Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 60 of 173
Found at i:17044066 original size:13 final size:13
Alignment explanation
Indices: 17044048--17044081 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
17044038 ATATAATTAT
17044048 TAATAATATTTAA
1 TAATAATATTTAA
17044061 TAATAAT-TTTAA
1 TAATAATATTTAA
17044073 T-ATAATATT
1 TAATAATATT
17044082 ATTATTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 8 0.40
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:17045022 original size:20 final size:21
Alignment explanation
Indices: 17044999--17045038 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17044989 TTTATGGTGC
17044999 AGGTTTAAGGCTT-GGGTTTG
1 AGGTTTAAGGCTTAGGGTTTG
*
17045019 AGGTTTAAGGTTTAGGGTTT
1 AGGTTTAAGGCTTAGGGTTT
17045039 ACGTTTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.17, C:0.03, G:0.38, T:0.42
Consensus pattern (21 bp):
AGGTTTAAGGCTTAGGGTTTG
Found at i:17045044 original size:20 final size:20
Alignment explanation
Indices: 17045001--17045044 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
17044991 TATGGTGCAG
*
17045001 GTTTAAGGCTTGGGTTTGAG
1 GTTTAAGGCTTGGGTTTGAC
*
17045021 GTTTAAGGTTTAGGGTTT-AC
1 GTTTAAGGCTT-GGGTTTGAC
17045041 GTTT
1 GTTT
17045045 TAGTGTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.16, C:0.05, G:0.34, T:0.45
Consensus pattern (20 bp):
GTTTAAGGCTTGGGTTTGAC
Found at i:17046798 original size:31 final size:31
Alignment explanation
Indices: 17046760--17046839 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
17046750 TTGGATTTTA
17046760 ATTGGTTTTTG-TAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCT-GCTAAGATGGTACCTTCT
*
17046791 ATTGGTTTTTGCTGCTAAGATGGTACCTTTT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
*
17046822 ATTGATTTTTGCTGCTAA
1 ATTGGTTTTTGCTGCTAA
17046840 ATCAACCATG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 45 0.98
32 1 0.02
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.47
Consensus pattern (31 bp):
ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
Found at i:17047715 original size:13 final size:13
Alignment explanation
Indices: 17047683--17047716 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
17047673 TCTTAATAAT
17047683 AATATTA-TATTA
1 AATATTATTATTA
17047695 AA-ATTATTATTA
1 AATATTATTATTA
17047707 AATATTATTA
1 AATATTATTA
17047717 ATAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:17048954 original size:3 final size:3
Alignment explanation
Indices: 17048946--17048976 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
17048936 AGTACCTGGC
17048946 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17048977 GTGATGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17052087 original size:14 final size:14
Alignment explanation
Indices: 17052068--17052102 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
17052058 TGCATATTCA
*
17052068 GATATGGGTATGTG
1 GATATGAGTATGTG
*
17052082 GATATGATTATGTG
1 GATATGAGTATGTG
17052096 GATATGA
1 GATATGA
17052103 TTTGGATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (14 bp):
GATATGAGTATGTG
Found at i:17052103 original size:14 final size:14
Alignment explanation
Indices: 17052076--17052104 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17052066 CAGATATGGG
17052076 TATGTGGATATGAT
1 TATGTGGATATGAT
17052090 TATGTGGATATGAT
1 TATGTGGATATGAT
17052104 T
1 T
17052105 TGGATTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
TATGTGGATATGAT
Found at i:17056944 original size:15 final size:15
Alignment explanation
Indices: 17056921--17056964 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
17056911 CAAACAAGAC
*
17056921 CTTAGTTTTTCAATA
1 CTTAATTTTTCAATA
* *
17056936 CTTAATTTTTTAGTA
1 CTTAATTTTTCAATA
17056951 CTTAATTTTTCAAT
1 CTTAATTTTTCAAT
17056965 TTATCAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (15 bp):
CTTAATTTTTCAATA
Found at i:17057010 original size:20 final size:20
Alignment explanation
Indices: 17056988--17057024 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
17056978 CTTAAGTCTA
17056988 AAAAAAACCA-CCACTTACT
1 AAAAAAACCACCCACTTACT
17057007 AAAAAAACCACCCACTTA
1 AAAAAAACCACCCACTTA
17057025 GAAAACTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (20 bp):
AAAAAAACCACCCACTTACT
Found at i:17057029 original size:19 final size:19
Alignment explanation
Indices: 17056988--17057029 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
17056978 CTTAAGTCTA
*
17056988 AAAAAAACCACCACTTACT
1 AAAAAAACCACCACTTACG
17057007 AAAAAAACCACCCACTTA-G
1 AAAAAAACCA-CCACTTACG
17057026 AAAA
1 AAAA
17057030 CTATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.57, C:0.29, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAAAAACCACCACTTACG
Found at i:17062514 original size:15 final size:16
Alignment explanation
Indices: 17062476--17062515 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
17062466 GACTTATGTG
17062476 ATATATGTGATGATTT
1 ATATATGTGATGATTT
* *
17062492 AAACATGTGA-GATTT
1 ATATATGTGATGATTT
17062507 ATATATGTG
1 ATATATGTG
17062516 TAAGCTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (16 bp):
ATATATGTGATGATTT
Found at i:17062761 original size:49 final size:51
Alignment explanation
Indices: 17062703--17062852 Score: 196
Period size: 49 Copynumber: 3.0 Consensus size: 51
17062693 AAGGTGGAAG
17062703 CAGTGGTAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAA-T-TTAT
1 CAGTGGTAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
* * * *
17062752 TAGTTGTAGTATATCTGCATATCAGTGGTAGCTTGTCCACAAAAGTGTTAT
1 CAGTGGTAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
* * * * *
17062803 CAGTGGCAGTTTATCTACAATTCAGTGGTGGCTTATCCACAAAAGGTGTT
1 CAGTGGTAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAA-GTGTT
17062853 TCGAATGTAC
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 40 0.47
50 1 0.01
51 39 0.46
52 5 0.06
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (51 bp):
CAGTGGTAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
Found at i:17063202 original size:29 final size:29
Alignment explanation
Indices: 17063169--17063230 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
17063159 GTTTTCTTGA
17063169 TTATGGAC-TT-TCATTTTATTTTGGGACTT
1 TTATGGACTTTATCATTTTA-TTTGGG-CTT
*
17063198 TTATGGACTTTATGATTTTATTTGGGCTT
1 TTATGGACTTTATCATTTTATTTGGGCTT
17063227 TTAT
1 TTAT
17063231 TTTTGTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 15 0.50
30 8 0.27
31 7 0.23
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.56
Consensus pattern (29 bp):
TTATGGACTTTATCATTTTATTTGGGCTT
Found at i:17065219 original size:16 final size:17
Alignment explanation
Indices: 17065188--17065220 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17065178 TACCATTTCG
*
17065188 TAACTAAACAACATTTT
1 TAACCAAACAACATTTT
17065205 TAACCAAAC-ACATTTT
1 TAACCAAACAACATTTT
17065221 ACTTGCTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TAACCAAACAACATTTT
Found at i:17066246 original size:32 final size:32
Alignment explanation
Indices: 17066191--17066477 Score: 251
Period size: 32 Copynumber: 9.0 Consensus size: 32
17066181 AATCAAATCA
* *
17066191 GCAATAT-A-TATACAAATAAAATTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
* *
17066221 ACAATATAAGTATACATATATAATTCAATT--
1 GCAATATAAGTATACATATACAATTCAATTCG
* * * *
17066251 -CAATAATAGGTGCATACCTATACAATTCATTTTG
1 GCAAT-ATAAGT--ATACATATACAATTCAATTCG
* *
17066285 GCAATATAAGTATATATATACATTTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
*** * *
17066317 GCAATAGGTGTATACCTATACAATTCATTTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
* * *
17066349 GCAATATAAGTATATATATACATTTAAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
*** *
17066381 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
* * *
17066413 ACAATATAAGTATATATATACATTTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
*** *
17066445 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
17066477 G
1 G
17066478 TGATGTATAT
Statistics
Matches: 200, Mismatches: 49, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
29 4 0.02
30 11 0.05
31 1 0.00
32 175 0.88
34 5 0.03
35 4 0.02
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (32 bp):
GCAATATAAGTATACATATACAATTCAATTCG
Found at i:17066290 original size:64 final size:64
Alignment explanation
Indices: 17066210--17066477 Score: 410
Period size: 64 Copynumber: 4.2 Consensus size: 64
17066200 ATACAAATAA
* * * * * *** *
17066210 AATTCAATTCGACAATATAAGTATACATATATAATTCAATTCAATAATAGGTGCATACCTATAC
1 AATTCATTTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
*
17066274 AATTCATTTTGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
1 AATTCATTTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
*
17066338 AATTCATTTCGGCAATATAAGTATATATATACATTTAAATTCGGCAATAGGTGTATACCTATAC
1 AATTCATTTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
* *
17066402 AATTCAATTCGACAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
1 AATTCATTTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
*
17066466 AATTCAATTCGG
1 AATTCATTTCGG
17066478 TGATGTATAT
Statistics
Matches: 188, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 188 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (64 bp):
AATTCATTTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
Found at i:17080545 original size:19 final size:18
Alignment explanation
Indices: 17080502--17080547 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
17080492 AGATTGTATC
17080502 CATGTATCTGTGACGTTA
1 CATGTATCTGTGACGTTA
* *
17080520 GATTGTATCTGTGACGTTTT
1 CA-TGTATCTGTGACG-TTA
17080540 CATGTATC
1 CATGTATC
17080548 CATTTTAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 19 0.83
20 3 0.13
