Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 81 of 230
Found at i:22393642 original size:57 final size:57
Alignment explanation
Indices: 22393578--22393689 Score: 152
Period size: 57 Copynumber: 2.0 Consensus size: 57
22393568 CAATACACAG
* * * *
22393578 CCATCAGTAATAGTAGTATGATCGGTACAAAGCCCTCAATAGTAGTAATATGATCAA
1 CCATCAGTAATAGTAATATGATCGGCACAAAGCCATCAATAATAGTAATATGATCAA
* * * *
22393635 CCATCAGTAATGGTAATATGATCGGCACACAGCCATCAGTAATGGTAATATGATC
1 CCATCAGTAATAGTAATATGATCGGCACAAAGCCATCAATAATAGTAATATGATC
22393690 GGCACAAAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (57 bp):
CCATCAGTAATAGTAATATGATCGGCACAAAGCCATCAATAATAGTAATATGATCAA
Found at i:22393707 original size:89 final size:89
Alignment explanation
Indices: 22393546--22393708 Score: 236
Period size: 89 Copynumber: 1.8 Consensus size: 89
22393536 TGGCACAAAG
* * * *
22393546 CCATCAGTAGTAGTAATATGATCAATACACAGCCATCAGTAATAGTAGTATGATCGGTACAAAGC
1 CCATCAGTAATAGTAATATGATCAACACACAGCCATCAGTAATAGTAATATGATCGGCACAAAGC
**
22393611 CCTCAATAGTAGTAATATGATCAA
66 CAACAATAGTAGTAATATGATCAA
* ** *
22393635 CCATCAGTAATGGTAATATGATCGGCACACAGCCATCAGTAATGGTAATATGATCGGCACAAAGC
1 CCATCAGTAATAGTAATATGATCAACACACAGCCATCAGTAATAGTAATATGATCGGCACAAAGC
22393700 CAACAATAG
66 CAACAATAG
22393709 CATCGCAGCA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 64 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (89 bp):
CCATCAGTAATAGTAATATGATCAACACACAGCCATCAGTAATAGTAATATGATCGGCACAAAGC
CAACAATAGTAGTAATATGATCAA
Found at i:22393739 original size:26 final size:26
Alignment explanation
Indices: 22393698--22393763 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
22393688 TCGGCACAAA
* *
22393698 GCCAACAATAGCATCGCAGCAAAGCT
1 GCCAACAACAGTATCGCAGCAAAGCT
* *
22393724 GCCAGCAACAGTATCGCAGCAAAGTT
1 GCCAACAACAGTATCGCAGCAAAGCT
*
22393750 GCCAATAACAGTAT
1 GCCAACAACAGTAT
22393764 ATGTGGCCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.15
Consensus pattern (26 bp):
GCCAACAACAGTATCGCAGCAAAGCT
Found at i:22393795 original size:27 final size:27
Alignment explanation
Indices: 22393755--22393815 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
22393745 AAGTTGCCAA
*
22393755 TAACAGTATATGTGGCCA-AGCCATCAG
1 TAACAGTATATGTGG-CAGAGCCACCAG
22393782 TAACAGTGAT-TGTGGCAGAGCCACCAG
1 TAACAGT-ATATGTGGCAGAGCCACCAG
22393809 T-ACAGTA
1 TAACAGTA
22393816 CTTCCTCCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 21 0.68
28 2 0.06
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
TAACAGTATATGTGGCAGAGCCACCAG
Found at i:22393912 original size:24 final size:24
Alignment explanation
Indices: 22393880--22394013 Score: 142
Period size: 24 Copynumber: 5.6 Consensus size: 24
22393870 CCATGCACGG
**
22393880 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
*
22393904 AATCAGTCATTTAAATCACAGATA
1 AATCAGTCATTTAAATCACAGACA
* *
22393928 AATAAGTCATTTAGATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* * *
22393952 AATCAGTCATTTACATCTCGGACA
1 AATCAGTCATTTAAATCACAGACA
* * * * *
22393976 AATCATTCATTTACATTATAGGCA
1 AATCAGTCATTTAAATCACAGACA
*
22394000 AATCAATCATTTAA
1 AATCAGTCATTTAA
22394014 CCCCGAGGGG
Statistics
Matches: 92, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 92 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.28
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:22394097 original size:54 final size:54
Alignment explanation
Indices: 22394032--22394256 Score: 301
Period size: 54 Copynumber: 4.2 Consensus size: 54
22394022 GGTAAAATAG
* *
22394032 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCTTACAGGGCCATTACGA
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
* *
22394086 TAATTTTACCCTAC-AGGGCATTACGGTCATTTTACCCTACA-GGGCATTACGG
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
* * * * **
22394138 TCATTTTACCCTACAGGGGCGTTACGGTCATTTTACCCTATAGGGGCGTTATTA
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
** * * *
22394192 TCATTTTACCCTACGGGGGCATTATGGTCATTTTACCATACAGGGGCATTATGA
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
22394246 TCATTTTACCC
1 TCATTTTACCC
22394257 GTCGAAGGTA
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
52 22 0.15
53 50 0.33
54 78 0.52
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (54 bp):
TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
Found at i:22394117 original size:26 final size:26
Alignment explanation
Indices: 22394031--22394256 Score: 272
Period size: 27 Copynumber: 8.5 Consensus size: 26
22394021 GGGTAAAATA
22394031 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTAC-AGGGCATTACG
*
22394058 GTCATTTTACCTTACAGGGCCATTACG
1 GTCATTTTACCCTACAGGG-CATTACG
* *
22394085 ATAATTTTACCCTACAGGGCATTACG
1 GTCATTTTACCCTACAGGGCATTACG
22394111 GTCATTTTACCCTACAGGGCATTACG
1 GTCATTTTACCCTACAGGGCATTACG
*
22394137 GTCATTTTACCCTACAGGGGCGTTACG
1 GTCATTTTACCCTACA-GGGCATTACG
* * **
22394164 GTCATTTTACCCTATAGGGGCGTTATT
1 GTCATTTTACCCTACA-GGGCATTACG
* * *
22394191 ATCATTTTACCCTACGGGGGCATTATG
1 GTCATTTTACCCTAC-AGGGCATTACG
* *
22394218 GTCATTTTACCATACAGGGGCATTATG
1 GTCATTTTACCCTACA-GGGCATTACG
*
22394245 ATCATTTTACCC
1 GTCATTTTACCC
22394257 GTCGAAGGTA
Statistics
Matches: 175, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 51 0.29
27 124 0.71
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGCATTACG
Found at i:22394278 original size:27 final size:27
Alignment explanation
Indices: 22394248--22394308 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
22394238 CATTATGATC
*
22394248 ATTTTACCCGTCGAAGGTATTTCGGTA
1 ATTTTACCCGTCGAAGGTATTTCAGTA
* * * *
22394275 ATTTGACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCGTCGAAGGTATTTCAGTA
22394302 ATTTTAC
1 ATTTTAC
22394309 AACCTTTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACCCGTCGAAGGTATTTCAGTA
Found at i:22394732 original size:53 final size:53
Alignment explanation
Indices: 22394669--22394774 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
22394659 TGGTCCCAAA
*
22394669 CGCCGTATTTCAGCTTTTACCGTTCTACAGTTATAGTGGAGAGTTTACACACC
1 CGCCGTATTTCAGCTTTTACCGTTCTACAGTTACAGTGGAGAGTTTACACACC
* *** *
22394722 CGCCGTATTTCGGCTTTTGTTGTTCTACAGTTACAGTGGGGAGTTTACACACC
1 CGCCGTATTTCAGCTTTTACCGTTCTACAGTTACAGTGGAGAGTTTACACACC
22394775 TGATGCGATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (53 bp):
CGCCGTATTTCAGCTTTTACCGTTCTACAGTTACAGTGGAGAGTTTACACACC
Found at i:22396104 original size:20 final size:21
Alignment explanation
Indices: 22396081--22396129 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
22396071 ATCAAATGCA
* *
22396081 TTTTATTATTATAA-TATATG
1 TTTTATAATTATAATTATAAG
*
22396101 TTTTATAATTTTAATTATAAG
1 TTTTATAATTATAATTATAAG
22396122 TTTTATAA
1 TTTTATAA
22396130 CAAACATCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
TTTTATAATTATAATTATAAG
Found at i:22402234 original size:31 final size:31
Alignment explanation
Indices: 22402196--22402254 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
22402186 TGTCATCCTG
*
22402196 GATTTCCC-AACAATGATGACCTGCCACCTTA
1 GATTTCCCGAA-AATGATGACCTACCACCTTA
*
22402227 GATTTCCCGAAAATGATGGCCTACCACC
1 GATTTCCCGAAAATGATGACCTACCACC
22402255 CCGAATAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (31 bp):
GATTTCCCGAAAATGATGACCTACCACCTTA
Found at i:22405826 original size:15 final size:15
Alignment explanation
Indices: 22405806--22405837 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22405796 CATTTCACTA
*
22405806 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
22405821 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
22405836 TT
1 TT
22405838 TGCATGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:22411397 original size:16 final size:15
Alignment explanation
Indices: 22411372--22411405 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
22411362 AAAGTTGATA
*
22411372 ATAATTAATATATATT
1 ATAATAAATATA-ATT
22411388 ATAATAAATATAATT
1 ATAATAAATATAATT
22411403 ATA
1 ATA
22411406 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:22420150 original size:25 final size:25
Alignment explanation
Indices: 22420114--22420185 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
22420104 TCTTGTACAT
* *
22420114 GTATGCTTACACGAGCTATGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
22420139 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
*
22420164 GTATGCTCACATGAGCTGTGAA
1 GTATGCTCACACGAGCTGTGAA
22420186 AATGGGCCTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATCG
Found at i:22429902 original size:40 final size:40
Alignment explanation
Indices: 22429854--22430123 Score: 423
Period size: 40 Copynumber: 6.8 Consensus size: 40
22429844 GCAAACACAT
* * *
22429854 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
**
22429894 TTGCCTTCGGGTCTTAGCCCGGATATATCGTCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * * *
22429934 TTGCCTTCGGGTCATAGCCCGGACATATTAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22429974 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
22430014 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
22430054 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22430094 TTGCCTTCGGGTCTTAGCCCGGATATATCA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCA
22430124 TAATTCTTTA
Statistics
Matches: 209, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 209 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:22430067 original size:120 final size:120
Alignment explanation
Indices: 22429854--22430297 Score: 525
Period size: 120 Copynumber: 3.6 Consensus size: 120
22429844 GCAAACACAT
* * *
22429854 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*** *
22429919 TATCGTCTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTTGCATAA
66 TATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
22429974 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
22430039 TATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
66 TATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
* ** ** ** *
22430094 TTGCCTTCGGGTCTTAGCCCGGATATATCATAATTC-TTTATATTAAC-TCGCATAATT-GCCTT
1 TTGCCTTCGGGTCTTAGCCCGGATATATC--AACTCGCATA-ATTGCCTTCGGGT-CTTAGCC--
* * * *
22430156 CGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAAC
60 C-GG--AT-------ATAT--TAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAAC
22430221 TCGCATAA
113 TCGCATAA
*
22430229 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
22430294 TATT
66 TATT
22430298 CCAATGCTCA
Statistics
Matches: 274, Mismatches: 29, Indels: 42
0.79 0.08 0.12
Matches are distributed among these distances:
120 143 0.52
