATCAAACAAG
1 TGTTAACAGATCAAACAAA
* *
16279644 TTTTAACAGCTCAAACAAA
1 TGTTAACAGATCAAACAAA
16279663 TGTTAACAGAT
1 TGTTAACAGAT
16279674 AAAAATTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (19 bp):
TGTTAACAGATCAAACAAA
Found at i:16289823 original size:14 final size:13
Alignment explanation
Indices: 16289785--16289827 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
16289775 TATTTTCGAA
16289785 ATAAAAAAGACAA-
1 ATAAAAAAGA-AAT
*
16289798 ATAAAAATGAAAT
1 ATAAAAAAGAAAT
16289811 ATAAAACAAGAAAT
1 ATAAAA-AAGAAAT
16289825 ATA
1 ATA
16289828 TATATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 2 0.08
13 15 0.58
14 9 0.35
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.16
Consensus pattern (13 bp):
ATAAAAAAGAAAT
Found at i:16291922 original size:10 final size:10
Alignment explanation
Indices: 16291903--16291932 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
16291893 CTGTAGAGAG
16291903 AGGG-AGAAA
1 AGGGAAGAAA
16291912 AGGGAAGAAA
1 AGGGAAGAAA
16291922 AGGGAAGAAA
1 AGGGAAGAAA
16291932 A
1 A
16291933 CTTGAGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (10 bp):
AGGGAAGAAA
Found at i:16294806 original size:69 final size:69
Alignment explanation
Indices: 16294660--16294848 Score: 200
Period size: 69 Copynumber: 2.7 Consensus size: 69
16294650 TTCACTTACG
* * * * ** *
16294660 AGCCTTAATATGACAGCTGAGAGCTTTACTCTCGTTTAAATGTGTTAGAGGCTGTGGCTATTCGC
1 AGCCTTAATATGATAGCTGGGAGCTTTACTCTC-TGTAACTGTGTTAGAGGCTACGACTATTCGC
* *
16294725 CTGTG
65 CAGTA
* * * * *
16294730 AGTCTTAATATGATAGTTGGGAGCTTTGCTCTCTGTAACTGTGTTGGAGGCTACGACTGTTCGCC
1 AGCCTTAATATGATAGCTGGGAGCTTTACTCTCTGTAACTGTGTTAGAGGCTACGACTATTCGCC
16294795 AGTA
66 AGTA
* **
16294799 AGCCTTAATATGATAGCTGGGATCTTTACTCT-TGCTAACTACGTTAGAGG
1 AGCCTTAATATGATAGCTGGGAGCTTTACTCTCTG-TAACTGTGTTAGAGG
16294849 TTGCAGCTTT
Statistics
Matches: 97, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
68 2 0.02
69 67 0.69
70 28 0.29
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (69 bp):
AGCCTTAATATGATAGCTGGGAGCTTTACTCTCTGTAACTGTGTTAGAGGCTACGACTATTCGCC
AGTA
Found at i:16294862 original size:69 final size:67
Alignment explanation
Indices: 16294660--16294894 Score: 186
Period size: 69 Copynumber: 3.4 Consensus size: 67
16294650 TTCACTTACG
* * * * *
16294660 AGCCTTAATATGACAGCTGAGAGCTTTACTCTCGTTTAAATGTGTTAGAGGCTGTGGCTATTCGC
1 AGCCTTAATATGATAGCTGGGAGCTTTACTCT--TGTAACTGTGTTAGAGGCTG-CGCTATTCGC
* *
16294725 CTGTG
63 CAGTA
* * * * * *
16294730 AGTCTTAATATGATAGTTGGGAGCTTTGCTCTCTGTAACTGTGTTGGAGGCTACGACTGTTCGCC
1 AGCCTTAATATGATAGCTGGGAGCTTTACTCT-TGTAACTGTGTTAGAGGCTGCG-CTATTCGCC
16294795 AGTA
64 AGTA
* ** * *
16294799 AGCCTTAATATGATAGCTGGGATCTTTACTCTTGCTAACTACGTTAGAGGTTGCAGCTTTTCGCC
