Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 71 of 199
Found at i:21207517 original size:22 final size:20
Alignment explanation
Indices: 21207478--21207524 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
21207468 AATAAAGCTG
21207478 ATAATAATTAATATATATT-
1 ATAATAATTAATATATATTA
21207497 ATAATAGATATAATTATATATTA
1 ATAATA-AT-TAA-TATATATTA
21207520 ATAAT
1 ATAAT
21207525 TACCATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 3 0.12
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATAATTAATATATATTA
Found at i:21215358 original size:27 final size:27
Alignment explanation
Indices: 21215328--21215416 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
21215318 GGGGCATAAC
21215328 GGTAATTTTACCCTTCGAGGGTATTTT
1 GGTAATTTTACCCTTCGAGGGTATTTT
*
21215355 GGTAATTTTACCCTTCGAAGGTATTTT
1 GGTAATTTTACCCTTCGAGGGTATTTT
* *
21215382 GGTAATTTTACCCTTCGAGGGCATTTC
1 GGTAATTTTACCCTTCGAGGGTATTTT
*
21215409 AGTAATTT
1 GGTAATTT
21215417 AAAAATTTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
GGTAATTTTACCCTTCGAGGGTATTTT
Found at i:21215597 original size:32 final size:32
Alignment explanation
Indices: 21215555--21215865 Score: 220
Period size: 32 Copynumber: 9.7 Consensus size: 32
21215545 TTTAAAAATG
* * *
21215555 TGATCGGCACAAACCCATCAGTAGCAGTGATA
1 TGATCAGCACAAAGCCATCAGTAACAGTGATA
* * * *
21215587 TGATCAGCACACAA-CCATTAGTAACGGTAACA
1 TGATCAGCACA-AAGCCATCAGTAACAGTGATA
** * * *
21215619 TGATTGGCTCAAAGCCATCAGTAGCAATGATA
1 TGATCAGCACAAAGCCATCAGTAACAGTGATA
* *
21215651 TGATCGGCACAAAGCCATCAGTAACAGTGAAA
1 TGATCAGCACAAAGCCATCAGTAACAGTGATA
* *
21215683 TGAT-ACGCACACAGCCATCAGTAGCAGTGATA
1 TGATCA-GCACAAAGCCATCAGTAACAGTGATA
* *
21215715 TGACCAGCACACAA-CCATCAGTAACAGTGAAA
1 TGATCAGCACA-AAGCCATCAGTAACAGTGATA
* * * ** *
21215747 TGATC-GATACACAGCCATCGGTAATGGTAATA
1 TGATCAG-CACAAAGCCATCAGTAACAGTGATA
* * **
21215779 TGATCGGCACAAAGCCATTAGTAATGGT-ACTA
1 TGATCAGCACAAAGCCATCAGTAACAGTGA-TA
* * * *
21215811 CGATCGGCACGAAGCCATTAGTAACAGT-ACTA
1 TGATCAGCACAAAGCCATCAGTAACAGTGA-TA
* *
21215843 TGATCAGTACAAAGGCATCAGTA
1 TGATCAGCACAAAGCCATCAGTA
21215866 GTATCGCAGT
Statistics
Matches: 220, Mismatches: 50, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
31 5 0.02
32 210 0.95
33 5 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.20
Consensus pattern (32 bp):
TGATCAGCACAAAGCCATCAGTAACAGTGATA
Found at i:21215674 original size:64 final size:64
Alignment explanation
Indices: 21215555--21215750 Score: 261
Period size: 64 Copynumber: 3.1 Consensus size: 64
21215545 TTTAAAAATG
* * * *
21215555 TGATCGGCACAAACCCATCAGTAGCAGTGATATGATCAGCACACAACCATTAGTAACGGT-AACA
1 TGATAGGCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAACCATCAGTAACAGTGAA-A
* * * *
21215619 TGATTGGCTCAAAGCCATCAGTAGCAATGATATGATCGGCACA-AAGCCATCAGTAACAGTGAAA
1 TGATAGGCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAA-CCATCAGTAACAGTGAAA
* * *
21215683 TGATACGCACACAGCCATCAGTAGCAGTGATATGACCAGCACACAACCATCAGTAACAGTGAAA
1 TGATAGGCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAACCATCAGTAACAGTGAAA
21215747 TGAT
1 TGAT
21215751 CGATACACAG
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
63 2 0.02
64 109 0.95
65 4 0.03
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (64 bp):
TGATAGGCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAACCATCAGTAACAGTGAAA
Found at i:21215939 original size:27 final size:27
Alignment explanation
Indices: 21215909--21215968 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