121 9 0.03
122 13 0.05
123 1 0.00
124 2 0.01
126 2 0.01
129 2 0.01
131 2 0.01
132 1 0.00
133 13 0.05
134 9 0.03
135 77 0.28
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (120 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
Found at i:22430177 original size:40 final size:40
Alignment explanation
Indices: 22430132--22430297 Score: 305
Period size: 40 Copynumber: 4.2 Consensus size: 40
22430122 CATAATTCTT
*
22430132 TATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGA
1 TATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
*
22430172 CATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
1 TATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
*
22430212 TATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
1 TATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
22430252 TATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
1 TATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
22430292 TATATT
1 TATATT
22430298 CCAATGCTCA
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (40 bp):
TATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
Found at i:22430200 original size:95 final size:95
Alignment explanation
Indices: 22430037--22430218 Score: 364
Period size: 95 Copynumber: 1.9 Consensus size: 95
22430027 TTAGCCCGGA
22430037 TATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTC
1 TATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTC
22430102 GGGTCTTAGCCCGGATATATCATAATTCTT
66 GGGTCTTAGCCCGGATATATCATAATTCTT
22430132 TATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTC
1 TATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTC
22430197 GGGTCTTAGCCCGGATATATCA
66 GGGTCTTAGCCCGGATATATCA
22430219 ACTCGCATAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (95 bp):
TATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTC
GGGTCTTAGCCCGGATATATCATAATTCTT
Found at i:22430239 original size:135 final size:135
Alignment explanation
Indices: 22429997--22430256 Score: 466
Period size: 135 Copynumber: 1.9 Consensus size: 135
22429987 TTAGCCCGGA
* *
22429997 TATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTC
1 TATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTC
*
22430062 GGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATAA
66 GGGTCATAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATAA
22430127 TTCTT
131 TTCTT
*
22430132 TATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTC
1 TATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTC
* *
22430197 GGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
66 GGGTCATAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
22430257 TAACTCGCAT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
135 119 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (135 bp):
TATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTC
GGGTCATAGCCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATAA
TTCTT
Found at i:22430249 original size:175 final size:175
Alignment explanation
Indices: 22429958--22430296 Score: 615
Period size: 175 Copynumber: 1.9 Consensus size: 175
22429948 TAGCCCGGAC
* * *
22429958 ATATTAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCG
1 ATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCATAATTGCCTTCG
*
22430023 GGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTC
66 GGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTC
22430088 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATAATTCTTT
131 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATAATTCTTT
*
22430133 ATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCG
1 ATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCATAATTGCCTTCG
* *
22430198 GGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATTAACTC
66 GGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTC
22430263 GCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
131 GCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
22430297 TCCAATGCTC
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
175 157 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (175 bp):
ATATTAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCATAATTGCCTTCG
GGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTC
GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCATAATTCTTT
Found at i:22440638 original size:16 final size:15
Alignment explanation
Indices: 22440616--22440651 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
22440606 CTTTAAAAAG
22440616 AAATAAAGAAATTTA
1 AAATAAAGAAATTTA
22440631 ATAATAAAGAAATTTA
1 A-AATAAAGAAATTTA
22440647 AAATA
1 AAATA
22440652 GCAAAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAATAAAGAAATTTA
Found at i:22440707 original size:24 final size:23
Alignment explanation
Indices: 22440671--22440722 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
22440661 TAAATTTGAG
*
22440671 AATAAAAACAAATAAAAATCATA
1 AATAAAAACAAATAAAAATCAAA
* * *
22440694 AATAAATAAGAAATAGAAATTAAA
1 AATAAA-AACAAATAAAAATCAAA
22440718 AATAA
1 AATAA
22440723 CAAAGTGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (23 bp):
AATAAAAACAAATAAAAATCAAA
Found at i:22444222 original size:23 final size:21
Alignment explanation
Indices: 22444190--22444232 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22444180 AATAAAAAAT
22444190 AAATAAAAATCATAAAAAATAAG
1 AAATAAAAAT-A-AAAAAATAAG
*
22444213 AAATAGAAATAAAAAAATAA
1 AAATAAAAATAAAAAAATAA
22444233 CAAAGTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 1 0.05
23 9 0.47
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (21 bp):
AAATAAAAATAAAAAAATAAG
Found at i:22448722 original size:21 final size:22
Alignment explanation
Indices: 22448698--22448738 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22448688 AAAATTTGAA
*
22448698 ATTTAAT-TTTTATATTTTTAT
1 ATTTAATATTTAATATTTTTAT
22448719 ATTTAATATTTAATATTTTT
1 ATTTAATATTTAATATTTTT
22448739 TTACTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTAATATTTAATATTTTTAT
Found at i:22449254 original size:16 final size:15
Alignment explanation
Indices: 22449228--22449257 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22449218 TTTAAAATCT
22449228 ATTTTAAAATTTAAA
1 ATTTTAAAATTTAAA
22449243 ATTTTCAAAATTTAA
1 ATTTT-AAAATTTAA
22449258 GATTGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTAAAATTTAAA
Found at i:22449894 original size:26 final size:24
Alignment explanation
Indices: 22449850--22449898 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
22449840 TGATTCTATT
*
22449850 AAATAAATTATTAAAAAATTCATAA
1 AAATAAAATATTAAAAAA-TCATAA
*
22449875 AAATAAAATATTTAATAAATCATA
1 AAATAAAATA-TTAAAAAATCATA
22449899 CAATCAATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAAAATATTAAAAAATCATAA
Found at i:22450382 original size:13 final size:13
Alignment explanation
Indices: 22450341--22450406 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
22450331 AATTTTGAAT
22450341 TATTTAGTGATAA
1 TATTTAGTGATAA
* *
22450354 TATCTA-T-A-AT
1 TATTTAGTGATAA
22450364 TATTTAGTGATAA
1 TATTTAGTGATAA
22450377 TATTTAG-GAT--
1 TATTTAGTGATAA
22450387 TATTTAGTGATAA
1 TATTTAGTGATAA
22450400 TATTTAG
1 TATTTAG
22450407 GAAAAATCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 13 0.30
11 5 0.12
12 5 0.12
13 20 0.47
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:22450403 original size:23 final size:23
Alignment explanation
Indices: 22450339--22450408 Score: 113
Period size: 23 Copynumber: 3.0 Consensus size: 23
22450329 TAAATTTTGA
* **
22450339 ATTATTTAGTGATAATATCTATA
1 ATTATTTAGTGATAATATTTAGG
22450362 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
22450385 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
22450408 A
1 A
22450409 AAAATCTAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:22451050 original size:15 final size:16
Alignment explanation
Indices: 22451030--22451066 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22451020 TTTGGATTAA
22451030 TTCAAA-ATTTTGAA-T
1 TTCAAATATTTT-AATT
22451045 TTCAAATATTTTAATT
1 TTCAAATATTTTAATT
22451061 TTCAAA
1 TTCAAA
22451067 CAAAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (16 bp):
TTCAAATATTTTAATT
Found at i:22452905 original size:18 final size:18
Alignment explanation
Indices: 22452884--22452924 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
22452874 GGAAACTTCA
22452884 TTTCTGAACACATCTTTT
1 TTTCTGAACACATCTTTT
*
22452902 TTTCTTAACACATCTTTT
1 TTTCTGAACACATCTTTT
22452920 TTTCT
1 TTTCT
22452925 CTCTTTTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTCTGAACACATCTTTT
Found at i:22455036 original size:2 final size:2
Alignment explanation
Indices: 22455029--22455084 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
22455019 AAAGAAATAT
* *
22455029 AC AC AC AC AC AA AG AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
22455071 AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC
22455085 GTATGCATCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.52, C:0.46, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:22456519 original size:18 final size:19
Alignment explanation
Indices: 22456473--22456520 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
22456463 TTAAAAATAT
*
22456473 AATTTAAAAAAAAAATTAA
1 AATTTATAAAAAAAATTAA
*
22456492 AA-TTATTAAAAAACA-TAA
1 AATTTA-TAAAAAAAATTAA
22456510 AATTTATAAAA
1 AATTTATAAAA
22456521 TATATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AATTTATAAAAAAAATTAA
Found at i:22456570 original size:9 final size:9
Alignment explanation
Indices: 22456550--22456579 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
22456540 TATAATAATA
22456550 TTATATATTT
1 TTATA-ATTT
22456560 TTATAATTT
1 TTATAATTT
22456569 TTATAATTT
1 TTATAATTT
22456578 TT
1 TT
22456580 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTATAATTT
Found at i:22458699 original size:15 final size:15
Alignment explanation
Indices: 22458679--22458718 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
22458669 CTAGATTACT
22458679 TTCTAGGGTTGTCAA
1 TTCTAGGGTTGTCAA
*
22458694 TTCTAGGGTTGTTAA
1 TTCTAGGGTTGTCAA
*
22458709 TTTTAGGGTT
1 TTCTAGGGTT
22458719 TAAACACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.47
Consensus pattern (15 bp):
TTCTAGGGTTGTCAA
Found at i:22459577 original size:27 final size:29
Alignment explanation
Indices: 22459529--22459600 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 29
22459519 TGTCCTCAAG
* * *
22459529 CAAACAAAAAACAAAAACAAAA-ACAA-A
1 CAAACTAAAAATAAAAACAAAAGAAAACA