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (18 bp):
CATGTATCTGTGACGTTA
Found at i:17082590 original size:49 final size:51
Alignment explanation
Indices: 17082537--17082675 Score: 201
Period size: 49 Copynumber: 2.8 Consensus size: 51
17082527 AAGGTGGAAG
* *
17082537 CAGTGGCAGTATATCTACAAATTAGTGGTGGCTTGTCCACAAAA-T-TTAT
1 CAGTGGTAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
* * * *
17082586 CAGTGGTAGTATTTTTGCATATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
1 CAGTGGTAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
*
17082637 CAGTGGTAGTTTATCTACAAATCAGTGGTGGCTTGTCCA
1 CAGTGGTAGTATATCTACAAATCAGTGGTGGCTTGTCCA
17082676 TAAATGGTGT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 38 0.49
50 1 0.01
51 38 0.49
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (51 bp):
CAGTGGTAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
Found at i:17082661 original size:51 final size:49
Alignment explanation
Indices: 17082537--17082675 Score: 190
Period size: 51 Copynumber: 2.8 Consensus size: 49
17082527 AAGGTGGAAG
* * *
17082537 CAGTGGCAGTATATCTACAAATTAGTGGTGGCTTGTCCACAAAATTTAT
1 CAGTGGTAGTTTATCTACAAATCAGTGGTGGCTTGTCCACAAAATTTAT
* * *
17082586 CAGTGGTAGTATT-TTTGCATATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
1 CAGTGGTAGT-TTATCTACAAATCAGTGGTGGCTTGTCCACAAAA-T-TTAT
17082637 CAGTGGTAGTTTATCTACAAATCAGTGGTGGCTTGTCCA
1 CAGTGGTAGTTTATCTACAAATCAGTGGTGGCTTGTCCA
17082676 TAAATGGTGT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
49 36 0.47
50 4 0.05
51 37 0.48
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (49 bp):
CAGTGGTAGTTTATCTACAAATCAGTGGTGGCTTGTCCACAAAATTTAT
Found at i:17086114 original size:22 final size:22
Alignment explanation
Indices: 17086089--17086143 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
17086079 AGAACTCTAA
*
17086089 TTAACCTAAACAAGAAGTAGTT
1 TTAAACTAAACAAGAAGTAGTT
17086111 TTAAACTAAACAAGAAGTAGTT
1 TTAAACTAAACAAGAAGTAGTT
17086133 TTAAACTAAAC
1 TTAAACTAAAC
17086144 TTTCTTGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (22 bp):
TTAAACTAAACAAGAAGTAGTT
Found at i:17091287 original size:73 final size:73
Alignment explanation
Indices: 17091200--17091356 Score: 280
Period size: 73 Copynumber: 2.2 Consensus size: 73
17091190 GAATGAATCC
17091200 CAAACCATCCATTCCCTCT-AACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTC
1 CAAACCATCCATTCCCT-TGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTC
17091264 CCAAAACAG
65 CCAAAACAG
*
17091273 CAAACCATCTATTCCCTTGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTCC
1 CAAACCATCCATTCCCTTGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTCC
*
17091338 CAAAATAG
66 CAAAACAG
17091346 CAAACCATCCA
1 CAAACCATCCA
17091357 CCCACCTTCT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
72 1 0.01
73 79 0.99
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.25
Consensus pattern (73 bp):
CAAACCATCCATTCCCTTGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTCC
CAAAACAG
Found at i:17101928 original size:19 final size:19
Alignment explanation
Indices: 17101904--17101948 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
17101894 GATAAAACCA
17101904 TATCATTTTCCTTTTTACT
1 TATCATTTTCCTTTTTACT
17101923 TATCATTTTCCTTTTTACT
1 TATCATTTTCCTTTTTACT
17101942 TATCATT
1 TATCATT
17101949 CAACATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.62
Consensus pattern (19 bp):
TATCATTTTCCTTTTTACT
Found at i:17103786 original size:63 final size:63
Alignment explanation
Indices: 17103709--17103833 Score: 250
Period size: 63 Copynumber: 2.0 Consensus size: 63
17103699 AAGTTGGTGT
17103709 ATGATTTGATAACCAAATTGGTAAGTGATGGTATGTTTGCAAGGTGGTTAAGTTAGGTTATGC
1 ATGATTTGATAACCAAATTGGTAAGTGATGGTATGTTTGCAAGGTGGTTAAGTTAGGTTATGC
17103772 ATGATTTGATAACCAAATTGGTAAGTGATGGTATGTTTGCAAGGTGGTTAAGTTAGGTTATG
1 ATGATTTGATAACCAAATTGGTAAGTGATGGTATGTTTGCAAGGTGGTTAAGTTAGGTTATG
17103834 TTTTGAGATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.37
Consensus pattern (63 bp):
ATGATTTGATAACCAAATTGGTAAGTGATGGTATGTTTGCAAGGTGGTTAAGTTAGGTTATGC
Found at i:17108011 original size:51 final size:51
Alignment explanation
Indices: 17107886--17108021 Score: 186
Period size: 50 Copynumber: 2.7 Consensus size: 51
17107876 AGTGAAAATG
* *
17107886 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTAGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGAATGAT
* * * *
17107937 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGGATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGAATGAT
*
17107986 AATGGTCACATGTGTAGTACAATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
17108022 TGTGAACCGA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 6 0.08
50 37 0.49
51 32 0.43
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGAATGAT
Found at i:17111003 original size:4 final size:4
Alignment explanation
Indices: 17110994--17111101 Score: 198
Period size: 4 Copynumber: 26.8 Consensus size: 4
17110984 CATCAATTTG
17110994 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
17111042 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ACGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
17111090 ATGT ATGAT ATG
1 ATGT ATG-T ATG
17111102 AAATAGGTAA
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
4 97 0.96
5 4 0.04
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:17113779 original size:18 final size:18
Alignment explanation
Indices: 17113756--17113813 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
17113746 TATTGAGGTT
17113756 AAATACAACTCAAATATA
1 AAATACAACTCAAATATA
*
17113774 AAATAC-TCATCAAA-ATA
1 AAATACAAC-TCAAATATA
*
17113791 AAAT-TAACTCAAATATA
1 AAATACAACTCAAATATA
17113808 AAATAC
1 AAATAC
17113814 TCATCAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 5 0.16
17 16 0.50
18 11 0.34
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATACAACTCAAATATA
Found at i:17113800 original size:19 final size:17
Alignment explanation
Indices: 17113765--17113828 Score: 78
Period size: 17 Copynumber: 3.7 Consensus size: 17
17113755 TAAATACAAC
17113765 TCAAATATAAAATACTCA
1 TCAAA-ATAAAATACTCA
17113783 TCAAAATAAAATTAACTCA
1 TCAAAATAAAA-T-ACTCA
*
17113802 --AATATAAAATACTCA
1 TCAAAATAAAATACTCA
17113817 TCAAAATAAAAT
1 TCAAAATAAAAT
17113829 TTTGGTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 5 0.12
16 1 0.03
17 23 0.57
18 6 0.15
19 5 0.12
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (17 bp):
TCAAAATAAAATACTCA
Found at i:17113803 original size:34 final size:34
Alignment explanation
Indices: 17113762--17113829 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
17113752 GGTTAAATAC
17113762 AACTCAAATATAAAATACTCATCAAAATAAAATT
1 AACTCAAATATAAAATACTCATCAAAATAAAATT
17113796 AACTCAAATATAAAATACTCATCAAAATAAAATT
1 AACTCAAATATAAAATACTCATCAAAATAAAATT
17113830 TTGGTTGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (34 bp):
AACTCAAATATAAAATACTCATCAAAATAAAATT
Found at i:17124340 original size:17 final size:17
Alignment explanation
Indices: 17124314--17124349 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
17124304 TCCCCAAGTG
17124314 TTAAACCTCCATACATC
1 TTAAACCTCCATACATC
*
17124331 TTAAATCTCCATACATC
1 TTAAACCTCCATACATC
17124348 TT
1 TT
17124350 TAAGAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAACCTCCATACATC
Found at i:17133846 original size:42 final size:41
Alignment explanation
Indices: 17133795--17133914 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 41
17133785 TATAAGTTTC
* * *
17133795 CGTTCAACCCTAATAGGTTTCTGTTCAGCTCTTTTGAAC-TT
1 CGTTTAACCCTTAT-GGTTTCTGTTCAGCTCTTATGAACTTT
* *
17133836 CTTTTTAACCCTTATGAGTTTCTGTTCAGCTCTTATGAGCTTT
1 C-GTTTAACCCTTATG-GTTTCTGTTCAGCTCTTATGAACTTT
* * *
17133879 CGTTTAACCCTTATGGGTTTCTATTTAGCACTTATG
1 CGTTTAACCCTTAT-GGTTTCTGTTCAGCTCTTATG
17133915 TGCTTCTGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.03
42 60 0.91
43 4 0.06
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (41 bp):
CGTTTAACCCTTATGGTTTCTGTTCAGCTCTTATGAACTTT
Found at i:17133874 original size:21 final size:21
Alignment explanation
Indices: 17133789--17133929 Score: 79
Period size: 21 Copynumber: 6.7 Consensus size: 21
17133779 AACTCATATA
* * *
17133789 AGTTTCCGTTCAACCCTAAT-
1 AGTTTCTGTTCAGCCCTTATG
* *
17133809 AGGTTTCTGTTCAGCTCTTTTG
1 A-GTTTCTGTTCAGCCCTTATG
** * * *
17133831 AACTTCTTTTTAACCCTTATG
1 AGTTTCTGTTCAGCCCTTATG
*
17133852 AGTTTCTGTTCAGCTCTTATG
1 AGTTTCTGTTCAGCCCTTATG
* *
17133873 AGCTTTC-GTTTAACCCTTATG
1 AG-TTTCTGTTCAGCCCTTATG
* * * *
17133894 GGTTTCTATTTAGCACTTATG
1 AGTTTCTGTTCAGCCCTTATG
* *
17133915 TGCTTCTGTTCAGCC
1 AGTTTCTGTTCAGCC
17133930 TTCGGGATTT
Statistics
Matches: 87, Mismatches: 30, Indels: 7
0.70 0.24 0.06
Matches are distributed among these distances:
20 5 0.06
21 77 0.89
22 5 0.06
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.45
Consensus pattern (21 bp):
AGTTTCTGTTCAGCCCTTATG
Found at i:17136692 original size:28 final size:29
Alignment explanation
Indices: 17136628--17136696 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
17136618 TTGACAGAGA
*
17136628 TCACCACAAAGGTGTGTTCTTTCAAAGAT
1 TCACCACAAAGGTGTGTCCTTTCAAAGAT
** *
17136657 TTTCCACAAAGGT-TGTCCTTT-AATAGGT
1 TCACCACAAAGGTGTGTCCTTTCAA-AGAT
17136685 TCACCACAAAGG
1 TCACCACAAAGG
17136697 CTTACCTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.06
28 20 0.61
29 11 0.33
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (29 bp):
TCACCACAAAGGTGTGTCCTTTCAAAGAT
Found at i:17136717 original size:57 final size:57
Alignment explanation
Indices: 17136574--17136851 Score: 244
Period size: 57 Copynumber: 4.9 Consensus size: 57
17136564 ACGGAGATTG
* * * * * *