21215899 AGCAAAGCTG
21215909 CCAGTAATAGT-ATATGTGGCGA-AGCCA
1 CCAGTAATAGTGAT-TGTGG-GAGAGCCA
*
21215936 CCAGTAATAGTGATTGTGGTAGAGCCA
1 CCAGTAATAGTGATTGTGGGAGAGCCA
21215963 CCAGTA
1 CCAGTA
21215969 CAGTACTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 1 0.03
27 27 0.90
28 2 0.07
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (27 bp):
CCAGTAATAGTGATTGTGGGAGAGCCA
Found at i:21216070 original size:24 final size:23
Alignment explanation
Indices: 21216043--21216095 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
21216033 TCAGAACCAC
21216043 TCATTCAAATCACAGACAAATCAG
1 TCATTCAAA-CACAGACAAATCAG
* *
21216067 TCATACCAAACACAGACAAGTCAG
1 TCAT-TCAAACACAGACAAATCAG
21216091 TCATT
1 TCATT
21216096 TAACCGTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.21
Consensus pattern (23 bp):
TCATTCAAACACAGACAAATCAG
Found at i:21216198 original size:27 final size:27
Alignment explanation
Indices: 21216159--21216338 Score: 168
Period size: 27 Copynumber: 6.7 Consensus size: 27
21216149 CGACCAGGCA
* *
21216159 ATTACGGTCATTTTACCCTACAAGGGT
1 ATTACAGTCATTTTACCCTACAAGGGC
* * *
21216186 ATTACACTTATTTTACCCTACAGGGGC
1 ATTACAGTCATTTTACCCTACAAGGGC
*
21216213 ATTAC-GATCATTTTACCCTACAGGGGC
1 ATTACAG-TCATTTTACCCTACAAGGGC
* *
21216240 ATTACAGTTATTTTACCCTACAAAGGC
1 ATTACAGTCATTTTACCCTACAAGGGC
* **
21216267 ATTACGGTCATTTTACCCTA-TGGGGAC
1 ATTACAGTCATTTTACCCTACAAGGG-C
* * * *
21216294 ATTTCAATCATTTTACCC-ATCGAGGGT
1 ATTACAGTCATTTTACCCTA-CAAGGGC
*
21216321 ATTTCAGTCATTTTACCC
1 ATTACAGTCATTTTACCC
21216339 ATCGAGAGTA
Statistics
Matches: 126, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 119 0.94
28 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (27 bp):
ATTACAGTCATTTTACCCTACAAGGGC
Found at i:21216218 original size:54 final size:54
Alignment explanation
Indices: 21216154--21216286 Score: 203
Period size: 54 Copynumber: 2.4 Consensus size: 54
21216144 TTTACCGACC
* *
21216154 AGGCAATTACGGTCATTTTACCCTACAAGGGTATTACACTTATTTTACCCTACAG
1 AGGC-ATTACGGTCATTTTACCCTACAAGGGCATTACACTTATTTTACCCTACAA
* * * *
21216209 GGGCATTACGATCATTTTACCCTACAGGGGCATTACAGTTATTTTACCCTACAA
1 AGGCATTACGGTCATTTTACCCTACAAGGGCATTACACTTATTTTACCCTACAA
21216263 AGGCATTACGGTCATTTTACCCTA
1 AGGCATTACGGTCATTTTACCCTA
21216287 TGGGGACATT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 67 0.96
55 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (54 bp):
AGGCATTACGGTCATTTTACCCTACAAGGGCATTACACTTATTTTACCCTACAA
Found at i:21216261 original size:81 final size:81
Alignment explanation
Indices: 21216159--21216338 Score: 204
Period size: 81 Copynumber: 2.2 Consensus size: 81
21216149 CGACCAGGCA
* * * * *
21216159 ATTACGGTCATTTTACCCTACAAGGGTATTACACTTATTTTACCCTACAGGGG-CATTACGATCA
1 ATTACAGTCATTTTACCCTACAAAGGCATTACACTCATTTTACCCTA-AGGGGACATTACAATCA
21216223 TTTTACCCTACAGGGGC
65 TTTTACCCTACAGGGGC
* ** * *
21216240 ATTACAGTTATTTTACCCTACAAAGGCATTACGGTCATTTTACCCTATGGGGACATTTCAATCAT
1 ATTACAGTCATTTTACCCTACAAAGGCATTACACTCATTTTACCCTAAGGGGACATTACAATCAT
*
21216305 TTTACCC-ATC-GAGGGT
66 TTTACCCTA-CAG-GGGC
*
21216321 ATTTCAGTCATTTTACCC
1 ATTACAGTCATTTTACCC
21216339 ATCGAGAGTA
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 6 0.07
81 77 0.93
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (81 bp):
ATTACAGTCATTTTACCCTACAAAGGCATTACACTCATTTTACCCTAAGGGGACATTACAATCAT
TTTACCCTACAGGGGC
Found at i:21216307 original size:54 final size:54
Alignment explanation
Indices: 21216154--21216311 Score: 201
Period size: 54 Copynumber: 2.9 Consensus size: 54