**
22459556 CAAACTAAAAATAAAATGAAAAGAAAACA
1 CAAACTAAAAATAAAAACAAAAGAAAACA
*
22459585 CACAACTAAAACTAAA
1 CA-AACTAAAAATAAA
22459601 GTACTTGAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 18 0.50
28 3 0.08
29 3 0.08
30 12 0.33
ACGTcount: A:0.74, C:0.17, G:0.03, T:0.07
Consensus pattern (29 bp):
CAAACTAAAAATAAAAACAAAAGAAAACA
Found at i:22469033 original size:13 final size:13
Alignment explanation
Indices: 22469017--22469043 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22469007 AAAAAAAAAG
22469017 ATGAAAAATGAAA
1 ATGAAAAATGAAA
22469030 ATGAAAAATGAAA
1 ATGAAAAATGAAA
22469043 A
1 A
22469044 AATGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:22469046 original size:8 final size:7
Alignment explanation
Indices: 22469012--22469061 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
22469002 TTGCAAAAAA
22469012 AAAAGATG
1 AAAA-ATG
22469020 AAAAATG
1 AAAAATG
22469027 -AAAATG
1 AAAAATG
22469033 AAAAATG
1 AAAAATG
22469040 AAAAAATG
1 -AAAAATG
22469048 AAAAA-G
1 AAAAATG
22469054 TAAAAATG
1 -AAAAATG
22469062 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 19 0.50
8 12 0.32
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:22470503 original size:44 final size:44
Alignment explanation
Indices: 22470437--22470842 Score: 279
Period size: 44 Copynumber: 8.8 Consensus size: 44
22470427 GGAAATGGTG
** *
22470437 AATCTTATCTCCCTGATG-TTACAGCAGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCTAGA
* *
22470481 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* **
22470525 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
*
22470567 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCTAGA
* * *
22470623 AATCTTACCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * * ** *
22470667 AATCCTATCTCTCTGAGATTA-TGTGGAGCAGATT-AAAATAAA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * * * *
22470709 GAATTTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAA
1 -AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCTAGA
*
22470764 AATCTTATCTCCCTGAGATTACA-TCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGT-GGAGCAGATTGAAGCTAGA
* *
22470808 AATCCTATCTCCTTGAGATTACAGTGGAGCAGATT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
22470843 AAAATAAAGG
Statistics
Matches: 288, Mismatches: 41, Indels: 66
0.73 0.10 0.17
Matches are distributed among these distances:
42 7 0.02
43 32 0.11
44 169 0.59
45 1 0.00
47 4 0.01
49 8 0.03
51 4 0.01
53 1 0.00
54 48 0.17
55 12 0.04
56 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
Found at i:22470640 original size:142 final size:142
Alignment explanation
Indices: 22470466--22470893 Score: 750
Period size: 142 Copynumber: 3.0 Consensus size: 142
22470456 TACAGCAGAG
22470466 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
22470531 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
22470596 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
22470608 CAGATTGAAGCTAGAAATCTTACCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * * *
22470673 ATCTCTCTGAGATTA-TGTGGAGCAGATTAAAATAAAGAATTTTATCTCTCTAAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
22470737 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
22470749 CAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACATCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
22470814 ATCTCCTTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
22470879 ATTAGATCGCAT
131 AGTAGATCGCAT
22470891 CAG
1 CAG
22470894 GTCTTATCTC
Statistics
Matches: 267, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 131 0.49
142 136 0.51
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:22471012 original size:50 final size:50
Alignment explanation
Indices: 22470958--22471409 Score: 322
Period size: 50 Copynumber: 9.0 Consensus size: 50
22470948 TCCCAGGCGA
* *
22470958 TGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
1 TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
** * * * * * * **
22471008 TGTAGTTAAAAAGATTAAAGCTACAAT-AGCGAATCGTACTT-CCCTAGCGG
1 TGTAGTGGAAAAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGA-CAT
22471058 TGTAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGTAGTGGAA-AAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
** * * * **
22471109 TGTAGTTAAAAAGATTAAAGCTACAAT-AGTGAATCTTAC-TCCCC-AGGT
1 TGTAGTGGAAAAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACAT
*
22471157 GGTGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 --TGTAGTGGAA-AAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* ** * * * * * * **
22471210 TATAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGG
1 TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC-GACAT
* * *
22471260 TGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
1 TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* ** * * *** * ** * **
22471310 TGCAGTTCAAAAGATTAAAGCTACAACAACGAATCTTACTTCCTAGGCGG
1 TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* * * *
22471360 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
1 TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
22471410 CACAATTAAG
Statistics
Matches: 300, Mismatches: 88, Indels: 28
0.72 0.21 0.07
Matches are distributed among these distances:
48 2 0.01
49 13 0.04
50 205 0.68
51 69 0.23
52 9 0.03
53 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
TGTAGTGGAAAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
Found at i:22471314 original size:151 final size:150
Alignment explanation
Indices: 22470940--22471396 Score: 351
Period size: 151 Copynumber: 3.0 Consensus size: 150
22470930 AGAATTACAG
22470940 ATCTTA-TCTCCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCG
1 ATCTTACTC-CCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCG
* * * * * * *
22471004 ACATTGTAGTTAAAAAGATTAAAGCTACAATAGCGAATCGTACTTCCCTAGCGGTGTAGTGGAAC
65 ACATTGCAG-TCAAAAGATTAAAGCCACAATAGCGAATCGTACTTCCCGAGCAGTATAGTGGAAA
* * *
22471069 AAGATTAAAGCCACATCGGTGA
129 AAGATTAAAGCCACAACAGCGA
* * ** * * * *
22471091 ATCTTGCTTCCCC-GAC-ATTGTAGTTAAAAAGATTAAAGCTACAAT-AGTGAATCTTAC-TCC-
1 ATCTTAC-TCCCCAGGCGA-TGTAGTGGAATAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCT
* ** * * * * * *
22471151 CCAGGTGGTGCAGTGGAACAAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGA-CATTATA
63 CGACAT--TGCAGT-CAA-AAGATTAAAGCCACAAT-AGCGAATCGTACTT-CCCGAGCAGTATA
* *
22471214 GT-TAAAAAGATTAAAGCTACAACAGCGA
122 GTGGAAAAAGATTAAAGCCACAACAGCGA
* *
22471242 ATCTTACTCCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGA
1 ATCTTACTCCCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGA
* * * * * * **
22471307 CATTGCAGTTCAAAAGATTAAAGCTACAACAACGAATCTTACTT-CCTAGGCGGTGCAGTGG-AA
66 CATTGCAG-TCAAAAGATTAAAGCCACAATAGCGAATCGTACTTCCCGA-GCAGTATAGTGGAAA
* *
22471370 CAGATTAAAGCCACAACGGCGA
129 AAGATTAAAGCCACAACAGCGA
22471392 ATCTT
1 ATCTT
22471397 GCTTCCCCGA
Statistics
Matches: 229, Mismatches: 57, Indels: 41
0.70 0.17 0.13
Matches are distributed among these distances:
148 3 0.01
149 3 0.01
150 66 0.29
151 110 0.48
152 38 0.17
153 9 0.04
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (150 bp):
ATCTTACTCCCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGA
CATTGCAGTCAAAAGATTAAAGCCACAATAGCGAATCGTACTTCCCGAGCAGTATAGTGGAAAAA
GATTAAAGCCACAACAGCGA
Found at i:22471425 original size:100 final size:100
Alignment explanation
Indices: 22470940--22471409 Score: 701
Period size: 101 Copynumber: 4.7 Consensus size: 100
22470930 AGAATTACAG
* * * *
22470940 ATCTTA-TCTCCCAGGCGATGTAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCG
1 ATCTTACTC-CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
*
22471004 ACATTGTAGTTAAAAAGATTAAAGCTACAATAGCGA
65 ACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
* * *
22471040 ATCGTACTTCCCTA-GCGGTGTAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 ATCTTAC-TCCCCAGGCGGTGCAGTGGAAC-AGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* *
22471104 GACATTGTAGTTAAAAAGATTAAAGCTACAATAGTGA
64 GACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
*
22471141 ATCTTACTCCCCAGGTGGTGCAGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 ATCTTACTCCCCAGGCGGTGCAGTGGAAC-AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
*
22471206 ACATTATAGTTAAAAAGATTAAAGCTACAACAGCGA
65 ACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
* *
22471242 ATCTTACTCCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGA
1 ATCTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
* * *
22471307 CATTGCAGTTCAAAAGATTAAAGCTACAACAACGA
66 CATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * *
22471342 ATCTTACTTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
1 ATCTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
22471407 CAT
66 CAT
22471410 CACAATTAAG
Statistics
Matches: 340, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
100 151 0.44
101 187 0.55
102 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
ATCTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
CATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
Found at i:22472158 original size:21 final size:21
Alignment explanation
Indices: 22472126--22472167 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
22472116 TTTGAGTTTA
22472126 TATCGATTTTTT-TTCTTTTTC
1 TATCGATTTTTTCTT-TTTTTC
22472147 TATCG-TTATTTTCTTTTTTTC
1 TATCGATT-TTTTCTTTTTTTC
22472168 CTGTTCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.11
21 15 0.79
22 2 0.11
ACGTcount: A:0.10, C:0.14, G:0.05, T:0.71
Consensus pattern (21 bp):
TATCGATTTTTTCTTTTTTTC
Found at i:22478163 original size:38 final size:38
Alignment explanation
Indices: 22478112--22478184 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
22478102 TATTGTTGCC
*
22478112 AAGAAGTGTCATTGTCACCCCAATCATCTAGCTTGTGT
1 AAGAAATGTCATTGTCACCCCAATCATCTAGCTTGTGT
*
22478150 AAGAAATGTCATTGTCACCCCTATCATCTAGCTTG
1 AAGAAATGTCATTGTCACCCCAATCATCTAGCTTG
22478185 CATTATTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (38 bp):
AAGAAATGTCATTGTCACCCCAATCATCTAGCTTGTGT
Found at i:22480540 original size:23 final size:23
Alignment explanation
Indices: 22480512--22480565 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
22480502 TTATCCACAT
22480512 TCTACTGGCAGTTCATCTGCAAA
1 TCTACTGGCAGTTCATCTGCAAA
* * *
22480535 TCTACTAGCGGTTCATCTGCATA
1 TCTACTGGCAGTTCATCTGCAAA
22480558 TCTACTGG
1 TCTACTGG
22480566 TGGTATATCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (23 bp):
TCTACTGGCAGTTCATCTGCAAA
Found at i:22490094 original size:26 final size:26
Alignment explanation