17136574 CCACAAAGGCTTTCCTATCTAAAG-TTTTCCACAGAGGCTT-TCCTTTGACAGAGATCA
1 CCACAAAGGCTTACCTTTCTAGAGTTTTTCCACAAAGG-TTGTCCTTTAACAG-GTTCA
** * * *
17136631 CCACAAAGG-TGTGTTCTTTC-AAAGATTTTCCACAAAGGTTGTCCTTTAATAGGTTCA
1 CCACAAAGGCT-T-ACCTTTCTAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCA
* *
17136688 CCACAAAGGCTTACCTTTCTAGAGTTTTTCCACAAATGCTT-TCCTTTAACAGGTT-T
1 CCACAAAGGCTTACCTTTCTAGAGTTTTTCCACAAA-GGTTGTCCTTTAACAGGTTCA
* * * * * * *
17136744 GCAAAAAGGCTTACTTTTCTAGAGTTTTTCCATAAAGGATGTCCTTTAACAAGTTCG
1 CCACAAAGGCTTACCTTTCTAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCA
* * * **
17136801 CCACAAATGCTTACCTTTCCAGAGTTTTGCCACAAAGAATGTCCTTTAACA
1 CCACAAAGGCTTACCTTTCTAGAGTTTTTCCACAAAGGTTGTCCTTTAACA
17136852 AAGATTGCCA
Statistics
Matches: 183, Mismatches: 29, Indels: 18
0.80 0.13 0.08
Matches are distributed among these distances:
55 2 0.01
56 51 0.28
57 100 0.55
58 30 0.16
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (57 bp):
CCACAAAGGCTTACCTTTCTAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCA
Found at i:17136728 original size:29 final size:29
Alignment explanation
Indices: 17136688--17136837 Score: 96
Period size: 29 Copynumber: 5.3 Consensus size: 29
17136678 AATAGGTTCA
17136688 CCACAAAGGCTTACCTTTCTAGAGTTTTT
1 CCACAAAGGCTTACCTTTCTAGAGTTTTT
* * * * *
17136717 CCACAAATGCTTTCCTTT-AACAG-GTTT
1 CCACAAAGGCTTACCTTTCTAGAGTTTTT
* * *
17136744 GCAAAAAGGCTTACTTTTCTAGAGTTTTT
1 CCACAAAGGCTTACCTTTCTAGAGTTTTT
* * **
17136773 CCATAAAGGATGT-CCTTTAAC-A-AG-TTCG
1 CCACAAAGGCT-TACCTTT--CTAGAGTTTTT
* * *
17136801 CCACAAATGCTTACCTTTCCAGAGTTTTG
1 CCACAAAGGCTTACCTTTCTAGAGTTTTT
17136830 CCACAAAG
1 CCACAAAG
17136838 AATGTCCTTT
Statistics
Matches: 88, Mismatches: 24, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
26 1 0.01
27 18 0.20
28 23 0.26
29 43 0.49
30 2 0.02
31 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (29 bp):
CCACAAAGGCTTACCTTTCTAGAGTTTTT
Found at i:17137075 original size:53 final size:52
Alignment explanation
Indices: 17136988--17137146 Score: 194
Period size: 53 Copynumber: 3.0 Consensus size: 52
17136978 TTAATTTTTC
17136988 CTATATGATGCCATAACCCACCAATTACAATCTTACACGATATGGTCTTCTTT
1 CTATATGATGCCATAACCCACC-ATTACAATCTTACACGATATGGTCTTCTTT
* * ** * *
17137041 CTATATCATGCCATAACCCACTAGTTACGGTCTTACA-TAGTATGGTATTCTTT
1 CTATATGATGCCATAACCCACCA-TTACAATCTTACACGA-TATGGTCTTCTTT
* * * *
17137094 CCATATGATGACATAACCCACCATTACAATCTTTCACGATACGGTCTTCTTT
1 CTATATGATGCCATAACCCACCATTACAATCTTACACGATATGGTCTTCTTT
17137146 C
1 C
17137147 CTATTTATAA
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
52 24 0.28
53 63 0.72
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (52 bp):
CTATATGATGCCATAACCCACCATTACAATCTTACACGATATGGTCTTCTTT
Found at i:17145359 original size:18 final size:18
Alignment explanation
Indices: 17145336--17145370 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17145326 TAAACTAATT
17145336 TTATATGTAATAATTAAA
1 TTATATGTAATAATTAAA
17145354 TTATATGTAATAATTAA
1 TTATATGTAATAATTAA
17145371 TATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (18 bp):
TTATATGTAATAATTAAA
Found at i:17145551 original size:120 final size:120
Alignment explanation
Indices: 17145425--17145714 Score: 485
Period size: 120 Copynumber: 2.4 Consensus size: 120
17145415 AATTATTTTA
* *
17145425 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTATATTT
* *
17145489 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
17145545 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTAAATTTATATTT
17145609 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
17145665 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
17145715 GTTTAAATAT
Statistics
Matches: 159, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 7 0.04
120 149 0.94
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:17145607 original size:15 final size:14
Alignment explanation
Indices: 17145555--17145610 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
17145545 AATTTTATTA
17145555 AATTATA-TATTTT
1 AATTATATTATTTT
*
17145568 AATTATAATATATTT
1 AATTATATTAT-TTT
*
17145583 AATAATTATTATTTT
1 AATTA-TATTATTTT
17145598 AATT-TA-TATTTT
1 AATTATATTATTTT
17145610 A
1 A
17145611 CAGTATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.19
13 9 0.24
14 3 0.08
15 13 0.35
16 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATATTATTTT
Found at i:17145671 original size:61 final size:61
Alignment explanation
Indices: 17145486--17145672 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
17145476 TCAAATTTTC
*
17145486 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
* * * * * * *
17145547 TTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATTATT-ATT-TTAATTTA
1 TTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAA-TATTAATTATTAA--GA
17145604 TA
61 -A
*
17145606 TTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
17145667 TTTTAT
1 TTTTAT
17145673 TAAATTATAT
Statistics
Matches: 95, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 4 0.04
57 12 0.13
58 8 0.08
59 16 0.17
60 8 0.08
61 21 0.22
62 9 0.09
63 13 0.14
64 4 0.04
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (61 bp):
TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
Found at i:17145694 original size:18 final size:17
Alignment explanation
Indices: 17145666--17145700 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17145656 ATTATTAAGA
*
17145666 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17145683 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17145701 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17145814 original size:147 final size:149
Alignment explanation
Indices: 17145654--17145928 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
17145644 ATAAGAATAT
*
17145654 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
17145719 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
17145782 TACCAAAACAAATTTTTGC
131 TACCAAAACAAATTTTTGC
17145801 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
17145866 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
17145929 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTTTGC
Found at i:17145841 original size:18 final size:17
Alignment explanation
Indices: 17145813--17145847 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17145803 ATTATTAAGA
*
17145813 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17145830 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17145848 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17146058 original size:44 final size:45
Alignment explanation
Indices: 17146009--17146103 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
17145999 TTACACCTCT
* * *
17146009 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
17146053 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
17146098 ATTACA
1 ATTACA
17146104 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:17146103 original size:16 final size:16
Alignment explanation
Indices: 17146084--17146151 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
17146074 GATTTGCTAT
* * *
17146084 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
17146100 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17146116 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17146132 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17146148 TACA
1 TACA
17146152 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:17148176 original size:17 final size:17
Alignment explanation
Indices: 17148154--17148186 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17148144 TAGAATTAGG
17148154 TTGAGAAGATT-ATTTAA
1 TTGAGAA-ATTAATTTAA
17148171 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
17148187 TTAACTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:17150401 original size:23 final size:21
Alignment explanation
Indices: 17150370--17150427 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
17150360 AATTTGGACA
*
17150370 AAAAAAATTTAAATTTTAATAT
1 AAAAAAATTTAAAGTTTAA-AT
*
17150392 AAAAATAATTATCAAGTTTAAAT
1 AAAAA-AATT-TAAAGTTTAAAT
*
17150415 AAAAAGATTTAAA
1 AAAAAAATTTAAA
17150428 CCTAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 3 0.10
22 8 0.27
23 11 0.37
24 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAAAAATTTAAAGTTTAAAT
Found at i:17151085 original size:16 final size:18
Alignment explanation
Indices: 17151064--17151099 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17151054 TTTTATGTAT
17151064 TATAAAT-T-ATATAATA
1 TATAAATATAATATAATA
17151080 TATAAATATAATATAATA
1 TATAAATATAATATAATA
17151098 TA
1 TA
17151100 AAACATCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATAAATATAATATAATA
Found at i:17157018 original size:33 final size:33
Alignment explanation
Indices: 17156996--17157067 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
17156986 GAAACCTTGG
* * *
17156996 GTGAAGAAACTCCATCTGTTCCTCCAATATTCA
1 GTGAAGAAACTCCAGCTGTTCCTCAAACATTCA
***
17157029 GTGAAGAAACTCCAGCTGTTCCTCCGTCATTCA
1 GTGAAGAAACTCCAGCTGTTCCTCAAACATTCA
17157062 GTGAAG
1 GTGAAG
17157068 GAACCACTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (33 bp):
GTGAAGAAACTCCAGCTGTTCCTCAAACATTCA
Found at i:17157083 original size:30 final size:32
Alignment explanation
Indices: 17156996--17157101 Score: 83
Period size: 33 Copynumber: 3.3 Consensus size: 32
17156986 GAAACCTTGG
* * *
17156996 GTGAAGAAACTCCATCTGTTCCTCCAAT-ATTCA
1 GTGAAGAAAC-CCAGCTATTCCTCC-GTCATTCA
*
17157029 GTGAAGAAACTCCAGCTGTTCCTCCGTCATTCA
1 GTGAAGAAAC-CCAGCTATTCCTCCGTCATTCA
* * *
17157062 GTGAAGGAA-CCA-CTATTCCTCCTTCCTTCA
1 GTGAAGAAACCCAGCTATTCCTCCGTCATTCA
* *
17157092 ATGAGGAAAC
1 GTGAAGAAAC
17157102 TCCTACTGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