21216144 TTTACCGACC
* * * *
21216154 AGGCAATTACGGTCATTTTACCCTACAAGGGTATTACACTTATTTTACCCTACAG
1 AGGC-ATTACGGTCATTTTACCCTACAGGGGCATTACAATTATTTTACCCTACAA
* * *
21216209 GGGCATTACGATCATTTTACCCTACAGGGGCATTACAGTTATTTTACCCTACAA
1 AGGCATTACGGTCATTTTACCCTACAGGGGCATTACAATTATTTTACCCTACAA
* * *
21216263 AGGCATTACGGTCATTTTACCCTA-TGGGGACATTTCAATCATTTTACCC
1 AGGCATTACGGTCATTTTACCCTACAGGGG-CATTACAATTATTTTACCC
21216312 ATCGAGGGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 4 0.04
54 83 0.92
55 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (54 bp):
AGGCATTACGGTCATTTTACCCTACAGGGGCATTACAATTATTTTACCCTACAA
Found at i:21216339 original size:27 final size:27
Alignment explanation
Indices: 21216273--21216363 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
21216263 AGGCATTACG
*
21216273 GTCATTTTACCCTAT-G-GGGACATTTCA
1 GTCATTTTACCC-ATCGAGGG-TATTTCA
*
21216300 ATCATTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCA
*
21216327 GTCATTTTACCCATCGAGAGTATTTC-
1 GTCATTTTACCCATCGAGGGTATTTCA
21216353 GATCATTTTAC
1 G-TCATTTTAC
21216364 GTATTTCAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.05
27 51 0.89
28 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCATCGAGGGTATTTCA
Found at i:21216367 original size:18 final size:18
Alignment explanation
Indices: 21216346--21216381 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
21216336 CCCATCGAGA
21216346 GTATTTC-GATCATTTTAC
1 GTATTTCAG-TCATTTTAC
21216364 GTATTTCAGTCATTTTAC
1 GTATTTCAGTCATTTTAC
21216382 CTATCGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
GTATTTCAGTCATTTTAC
Found at i:21218666 original size:27 final size:27
Alignment explanation
Indices: 21218636--21218864 Score: 194
Period size: 27 Copynumber: 8.5 Consensus size: 27
21218626 GAGGCATAAT
21218636 GATAATTTTACCCTTCAAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTATTTC
* * ** * *
21218663 GATAATTTCACCATTTGAGGATATTTT
1 GATAATTTTACCCTTCAAGGGTATTTC
*
21218690 GATAATTTTACCGTTCAAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTATTTC
* * **
21218717 AATAATTTTACCTTTTGAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTATTTC
* *
21218744 AATAATTTTACCCTTCGAA-GGTATTTT
1 GATAATTTTACCCTTC-AAGGGTATTTC
* * *
21218771 GGTAATTTCACCCGTCTAA-GGTATTTC
1 GATAATTTTACCCTTC-AAGGGTATTTC
*
21218798 GATAATTTTACCCTTCGAGGGTATCTT-
1 GATAATTTTACCCTTCAAGGGTAT-TTC
* * * **
21218825 GGTAATTATACCTTTTGAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTATTTC
* *
21218852 AATAAATTTACCC
1 GATAATTTTACCC
21218865 CTTTTTCAAA
Statistics
Matches: 159, Mismatches: 39, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
26 3 0.02
27 153 0.96
28 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (27 bp):
GATAATTTTACCCTTCAAGGGTATTTC
Found at i:21218698 original size:54 final size:54
Alignment explanation
Indices: 21218636--21218864 Score: 250
Period size: 54 Copynumber: 4.2 Consensus size: 54
21218626 GAGGCATAAT
* * *
21218636 GATAATTTTACCCTTCAAGGGTATTTCGATAATTTCACCATTTGAGGATATTTT
1 GATAATTTTACCCTTCAAGGGTATTTCGATAATTTCACCTTTTGAGGGTATTTC
* * *
21218690 GATAATTTTACCGTTCAAGGGTATTTCAATAATTTTACCTTTTGAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTATTTCGATAATTTCACCTTTTGAGGGTATTTC
* * * * * *
21218744 AATAATTTTACCCTTCGAA-GGTATTTTGGTAATTTCACCCGTCT-AAGGTATTTC
1 GATAATTTTACCCTTC-AAGGGTATTTCGATAATTTCA-CCTTTTGAGGGTATTTC
* *
21218798 GATAATTTTACCCTTCGAGGGTATCTT-GGTAATTAT-ACCTTTTGAGGGTATTTC
1 GATAATTTTACCCTTCAAGGGTAT-TTCGATAATT-TCACCTTTTGAGGGTATTTC
* *
21218852 AATAAATTTACCC