Indices: 22490037--22490094 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
22490027 TTTTATACTC
* *
22490037 TATTTTTAAGATATGTTTCCAAGTTA
1 TATTTTTAAGATATGTTTCAAAGATA
** * *
22490063 CGTTTTTAAGCTATGTTTTAAAGATA
1 TATTTTTAAGATATGTTTCAAAGATA
22490089 TATTTT
1 TATTTT
22490095 ACACGTGCTC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (26 bp):
TATTTTTAAGATATGTTTCAAAGATA
Found at i:22495421 original size:14 final size:14
Alignment explanation
Indices: 22495402--22495428 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22495392 GCTACCATGT
22495402 TACTATTATGTTGC
1 TACTATTATGTTGC
22495416 TACTATTATGTTG
1 TACTATTATGTTG
22495429 TTATTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:22495670 original size:12 final size:13
Alignment explanation
Indices: 22495649--22495683 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
22495639 ATATATATTT
22495649 AAAATT-ATAT-A
1 AAAATTAATATAA
22495660 AAAATTAATATAA
1 AAAATTAATATAA
22495673 AAAATTAATAT
1 AAAATTAATAT
22495684 GGGCAGGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 6 0.27
12 4 0.18
13 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATTAATATAA
Found at i:22497921 original size:25 final size:25
Alignment explanation
Indices: 22497893--22497944 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
22497883 TTCATTTATA
*
22497893 TTTCACCAGTCCCGTCTGTTTAAGT
1 TTTCACCAGTCCCGTATGTTTAAGT
22497918 TTTCACCAGTCCCGTATGTTTAAGT
1 TTTCACCAGTCCCGTATGTTTAAGT
22497943 TT
1 TT
22497945 ACTGATTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.42
Consensus pattern (25 bp):
TTTCACCAGTCCCGTATGTTTAAGT
Found at i:22498944 original size:120 final size:120
Alignment explanation
Indices: 22498810--22499326 Score: 892
Period size: 120 Copynumber: 4.3 Consensus size: 120
22498800 TTATTTAATA
* * *
22498810 TTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTTTAGTATCATATATTATGAT
1 TTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATCATATATTATGAT
*
22498874 TTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
65 TTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
* *
22498930 TTAATTATAATATATTTAACAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATT
1 TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
* * *
22498995 TTAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATTATATATT
66 TGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
22499050 TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
1 TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
* *
22499115 TGAGTAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATAAT
66 TGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
*
22499170 TTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATT
1 TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
*
22499235 TGAGTAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATT
66 TGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
22499290 TTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 TTAATTATAATATATTTAATAATAATTATG-TTAAAT
22499327 ATGATTAAAT
Statistics
Matches: 379, Mismatches: 16, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 371 0.98
121 8 0.02
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
TGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
Found at i:22499064 original size:16 final size:16
Alignment explanation
Indices: 22499043--22499089 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
22499033 TTATTAAATT
22499043 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
22499059 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
22499074 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
22499090 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:22499184 original size:18 final size:18
Alignment explanation
Indices: 22499143--22499176 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22499133 AATATTGATT
*
22499143 ATTA-ATAATTTTATTAA
1 ATTATATAATTTAATTAA
22499160 ATTATATAATTTAATTA
1 ATTATATAATTTAATTA
22499177 TAATATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATATAATTTAATTAA
Found at i:22499188 original size:15 final size:15
Alignment explanation
Indices: 22499154--22499208 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
22499144 TTAATAATTT
*
22499154 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22499168 -ATTTAATTATAATA
1 TATTTAATTATAATA
*
22499182 TATTTAATAATAAT-
1 TATTTAATTATAATA
22499196 TATGTTAAATTAT
1 TAT-TT-AATTAT
22499209 CTTTTATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 6 0.18
15 14 0.41
16 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22499304 original size:16 final size:16
Alignment explanation
Indices: 22499265--22499324 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
22499255 TATTGATTAT
*
22499265 TAATA-ATTTTATTAAA
1 TAATATATTTTAAT-AA
* *
22499281 TTATATATTTTAATTA
1 TAATATATTTTAATAA
22499297 TAATATA-TTTAATAA
1 TAATATATTTTAATAA
22499312 TAAT-TATGTTTAA
1 TAATATAT-TTTAA
22499325 ATATGATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 16 0.44
17 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATATTTTAATAA
Found at i:22499309 original size:15 final size:15
Alignment explanation
Indices: 22499274--22499315 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22499264 TTAATAATTT
*
22499274 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22499288 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22499302 TATTTAATAATAAT
1 TATTTAATTATAAT
22499316 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22501415 original size:147 final size:147
Alignment explanation
Indices: 22501073--22501427 Score: 392
Period size: 147 Copynumber: 2.4 Consensus size: 147
22501063 TACTTAACCG
* * * ** * *
22501073 ATGTTAATTATATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTATGC
1 ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTTACGC
* * * * *
22501138 ATCATTAATATAAAATTGTACATTATAATATCATAATTGTGCATAGTGTTACATATCATTAATAA
66 ATCATTAATATAAAATTGTAAATTACAATAACATAATTGTACATAGTGATACATATCATTAATAA
*
22501203 TCTACCTTAATTGAATA
131 TCTACATTAATTGAATA
* * * * * * *
22501220 ATGCTACTTGCATATATTATAATCTACCATAAAGTTAGTTCCATGTTTAGGGTTTAAGTTTACGT
1 ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTTACGC
* * *
22501285 ATCATTAATATTAAAA-TGTAAATTACAATAACATAGTTGTATATAG-GAATACATATCATTGAT
66 ATCATTAATA-TAAAATTGTAAATTACAATAACATAATTGTACATAGTG-ATACATATCATTAAT
*
22501348 AATCTATATTAATT-ATATA
129 AATCTACATTAATTGA-ATA
* * * * * *
22501367 ATGTTAGTTGTATATATTATAATTTACCATAAAATTAGTTTCGCGTTTAAGGTTTAGGTTT
1 ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTT
22501428 CATATTACTA
Statistics
Matches: 171, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
146 2 0.01
147 164 0.96
148 5 0.03
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (147 bp):
ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTTACGC
ATCATTAATATAAAATTGTAAATTACAATAACATAATTGTACATAGTGATACATATCATTAATAA
TCTACATTAATTGAATA
Found at i:22508527 original size:173 final size:173
Alignment explanation
Indices: 22508238--22508586 Score: 698
Period size: 173 Copynumber: 2.0 Consensus size: 173
22508228 CCTATCACAC
22508238 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
1 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
22508303 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
66 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
22508368 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
131 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
22508411 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
1 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
22508476 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
66 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
22508541 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
131 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
22508584 TAT
1 TAT
22508587 AAGGTTATTT
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 176 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (173 bp):
TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
Found at i:22510246 original size:19 final size:19
Alignment explanation
Indices: 22510222--22510269 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
22510212 TTGTTTAAGT
* *
22510222 TTAATATATTTTAATTTTA
1 TTAATATATTTCAATATTA
22510241 TTAATACTATTTCAATATTA
1 TTAATA-TATTTCAATATTA
22510261 -TAATATATT
1 TTAATATATT
22510270 ATTATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATATTTCAATATTA
Found at i:22510626 original size:29 final size:29
Alignment explanation
Indices: 22510594--22510673 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
22510584 ATTTTATCTC
22510594 TTTCAAATATTTTAACATTTTTTAATTTA
1 TTTCAAATATTTTAACATTTTTTAATTTA
* * * *
22510623 TTTCAACTTATTTCAATA-TTGTTAATTTA
1 TTTCAA-ATATTTTAACATTTTTTAATTTA
22510652 TTT-AAATTTATTTTAACATTTT
1 TTTCAAA--TATTTTAACATTTT
22510674 AATTCATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
28 2 0.05
29 27 0.69
30 10 0.26
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTCAAATATTTTAACATTTTTTAATTTA
Found at i:22516152 original size:17 final size:17
Alignment explanation
Indices: 22516098--22516339 Score: 184
Period size: 17 Copynumber: 14.4 Consensus size: 17
22516088 GACACAATTT
*
22516098 GCATAT-AACACAATTC
1 GCATATAAACACAACTC
* **
22516114 ACATATAAA-ACGGCTC
1 GCATATAAACACAACTC
*
22516130 GCATATAAACACAACTT
1 GCATATAAACACAACTC
22516147 GCATATAAACACAACTC
1 GCATATAAACACAACTC
* * *
22516164 GTATATAAACACATCTT
1 GCATATAAACACAACTC
*
22516181 GCATATAAACACATCTC
1 GCATATAAACACAACTC
* * *
22516198 ACATATAAACATAGCTC
1 GCATATAAACACAACTC
* * *
22516215 GTATATAAACATAGCTC
1 GCATATAAACACAACTC
**
22516232 GCATATAAACACAGTTC
1 GCATATAAACACAACTC
* * *
22516249 GAATATAAATACATCT-
1 GCATATAAACACAACTC
* * *
22516265 GACATATAAACATAGCTA
1 G-CATATAAACACAACTC
*
22516283 GCATATAAACACAGCTC
1 GCATATAAACACAACTC
* * * *
22516300 ACATATAAACATAGCTA
1 GCATATAAACACAACTC
* *
22516317 GCATATAAATATAACTC
1 GCATATAAACACAACTC
22516334 GCATAT
1 GCATAT
22516340 TGTCATAGTT
Statistics
Matches: 183, Mismatches: 39, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
16 18 0.10
17 164 0.90
18 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (17 bp):
GCATATAAACACAACTC
Found at i:22516175 original size:34 final size:34
Alignment explanation
Indices: 22516127--22516339 Score: 205
Period size: 34 Copynumber: 6.3 Consensus size: 34
22516117 TATAAAACGG
*
22516127 CTCGCATATAAACACAACTTGCATATAAACACAA