1 AGCCTTAATATGATAGCTGGGAGCTTTACTCTTG-TAACTGTGTTAGAGGCTGC-GCTATTCGCC
16294864 TACG-A
64 -A-GTA
* * *
16294869 A-CCTTAATATGACAGCCGAGAGCTTT
1 AGCCTTAATATGATAGCTGGGAGCTTT
16294895 GCTTTCACTA
Statistics
Matches: 132, Mismatches: 28, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
68 3 0.02
69 97 0.73
70 31 0.23
71 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (67 bp):
AGCCTTAATATGATAGCTGGGAGCTTTACTCTTGTAACTGTGTTAGAGGCTGCGCTATTCGCCAG
TA
Found at i:16295085 original size:69 final size:69
Alignment explanation
Indices: 16295012--16295559 Score: 555
Period size: 69 Copynumber: 7.9 Consensus size: 69
16295002 AACCTCAATA
* * * *
16295012 TGACAGTTGGCAGCTTTGCTTTCGCTAATTATGTTGGAAGTTACGATATGAAATCAACGAGCCTT
1 TGACAGTTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGTTACGATATGAAATCAACGAGCCTT
16295077 AATG
66 AATG
* * * * **
16295081 TGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTTCAATATGAAATCAACGAGTTTT
1 TGACAGTTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGTTACGATATGAAATCAACGAGCCTT
*
16295146 AATA
66 AATG
* * ** * *
16295150 TGACACTTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGCTGTGATATGAAATTAGCGAGCCTT
1 TGACAGTTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGTTACGATATGAAATCAACGAGCCTT
16295215 AATG
66 AATG
* * * * * *
16295219 TGACAGTTGGGAGCTTTGCTCTCGCTAACTATATTGGAGGTTATGATATGAAATCAGCTAGCCTT
1 TGACAGTTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGTTACGATATGAAATCAACGAGCCTT
16295284 AATG
66 AATG
* * * * * *
16295288 TGACAATTGGGAGCTTTGCTCTT-GTTAACTGTGTTGGAGGCTGCGATATGAAATTAACGAGGCT
1 TGACAGTTGGGAGCTTTGCT-TTCGCTAACTGTGTTGGAGGTTACGATATGAAATCAACGAGCCT
*
16295352 CAATG
65 TAATG
* * * * *
16295357 TAATAGCTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGCTACGATATGAAATCAAAGAGCCTT
1 TGACAGTTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGTTACGATATGAAATCAACGAGCCTT
*
16295422 AATA
66 AATG
* * * * * * ** * ** *
16295426 TGACAGCTGAGAGCTTTACTCTCGCTAACTGTGTTGAAGGTTACGACTCTTCACT-TGCGAACCT
1 TGACAGTTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGTTACGA-TATGAAATCAACGAGCCT
* *
16295490 TTATA
65 TAATG
* * *
16295495 TGACAGTTGGGAGTTTTG-TTCTCGCTAACTGTGTTAGAGGCTACGATATGAAAT-AAGCGAGCC
1 TGACAGTTGGGAGCTTTGCTT-TCGCTAACTGTGTTGGAGGTTACGATATGAAATCAA-CGAGCC
16295558 TT
64 TT
16295560 TAGAGGAACA
Statistics
Matches: 388, Mismatches: 86, Indels: 10
0.80 0.18 0.02
Matches are distributed among these distances:
68 7 0.02
69 376 0.97
70 5 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (69 bp):
TGACAGTTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGTTACGATATGAAATCAACGAGCCTT
AATG
Found at i:16295105 original size:138 final size:137
Alignment explanation
Indices: 16294935--16295461 Score: 384
Period size: 138 Copynumber: 3.8 Consensus size: 137