30 21 0.34
31 3 0.05
32 1 0.02
33 37 0.60
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (32 bp):
GTGAAGAAACCCAGCTATTCCTCCGTCATTCA
Found at i:17164567 original size:23 final size:22
Alignment explanation
Indices: 17164515--17164567 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
17164505 TCCACGTCTT
*
17164515 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
17164537 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
17164560 TTTCTTTT
1 TTTCTTTT
17164568 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:17176310 original size:12 final size:12
Alignment explanation
Indices: 17176289--17176349 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
17176279 TAATAATAAT
17176289 ATTA-TATTAAA
1 ATTATTATTAAA
17176300 ATTATTATT-AA
1 ATTATTATTAAA
17176311 A-TATTATTAATA
1 ATTATTATTAA-A
17176323 ATTA-TATTAAGA
1 ATTATTATTAA-A
*
17176335 A-TGTTATT-AA
1 ATTATTATTAAA
17176345 ATTAT
1 ATTAT
17176350 ATATATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
10 9 0.22
11 12 0.29
12 18 0.44
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:17176318 original size:13 final size:13
Alignment explanation
Indices: 17176286--17176319 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
17176276 TCTTAATAAT
17176286 AATATTA-TATTA
1 AATATTATTATTA
17176298 AA-ATTATTATTA
1 AATATTATTATTA
17176310 AATATTATTA
1 AATATTATTA
17176320 ATAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:17176438 original size:61 final size:60
Alignment explanation
Indices: 17176318--17176445 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 60
17176308 TAAATATTAT
* * * *
17176318 TAATAATTATATTAAGAATGTTATTAAATTATATATATTATTTTATTAAATTTTATTTAA
1 TAATAATTATATTAAGAATATGATTAAATTATATATATTATTTTATTAAAATATATTTAA
* * *
17176378 TAATAATTATGTTAA-AATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATTTAA
1 TAATAATTATATTAAGAATATGATTAAATTATATA-TATTA-TTTTATTAAAATATATTTAA
17176439 TAATAAT
1 TAATAAT
17176446 CTTATTATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 16 0.27
60 18 0.31
61 25 0.42
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (60 bp):
TAATAATTATATTAAGAATATGATTAAATTATATATATTATTTTATTAAAATATATTTAA
Found at i:17176647 original size:16 final size:16
Alignment explanation
Indices: 17176628--17176687 Score: 93
Period size: 16 Copynumber: 3.8 Consensus size: 16
17176618 GTTACAGCTC
*
17176628 TATTTCATTACAACTT
1 TATTCCATTACAACTT
*
17176644 TATTCCATTACAACTC
1 TATTCCATTACAACTT
*
17176660 TATTCAATTACAACTT
1 TATTCCATTACAACTT
17176676 TATTCCATTACA
1 TATTCCATTACA
17176688 GTGAATCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTCCATTACAACTT
Found at i:17176661 original size:32 final size:32
Alignment explanation
Indices: 17176619--17176687 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
17176609 GAATTACTGG
*
17176619 TTACAGCTCTATTTC-ATTACAACTTTATTCCA
1 TTACAACTCTA-TTCAATTACAACTTTATTCCA
17176651 TTACAACTCTATTCAATTACAACTTTATTCCA
1 TTACAACTCTATTCAATTACAACTTTATTCCA
17176683 TTACA
1 TTACA
17176688 GTGAATCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 3 0.09
32 32 0.91
ACGTcount: A:0.32, C:0.25, G:0.01, T:0.42
Consensus pattern (32 bp):
TTACAACTCTATTCAATTACAACTTTATTCCA
Found at i:17178010 original size:25 final size:25
Alignment explanation
Indices: 17177977--17178056 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
17177967 GTTTAGATTT
17177977 TTTTA-TATTATTTCA-TGTAAACAA
1 TTTTATTATTATTT-ATTGTAAACAA
* * *
17178001 TTTTATTATTATTTATTTTAAAGAT
1 TTTTATTATTATTTATTGTAAACAA
*
17178026 TTTTATGTATTATTTATAT-TAAACAG
1 TTTTAT-TATTATTTAT-TGTAAACAA
17178052 TTTTA
1 TTTTA
17178057 GTTTATATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
24 6 0.13
25 20 0.43
26 20 0.43
27 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (25 bp):
TTTTATTATTATTTATTGTAAACAA
Found at i:17178047 original size:26 final size:26
Alignment explanation
Indices: 17177994--17178070 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 26
17177984 TTATTTCATG
* *
17177994 TAAACAATTTTAT-TATTATTTATTT
1 TAAACAGTTTTATGTATTATTTATAT
* *
17178019 TAAAGATTTTTATGTATTATTTATAT
1 TAAACAGTTTTATGTATTATTTATAT
*
17178045 TAAACAGTTTTA-GT-TTATATATAT
1 TAAACAGTTTTATGTATTATTTATAT
17178069 TA
1 TA
17178071 CTCTAAGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 11 0.24
25 13 0.29
26 21 0.47
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (26 bp):
TAAACAGTTTTATGTATTATTTATAT
Found at i:17178599 original size:12 final size:11
Alignment explanation
Indices: 17178582--17178616 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
17178572 AACAAATCCT
17178582 CTCTCATATTTC
1 CTCTCA-ATTTC
17178594 CTCTCAA-TTC
1 CTCTCAATTTC
17178604 CTCTCAATTTC
1 CTCTCAATTTC
17178615 CT
1 CT
17178617 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:17178664 original size:51 final size:51
Alignment explanation
Indices: 17178597--17178719 Score: 194
Period size: 51 Copynumber: 2.4 Consensus size: 51
17178587 ATATTTCCTC
* * *
17178597 TCAA-TTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATATAATT
*
17178647 TCAATTTCCTCTTAATTTCCTTCAAAAATTCTCTCAAATCCATATATAATT
1 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATATAATT
*
17178698 TCAATTTCTTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
17178720 TTTTTAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
50 4 0.06
51 62 0.94
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATATAATT
Found at i:17180962 original size:44 final size:45
Alignment explanation
Indices: 17180910--17180996 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
17180900 ATATTTTGAA
*
17180910 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
* *
17180954 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
17180997 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Found at i:17181032 original size:23 final size:23
Alignment explanation
Indices: 17181002--17181534 Score: 575
Period size: 23 Copynumber: 22.5 Consensus size: 23
17180992 TTTGATGTAA
*
17181002 TAAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
17181025 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
17181048 TAAAAACCCTAGCCTAACCTAATTTAAT
1 TAAAAA--C---CCTAACCTAATTTAAT
17181076 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
17181099 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
*
17181121 TAAAAACCCTAACCTAATTTGAT
1 TAAAAACCCTAACCTAATTTAAT
17181144 TAAAAACCCTAGCCTAACCTAATTTAAT
1 TAAAAA--C---CCTAACCTAATTTAAT
17181172 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
17181195 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
17181217 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
17181240 TAAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
17181263 TAAAAACCCTAATCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
17181286 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
17181309 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
* *
17181332 TAAAAACCCTAAACCCTTAATTAAAAA
1 TAAAAACCCT-AA-CC-TAATT-TAAT
*** *
17181359 TCCTAACCGTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
* *
17181382 TAAAAACTCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
* * *
17181404 TAAAAATCCTAACTTAATTCAAT
1 TAAAAACCCTAACCTAATTTAAT
17181427 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
17181450 TAAAAACCATAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
17181473 TAAAAACCCTAAACCCTTAA-TTAA-
1 TAAAAACCCT-AA-CC-TAATTTAAT
* *
17181497 AAACCATAACCCTAACCTAATTCAAT
1 TAA--A-AACCCTAACCTAATTTAAT
17181523 TAAAAACCCTAA
1 TAAAAACCCTAA
17181535 ACCCTTAACT
Statistics
Matches: 435, Mismatches: 38, Indels: 74
0.80 0.07 0.14
Matches are distributed among these distances:
21 23 0.05
22 31 0.07
23 253 0.58
24 37 0.09
25 17 0.04
26 17 0.04
27 14 0.03
28 43 0.10
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:17181130 original size:96 final size:95
Alignment explanation
Indices: 17181020--17181507 Score: 655
Period size: 96 Copynumber: 5.2 Consensus size: 95
17181010 CTAGCCTAAT
17181020 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACCC
1 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACCC
17181085 TAACCTAATTTAATTAAAAACCCTAAACCC
66 TAACCTAATTTAATTAAAAACCCTAAACCC
*
17181115 TTAACTTAAAAACCCTAACCTAATTTGATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACC
1 TTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACC
17181180 CTAACCTAATTTAATTAAAAACCCTAAACCC
65 CTAACCTAATTTAATTAAAAACCCTAAACCC
17181211 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAG-----CCTAATTTAATTAAAAACC
1 TTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACC
* *
17181271 CTAATCTAATTTAATTAAAAACCCT-AACCTAAT
65 CTAACCTAATTTAATTAAAAACCCTAAACC---C
* * ***
17181304 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA----AACCCTTAATTAAAAATCCTAA
1 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAA-CC-TAATT-TAATTAAAAA
* *
17181365 CCGTAACCTAATTTAATTAAAAACTCTAAACCC
63 CCCTAACCTAATTTAATTAAAAACCCTAAACCC
* * *
17181398 TTAACTTAAAAATCCTAACTTAATTCAATTAAAAA--C---CCTAACCTAATTTAATTAAAAACC
1 TTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACC
*
17181458 ATAACCTAATTTAATTAAAAACCCTAAACCC
65 CTAACCTAATTTAATTAAAAACCCTAAACCC
*
17181489 TTAATTAAAAACCATAACC
1 TTAATTAAAAACCCTAACC
17181508 CTAACCTAAT
Statistics
Matches: 353, Mismatches: 26, Indels: 33
0.86 0.06 0.08
Matches are distributed among these distances:
90 16 0.05
91 83 0.24
92 40 0.11
93 7 0.02
94 8 0.02
95 36 0.10
96 159 0.45
97 4 0.01
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (95 bp):
TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACCC
TAACCTAATTTAATTAAAAACCCTAAACCC
Found at i:17181471 original size:141 final size:140