1 CTCGCATATAAACACAGCTTGCATATAAACACAA
* * *
22516161 CTCGTATATAAACACATCTTGCATATAAACACAT
1 CTCGCATATAAACACAGCTTGCATATAAACACAA
* * * * * *
22516195 CTCACATATAAACATAGCTCGTATATAAACATAG
1 CTCGCATATAAACACAGCTTGCATATAAACACAA
* * *
22516229 CTCGCATATAAACACAG-TTCGAATATAAATACAT
1 CTCGCATATAAACACAGCTT-GCATATAAACACAA
* * *
22516263 CT-GACATATAAACATAGCTAGCATATAAACACAG
1 CTCG-CATATAAACACAGCTTGCATATAAACACAA
* * * * *
22516297 CTCACATATAAACATAGCTAGCATATAAATATAA
1 CTCGCATATAAACACAGCTTGCATATAAACACAA
22516331 CTCGCATAT
1 CTCGCATAT
22516340 TGTCATAGTT
Statistics
Matches: 147, Mismatches: 28, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
33 2 0.01
34 144 0.98
35 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (34 bp):
CTCGCATATAAACACAGCTTGCATATAAACACAA
Found at i:22516322 original size:51 final size:51
Alignment explanation
Indices: 22516126--22516339 Score: 225
Period size: 51 Copynumber: 4.2 Consensus size: 51
22516116 ATATAAAACG
* ** * * *
22516126 GCTCGCATATAAACACAACTTGCATATAAACACAACTCGTATATAAACACA
1 GCTCGCATATAAACACAGCTCACATATAAACACAGCTCGCATATAAACATA
* * * * *
22516177 TCTTGCATATAAACACATCTCACATATAAACATAGCTCGTATATAAACATA
1 GCTCGCATATAAACACAGCTCACATATAAACACAGCTCGCATATAAACATA
* * *
22516228 GCTCGCATATAAACACAGTTCGA-ATATAAATACATCT-GACATATAAACATA
1 GCTCGCATATAAACACAGCTC-ACATATAAACACAGCTCG-CATATAAACATA
* * * *
22516279 GCTAGCATATAAACACAGCTCACATATAAACATAGCTAGCATATAAATATA
1 GCTCGCATATAAACACAGCTCACATATAAACACAGCTCGCATATAAACATA
*
22516330 ACTCGCATAT
1 GCTCGCATAT
22516340 TGTCATAGTT
Statistics
Matches: 135, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
50 2 0.01
51 131 0.97
52 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (51 bp):
GCTCGCATATAAACACAGCTCACATATAAACACAGCTCGCATATAAACATA
Found at i:22519663 original size:25 final size:25
Alignment explanation
Indices: 22519512--22519664 Score: 104
Period size: 25 Copynumber: 6.2 Consensus size: 25
22519502 AAGCTCTTAC
22519512 GAGCCA-ATTATCGAGAAGCTCAT-A
1 GAGCCATA-TATCGAGAAGCTCATGA
* * *
22519536 CGAGCCATA-AACGGGAAGCTCAAGA
1 -GAGCCATATATCGAGAAGCTCATGA
*
22519561 GAGCCAT-TAATCG-GAAAGCTCATGG
1 GAGCCATAT-ATCGAG-AAGCTCATGA
* * * *
22519586 GAGCCAAATATCGAGAAGATCGTAA
1 GAGCCATATATCGAGAAGCTCATGA
* *
22519611 GAGACATATATC-AGGAAGCTC-CGAA
1 GAGCCATATATCGA-GAAGCTCATG-A
*
22519636 GAGCCATATATCGAGATGCTCATGA
1 GAGCCATATATCGAGAAGCTCATGA
22519661 GAGC
1 GAGC
22519665 TAATAACGGG
Statistics
Matches: 98, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
24 20 0.20
25 73 0.74
26 5 0.05
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.17
Consensus pattern (25 bp):
GAGCCATATATCGAGAAGCTCATGA
Found at i:22526217 original size:23 final size:23
Alignment explanation
Indices: 22526186--22526236 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
22526176 ACCTACTTTC
*
22526186 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGGTA
22526209 TTACAGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGGTA
22526232 TTACA
1 TTACA
22526237 AAAGTCAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGGTA
Found at i:22526828 original size:36 final size:36
Alignment explanation
Indices: 22526781--22526852 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
22526771 GCAACACTAG
22526781 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
1 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
22526817 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
1 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
22526853 ACCAATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (36 bp):
GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
Found at i:22527675 original size:4 final size:4
Alignment explanation
Indices: 22527666--22527730 Score: 130
Period size: 4 Copynumber: 16.2 Consensus size: 4
22527656 TTGCCTCAAC
22527666 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
22527714 ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT A
22527731 ATACAAGTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:22534233 original size:31 final size:31
Alignment explanation
Indices: 22534198--22534259 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
22534188 TATACATTCC
22534198 CTATTTAGGGATTTGTTATGGAAAGATATTA
1 CTATTTAGGGATTTGTTATGGAAAGATATTA
22534229 CTATTTAGGGATTTGTTATGGAAAGATATTA
1 CTATTTAGGGATTTGTTATGGAAAGATATTA
22534260 TGTAATGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.23, T:0.42
Consensus pattern (31 bp):
CTATTTAGGGATTTGTTATGGAAAGATATTA
Found at i:22545662 original size:6 final size:6
Alignment explanation
Indices: 22545651--22545681 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
22545641 ACTTGTTTTT
*
22545651 GAAAAC GAAAAC GAAAAC GAAAAC AAAAAC G
1 GAAAAC GAAAAC GAAAAC GAAAAC GAAAAC G
22545682 GGAGTCGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.68, C:0.16, G:0.16, T:0.00
Consensus pattern (6 bp):
GAAAAC
Found at i:22548547 original size:40 final size:40
Alignment explanation
Indices: 22548445--22549149 Score: 386
Period size: 40 Copynumber: 16.8 Consensus size: 40
22548435 TGTGGTTTTG
* **
22548445 TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTGGTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCGA
* *
22548487 TTTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
* ***
22548527 TCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCGA
* * ** *
22548570 TCTGCTCTACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTGTTCCG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-G---TTG---CGA
* * *
22548616 TCTGCTCCACTACTGCTTAGGTAGATAAGACTTGATACGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
* ***
22548656 TCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTGTTTTTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TG-TTGCGA
* * ** * *
22548699 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTTCCG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-G----TTGCGA
* * ** * * *
22548743 TCTGTTCCACTGCAACTTCAGGGAGGTAAGACTAGATGCGA
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGTTGCGA
* * ** * * ***
22548784 TCTGCTCTACTGCAACTTTAGAGAGATATGATCTGTGTTTTTA
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGA-CT-TGTTGCGA
* **
22548827 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCGA
*
22548869 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
**
22548909 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCGA
*
22548951 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
***
22548991 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCGA
* * * * *
22549034 TCCGCTCCACT-GTAACTTCAGGGAGATAGGA-TTGGTTTTTTTTCCG-
1 TCTGCTCCACTACT-GCTT-AGGGAGATAAGACTT-G------TTGCGA
* *
22549080 TCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
*
22549120 TCTACTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
22549150 TCTGTGGTTT
Statistics
Matches: 520, Mismatches: 97, Indels: 94
0.73 0.14 0.13
Matches are distributed among these distances:
39 14 0.03
40 150 0.29
41 44 0.08
42 119 0.23
43 71 0.14
44 63 0.12
45 25 0.05
46 31 0.06
47 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
Found at i:22548644 original size:129 final size:127
Alignment explanation
Indices: 22548380--22549020 Score: 632
Period size: 129 Copynumber: 5.1 Consensus size: 127
22548370 CTGCAACTTC
* * * * ** * *
22548380 AGGGAGGTAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATATGATCTGTGG-TTTT
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTGGTTTTT
* * ** * * * *
22548444 GTCTGCTCCACTACTGCTT-AGAGAGATAAGATCT-GTGGTTTT--GTTTGCTCCACTACTGCTT
65 ATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGT-TTTTTCCGTCTGCTCCACTACTGCTT
* *
22548505 AGGGAGATAAGACTTGATGCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTA
*
22548570 TCTGCTCTACTGCAACTTCAGGGAGATAGGATTGGTTTTTGTTCCGTCTGCTCCACTACTGCTT
66 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGG-TTTT-TTCCGTCTGCTCCACTACTGCTT
* * * *
22548634 AGGTAGATAAGACTTGATACGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTGTTTTTTA
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTA
* * * * **
22548699 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCCGTCTGTTCCACTGCAACTT
66 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTCCGTCTGCTCCACTACTGCTT
* * * * ** * *
22548761 CAGGGAGGTAAGACTAGATGCGATCTGCTCTACTGCAACTTTAGAGAGATATGATCTGT-GTTTT
1 -AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGC-TTAGGGAGATAAGATCTGTGGTTTT
* * * *
22548825 TATCTGCTCCACTACTACTT-AGGGAGATAAGATCT-GTGGTTTT--GTCTGCTCCACTACTGCT
64 TATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGT-TTTTTCCGTCTGCTCCACTACTGCT
22548886 T
127 T
*
22548887 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGG-TTTTG
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTA
* ** * * *
22548951 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-G----ATGCGATCTGCTCCACTACTGCTT
66 TCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTTTTCCG-TCTGCTCCACTACTGCTT
22549009 AGGGAGATAAGA
1 AGGGAGATAAGA
22549021 TCTGTGGTTT
Statistics
Matches: 435, Mismatches: 65, Indels: 35
0.81 0.12 0.07
Matches are distributed among these distances:
119 1 0.00
121 1 0.00
122 30 0.07
124 69 0.16
125 85 0.20
126 29 0.07
127 36 0.08
128 57 0.13
129 127 0.29
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (127 bp):
AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTA
TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTTTTCCGTCTGCTCCACTACTGCTT
Found at i:22549109 original size:129 final size:129
Alignment explanation
Indices: 22548950--22549196 Score: 449
Period size: 129 Copynumber: 1.9 Consensus size: 129
22548940 CTGTGGTTTT
* *
22548950 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAG
* * *
22549015 ATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTTTCC
66 ATAAGATCTGTGGTTTTAATCCGCTACACTGCAACTTCAAGGAGATAGGATTGGTTTTTTTTCC
22549079 GTCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAG
22549144 ATAAGATCTGTGGTTTTAATCCGCTACACTGCAACTTCAAGGAGATAGGATTG
66 ATAAGATCTGTGGTTTTAATCCGCTACACTGCAACTTCAAGGAGATAGGATTG
22549197 ATTTCTTTCA
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 113 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (129 bp):
GTCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAG
ATAAGATCTGTGGTTTTAATCCGCTACACTGCAACTTCAAGGAGATAGGATTGGTTTTTTTTCC
Found at i:22549390 original size:50 final size:50
Alignment explanation
Indices: 22549212--22549964 Score: 346
Period size: 50 Copynumber: 15.1 Consensus size: 50
22549202 TTTCAAATTG
* * * * * * *
22549212 ACTGCAATGTCGGGGAA-CAAGATTTGCCATTGTAGCTTCAATCTGATCT