1 GATAATTTTACCC
21218865 CTTTTTCAAA
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
53 5 0.03
54 133 0.90
55 9 0.06
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (54 bp):
GATAATTTTACCCTTCAAGGGTATTTCGATAATTTCACCTTTTGAGGGTATTTC
Found at i:21218831 original size:81 final size:81
Alignment explanation
Indices: 21218636--21218850 Score: 240
Period size: 81 Copynumber: 2.7 Consensus size: 81
21218626 GAGGCATAAT
* * *
21218636 GATAATTTTACCCTTCAAGGGTATTTCGATAATTTCACCATTTG-AGGATATTTTGATAATTTTA
1 GATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCATTTGAAGG-TATTTTGATAATTTCA
21218700 CCGTTCAAGGGTATTTC
65 CCGTTCAAGGGTATTTC
* * * * * * *
21218717 AATAATTTTACCTTTTGAGGGTATTTCAATAATTTTACCCTTCGAAGGTATTTTGGTAATTTCAC
1 GATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCATTTGAAGGTATTTTGATAATTTCA-
21218782 CCG-TCTAA-GGTATTTC
65 CCGTTC-AAGGGTATTTC
* * * *
21218798 GATAATTTTACCCTTCGAGGGTATCTT-GGTAATTATACCTTTTGAGGGTATTT
1 GATAATTTTACCCTTCGAGGGTAT-TTCGATAATTTTACCATTTGAAGGTATTT
21218851 CAATAAATTT
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
81 101 0.91
82 10 0.09
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (81 bp):
GATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCATTTGAAGGTATTTTGATAATTTCAC
CGTTCAAGGGTATTTC
Found at i:21222767 original size:43 final size:43
Alignment explanation
Indices: 21222715--21222800 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
21222705 ACCAATGTCT
21222715 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
1 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
21222758 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
1 GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
21222801 AATCCTGATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.47
Consensus pattern (43 bp):
GTAATTGATGATTGTACAATTTGACCTCTTTACTTCTTCTTCA
Found at i:21237573 original size:153 final size:153
Alignment explanation
Indices: 21237295--21237600 Score: 531
Period size: 153 Copynumber: 2.0 Consensus size: 153
21237285 TGACCATCTA
* *
21237295 TTTGTGGATGAAAAGCGGTACTAAAATTCAATTTAGAGCCCAAAGCTTCATGCAGCTTACCCTAA
1 TTTGTGGATGAAAAGCGGTACTAAAATTCAATTTAGAGCCCAAAGCTTCATGCAACTTACCCCAA
*
21237360 AATCTAGAAGTAAATCTCGAGTCACGATCTAATATGATAGACAATGGTACACCATGCAATCTCAC
66 AATCTAGAACTAAATCTCGAGTCACGATCTAATATGATAGACAATGGTACACCATGCAATCTCAC
* *
21237425 TATTTCAGCTACGTATAACTCTG
131 TATTTCAGCAACATATAACTCTG
21237448 TTTGTGGATGAAAAGCGGTACTAAAATTCAATTTAGAGCCCAAAGCTTCATGCAACTTACCCCAA
1 TTTGTGGATGAAAAGCGGTACTAAAATTCAATTTAGAGCCCAAAGCTTCATGCAACTTACCCCAA
* * * *
21237513 AATCTGGAACTAAATCTCGAGTCACGGTCTGATATGATCGACAATGGTACACCATGCAATCTCAC
66 AATCTAGAACTAAATCTCGAGTCACGATCTAATATGATAGACAATGGTACACCATGCAATCTCAC
21237578 TATTTCAGCAACATATAACTCTG
131 TATTTCAGCAACATATAACTCTG
21237601 CCAGTTTCTA
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
153 144 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (153 bp):
TTTGTGGATGAAAAGCGGTACTAAAATTCAATTTAGAGCCCAAAGCTTCATGCAACTTACCCCAA
AATCTAGAACTAAATCTCGAGTCACGATCTAATATGATAGACAATGGTACACCATGCAATCTCAC
TATTTCAGCAACATATAACTCTG
Found at i:21247553 original size:20 final size:20
Alignment explanation
Indices: 21247511--21247570 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
21247501 CAACCAGGGG
* * *
21247511 CAGGGACACTGAAGTGTATA
1 CAGGGGCACTGAAGTGCAAA
*
21247531 CAGGGGCACTGAAGTACAAA
1 CAGGGGCACTGAAGTGCAAA
* *
21247551 CAGAGGCACCGAAGTGCAAA
1 CAGGGGCACTGAAGTGCAAA
21247571 TCCCGGACAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.12