Alignment explanation
Indices: 17181002--17181559 Score: 755
Period size: 141 Copynumber: 3.9 Consensus size: 140
17180992 TTTGATGTAA
*
17181002 TAAAAACCCTAGCCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAA-C
1 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA----AACC
17181066 C-TAATTTAATTAAA---AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAA
62 CTTAA-TTAA--AAACCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAA
* *
17181127 CCCTAACCTAATTTGAT
124 CCCTAACTTAATTTAAT
17181144 TAAAAACCCTAGCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
1 TAAAAA--C---CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
* *
17181209 CCTTAACTT--AAA---AACCCTAACCTAATTTAATTAAAAACCCT-AGCCTAATTTAA-TTAAA
61 CCTTAA-TTAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAACTTAAA
17181267 AACCCTAA-TCTAATTTAAT
122 AACCCTAACT-TAATTTAAT
17181286 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTA
1 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTA
* * *
17181351 ATTAAAAATCCTAACCGTAACCTAATTTAATTAAAAACTCTAAACCCTTAACTTAAAAATCCTAA
66 ATTAAAAA-CCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAA
*
17181416 CTTAATTCAAT
130 CTTAATTTAAT
*
17181427 TAAAAACCCTAACCTAATTTAATTAAAAACCATAACCTAATTTAATTAAAAACCCTAAACCCTTA
1 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTA
*
17181492 ATTAAAAACCATAACCCTAACCTAATTCAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAA
66 ATTAAAAACC-TAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAA
17181557 CTT
130 CTT
17181560 TAACGTAATG
Statistics
Matches: 378, Mismatches: 17, Indels: 43
0.86 0.04 0.10
Matches are distributed among these distances:
136 2 0.01
137 59 0.16
138 3 0.01
140 10 0.03
141 177 0.47
142 61 0.16
143 9 0.02
144 3 0.01
145 5 0.01
147 49 0.13
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (140 bp):
TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTA
ATTAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAC
TTAATTTAAT
Found at i:17181562 original size:91 final size:85
Alignment explanation
Indices: 17181020--17181562 Score: 378
Period size: 96 Copynumber: 5.8 Consensus size: 85
17181010 CTAGCCTAAT
* * *
17181020 TTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACC
1 TTAACTTAAAAATCCTAACCTAATTCAATTAAAAA--C---CCTAACC--ACTTAATTAAAAACC
17181084 CTAACCTAATTTAATTAAAAACCCTAAACCC
59 CTAA-C---TTTAATTAAAAACCCTAAACCC
* ** *
17181115 TTAACTTAAAAACCCTAACCTAATTTGATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACC
1 TTAACTTAAAAATCCTAACCTAATTCAATTAAAAA--C---CCTAACC--ACTTAATTAAAAACC
17181180 CTAACCTAATTTAATTAAAAACCCTAAACCC
59 CTAA-C---TTTAATTAAAAACCCTAAACCC
* * * *
17181211 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAAT
1 TTAACTTAAAAATCCTAACCTAATTCAATTAAAAACCCTAACC--ACTTAATTAAAAACCCTAA-
*
17181276 CTAATTTAATTAAAAACCCT-AACCTAAT
63 C---TTTAATTAAAAACCCTAAACC---C
* *
17181304 TTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACC-CTTAATTAAAAATCCTAACC
1 TTAACTTAAAAATCCTAACCTAATTCAATTAAAAACCCT-AACCACTTAATTAAAAA--C---CC
*
17181367 GTAACCTAATTTAATTAAAAACTCTAAACCC
60 -TAA-C---TTTAATTAAAAACCCTAAACCC
* * *
17181398 TTAACTTAAAAATCCTAACTTAATTCAATTAAAAACCCTAACCTAATTTAATTAAAAACCATAAC
1 TTAACTTAAAAATCCTAACCTAATTCAATTAAAAACCCTAACC--ACTTAATTAAAAACCCTAA-
17181463 CTAATTTAATTAAAAACCCTAAACCC
63 C---TTTAATTAAAAACCCTAAACCC
17181489 TTAA-TTAAAAACCATAACCCTAACCTAATTCAATTAAAAACCCTAAACC-CTTAACTTAAAAAC
1 TTAACTT-AAAA--AT---CCTAACCTAATTCAATTAAAAACCCT-AACCACTTAA-TTAAAAAC
17181552 CCTAACTTTAA
58 CCTAACTTTAA
17181563 CGTAATGTTA
Statistics
Matches: 405, Mismatches: 19, Indels: 52
0.85 0.04 0.11
Matches are distributed among these distances:
90 17 0.04
91 89 0.22
92 36 0.09
93 9 0.02
94 14 0.03
95 50 0.12
96 171 0.42
97 19 0.05
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.29
Consensus pattern (85 bp):
TTAACTTAAAAATCCTAACCTAATTCAATTAAAAACCCTAACCACTTAATTAAAAACCCTAACTT
TAATTAAAAACCCTAAACCC
Found at i:17181707 original size:116 final size:116
Alignment explanation
Indices: 17181565--17181782 Score: 391
Period size: 116 Copynumber: 1.9 Consensus size: 116
17181555 AACTTTAACG
*
17181565 TAATGTTAGATTTGGAAAATTGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAATTGTTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
*
17181630 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTAACTTAATAATTTTACATTCACA
* * *
17181681 TAATGTTAGATTTGGAAAATTTTTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
1 TAATGTTAGATTTGGAAAATTGTTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
17181746 ATTTTACTAACCATTAATACAATTTTTTAACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTAACTTAATA
17181783 CAATTTATCA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 97 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAATTGTTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTAACTTAATAATTTTACATTCACA
Found at i:17181799 original size:17 final size:17
Alignment explanation
Indices: 17181758--17181799 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
17181748 TTTACTAACC
* *
17181758 ATTAATACAATTTTTTA
1 ATTAATACAATTTATCA
17181775 ACTTAATACAATTTATCA
1 A-TTAATACAATTTATCA
17181793 ATTAATA
1 ATTAATA
17181800 ATTTCACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAATACAATTTATCA
Found at i:17185112 original size:126 final size:125
Alignment explanation
Indices: 17184811--17185162 Score: 512
Period size: 126 Copynumber: 2.8 Consensus size: 125
17184801 CCCAAACATG
* * * * * *
17184811 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGGTTTCACAAGTTCTTCTCAAATAGCATCTTGG
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
17184876 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* *
17184935 CTACTGTAGCAAAAGCGCG-CTGACG-AGGCCGCAATTTCACAAATTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTC-CACGAAGG-CGCGATTTCACAAATTCTTCTCAAATAGCATCCT
* * * *
17184998 GCTAGAACCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
64 GCTAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAA-AATTATTTCTTACATGAC
* *
17185061 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGTGATTTCACAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
17185126 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAA
17185163 CTCGAAATTA
Statistics
Matches: 202, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
123 3 0.01
124 85 0.42
125 6 0.03
126 104 0.51
127 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:17187312 original size:24 final size:24
Alignment explanation
Indices: 17187262--17187312 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
17187252 AGTTTTGACC
* *
17187262 TTTGACTATTGGGTAAATTTTAAA
1 TTTGAATATTGGGTAAATTATAAA
*
17187286 TTTGAATATT-GGTATAATTATATA
1 TTTGAATATTGGGTA-AATTATAAA
17187310 TTT
1 TTT
17187313 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (24 bp):
TTTGAATATTGGGTAAATTATAAA
Found at i:17197254 original size:29 final size:29
Alignment explanation
Indices: 17197160--17197247 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
17197150 TGTTAAGTAT
17197160 TGTTTTGAAAGAAATAAATTTGAC-AAGATG
1 TGTTTTGAAA-AAATAAATTTGACGAA-ATG
* * * **
17197190 GGATATGAAAAAATAAATTTGACGTGATG
1 TGTTTTGAAAAAATAAATTTGACGAAATG
* *
17197219 TGTTTTGAAAAAATTATTTTGACGAAATG
1 TGTTTTGAAAAAATAAATTTGACGAAATG
17197248 GATTTTGTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
29 38 0.84
30 7 0.16
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.34
Consensus pattern (29 bp):
TGTTTTGAAAAAATAAATTTGACGAAATG
Found at i:17202538 original size:10 final size:10
Alignment explanation
Indices: 17202517--17202588 Score: 53
Period size: 10 Copynumber: 7.1 Consensus size: 10
17202507 TACCGGCTGT
17202517 TATAAAAA-A
1 TATAAAAATA
17202526 TATAAAAATA
1 TATAAAAATA
17202536 TATAAATTAA-A
1 TATAAA--AATA
*
17202547 TTACAAAAATGA
1 -TATAAAAAT-A
*
17202559 AATAAAAATA
1 TATAAAAATA
17202569 T-TAAATAATA
1 TATAAA-AATA
17202579 T-TAAAAATA
1 TATAAAAATA
17202588 T
1 T
17202589 GAAATTAACC
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
9 17 0.33
10 19 0.37
11 8 0.15
12 8 0.15
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (10 bp):
TATAAAAATA
Found at i:17202591 original size:32 final size:33
Alignment explanation
Indices: 17202527--17202593 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
17202517 TATAAAAAAT
17202527 ATAAAAATATATAAATTAAATTACAAAAATGAA
1 ATAAAAATATATAAATTAAATTACAAAAATGAA
17202560 ATAAAAATAT-TAAA-TAATATTA-AAAATATGAA
1 ATAAAAATATATAAATTAA-ATTACAAAA-ATGAA
17202592 AT
1 AT
17202594 TAACCCTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 7 0.22
32 15 0.47
33 10 0.31
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (33 bp):
ATAAAAATATATAAATTAAATTACAAAAATGAA
Found at i:17203518 original size:18 final size:20
Alignment explanation
Indices: 17203483--17203522 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
17203473 AAATTTATAT
*
17203483 TTTTTTTCAAATATCATTAA
1 TTTTTTTCAAATACCATTAA
17203503 TTTTTTTC-AA-ACCATTAA
1 TTTTTTTCAAATACCATTAA
17203521 TT
1 TT
17203523 AATTTAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 2 0.11
20 8 0.42
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTTTTCAAATACCATTAA
Found at i:17205808 original size:58 final size:60
Alignment explanation
Indices: 17205746--17205860 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 60
17205736 TCACTTTAAT
* * *
17205746 ATTAAATTAATATAATACTTA-T-CAAGATTAATACTAGATTAAATTTAATATTAATTCC
1 ATTAAATTAATAGAATACTTACTACAAGATAAATACTAAATTAAATTTAATATTAATTCC
* *
17205804 ATTAAATTAATAGAATACTTATCTACAAGATAAATATTAAATTGAATTTAATATTAA
1 ATTAAATTAATAGAATACTTA-CTACAAGATAAATACTAAATTAAATTTAATATTAA
17205861 GGTAATCACT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 20 0.41