16294925 CGGTTTCGAA
* * * ** * **
16294935 CCTTAATATGACAACTAGGAGCTTTGCTCTCGCTAACAGTGCTAGAGGTTGCGGCTCTTTG-CCT
1 CCTTAATGTGACAGCTGGGAGCTTTGCTCTCGCTAACAGTGCTAGAGGTT---GCAATATGAAAT
* * *
16294999 GCAA-A-CCTCAATATGACAGTTGGCAGCTTTGCTTTCGCTAATTATGTTGGAAGTTACGATATG
63 -CAACAGCCTCAATATGACACTTGGCAGCTTTGCTTTCGCTAACTATGTTGGAAGCTACGATATG
16295062 AAATCAACGAG
127 AAATCAACGAG
* * * *
16295073 CCTTAATGTGACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTTCAATATGAAATCAA
1 CCTTAATGTGACAGCTGGGAGCTTTGCTCTCGCTAACAGTGCTAGAGGTTGCAATATGAAATCAA
** * * * * **
16295138 CGAGTTTTAATATGACACTTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGCTGTGATATGAAA
66 C-AGCCTCAATATGACACTTGGCAGCTTTGCTTTCGCTAACTATGTTGGAAGCTACGATATGAAA
* *
16295203 TTAGCGAG
130 TCAACGAG
* ** * ***
16295211 CCTTAATGTGACAGTTGGGAGCTTTGCTCTCGCTAACTA-TATTGGAGGTTATGATATGAAATCA
1 CCTTAATGTGACAGCTGGGAGCTTTGCTCTCGCTAAC-AGTGCTAGAGGTTGCAATATGAAATCA
* * * * * * * * *
16295275 GCTAGCCTTAATGTGACAATTGGGAGCTTTGCTCTT-GTTAACTGTGTTGGAGGCTGCGATATGA
65 AC-AGCCTCAATATGACACTTGGCAGCTTTGCT-TTCGCTAACTATGTTGGAAGCTACGATATGA
*
16295339 AATTAACGAG
128 AATCAACGAG
* * * * * * * * * * *
16295349 GCTCAATGTAATAGCTGGGAGCTTTGCTTTCGCTAACTGTGTTGGAGGCTACGATATGAAATCAA
1 CCTTAATGTGACAGCTGGGAGCTTTGCTCTCGCTAACAGTGCTAGAGGTTGCAATATGAAATC-A
* * * * *
16295414 AGAGCCTTAATATGACAGC-TGAG-AGCTTTACTCTCGCTAACTGTGTTG
65 ACAGCCTCAATATGACA-CTTG-GCAGCTTTGCTTTCGCTAACTATGTTG
16295462 AAGGTTACGA
Statistics
Matches: 321, Mismatches: 57, Indels: 22
0.80 0.14 0.05
Matches are distributed among these distances:
135 7 0.02
136 1 0.00
137 2 0.01
138 307 0.96
139 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCTTAATGTGACAGCTGGGAGCTTTGCTCTCGCTAACAGTGCTAGAGGTTGCAATATGAAATCAA
CAGCCTCAATATGACACTTGGCAGCTTTGCTTTCGCTAACTATGTTGGAAGCTACGATATGAAAT
CAACGAG
Found at i:16312591 original size:99 final size:101
Alignment explanation
Indices: 16312409--16312594 Score: 322
Period size: 102 Copynumber: 1.9 Consensus size: 101
16312399 CATCCTCTTC
* *
16312409 GCTGCTGGTTGCTCGGATAACTCTGCCAGAGAATCATTGACAATGATGGCCTCCTTGTTTTCAGC
1 GCTGCCGGTTGCTCGGATAACTCTGCCAGAGAATCATTGACAATGA-GGCATCCTTGTTTTCAGC
16312474 CACTTCAGAATCTTGATTCAATTGTCGCATTCTGTTT
65 CACTTCAGAATCTTGATTCAATTGTCGCATTCTGTTT
*
16312511 GCTGCCGGTTGCTCGGATAATTCTGCCAGAGAATCATTGACAAT-A-GCATCCTTGTTTTCAGCC
1 GCTGCCGGTTGCTCGGATAACTCTGCCAGAGAATCATTGACAATGAGGCATCCTTGTTTTCAGCC
16312574 ACTTCAGAATCTTGATTCAAT
66 ACTTCAGAATCTTGATTCAAT
16312595 GGTTCAGCCA
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
99 38 0.47
101 1 0.01
102 42 0.52
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (101 bp):
GCTGCCGGTTGCTCGGATAACTCTGCCAGAGAATCATTGACAATGAGGCATCCTTGTTTTCAGCC
ACTTCAGAATCTTGATTCAATTGTCGCATTCTGTTT
Done.