Consensus pattern (20 bp):
CAGGGGCACTGAAGTGCAAA
Found at i:21249506 original size:12 final size:12
Alignment explanation
Indices: 21249483--21249514 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
21249473 TAACTCGATG
21249483 ATATATCACGGTA
1 ATATA-CACGGTA
21249496 ATATACACGGTA
1 ATATACACGGTA
21249508 ATATACA
1 ATATACA
21249515 TACTTCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (12 bp):
ATATACACGGTA
Found at i:21262416 original size:23 final size:21
Alignment explanation
Indices: 21262377--21262418 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
21262367 TACTTAAGTA
21262377 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
21262398 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
21262419 ATATTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:21264979 original size:20 final size:19
Alignment explanation
Indices: 21264934--21264994 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 19
21264924 GGCACCATAG
*
21264934 ATGCATAACAGGGGCACTGAA
1 ATGCA-AACAGGGGCAC-AAA
*
21264955 GTGCAAACAGGGGCACAAA
1 ATGCAAACAGGGGCACAAA
* *
21264974 TATGCAAGCAAGGGCAACAAA
1 -ATGCAAACAGGGGC-ACAAA
21264995 GTGTATACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 22 0.67
21 9 0.27
ACGTcount: A:0.43, C:0.20, G:0.28, T:0.10
Consensus pattern (19 bp):
ATGCAAACAGGGGCACAAA
Found at i:21264993 original size:21 final size:20
Alignment explanation
Indices: 21264956--21264994 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21264946 GGCACTGAAG
*
21264956 TGCAAACAGGGGCACAAATA
1 TGCAAACAAGGGCACAAATA
*
21264976 TGCAAGCAAGGGCAACAAA
1 TGCAAACAAGGGC-ACAAA
21264995 GTGTATACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.21, G:0.26, T:0.08
Consensus pattern (20 bp):
TGCAAACAAGGGCACAAATA
Found at i:21271346 original size:21 final size:21
Alignment explanation
Indices: 21271320--21271359 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
21271310 ATTTTTATGT
21271320 TAGAAAGGTGTCATAAACTAC
1 TAGAAAGGTGTCATAAACTAC
21271341 TAGAAAGGTGTCATAAACT
1 TAGAAAGGTGTCATAAACT
21271360 TCTAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (21 bp):
TAGAAAGGTGTCATAAACTAC
Found at i:21274419 original size:22 final size:22
Alignment explanation
Indices: 21274393--21274439 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21274383 AAGTCACCAT
* *
21274393 ATAATTACGGATAAACGGTCAC
1 ATAATTACAGATAAACGGCCAC
* *
21274415 ATAATTGCAGATAAACTGCCAC
1 ATAATTACAGATAAACGGCCAC
21274437 ATA
1 ATA
21274440 TCTTCCTCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (22 bp):
ATAATTACAGATAAACGGCCAC
Found at i:21274710 original size:18 final size:19
Alignment explanation
Indices: 21274680--21274716 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21274670 TTTGCACAAA
*
21274680 CATCACAATCACATAATAT
1 CATCACAATCACACAATAT
21274699 CATCAC-ATCACACAATAT
1 CATCACAATCACACAATAT
21274717 AATTTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (19 bp):
CATCACAATCACACAATAT
Found at i:21290550 original size:17 final size:17
Alignment explanation
Indices: 21290528--21290580 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
21290518 AATTAACTAG
21290528 ATGCAAGATGATCCCTA
1 ATGCAAGATGATCCCTA
* * *
21290545 ATGCAA-TTTATCCTTA
1 ATGCAAGATGATCCCTA
* *
21290561 TTGCTAGATGATCCCTA
1 ATGCAAGATGATCCCTA
21290578 ATG
1 ATG
21290581 ATAAATTAGA
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (17 bp):
ATGCAAGATGATCCCTA
Found at i:21302721 original size:273 final size:271