60 1 0.02
61 28 0.57
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (60 bp):
ATTAAATTAATAGAATACTTACTACAAGATAAATACTAAATTAAATTTAATATTAATTCC
Found at i:17209174 original size:43 final size:43
Alignment explanation
Indices: 17209114--17209204 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
17209104 CTTTGAGTTC
* * * *
17209114 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
17209156 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
17209199 ATTACC
1 ATTACC
17209205 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:17209612 original size:43 final size:43
Alignment explanation
Indices: 17209551--17209858 Score: 429
Period size: 43 Copynumber: 7.1 Consensus size: 43
17209541 GCGCTCAATA
*
17209551 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
* * * *
17209594 TCTTTAGCGACGTTTGTGGGAAAAACGCCACTAAAGGTCTTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
* * * *
17209637 TCTTTAGCGGCATTTATAGGAAAAGCGCCGCTAAAGGTCTTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
* * * * *
17209680 TCTTTAGCGGCGTTTTTTTGTAAAAGTGCCGCTAAAAGTCATGG
1 TCTTTAGCGGCG-TTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
*
17209724 TCTTTTAGCGGCGTTTGTGGG-AAAGCGCTGCTAAAGGTCATGG
1 TC-TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
*
17209767 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTATGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
* *
17209810 TCTTTAGCGGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
17209853 TCTTTA
1 TCTTTA
17209859 AATAAACGCC
Statistics
Matches: 234, Mismatches: 28, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
42 18 0.08
43 174 0.74
44 32 0.14
45 10 0.04
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.30
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
Found at i:17209978 original size:22 final size:21
Alignment explanation
Indices: 17209945--17209990 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
17209935 TTTAGCAGCG
*
17209945 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
17209966 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
17209988 CTA
1 CTA
17209991 TTTTGGTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.43, C:0.28, G:0.17, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:17213670 original size:11 final size:10
Alignment explanation
Indices: 17213632--17213672 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
17213622 AACTATCATA
*
17213632 AAATGTGACT
1 AAATGTGATT
*
17213642 GAATGTGATT
1 AAATGTGATT
17213652 AAATGTGATT
1 AAATGTGATT
17213662 AATATGTGATT
1 AA-ATGTGATT
17213673 GGATATATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (10 bp):
AAATGTGATT
Found at i:17223522 original size:5 final size:5
Alignment explanation
Indices: 17223512--17223542 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
17223502 ACTTTTATAT
17223512 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
17223543 CTGATATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:17225270 original size:10 final size:9
Alignment explanation
Indices: 17225256--17225280 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17225246 TAAAAAATTA
17225256 TAAAAAACG
1 TAAAAAACG
17225265 TAAAAAACG
1 TAAAAAACG
17225274 TAAAAAA
1 TAAAAAA
17225281 GAAGATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.12
Consensus pattern (9 bp):
TAAAAAACG
Found at i:17227061 original size:20 final size:21
Alignment explanation
Indices: 17227026--17227066 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
17227016 CACCAGTTAA
17227026 AATTAATTAGCTAATACTTGC
1 AATTAATTAGCTAATACTTGC
* *
17227047 AATTTATTA-CTAATATTTGC
1 AATTAATTAGCTAATACTTGC
17227067 TGATTTCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (21 bp):
AATTAATTAGCTAATACTTGC
Found at i:17229033 original size:38 final size:38
Alignment explanation
Indices: 17228974--17229144 Score: 306
Period size: 38 Copynumber: 4.5 Consensus size: 38
17228964 GTTCAATTGT
*
17228974 ATAGCATCGAAAAATTTACACATTATCTTTCTTTTAGA
1 ATAGGATCGAAAAATTTACACATTATCTTTCTTTTAGA
*
17229012 ATAGGATCAAAAAATTTACACATTATCTTTCTTTTAGA
1 ATAGGATCGAAAAATTTACACATTATCTTTCTTTTAGA
*
17229050 ATAGGATCGAAAAATTTACACATTACCTTTCTTTTAGA
1 ATAGGATCGAAAAATTTACACATTATCTTTCTTTTAGA
*
17229088 ATAGGATCAAAAAATTTACACATTATCTTTCTTTTAGA
1 ATAGGATCGAAAAATTTACACATTATCTTTCTTTTAGA
17229126 ATAGGATCGAAAAATTTAC
1 ATAGGATCGAAAAATTTAC
17229145 TAACTACTCT
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 126 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.37
Consensus pattern (38 bp):
ATAGGATCGAAAAATTTACACATTATCTTTCTTTTAGA
Found at i:17229754 original size:73 final size:73
Alignment explanation
Indices: 17229624--17229763 Score: 162
Period size: 73 Copynumber: 1.9 Consensus size: 73
17229614 ATTGCTTACA
* *
17229624 TCATCATTGGTTTGATGATAGCTTCCACATTGCAAAACTTGTTTGTCTGCATATGGATTGT-CTT
1 TCATCATTGGTTTGATGATAGCATCCACATTGCAAAACTTGTTTGTCGGCATATGGATT-TCCTT
17229688 CTTTTGTCT
65 CTTTTGTCT
* * * *
17229697 TCATCA-TGGATTTGATGAT-GACATCCACGTTGCCAAACTT-TGTTGTCGGTATGTGGATTTCC
1 TCATCATTGG-TTTGATGATAG-CATCCACATTGCAAAACTTGT-TTGTCGGCATATGGATTTCC
17229759 TTCTT
63 TTCTT
17229764 ATCAGGTTGC
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
72 6 0.11
73 51 0.89
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (73 bp):
TCATCATTGGTTTGATGATAGCATCCACATTGCAAAACTTGTTTGTCGGCATATGGATTTCCTTC
TTTTGTCT
Found at i:17236278 original size:35 final size:36
Alignment explanation
Indices: 17236211--17236287 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 36
17236201 CGTGAAAGAG
* * *
17236211 AATATATGGGTATGTTATTCATGCCATGTGACAGTA
1 AATATATGAGTATGTTATTCATACCATATGACAGTA
*
17236247 AATATGTGAGTATGTT-TTCATACCATATGACAGTA
1 AATATATGAGTATGTTATTCATACCATATGACAGTA
*
17236282 ACTATA
1 AATATA
17236288 ATGTGCTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
35 21 0.60
36 14 0.40
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (36 bp):
AATATATGAGTATGTTATTCATACCATATGACAGTA
Found at i:17239308 original size:5 final size:5
Alignment explanation
Indices: 17239298--17239326 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
17239288 CGCCTTATAG
17239298 TGTGA TGTGA TGTGA TGTGA TGTGA TGTG
1 TGTGA TGTGA TGTGA TGTGA TGTGA TGTG
17239327 TTGAGGTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (5 bp):
TGTGA
Found at i:17240460 original size:24 final size:24
Alignment explanation
Indices: 17240428--17240476 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
17240418 GTAAAATTCA
17240428 TGATAAAATCTCATTATTCTTACC
1 TGATAAAATCTCATTATTCTTACC
17240452 TGATAAAATCTCATTATTCTTACC
1 TGATAAAATCTCATTATTCTTACC
17240476 T
1 T
17240477 TACTTTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (24 bp):
TGATAAAATCTCATTATTCTTACC
Found at i:17244177 original size:18 final size:19
Alignment explanation
Indices: 17244147--17244183 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
17244137 CGGTCTGAGG
17244147 ATGAAATGCAGTA-CTAAA
1 ATGAAATGCAGTACCTAAA
17244165 ATGAAAT-CGAGTACCTAAA
1 ATGAAATGC-AGTACCTAAA
17244184 GCTTCGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.06
18 11 0.65
19 5 0.29
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.22
Consensus pattern (19 bp):
ATGAAATGCAGTACCTAAA
Found at i:17253109 original size:121 final size:121
Alignment explanation
Indices: 17252931--17253180 Score: 491
Period size: 121 Copynumber: 2.1 Consensus size: 121
17252921 TTAAGCTCGT
17252931 ATTTCATCCGTATTTCATGCTAGCCAAATTCACTAGGGACCTACACTAACCCATACAAATCAGCA
1 ATTTCATCCGTATTTCATGCTAGCCAAATTCACTAGGGACCTACACTAACCCATACAAATCAGCA
17252996 TTTCACAATTTTACCATGGAATTTTACTACTTTTATAAATAAGTCCCTAAATGAAA
66 TTTCACAATTTTACCATGGAATTTTACTACTTTTATAAATAAGTCCCTAAATGAAA
17253052 ATTTCATCCGTATTTCATGCTAGCCAAATTCACTAGGGACCTACACTAACCCATACAAATCAGCA
1 ATTTCATCCGTATTTCATGCTAGCCAAATTCACTAGGGACCTACACTAACCCATACAAATCAGCA
*
17253117 TTTCACAATTTTACCATGGAATTTTACTACTTTTATAAATAAGTCCCTAAATGACA
66 TTTCACAATTTTACCATGGAATTTTACTACTTTTATAAATAAGTCCCTAAATGAAA
17253173 ATTTCATC
1 ATTTCATC
17253181 AAAAAATTCC
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 128 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.33
Consensus pattern (121 bp):
ATTTCATCCGTATTTCATGCTAGCCAAATTCACTAGGGACCTACACTAACCCATACAAATCAGCA
TTTCACAATTTTACCATGGAATTTTACTACTTTTATAAATAAGTCCCTAAATGAAA
Found at i:17255863 original size:78 final size:77
Alignment explanation
Indices: 17255760--17256045 Score: 301
Period size: 78 Copynumber: 3.7 Consensus size: 77
17255750 GATTGTATTA
* *
17255760 TGTTTCAAACAAAAATTCAAA-TGAACAATCCTATTTTAGGA-TTTATTCCTACCGTTTTAACAG
1 TGTTTCAAACAAAAA-T-AAATTGAACAATCCTGTTTCAGGATTTTATTCCTACCG-TTTAACAG
17255823 GATTTGTTTAATTTT
63 GATTTGTTTAATTTT
* * * *
17255838 TGTTTCAAACAGAAAATAAATTGAACAATCCTGTTTCAAGATTTTATTCTTGCCATTTAACAGGA
1 TGTTTCAAACA-AAAATAAATTGAACAATCCTGTTTCAGGATTTTATTCCTACCGTTTAACAGGA
*
17255903 TTTGTTTGATTTT
65 TTTGTTTAATTTT
** ** * *
17255916 TGTTTCAAACAAAAA-ACAATTGAACAATTTTGTTTCAGGATTTTATTCCTATTGCTTAATAGGA
1 TGTTTCAAACAAAAATA-AATTGAACAATCCTGTTTCAGGATTTTATTCCTACCGTTTAACAGGA
*
17255980 TTTGTTCAATTTTT
65 TTTGTTTAA-TTTT
* * * * **
17255994 TTTTTCAAACAGAAATCAATTGAATAATATTGTTTCAGGATTCTT-TTCCTAC
1 TGTTTCAAACAAAAATAAATTGAACAATCCTGTTTCAGGATT-TTATTCCTAC
17256046 TGCTCAACAG
Statistics
Matches: 176, Mismatches: 25, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
76 1 0.01
77 51 0.29
78 108 0.61
79 16 0.09
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (77 bp):
TGTTTCAAACAAAAATAAATTGAACAATCCTGTTTCAGGATTTTATTCCTACCGTTTAACAGGAT
TTGTTTAATTTT
Found at i:17256055 original size:155 final size:156
Alignment explanation
Indices: 17255760--17256060 Score: 331
Period size: 155 Copynumber: 1.9 Consensus size: 156