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * ** * *
22549261 ACGGC-ATCGCCAAGGAAGTAAGATTCGCCGTTGCGGCTTTAATCT-TTTA
1 ACTGCAAT-GCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* ** * * * *
22549310 ATTGCAATATCGGGGAAG-AAGATTCACCGTTGTAGCTTCAATCTGATCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
** *** * *
22549359 ACTGCACCGCCAGGGAAGTAAGATTCGCCGTTACGGCTTCAATCTTTTAA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* ** * * * * * * *
22549409 ATTGCAATATCAGGGGAGCAAGATTCGTCGTCGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * * * * * *
22549459 ACTGTACTGCCAGGGAAGTGAGATTCGCCGTTGTGGCTTCAATGTTTTAA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * ** * * * * * * *
22549509 ATTTCAATATCAGGGAAGCAAGATTCACCATCGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * * * * * *
22549559 ACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTTCAATCTTTTAA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* ** * * * * * *
22549609 ATTGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* ** * * * * * *
22549659 ACTGTACCGCTATGGAAGTAAGATTCACCGTTGCAGCTTCAATCTTTTTA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * * * *** * * ** *
22549709 ATTGCAATGTCGGGGAAGCAAGATTTATCGTTGTAGCTTTAATTTACTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* ** ** * * * * *
22549759 ACTGGACCGTTATGAAAGTAAGATTCGCCGTTGCAGCTTCAATCTTTTTA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * * * * *
22549809 ATTGCAATG-TAGGAGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGG-GAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * ** * *
22549859 ACTGCACTGCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
* * * * * * * * *
22549909 ATTGTAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGCTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
22549959 ACTGCA
1 ACTGCA
22549965 CTACTAGGGA
Statistics
Matches: 480, Mismatches: 217, Indels: 13
0.68 0.31 0.02
Matches are distributed among these distances:
48 24 0.05
49 36 0.08
50 418 0.87
51 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (50 bp):
ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCA
Found at i:22549471 original size:100 final size:100
Alignment explanation
Indices: 22549214--22549976 Score: 867
Period size: 100 Copynumber: 7.7 Consensus size: 100
22549204 TCAAATTGAC
* * ** * * * * * *
22549214 TGCAATGTC-GGGGAACAAGATTTGCCATTGTAGCTTCAATCTGATCTACGGCA-TCGCCAAGGA
1 TGCAATATCAGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACT-GCCAGGGA
*
22549277 AGTAAGATTCGCCGTTGCGGCTTTAATCTTTT-AAT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * *
22549312 TGCAATATC-GGGGAAG-AAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCACCGCCAGGGA
1 TGCAATATCAGGGG-AGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
*
22549375 AGTAAGATTCGCCGTTACGGCTTCAATCTTTTAAAT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
** * *
22549411 TGCAATATCAGGGGAGCAAGATTCGTCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
1 TGCAATATCAGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
22549476 GTGAGATTCGCCGTTGTGGCTTCAATGTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * *
22549511 TTCAATATCAGGGAAGCAAGATTCACCATCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
1 TGCAATATCAGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
22549576 GTGAGATTCACCGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * * *
22549611 TGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTACCGCTATGGAA
1 TGCAATATCAGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
22549676 GTAAGATTCACCGTTGCAGCTTCAATCTTTTTAAT
66 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * * * * ** * *
22549711 TGCAATGTC-GGGGAAGCAAGATTTATCGTTGTAGCTTTAATTTACTCCACTGGACCGTTATGAA
1 TGCAATATCAGGGG-AGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
* *
22549775 AGTAAGATTCGCCGTTGCAGCTTCAATCTTTTTAAT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * *
22549811 TGCAATGT-AGGAGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCATGGA
1 TGCAATATCAGG-GGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
22549875 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
65 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * * *
22549911 TGTAATGTC-GGGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGCTCCACTGCACTACTAGGGA
1 TGCAATATCAGGGG-AGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGA
22549975 AG
65 AG
22549977 GTAACTTCAT
Statistics
Matches: 587, Mismatches: 68, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
98 81 0.14
99 19 0.03
100 486 0.83
101 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (100 bp):
TGCAATATCAGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
Found at i:22549573 original size:200 final size:200
Alignment explanation
Indices: 22549269--22549965 Score: 959
Period size: 200 Copynumber: 3.5 Consensus size: 200
22549259 CTACGGCATC
* *
22549269 GCCAAGGAAGTAAGATTCGCCGTTGCGGCTTTAATCTTTT-AATTGCAATATCGGGGAAG-AAGA
1 GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGA
* * *
22549332 TTCACCGTTGTAGCTTCAATCTGATCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTACGGCT
66 TTCACCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCT
* *
22549397 TCAATCTTTTAAATTGCAATATCAGGGGAGCAAGATTCGTCGTCGTAGCTTTAATCTGCTCCACT
131 TCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACT
22549462 GTACT
196 GTACT
* * * * * *
22549467 GCCAGGGAAGTGAGATTCGCCGTTGTGGCTTCAATGTTTTAAATTTCAATATCAGGGAAGCAAGA
1 GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGA
* * * * * * *
22549532 TTCACCATCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCT
66 TTCACCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCT
*
22549597 TCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACT
131 TCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACT
*
22549662 GTACC
196 GTACT
* * * * *
22549667 GCTATGGAAGTAAGATTCACCGTTGCAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGA
1 GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGA
* * * * * ** * * *
22549732 TTTATCGTTGTAGCTTTAATTTACTCCACTGGACCGTTATGAAAGTAAGATTCGCCGTTGCAGCT
66 TTCACCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCT
* * *
22549797 TCAATCTTTTTAATTGCAATGT-AGGAGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCAC
131 TCAATCTTTTAAATTGCAATATCAGG-GAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCAC
*
22549861 TGCACT
195 TGTACT
* *
22549867 GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGTAATGTCGGGGAAGCAAGA
1 GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGA
* *
22549932 TTCGCTGTTGTAGCTTTAATCTGCTCCACTGCAC
66 TTCACCGTTGTAGCTTTAATCTGCTCCACTGCAC
22549966 TACTAGGGAA
Statistics
Matches: 430, Mismatches: 66, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
198 35 0.08
199 20 0.05
200 375 0.87
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (200 bp):
GCCATGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGA
TTCACCGTTGTAGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCT
TCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACT
GTACT
Found at i:22550306 original size:23 final size:24
Alignment explanation
Indices: 22550257--22550313 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
22550247 TGGATTGCCC
22550257 CCACTGTAATCTTCGAAGTTCAAT
1 CCACTGTAATCTTCGAAGTTCAAT
* *
22550281 CCACTGTAATCTT-TAAGTTCAGT
1 CCACTGTAATCTTCGAAGTTCAAT
22550304 CCACTGTAAT
1 CCACTGTAAT
22550314 TTTGGGACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 18 0.58
24 13 0.42
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (24 bp):
CCACTGTAATCTTCGAAGTTCAAT
Found at i:22551246 original size:18 final size:18
Alignment explanation
Indices: 22551205--22551257 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
22551195 CGTCTCCTTT
22551205 TTTTTTCGTTCTTC-TTTTC
1 TTTTTTC-TT-TTCTTTTTC
22551224 -TTTTTCTTTTCTTTTTC
1 TTTTTTCTTTTCTTTTTC
* *
22551241 TTTTTTGTTTCCTTTTT
1 TTTTTTCTTTTCTTTTT
22551258 TTCAAATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 3 0.10
17 7 0.23
18 20 0.67
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTTTCTTTTCTTTTTC
Found at i:22551251 original size:11 final size:11
Alignment explanation
Indices: 22551201--22551244 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
22551191 TTGGCGTCTC
22551201 CTTTTT-TTTT
1 CTTTTTCTTTT
*
22551211 CGTTCTTCTTTT
1 C-TTTTTCTTTT
22551223 CTTTTTCTTTT
1 CTTTTTCTTTT
22551234 CTTTTTCTTTT
1 CTTTTTCTTTT
22551245 TTGTTTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 1 0.03
11 24 0.80
12 5 0.17
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:22551251 original size:17 final size:18
Alignment explanation
Indices: 22551219--22551257 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
22551209 TTCGTTCTTC
22551219 TTTTCTTTTTCTTTT-CT
1 TTTTCTTTTTCTTTTCCT
22551236 TTTTCTTTTT-TGTTTCCT
1 TTTTCTTTTTCT-TTTCCT
22551254 TTTT
1 TTTT
22551258 TTCAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 13 0.65
18 6 0.30
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTCCT
Found at i:22554383 original size:19 final size:19
Alignment explanation
Indices: 22554359--22554404 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
22554349 CGTGAAAATC
*
22554359 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATG-AATG
22554378 TAATGCAAATGCATGAATG
1 TAATGCAAATGCATGAATG
22554397 -AATGCAAA
1 TAATGCAAA
22554405 AAGAGACGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 14 0.56
20 3 0.12
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (19 bp):
TAATGCAAATGCATGAATG
Found at i:22560890 original size:43 final size:44
Alignment explanation
Indices: 22560745--22560945 Score: 236
Period size: 43 Copynumber: 4.7 Consensus size: 44
22560735 TAACCGTTAC
* * ***
22560745 ACGGTGGAACCAGCACTTAGCAACCACC--TCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCACCTTTCACAATC-AAGGAT
* * * *
22560788 CCCGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAATGAT
1 -ACGGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAGGAT
22560831 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAGGAT
*
22560873 ACGGTGGAATCAGCACATAGCAACC-CCTTTCACAACCAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAGGAT
*
22560916 ACGGTGGAATCAGCACTTAGCAACCACCTT
1 ACGGTGGAATCAGCACATAGCAACCACCTT
22560946 ATAATTAGTG
Statistics
Matches: 141, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
40 2 0.01
41 21 0.15
42 17 0.12
43 66 0.47
44 34 0.24
45 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (44 bp):
ACGGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAGGAT
Found at i:22561118 original size:11 final size:11
Alignment explanation
Indices: 22561102--22561126 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22561092 AAATTTTCCA
22561102 ATTTATTCTAT
1 ATTTATTCTAT
22561113 ATTTATTCTAT
1 ATTTATTCTAT
22561124 ATT
1 ATT
22561127 CAATTATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTATTCTAT
Found at i:22570856 original size:25 final size:25
Alignment explanation
Indices: 22570828--22570876 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
22570818 TTAAAATAAT
22570828 TTGAGCTC-AAGTTTTAAAAAAAAAA
1 TTGAGCTCAAAG-TTTAAAAAAAAAA
*
22570853 TTGAGCTCAAAGTTTAATAAAAAA
1 TTGAGCTCAAAGTTTAAAAAAAAA
22570877 TTTAAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (25 bp):
TTGAGCTCAAAGTTTAAAAAAAAAA
Found at i:22581510 original size:28 final size:27
Alignment explanation
Indices: 22581447--22581598 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
22581437 ATATTAAGTC
* * * *
22581447 CGCACACTCAATGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
22581474 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
22581502 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
22581529 CGCACACTTAGTGCTACATAGTCTAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
22581557 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
22581584 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22581599 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 65 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:22581531 original size:55 final size:55
Alignment explanation
Indices: 22581447--22581598 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
22581437 ATATTAAGTC
* * * *
22581447 CGCACACTCAATGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
22581502 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCTAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
22581557 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
22581599 GCACAATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:22589679 original size:28 final size:27
Alignment explanation
Indices: 22589616--22589767 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
22589606 ATATTAAGTC
* * *
22589616 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
22589643 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
22589671 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
22589698 CGCACACTTAGTGCTACATAGTCTAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
22589726 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
22589753 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22589768 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:22589700 original size:55 final size:55
Alignment explanation
Indices: 22589616--22589767 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
22589606 ATATTAAGTC
* * *
22589616 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
22589671 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCTAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
22589726 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
22589768 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:22595020 original size:79 final size:79
Alignment explanation
Indices: 22594895--22595180 Score: 326
Period size: 79 Copynumber: 3.6 Consensus size: 79
22594885 GTTTATAAAG
* * * *
22594895 AGAAATCGATTGAACAATTCTGTTTTAGGATTTTATTCCTATCGTTCAACAAGATTTGTTCGATT
1 AGAAATCAATTGAACAATTCTGTTTCAAGATTTTATTCCTGTCGTTCAACAAGATTTGTTCGATT
*
22594960 TTCTGTTTCCAAAC
66 TTCTATTTCCAAAC
* * * * *
22594974 ATAAATCAATTGAATAATTTTGTTTCAAGATTTTATTCTTGCCGTTCAACAAGATTTGGTT-GAT
1 AGAAATCAATTGAACAATTCTGTTTCAAGATTTTATTCCTGTCGTTCAACAAGATTT-GTTCGAT
* *
22595038 TTT-TCTTTCCAAAT
65 TTTCTATTTCCAAAC
* * * * * * * *
22595052 AGAAA-CAAATTAAACAATTCTATTTTAGGATTTTATCCCTGTCATTCAACAAGATTTCTTCGAA
1 AGAAATC-AATTGAACAATTCTGTTTCAAGATTTTATTCCTGTCGTTCAACAAGATTTGTTCGAT
22595116 TTTCTATTTCCAAAC
65 TTTCTATTTCCAAAC
* * *
22595131 AGAAATCAATTGAACAATTTTGTTTCGAGATTCTATTCCTGTCGTTCAAC
1 AGAAATCAATTGAACAATTCTGTTTCAAGATTTTATTCCTGTCGTTCAAC
22595181 TGAATTTATT
Statistics
Matches: 167, Mismatches: 35, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
77 3 0.02
78 58 0.35
79 102 0.61
80 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (79 bp):
AGAAATCAATTGAACAATTCTGTTTCAAGATTTTATTCCTGTCGTTCAACAAGATTTGTTCGATT
TTCTATTTCCAAAC
Found at i:22596027 original size:38 final size:37
Alignment explanation
Indices: 22595971--22596065 Score: 118
Period size: 38 Copynumber: 2.5 Consensus size: 37
22595961 TTATTGATTG
* * *
22595971 CATGTTCAGCATGCCTACTATTACTATTGAACCGAATA
1 CATGTTAAGCATGTCTACTACTACTATTG-ACCGAATA
* * *
22596009 CATGTTAAGCATGTCTACTGCTACTATTGAGCTAATA
1 CATGTTAAGCATGTCTACTACTACTATTGACCGAATA
*
22596046 CATGTTAAGAATGTCTACTA
1 CATGTTAAGCATGTCTACTA
22596066 GTTTTACATG
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 24 0.49
38 25 0.51
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (37 bp):
CATGTTAAGCATGTCTACTACTACTATTGACCGAATA
Found at i:22601537 original size:38 final size:38
Alignment explanation
Indices: 22601468--22601558 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
22601458 TTGCATGCTC
* *
22601468 AACATGCCTACTGTTATTATTGAACAAAATACAAGTTA
1 AACATGTCTACTGTTATTATTGAACAAAATACAAGTAA
* * * ** *
22601506 AGCATGTCTACTGTTATTGTTGAGCTGAATACATGTAA
1 AACATGTCTACTGTTATTATTGAACAAAATACAAGTAA
*
22601544 AACATGTCTATTGTT
1 AACATGTCTACTGTT
22601559 CCTACATTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (38 bp):
AACATGTCTACTGTTATTATTGAACAAAATACAAGTAA
Found at i:22609923 original size:21 final size:19
Alignment explanation
Indices: 22609899--22609963 Score: 53
Period size: 21 Copynumber: 3.3 Consensus size: 19
22609889 AAGGAGAAAT
22609899 GAAAGAAGTAAAAAGACAAAA
1 GAAAGAAG-AAAAAGA-AAAA
*
22609920 GAAAG--GAAAAATAAAAA
1 GAAAGAAGAAAAAGAAAAA
* *
22609937 GAAAGAAAAGGAAAAGAAGAA
1 GAAAG--AAGAAAAAGAAAAA
22609958 GAAAGA
1 GAAAGA
22609964 GTACAGAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 9 0.25
18 6 0.17
19 2 0.06
21 19 0.53
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.03
Consensus pattern (19 bp):
GAAAGAAGAAAAAGAAAAA
Found at i:22609949 original size:22 final size:24
Alignment explanation
Indices: 22609893--22609951 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
22609883 ATCGAAAAGG
*
22609893 AGAAATGAAAGAAGTAAAAAGACAAA
1 AGAAAGGAAA-AA-TAAAAAGACAAA
*
22609919 AGAAAGGAAAAATAAAAAGA-AAG
1 AGAAAGGAAAAATAAAAAGACAAA
22609942 A-AAAGGAAAA
1 AGAAAGGAAAA
22609952 GAAGAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 9 0.29
23 3 0.10
24 8 0.26
25 2 0.06
26 9 0.29
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (24 bp):
AGAAAGGAAAAATAAAAAGACAAA
Found at i:22614167 original size:20 final size:19
Alignment explanation
Indices: 22614106--22614174 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
22614096 TTTTTAAAAA
22614106 TAAAATT-TTTAT-AATTTT
1 TAAAATTATTT-TCAATTTT
* *
22614124 TAAAAATATTTTGAATTTT
1 TAAAATTATTTTCAATTTT
*
22614143 AAAAATTATTTTCAATTTTT
1 TAAAATTATTTTCAA-TTTT
22614163 TAAAATTATTTT
1 TAAAATTATTTT
22614175 GATTATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
18 7 0.16
19 21 0.49
20 15 0.35
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (19 bp):
TAAAATTATTTTCAATTTT
Found at i:22614183 original size:20 final size:20
Alignment explanation
Indices: 22614121--22614183 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
22614111 TTTTTATAAT
*
22614121 TTTTAAAAATATTTTGA--A
1 TTTTAAAATTATTTTGATTA
*
22614139 TTTTAAAAATTATTTTCAATT-
1 TTTT-AAAATTATTTT-GATTA
22614160 TTTTAAAATTATTTTGATTA
1 TTTTAAAATTATTTTGATTA
22614180 TTTT
1 TTTT
22614184 GTAATTTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 4 0.11
19 13 0.35
20 16 0.43
21 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTAAAATTATTTTGATTA
Found at i:22619469 original size:25 final size:24
Alignment explanation
Indices: 22619423--22619470 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
22619413 ACCATTTGAA
**
22619423 AATTAAAAAATATAAATTAATAAT
1 AATTAAAAAATATAAAAAAATAAT
*
22619447 AATTAAAAATTTATAAAAAAATAA
1 AATTAAAAA-ATATAAAAAAATAA
22619471 AAAAGGGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AATTAAAAAATATAAAAAAATAAT
Found at i:22621249 original size:50 final size:50
Alignment explanation
Indices: 22621195--22621290 Score: 192
Period size: 50 Copynumber: 1.9 Consensus size: 50
22621185 CTAATTTAAA
22621195 ATTTGAATCATAATTTGTAAAAGATTATAATTAACATGCATATATAAATT
1 ATTTGAATCATAATTTGTAAAAGATTATAATTAACATGCATATATAAATT
22621245 ATTTGAATCATAATTTGTAAAAGATTATAATTAACATGCATATATA
1 ATTTGAATCATAATTTGTAAAAGATTATAATTAACATGCATATATA
22621291 CAACGAAGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (50 bp):
ATTTGAATCATAATTTGTAAAAGATTATAATTAACATGCATATATAAATT
Found at i:22627361 original size:22 final size:24
Alignment explanation
Indices: 22627336--22627390 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
22627326 TTTATAAATT
22627336 TAATTTAA-AATATATAAT-ACAA
1 TAATTTAAGAATATATAATAACAA
* * *
22627358 TAATATCAAGCATATTTAATAACAA
1 TAAT-TTAAGAATATATAATAACAA
22627383 TAATTTAA
1 TAATTTAA
22627391 TCATAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 4 0.15
23 3 0.12
24 11 0.42
25 8 0.31
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATTTAAGAATATATAATAACAA
Found at i:22628273 original size:17 final size:18
Alignment explanation
Indices: 22628238--22628276 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
22628228 GCTTTAATAA
22628238 TTTAAAAAATTATAGAATT
1 TTTAAAAAATTATA-AATT
22628257 TTTAAAAAATTAT-AATT
1 TTTAAAAAATTATAAATT
22628274 TTT
1 TTT
22628277 CTCATATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
19 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTAAAAAATTATAAATT
Found at i:22629972 original size:35 final size:35
Alignment explanation
Indices: 22629913--22630028 Score: 128
Period size: 35 Copynumber: 3.3 Consensus size: 35
22629903 AAAAAAAAGC
* *
22629913 TAGGATAGACTCGTCTAA-AGCAACCTTAAAGAGGT
1 TAGGATAGACCCGTCTAAGA-CAACCTTAAAAAGGT
* *
22629948 TAGGATAGACCCGTTTAAGACAACCGTAAAAAGGT
1 TAGGATAGACCCGTCTAAGACAACCTTAAAAAGGT
* * *
22629983 T-GAGATGGACCAGTCTAAGGCAACCTTAAAAAGGT
1 TAG-GATAGACCCGTCTAAGACAACCTTAAAAAGGT
*
22630018 TTGGATAGACC
1 TAGGATAGACC
22630029 TTGTTTGTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
34 1 0.01
35 65 0.96
36 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (35 bp):
TAGGATAGACCCGTCTAAGACAACCTTAAAAAGGT