Alignment explanation
Indices: 21302208--21302749 Score: 874
Period size: 273 Copynumber: 2.0 Consensus size: 271
21302198 TTATATTAAC
*
21302208 ACCCCATTTCAGAATTAATTTGTTTTTATAATATTAAAGTAAAAAGGCAAAGTTATTGTGTTGGT
1 ACCCCATTTCAGAATTAATTTGTTTTTATAATATTAAAGTAAAAAAGCAAAGTTATTGTGTTGGT
* *
21302273 GGTGATAGAAAACCATGTAAGTACGTAACCTTGGCCCTGGCCAGCAAGGATTTGCGCTGTCAACT
66 GGTGATAGAAAACCATGTAAGTACGTAACCTTGACCCTGGCCAGCAAGGATTTGCGCTATCAACT
* *
21302338 TTTGACTTGTTGCTCACCACAAACAAGTCAATCATTGATTTACCATATAAGCAGCCCTTGTTTGT
131 TTTGACTTGTTGCTCACCACAAAAAAGTCAATCATTGATTTACCATATAAGCAGCCCTTGTTCGT
21302403 GCAAGTAGTTGAAACTCGGTGGGAGCTTAGAACCTTTTCTTGCACGAGAAAATGGATTCTTCACT
196 GCAAGTAGTTGAAACTCGGTGGGAGCTTAGAACCTTTTCTTGCACGAGAAAATGGATTCTTCACT
21302468 CACTGATCAAA
261 CACTGATCAAA
* * * *
21302479 ACCCCATTTCAGAATT-TTTTTTTATATATATAATATTAAGGTAAAAAAGCGAAGTTATTGTGTT
1 ACCCCATTTCAGAATTAATTTGTT-T-T-TATAATATTAAAGTAAAAAAGCAAAGTTATTGTGTT
* * *
21302543 GGTGGTGATAGAAAACCATGTAAGTACGTGACCTTGACCCTGGCC-GCCAAGGATTTGTGCTATG
63 GGTGGTGATAGAAAACCATGTAAGTACGTAACCTTGACCCTGGCCAG-CAAGGATTTGCGCTATC
* * * *
21302607 AACTTTTGACTTGTTGCTGACCACAAAAAAGT-TATCATTGATTTACTATATAAGCAGCGCTTGT
127 AACTTTTGACTTGTTGCTCACCACAAAAAAGTCAATCATTGATTTACCATATAAGCAGCCCTTGT
21302671 TCGTGCAAAGTAGTTGAAACTCGGTGGGAGCTTAGAACCTTTTCTTGCACGAGAAAATGGATTCT
192 TCGTGC-AAGTAGTTGAAACTCGGTGGGAGCTTAGAACCTTTTCTTGCACGAGAAAATGGATTCT
21302736 TCACTCACTGATCA
256 TCACTCACTGATCA
21302750 GCAGCAAGAC
Statistics
Matches: 250, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
270 5 0.02
271 17 0.07
272 36 0.14
273 192 0.77
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (271 bp):
ACCCCATTTCAGAATTAATTTGTTTTTATAATATTAAAGTAAAAAAGCAAAGTTATTGTGTTGGT
GGTGATAGAAAACCATGTAAGTACGTAACCTTGACCCTGGCCAGCAAGGATTTGCGCTATCAACT
TTTGACTTGTTGCTCACCACAAAAAAGTCAATCATTGATTTACCATATAAGCAGCCCTTGTTCGT
GCAAGTAGTTGAAACTCGGTGGGAGCTTAGAACCTTTTCTTGCACGAGAAAATGGATTCTTCACT
CACTGATCAAA
Found at i:21307822 original size:102 final size:102
Alignment explanation
Indices: 21307658--21307847 Score: 319
Period size: 102 Copynumber: 1.9 Consensus size: 102
21307648 CCAATAATAA
* *
21307658 AATAACATAGGTTAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTGAATTTAGTACCT
1 AATAAAATAGGTCAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTGAATTTAGTACCT
**
21307723 GAACTTTAATTTGATCATTTTCATTCCCATACCCAAT
66 GAACTTTAATTAAATCATTTTCATTCCCATACCCAAT
*
21307760 AATAAAATAGGTCAATTTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTTG-ATTTAGTACC
1 AATAAAATAGGTCAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTG-TGAATTTAGTACC
21307824 TGAACTTTAATTAAATCATTTTCA
65 TGAACTTTAATTAAATCATTTTCA
21307848 GTCCTTTATT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 80 0.98
103 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (102 bp):
AATAAAATAGGTCAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTGAATTTAGTACCT
GAACTTTAATTAAATCATTTTCATTCCCATACCCAAT
Found at i:21310592 original size:138 final size:135
Alignment explanation
Indices: 21310324--21310738 Score: 638
Period size: 138 Copynumber: 3.0 Consensus size: 135
21310314 TAGAAAAAAG
* * *
21310324 AATTGTATTCTTTCTAAAAGAATATTAATTTTCATTTCTTTTATATATTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATAT-TTGACTGAAATTAATTAA
21310389 TATAA-TTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
65 TATAATTTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
21310453 TATATT
130 TATATT
* *