17255750 GATTGTATTA
* * *
17255760 TGTTTCAAACAAAAATTCAAATGAACAATCCTATTTTAGGATTTATTCCTACCGTTTTAACAGGA
1 TGTTTCAAACAAAAATACAAATGAACAATCCTATTTCAGGATTTATTCCTACCGTCTTAACAGGA
* * * *
17255825 TTTGTTTAATTTTTGTTTCAAACAGAAAATAAATTGAACAATCCTGTTTCAAGATTTTATTCTTG
66 TTTGTTCAATTTTTGTTTCAAACAGAAAATAAATTGAACAATACTGTTTCAAGATTTTATTCCTA
* * *
17255890 CCATTTAACAGGATTTGTTTGATTTT
131 CCACTCAACAGAATTTGTTTGATTTT
* ** * ** *
17255916 TGTTTCAAACAAAAA-ACAATTGAACAATTTTGTTTCAGGATTTTATTCCTATTG-CTTAATAGG
1 TGTTTCAAACAAAAATACAAATGAACAATCCTATTTCAGGA-TTTATTCCTACCGTCTTAACAGG
* * * * *
17255979 ATTTGTTCAATTTTTTTTTTCAAACAG-AAATCAATTGAATAATATTGTTTCAGGATTCTT-TTC
65 ATTTGTTCAA-TTTTTGTTTCAAACAGAAAATAAATTGAACAATACTGTTTCAAGATT-TTATTC
**
17256042 CTACTGCTCAACAGAATTT
128 CTACCACTCAACAGAATTT
17256061 ATTCAATTTC
Statistics
Matches: 118, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
155 75 0.64
156 43 0.36
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (156 bp):
TGTTTCAAACAAAAATACAAATGAACAATCCTATTTCAGGATTTATTCCTACCGTCTTAACAGGA
TTTGTTCAATTTTTGTTTCAAACAGAAAATAAATTGAACAATACTGTTTCAAGATTTTATTCCTA
CCACTCAACAGAATTTGTTTGATTTT
Found at i:17256081 original size:27 final size:27
Alignment explanation
Indices: 17256051--17256111 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
17256041 CCTACTGCTC
*
17256051 AACAGAATTTATTCAATTTCTATTGTT
1 AACAAAATTTATTCAATTTCTATTGTT
* *
17256078 AACAAAATTTATTCGATTTCTGTTGTT
1 AACAAAATTTATTCAATTTCTATTGTT
*
17256105 ACCAAAA
1 AACAAAA
17256112 ATTGATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (27 bp):
AACAAAATTTATTCAATTTCTATTGTT
Found at i:17262353 original size:26 final size:27
Alignment explanation
Indices: 17262324--17262374 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
17262314 TTGAAGAAAT
*
17262324 GAAAA-AAAAAACATGTAAAGATTTTG
1 GAAAAGAAAAAACATGTAAAAATTTTG
**
17262350 GAAAAGAAAAATTATGTAAAAATTT
1 GAAAAGAAAAAACATGTAAAAATTT
17262375 ATGTTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (27 bp):
GAAAAGAAAAAACATGTAAAAATTTTG
Found at i:17265629 original size:18 final size:19
Alignment explanation
Indices: 17265592--17265640 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
17265582 GAGGGTTCAA
17265592 GGAAAGTAGAAATTTGA-GG
1 GGAAAGTA-AAATTTGAGGG
*
17265611 GG-AAGTAAAAGTTTTAGGG
1 GGAAAGTAAAA-TTTGAGGG
17265630 GGAAAGTAAAA
1 GGAAAGTAAAA
17265641 AAAAAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 9 0.35
19 6 0.23
20 8 0.31
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (19 bp):
GGAAAGTAAAATTTGAGGG
Found at i:17268148 original size:18 final size:19
Alignment explanation
Indices: 17268122--17268160 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
17268112 GTCGAGGACA
17268122 AAGTAATATTT-TTTAATT
1 AAGTAATATTTGTTTAATT
* *
17268140 AAGTTATATTTGTTTTATT
1 AAGTAATATTTGTTTAATT
17268159 AA
1 AA
17268161 ATTACTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (19 bp):
AAGTAATATTTGTTTAATT
Found at i:17271505 original size:9 final size:9
Alignment explanation
Indices: 17271493--17271518 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17271483 AAAAAGTATG
17271493 TTGTCTAAA
1 TTGTCTAAA
17271502 TTGTCTAAA
1 TTGTCTAAA
17271511 TTGTCTAA
1 TTGTCTAA
17271519 CTCCAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (9 bp):
TTGTCTAAA
Found at i:17271670 original size:11 final size:11
Alignment explanation
Indices: 17271654--17271688 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
17271644 AGAACTCCCT
17271654 TTGAAGCTTCC
1 TTGAAGCTTCC
17271665 TTGAAGCTTCC
1 TTGAAGCTTCC
*
17271676 TTTGAAGTTTCC
1 -TTGAAGCTTCC
17271688 T
1 T
17271689 AGCATGAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (11 bp):
TTGAAGCTTCC
Found at i:17271679 original size:23 final size:22
Alignment explanation
Indices: 17271638--17271690 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
17271628 TTCTTGGCAA
17271638 CTTCCTAGAACTCCCTTTGAAG
1 CTTCCTAGAACTCCCTTTGAAG
* *
17271660 CTTCCTTGAAGCTTCCTTTGAAG
1 CTTCCTAGAA-CTCCCTTTGAAG
*
17271683 TTTCCTAG
1 CTTCCTAG
17271691 CATGAGAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (22 bp):
CTTCCTAGAACTCCCTTTGAAG
Found at i:17271680 original size:12 final size:12
Alignment explanation
Indices: 17271651--17271688 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
17271641 CCTAGAACTC
17271651 CCTTTGAAGCTT
1 CCTTTGAAGCTT
17271663 CC-TTGAAGCTT
1 CCTTTGAAGCTT
*
17271674 CCTTTGAAGTTT
1 CCTTTGAAGCTT
17271686 CCT
1 CCT
17271689 AGCATGAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 11 0.46
12 13 0.54
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (12 bp):
CCTTTGAAGCTT
Found at i:17272827 original size:114 final size:112
Alignment explanation
Indices: 17272624--17272931 Score: 327
Period size: 114 Copynumber: 2.7 Consensus size: 112
17272614 GTGCTCGAGG
* * * *
17272624 ATACTTAGGATTTCTTTTTCATTTTTTGAAAACATCGAAGTCGAAATTGGTATTGATACCAACTA
1 ATACTTAGGATTTATTTTTCATTTTTT-AAAACATCGAAGTCGAAACTGGTATCGATAACAACTA
* * * *
17272689 TGGGTATTGATACTTATGGTCTGGTATCGATACTTTGGTGATTCTATCA
65 TGGGTATCGATACTTA-GGTCTGGTATCGATACCTTAGTGAATCTATCA
*
17272738 ATACTTAGGATTTATTTTTCATTTTCCTT-AAACATCGAAGAT-GAAACTGGTATCGATAACAGC
1 ATACTTAGGATTTATTTTTCATTTT--TTAAAACATCGAAG-TCGAAACTGGTATCGATAACAAC
* * *
17272801 TATGGGTATCGATTCTTA-GTCCCTGGTATCGATACCTTAGTGAATGTATCG
63 TATGGGTATCGATACTTAGGT--CTGGTATCGATACCTTAGTGAATCTATCA
* * * * * **
17272852 ATACTTAGAATTTATTTTTCATTTTTTCAAAACATTGAAGCCGAAATTGGTATGGAT-ACAAGAA
1 ATACTTAGGATTTATTTTTCATTTTTT-AAAACATCGAAGTCGAAACTGGTATCGATAACAACTA
*
17272916 TTGGGTATCAATACTT
65 -TGGGTATCGATACTT
17272932 TTGGCACTGG
Statistics
Matches: 163, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
112 4 0.02
113 4 0.02
114 152 0.93
115 1 0.01
116 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (112 bp):
ATACTTAGGATTTATTTTTCATTTTTTAAAACATCGAAGTCGAAACTGGTATCGATAACAACTAT
GGGTATCGATACTTAGGTCTGGTATCGATACCTTAGTGAATCTATCA
Found at i:17277065 original size:50 final size:50
Alignment explanation
Indices: 17276941--17277290 Score: 389
Period size: 50 Copynumber: 6.8 Consensus size: 50
17276931 GATAATAACA
* * ** * *
17276941 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
17276992 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * ** * *
17277042 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
17277093 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
17277143 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
17277193 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
17277248 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
17277291 TTACCCAAAT
Statistics
Matches: 252, Mismatches: 37, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
49 2 0.01
50 132 0.52
51 73 0.29
52 1 0.00
53 2 0.01
54 1 0.00
55 2 0.01
56 39 0.15
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:17277116 original size:101 final size:101
Alignment explanation
Indices: 17276941--17277286 Score: 552
Period size: 101 Copynumber: 3.4 Consensus size: 101
17276931 GATAATAACA
*
17276941 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
17277006 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
66 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
17277042 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
17277107 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
66 CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
** *
17277143 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCATGCCATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCATGCCATG
* *
17277206 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTATAGGGGACCTCTC---ATC-T-CGG
*
17277248 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAT
17277287 CTCTTTACCC
Statistics
Matches: 230, Mismatches: 7, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
99 1 0.00
100 50 0.22
101 137 0.60
103 3 0.01
104 1 0.00
105 2 0.01
106 36 0.16
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (101 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
Found at i:17277223 original size:151 final size:154
Alignment explanation
Indices: 17276940--17277287 Score: 436
Period size: 151 Copynumber: 2.3 Consensus size: 154
17276930 TGATAATAAC
* * ** * * *
17276940 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATGATGGTGCCAACGCCATG
*
17277005 TCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
66 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
* ** *
17277070 TACATGGGATGTTCTCGTGA-T-GG
131 TACAGGGGA-CCTCTCATGATTAGG
* * *
17277093 -TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGA-CCTCTCAT-CTCGGTGCCAACGCCAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATGAT-GGTGCCAACGCCAT
* * * *
17277155 GTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGTCCCAGACATGGTC
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTC
17277220 TTACAGGGGACCTCTCATGATCTTAAGG
130 TTACAGGGGACCTCTCATGA--TT-AGG
*
17277248 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATC
17277288 TCTTTACCCA
Statistics
Matches: 165, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
150 8 0.05
151 86 0.52
152 33 0.20
153 1 0.01
155 2 0.01
156 34 0.21
157 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (154 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATGATGGTGCCAACGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
TACAGGGGACCTCTCATGATTAGG
Found at i:17277406 original size:13 final size:13
Alignment explanation
Indices: 17277385--17277416 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17277375 GCTTGGATCA
*
17277385 TCATCAAATAAAT
1 TCATAAAATAAAT
17277398 TCATAAAATAAAT
1 TCATAAAATAAAT
17277411 TCATAA
1 TCATAA