Found at i:22636375 original size:37 final size:37
Alignment explanation
Indices: 22636325--22636398 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
22636315 GGTATAAGCC
22636325 CTAAAGCATGAGATCTATCACTCTGTTAGATTGAATT
1 CTAAAGCATGAGATCTATCACTCTGTTAGATTGAATT
*
22636362 CTAAAGCATGAGATCTGTCACTCTGTTAGATTGAATT
1 CTAAAGCATGAGATCTATCACTCTGTTAGATTGAATT
22636399 TGACGTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (37 bp):
CTAAAGCATGAGATCTATCACTCTGTTAGATTGAATT
Found at i:22639805 original size:15 final size:15
Alignment explanation
Indices: 22639785--22639815 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22639775 AAAAGGTGAA
*
22639785 TCCAATGGTGCCATG
1 TCCAATGATGCCATG
22639800 TCCAATGATGCCATG
1 TCCAATGATGCCATG
22639815 T
1 T
22639816 GATGTGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (15 bp):
TCCAATGATGCCATG
Found at i:22640118 original size:38 final size:38
Alignment explanation
Indices: 22640067--22640143 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
22640057 AGGAGATGTT
22640067 AGCTAAATTTATGTCGATGTTAGAAACTCGATTTCAAA
1 AGCTAAATTTATGTCGATGTTAGAAACTCGATTTCAAA
*
22640105 AGCTAAATTTATGTCGGTGTTAGAAACTCGATTTCAAA
1 AGCTAAATTTATGTCGATGTTAGAAACTCGATTTCAAA
22640143 A
1 A
22640144 CACTGAGACA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (38 bp):
AGCTAAATTTATGTCGATGTTAGAAACTCGATTTCAAA
Found at i:22643838 original size:20 final size:20
Alignment explanation
Indices: 22643813--22643851 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22643803 TTTGTTTTAT
*
22643813 TATTTTTTTCTTTA-TTAGTA
1 TATTTTATT-TTTAGTTAGTA
22643833 TATTTTATTTTTAGTTAGT
1 TATTTTATTTTTAGTTAGT
22643852 TGGTTAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (20 bp):
TATTTTATTTTTAGTTAGTA
Found at i:22645632 original size:14 final size:15
Alignment explanation
Indices: 22645613--22645642 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22645603 TAAGCATGAT
22645613 AAATTATT-TTTTAG
1 AAATTATTATTTTAG
22645627 AAATTATTATTTTAG
1 AAATTATTATTTTAG
22645642 A
1 A
22645643 TTGTCTCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
AAATTATTATTTTAG
Found at i:22654405 original size:5 final size:5
Alignment explanation
Indices: 22654397--22654429 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
22654387 TTAAGTATAA
22654397 ATATT ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATA
22654430 AAAGAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:22655420 original size:25 final size:25
Alignment explanation
Indices: 22655392--22655544 Score: 130
Period size: 22 Copynumber: 6.5 Consensus size: 25
22655382 TAGCGCGCTA
*
22655392 TCTGATTATTAGCACGTTGGTGCTC
1 TCTGATTATTAGCACGTTAGTGCTC
*
22655417 TCTGATTATTAGCACGTTGGTGCTC
1 TCTGATTATTAGCACGTTAGTGCTC
* *
22655442 TCTGATTACTAGCACGTCAGTGCTC
1 TCTGATTATTAGCACGTTAGTGCTC
* * *
22655467 TC-CA-T-TTAGCACATCT-GGGCTC
1 TCTGATTATTAGCACGT-TAGTGCTC
*
22655489 TCTG--TA-TAGCACTTTAGTGCTC
1 TCTGATTATTAGCACGTTAGTGCTC
*
22655511 TCTG--TA-TAGCACTTTAGTGCTC
1 TCTGATTATTAGCACGTTAGTGCTC
22655533 TCTG-TTCATTAG
1 TCTGATT-ATTAG
22655545 TGCATAACAA
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 53 0.48
23 2 0.02
24 2 0.02
25 52 0.47
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (25 bp):
TCTGATTATTAGCACGTTAGTGCTC
Found at i:22662559 original size:7 final size:7
Alignment explanation
Indices: 22662547--22662574 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
22662537 TCGTTAAAGC
22662547 GATGATG
1 GATGATG
22662554 GATGATG
1 GATGATG
22662561 GATGATG
1 GATGATG
22662568 GATGATG
1 GATGATG
22662575 AGGGATCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.43, T:0.29
Consensus pattern (7 bp):
GATGATG
Found at i:22668157 original size:15 final size:15
Alignment explanation
Indices: 22668133--22668162 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22668123 TCCATCCTAC
22668133 TTTCTACTATTTTTA
1 TTTCTACTATTTTTA
*
22668148 TTTCTCCTATTTTTA
1 TTTCTACTATTTTTA
22668163 AATTTTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTCTACTATTTTTA
Found at i:22683819 original size:14 final size:14
Alignment explanation
Indices: 22683782--22683832 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
22683772 TGGAAAATAT
*
22683782 AAATA-AAAATAAA
1 AAATATAAATTAAA
*
22683795 AAATAT--TTTAAA
1 AAATATAAATTAAA
22683807 AAATATAAATTAAA
1 AAATATAAATTAAA
22683821 AAATATATAATT
1 AAATATA-AATT
22683833 TTCTTAGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 10 0.32
13 5 0.16
14 12 0.39
15 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATATAAATTAAA
Found at i:22684560 original size:26 final size:26
Alignment explanation
Indices: 22684531--22684583 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22684521 GTGACAAAAT
* * * *
22684531 AAAAGTTAGGTACTATCTAGGTCCAA
1 AAAAATTAGGTACCAACTAGGTACAA
22684557 AAAAATTAGGTACCAACTAGGTACAA
1 AAAAATTAGGTACCAACTAGGTACAA
22684583 A
1 A
22684584 TGGACAAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (26 bp):
AAAAATTAGGTACCAACTAGGTACAA
Found at i:22684777 original size:3 final size:3
Alignment explanation
Indices: 22684771--22684853 Score: 166
Period size: 3 Copynumber: 27.7 Consensus size: 3
22684761 CATGGCATAA
22684771 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
22684819 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
22684854 ATACTAATAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:22685184 original size:12 final size:13
Alignment explanation
Indices: 22685156--22685190 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
22685146 TCACACTATT
*
22685156 TTCTTCATCTTTC
1 TTCTTCATCTGTC
22685169 TTCTTCA-CTGTC
1 TTCTTCATCTGTC
22685181 TTCTTCATCT
1 TTCTTCATCT
22685191 CCCATTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.09, C:0.31, G:0.03, T:0.57
Consensus pattern (13 bp):
TTCTTCATCTGTC
Found at i:22687566 original size:56 final size:56
Alignment explanation
Indices: 22687480--22687592 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
22687470 GAATTATAAG
* * *
22687480 TCAGAATGTGCTATAAATGTCTATATAATTTTTAGTTCTCACACCCTTAAACTTAA
1 TCAGAATGTGCTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAACTTAA
*
22687536 TCAGAATGTGTTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAACTTAA
1 TCAGAATGTGCTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAACTTAA
22687592 T
1 T
22687593 TCATTGTTCG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (56 bp):
TCAGAATGTGCTATAAATGTCTATATAATTTTGAGTTATCACACCCCTAAACTTAA
Found at i:22690862 original size:13 final size:13
Alignment explanation
Indices: 22690819--22690876 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
22690809 ATATATGTAA
22690819 ATGAAATGGTTAT
1 ATGAAATGGTTAT
* * *
22690832 ATGGAATGATTAC
1 ATGAAATGGTTAT
22690845 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
22690858 GTG-AATCGGTTAT
1 ATGAAAT-GGTTAT
*
22690871 GTGAAA
1 ATGAAA
22690877 ATATATGTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 3 0.08
13 31 0.86
14 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.34
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:22696730 original size:29 final size:29
Alignment explanation
Indices: 22696688--22696748 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
22696678 AGACAAAACC
22696688 TCATTTGCACTTTCAAAAATTCGTAATTT
1 TCATTTGCACTTTCAAAAATTCGTAATTT
22696717 TCATTTGCACTTTCAAAAATTCGTAATTT
1 TCATTTGCACTTTCAAAAATTCGTAATTT
22696746 TCA
1 TCA
22696749 AGTAAGTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (29 bp):
TCATTTGCACTTTCAAAAATTCGTAATTT
Found at i:22708536 original size:9 final size:10
Alignment explanation
Indices: 22708511--22708544 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
22708501 TCATATACTT
22708511 TATAATTAAA
1 TATAATTAAA
22708521 TATAATTAAA
1 TATAATTAAA
*
22708531 -ATAATTATA
1 TATAATTAAA
22708540 TATAA
1 TATAA
22708545 ACTATTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TATAATTAAA
Found at i:22718485 original size:51 final size:51
Alignment explanation
Indices: 22718388--22718491 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 51
22718378 ATATAATAAT
* * * * * *
22718388 AAATTTAGCCCTCAAATTTTACATATTCTATCGATTTAGTCATAATTTTAA
1 AAATTTAACCCTCAAAATTTACAAATGCTATCAATTTAGTCATAATTCTAA
* *
22718439 AAATTTAACCCTCAAAATTTACAAATGCTCTCAATTT-GATCCTAATTCTAA
1 AAATTTAACCCTCAAAATTTACAAATGCTATCAATTTAG-TCATAATTCTAA
22718490 AA
1 AA
22718492 TTTTTAAAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.02
51 43 0.98
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (51 bp):
AAATTTAACCCTCAAAATTTACAAATGCTATCAATTTAGTCATAATTCTAA
Found at i:22718632 original size:27 final size:28
Alignment explanation
Indices: 22718608--22718683 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
22718598 AATTTTTTTA
*
22718608 AAATATAAAAATTAAAATAAATTTTATAT
1 AAATAT-AAAATAAAAATAAATTTTATAT
* * *
22718637 TAATATTAAATAAAAATAAATTTAATACT
1 AAATATAAAATAAAAATAAATTTTATA-T
*
22718666 -AATATTAAATAAAAATAA
1 AAATATAAAATAAAAATAA
22718684 TGATTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 36 0.86
29 6 0.14
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATATAAAATAAAAATAAATTTTATAT
Found at i:22718700 original size:28 final size:28
Alignment explanation
Indices: 22718616--22718683 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
22718606 TAAAATATAA
* * *
22718616 AAATTAAAATAAATTTTATATTAATATT
1 AAATAAAAATAAATTTAATACTAATATT
22718644 AAATAAAAATAAATTTAATACTAATATT
1 AAATAAAAATAAATTTAATACTAATATT
22718672 AAATAAAAATAA
1 AAATAAAAATAA
22718684 TGATTTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATAAAAATAAATTTAATACTAATATT
Found at i:22722298 original size:31 final size:31
Alignment explanation
Indices: 22722263--22722326 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22722253 TTTCCTATAG
* *
22722263 TTAGGGTTTTCAATATTTTTAAGTTTAGGGT
1 TTAGGATTTTCAATATTTTTAAGTTTAAGGT
*
22722294 TTAGGATTTTTAATATTTTTAAGTTTAAGGT
1 TTAGGATTTTCAATATTTTTAAGTTTAAGGT
22722325 TT
1 TT
22722327 TTTAAAAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.02, G:0.19, T:0.55
Consensus pattern (31 bp):
TTAGGATTTTCAATATTTTTAAGTTTAAGGT
Found at i:22724307 original size:20 final size:20
Alignment explanation
Indices: 22724282--22724322 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22724272 CCCCTATAAG
*
22724282 TATGACCTATTTGATATGAA
1 TATGACATATTTGATATGAA
*
22724302 TATGACATATTTGATGTGAA
1 TATGACATATTTGATATGAA
22724322 T
1 T
22724323 GGCGAGCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (20 bp):
TATGACATATTTGATATGAA
Done.