21310459 AATTATATTCTTTCCAAAAGAATATTAA-TTTCTATGACTTTTATAGTTTGACTGAAAGTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTC-ATGTCTTTTATA-TTTGACTGAAATTAATTA
* *
21310523 ATTTAATTGTTTGTATTAATAAATTCGATAAAATATATACAATTAATTTTTTGTATGAATCAAAT
64 ATATAATT-TTT-TATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
21310588 TCATATATT
127 TCATATATT
* *
21310597 AATTATATCCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATA-TTTGACTGAAATTAATTAA
*
21310662 TATAATTATTTTTATTAATAAATT-TAGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 TATAA-T-TTTTTATTAATAAATTCGA-TAAAATATATACAATTAATATTTTGTATGAATCAAAT
21310726 TCATATATT
127 TCATATATT
21310735 AATT
1 AATT
21310739 TTATCTATGT
Statistics
Matches: 256, Mismatches: 15, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
134 4 0.02
135 57 0.22
136 2 0.01
137 4 0.02
138 180 0.70
139 8 0.03
140 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (135 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTGACTGAAATTAATTAAT
ATAATTTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
ATATT
Found at i:21316636 original size:2 final size:2
Alignment explanation
Indices: 21316631--21316692 Score: 54
Period size: 2 Copynumber: 31.5 Consensus size: 2
21316621 TTTTATAATC
* * * * *
21316631 TA TA TA TA TA TA TG TA TA TA TC TA T- TT TT TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
21316672 TA TG TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
21316693 TTTTTCTAAC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (2 bp):
TA
Found at i:21316674 original size:37 final size:36
Alignment explanation
Indices: 21316604--21316697 Score: 104
Period size: 37 Copynumber: 2.7 Consensus size: 36
21316594 TTTTATAATT
*
21316604 TATATATGTA-AT-TAT-TTTTTTATAATCTATATA
1 TATATATGTATATATATATTTTTTATAATATATATA
* *
21316637 TATATATGTATATATCTATTTTTTATATATATGTATA
1 TATATATGTATATATATATTTTTTATA-ATATATATA
* * *
21316674 TGTATATATATTTATATATTTTTT
1 TATATATGTATATATATATTTTTT
21316698 CTAACGAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 10 0.20
34 2 0.04
35 2 0.04
36 9 0.18
37 27 0.54
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (36 bp):
TATATATGTATATATATATTTTTTATAATATATATA
Found at i:21328235 original size:15 final size:15
Alignment explanation
Indices: 21328215--21328244 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21328205 TCAGCCACTG
21328215 CTCTTGGAGAGGGAA
1 CTCTTGGAGAGGGAA
21328230 CTCTTGGAGAGGGAA
1 CTCTTGGAGAGGGAA
21328245 ATGACAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (15 bp):
CTCTTGGAGAGGGAA
Found at i:21330089 original size:21 final size:21
Alignment explanation
Indices: 21330064--21330111 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
21330054 GTGATGTGAG
21330064 AAAATGAAGAAAT-GAAAA-TGA
1 AAAATGAA-AAATGGAAAAGT-A
21330085 AAAATGAAAAATGGAAAAGTA
1 AAAATGAAAAATGGAAAAGTA
21330106 AAAATG
1 AAAATG
21330112 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.16
21 20 0.80
22 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAATGAAAAATGGAAAAGTA
Found at i:21330091 original size:13 final size:14
Alignment explanation
Indices: 21330063--21330094 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
21330053 AGTGATGTGA
21330063 GAAAATGAAGAAAT
1 GAAAATGAAGAAAT
21330077 GAAAATGAA-AAAT
1 GAAAATGAAGAAAT
21330090 GAAAA
1 GAAAA
21330095 ATGGAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (14 bp):
GAAAATGAAGAAAT
Found at i:21330101 original size:8 final size:7
Alignment explanation
Indices: 21330064--21330111 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
21330054 GTGATGTGAG