17277417 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:17277663 original size:30 final size:30
Alignment explanation
Indices: 17277628--17277685 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17277618 CCTCGACTCT
* *
17277628 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTACCCCTA
* *
17277658 AACTTTTACATAATTACATTTTTACCCC
1 AACTTTTACAAAATTACAATTTTACCCC
17277686 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTACCCCTA
Found at i:17280032 original size:6 final size:6
Alignment explanation
Indices: 17280021--17280053 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
17280011 AAGGATTTTC
17280021 TTTCTT TTTCTT TTTC-T TTTCTTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTT
17280054 AGAATAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 15 0.60
7 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:17280043 original size:17 final size:17
Alignment explanation
Indices: 17280016--17280053 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
17280006 TAGGTAAGGA
17280016 TTTTCTTTC-TTTTTCT
1 TTTTCTTTCTTTTTTCT
17280032 TTTTCTTTTCTTTTTTCT
1 TTTTC-TTTCTTTTTTCT
17280050 TTTT
1 TTTT
17280054 AGAATAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
17 4 0.20
18 11 0.55
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCTTTCTTTTTTCT
Found at i:17284633 original size:174 final size:174
Alignment explanation
Indices: 17284399--17284713 Score: 404
Period size: 174 Copynumber: 1.8 Consensus size: 174
17284389 GAAGCAGTTC
* **
17284399 GTGGTCATGAAGAGTCCAGTAAAGTTGGTTTGGAGGGTAACTTAAGAACCTTAGATAGTGACTGC
1 GTGGTCATGAAGAGTCCAGTAAAGTTGGTTTGGAGGGTAACTCAAGAACCTTAGATAGTGAAGGC
*** * * * *
17284464 CATGC-GGTGGATGGTTTGGGTTCAAGGAATGAGGTTTCAGGTGGTGAAGGTAGGGCTCAGAATG
66 CATGCAGCCAG-TGATTTGGGTTCAAGGAATGAAGTTTCAGGTGGTGAAGCTAAGGCTCAGAATG
17284528 AGGTAAATGGAGGTGTGGTTCGGTCTTGTTCTAATGATGTAATTT
130 AGGTAAATGGAGGTGTGGTTCGGTCTTGTTCTAATGATGTAATTT
* * *
17284573 GTGGTCAT-AATGAGTCC-GATGAAGTTGGTTTGGAGGGTAA-TCCGAGTACCTTAGATAGTGAA
1 GTGGTCATGAA-GAGTCCAG-TAAAGTTGGTTTGGAGGGTAACT-CAAGAACCTTAGATAGTGAA
*** * *
17284635 GGTGGTGCAGCCAGTGATTTGGGTTCAAGGTATGAAGTTTCAGGTGGTGAAGCTAAGGCTCGGAA
63 GGCCATGCAGCCAGTGATTTGGGTTCAAGGAATGAAGTTTCAGGTGGTGAAGCTAAGGCTCAGAA
17284700 TGAGGTAAATGGAG
128 TGAGGTAAATGGAG
17284714 CCAGGGTTTT
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
173 4 0.03
174 113 0.95
175 2 0.02
ACGTcount: A:0.25, C:0.10, G:0.36, T:0.29
Consensus pattern (174 bp):
GTGGTCATGAAGAGTCCAGTAAAGTTGGTTTGGAGGGTAACTCAAGAACCTTAGATAGTGAAGGC
CATGCAGCCAGTGATTTGGGTTCAAGGAATGAAGTTTCAGGTGGTGAAGCTAAGGCTCAGAATGA
GGTAAATGGAGGTGTGGTTCGGTCTTGTTCTAATGATGTAATTT
Found at i:17289022 original size:33 final size:33
Alignment explanation
Indices: 17288985--17289056 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
17288975 CATCGGGTCC
* *
17288985 GGAAACT-CAGACCATTTCTACAACCATGGGTGA
1 GGAAACTACA-ACCATTCCTACAAACATGGGTGA
* *
17289018 GGAAACTACAACCATTCCTGCAAACTTGGGTGA
1 GGAAACTACAACCATTCCTACAAACATGGGTGA
17289051 GGAAAC
1 GGAAAC
17289057 AACTGCTACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (33 bp):
GGAAACTACAACCATTCCTACAAACATGGGTGA
Found at i:17289399 original size:33 final size:33
Alignment explanation
Indices: 17289329--17289448 Score: 91
Period size: 33 Copynumber: 3.6 Consensus size: 33
17289319 ACCATTCCTG
* * * * * **
17289329 CAACCTTAGGTCAAGAAACTCCTACCCTTCCTG
1 CAACCTTGGGTGAAGAAACTCATATCATTCCCA
* *
17289362 CAACCTTGGGTGAAGGAACTCATAGT-ATTCCCT
1 CAACCTTGGGTGAAGAAACTCATA-TCATTCCCA
* * *
17289395 CAACCTCGAGTGAAGAAAATCATATCATTCCCA
1 CAACCTTGGGTGAAGAAACTCATATCATTCCCA
*
17289428 CTAACC-TGGATGAAGAAACTC
1 C-AACCTTGGGTGAAGAAACTC
17289449 CTACTGATCC
Statistics
Matches: 67, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
32 1 0.01
33 62 0.93
34 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (33 bp):
CAACCTTGGGTGAAGAAACTCATATCATTCCCA
Found at i:17297175 original size:38 final size:38
Alignment explanation
Indices: 17297124--17297201 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
17297114 AATATTTAAT
*
17297124 AAAAAATAATTAAATTAATTAAACCTACAAATTAAACC
1 AAAAAATAATTAAATTAATTAAACCAACAAATTAAACC
* * ** *
17297162 AAAAATTAGTTAAATTGGTTAATCCAACAAATTAAACC
1 AAAAAATAATTAAATTAATTAAACCAACAAATTAAACC
17297200 AA
1 AA
17297202 GAATATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (38 bp):
AAAAAATAATTAAATTAATTAAACCAACAAATTAAACC
Found at i:17299504 original size:13 final size:14
Alignment explanation
Indices: 17299475--17299513 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
17299465 AAAGAACTTA
17299475 TTGTTTTTTATTGTT
1 TTGTTTTTT-TTGTT
17299490 TTGTTTTTTTT-TT
1 TTGTTTTTTTTGTT
17299503 TTGTTATTTTT
1 TTGTT-TTTTT
17299514 CACTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.30
14 7 0.30
15 9 0.39
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (14 bp):
TTGTTTTTTTTGTT
Found at i:17299552 original size:14 final size:14
Alignment explanation
Indices: 17299533--17299566 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17299523 ACTACTATTT
17299533 TATTATTATATTGC
1 TATTATTATATTGC
* *
17299547 TATTATTTTATTGT
1 TATTATTATATTGC
17299561 TATTAT
1 TATTAT
17299567 ATAACTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (14 bp):
TATTATTATATTGC
Found at i:17299556 original size:22 final size:22
Alignment explanation
Indices: 17299523--17299587 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 22
17299513 TCACTATTTT
* *
17299523 ACTACTATTTTATTATTATATT
1 ACTATTATTTTATTATTATATA
*
17299545 GCTATTATTTTATTGTTATTATATA
1 ACTATTATTTTA---TTATTATATA
*
17299570 ACTCTTATTTTATTATTA
1 ACTATTATTTTATTATTA
17299588 ATTTTGTTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 16 0.46
25 19 0.54
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (22 bp):
ACTATTATTTTATTATTATATA
Found at i:17299577 original size:25 final size:25
Alignment explanation
Indices: 17299535--17299583 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
17299525 TACTATTTTA
**
17299535 TTATTATATTGCTATTATTTTATTG
1 TTATTATATAACTATTATTTTATTG
*
17299560 TTATTATATAACTCTTATTTTATT
1 TTATTATATAACTATTATTTTATT
17299584 ATTAATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (25 bp):
TTATTATATAACTATTATTTTATTG
Found at i:17301103 original size:23 final size:23
Alignment explanation
Indices: 17301077--17301128 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
17301067 TTTTTTTTAA
*
17301077 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTAATAAT
17301100 ATTTAGAATTATTTAGTAATAAT
1 ATTTAGAATTATTTAGTAATAAT
17301123 ATTTAG
1 ATTTAG
17301129 GGAAAATCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTAATAAT
Found at i:17303878 original size:59 final size:59
Alignment explanation
Indices: 17303807--17303923 Score: 234
Period size: 59 Copynumber: 2.0 Consensus size: 59
17303797 ATGTGTTTGA
17303807 ATGTGGTTGTTTTAAGCTTAGATGGTGTTTATTACATGATTTTAGTGTCTTATAATGTC
1 ATGTGGTTGTTTTAAGCTTAGATGGTGTTTATTACATGATTTTAGTGTCTTATAATGTC
17303866 ATGTGGTTGTTTTAAGCTTAGATGGTGTTTATTACATGATTTTAGTGTCTTATAATGT
1 ATGTGGTTGTTTTAAGCTTAGATGGTGTTTATTACATGATTTTAGTGTCTTATAATGT
17303924 TTGGAGATGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (59 bp):
ATGTGGTTGTTTTAAGCTTAGATGGTGTTTATTACATGATTTTAGTGTCTTATAATGTC
Found at i:17303925 original size:30 final size:30
Alignment explanation
Indices: 17303832--17303925 Score: 70
Period size: 30 Copynumber: 3.2 Consensus size: 30
17303822 GCTTAGATGG
17303832 TGTTTATTACATGATTTTAGTGTCTTATAA
1 TGTTTATTACATGATTTTAGTGTCTTATAA
* *** * **
17303862 TG-TCATGTGGTTG-TTTTA-AG-CTTAGATGG
1 TGTTTAT-TACATGATTTTAGTGTCTT--ATAA
17303891 TGTTTATTACATGATTTTAGTGTCTTATAA
1 TGTTTATTACATGATTTTAGTGTCTTATAA
17303921 TGTTT
1 TGTTT
17303926 GGAGATGATT
Statistics
Matches: 43, Mismatches: 14, Indels: 14
0.61 0.20 0.20
Matches are distributed among these distances:
27 3 0.07
28 1 0.02
29 15 0.35
30 20 0.47
31 1 0.02
32 3 0.07
ACGTcount: A:0.22, C:0.06, G:0.19, T:0.52
Consensus pattern (30 bp):
TGTTTATTACATGATTTTAGTGTCTTATAA
Found at i:17307870 original size:18 final size:18
Alignment explanation
Indices: 17307847--17307961 Score: 67
Period size: 20 Copynumber: 6.2 Consensus size: 18
17307837 ATTAAATCGT
17307847 TTTTTTACATTTTTAATA
1 TTTTTTACATTTTTAATA
*** *
17307865 TTTTTTCACAAACTT-A-C
1 TTTTTT-ACATTTTTAATA
*
17307882 TTTTTTA-ATTTCTAATA
1 TTTTTTACATTTTTAATA
*
17307899 -TTTTTACAACTTTTAATAA
1 TTTTTTAC-ATTTTTAAT-A
17307918 TTCTTTTACATTTTTAATAA
1 TT-TTTTACATTTTTAAT-A
* *
17307938 TTATTTGCAATTTCTTAATA
1 TTTTTTAC-ATTT-TTAATA
17307958 TTTT
1 TTTT
17307962 AATTAATTCT
Statistics
Matches: 72, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
15 2 0.03
16 8 0.11
17 6 0.08
18 14 0.19
19 10 0.14
20 21 0.29
21 11 0.15
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (18 bp):
TTTTTTACATTTTTAATA
Found at i:17326716 original size:27 final size:27
Alignment explanation
Indices: 17326686--17326744 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
17326676 TGATAATTTG
17326686 ACCCTCAG-TAAAATTTTTAACGATTCT
1 ACCCT-AGATAAAATTTTTAACGATTCT
* * *
17326713 ACCCTGGATAAAATTTTTGACGATTTT
1 ACCCTAGATAAAATTTTTAACGATTCT
17326740 ACCCT
1 ACCCT
17326745 TGGTATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (27 bp):
ACCCTAGATAAAATTTTTAACGATTCT
Found at i:17331959 original size:13 final size:13
Alignment explanation
Indices: 17331929--17331960 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17331919 TTTCAAACTA
17331929 AAATAC-ATGAGT
1 AAATACAATGAGT
17331941 -AATACAATGAGT
1 AAATACAATGAGT
17331953 AAATACAA
1 AAATACAA
17331961 ATATAACACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 6 0.33
13 7 0.39
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.22
Consensus pattern (13 bp):
AAATACAATGAGT
Done.