21330064 AAAATGA
1 AAAATGA
21330071 AGAAATG-
1 A-AAATGA
21330078 AAAATGA
1 AAAATGA
21330085 AAAATGA
1 AAAATGA
*
21330092 AAAATGG
1 AAAATGA
21330099 AAAA-GTA
1 AAAATG-A
21330106 AAAATG
1 AAAATG
21330112 GAGAGGCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
6 6 0.17
7 23 0.66
8 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (7 bp):
AAAATGA
Found at i:21331484 original size:44 final size:44
Alignment explanation
Indices: 21331352--21331571 Score: 151
Period size: 44 Copynumber: 5.0 Consensus size: 44
21331342 CTCAGCCTTA
* *
21331352 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTG
* * * * * * ** ** *
21331396 TCTTCCTGTATCAGCAGCGAAGTAGATCGAAGGTACCAG-CCTTG
1 TCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTG
21331440 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTG
* *** ** * * ** * *
21331484 TCTTCCTGTATTGGCAGTAAAGT-GGATCGAAGATACTAG-CCTTA
1 TCTCCCTG-AGCAGCAGTGGAGTAGG-TTGAAAATAGAAGATCTTG
21331528 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT-GACAGATCTTG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGA-AGATCTTG
21331572 CCTTCCTGTA
Statistics
Matches: 123, Mismatches: 46, Indels: 14
0.67 0.25 0.08
Matches are distributed among these distances:
43 38 0.31
44 46 0.37
45 39 0.32
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (44 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTG
Found at i:21331493 original size:88 final size:88
Alignment explanation
Indices: 21331344--21331581 Score: 361
Period size: 88 Copynumber: 2.7 Consensus size: 88
21331334 GGTGAGACCT
* *
21331344 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATCA
1 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTGTCTTCCTGTATCA
* *
21331409 GCAGCGAAGTAGATCGAAGGTAC
66 GCAGCAAAGTAGATCGAAGATAC
* **
21331432 CAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTGTCTTCCTGTATTG
1 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTGTCTTCCTGTATCA
* *
21331497 GCAGTAAAGTGGATCGAAGATAC
66 GCAGCAAAGTAGATCGAAGATAC
* *
21331520 TAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT-GACAGATCTTGCCTTCCTGTA
1 CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGA-AGATCTTGTCTTCCTGTA
21331582 CTAGTAGCAA
Statistics
Matches: 137, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
87 2 0.01
88 135 0.99
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (88 bp):
CAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGAAGATCTTGTCTTCCTGTATCA
GCAGCAAAGTAGATCGAAGATAC
Found at i:21331854 original size:50 final size:50
Alignment explanation
Indices: 21331800--21332078 Score: 226
Period size: 50 Copynumber: 5.6 Consensus size: 50
21331790 GGCATTACAA
*
21331800 TGGAATAGATTGAAGCCACAATGGTGAATCTTACTTCCCTGGCGATGCAG
1 TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGATGCAG
* * * ** * *
21331850 TGGAACAGATTGAAGCTACTACGGTGAATCTTGTTTCCC-GAC-ATTGCAA
1 TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGA-TGCAG
* *** * *
21331899 T-TAATAGATTGAAGCCACAACAACGAATCTTACTTCCCTAGCGATGTAG
1 TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGATGCAG
* * * * *
21331948 TGGAATAGATTGAAGCTACGACGGTGAATCTTATTTCCC-GAC-ATTGCAA
1 TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGA-TGCAG
** * * * * * *
21331997 TTAAAAAGATTGAGGCCACAATGGGGAGTCTTACTTCCCTGGCGATGTAG
1 TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGATGCAG
* * * *
21332047 TGGAACAGATTAAAGCTACGACGGTGAATCTT
1 TGGAATAGATTGAAGCCACAACGGTGAATCTT
21332079 GTTTCCTGAC
Statistics
Matches: 167, Mismatches: 55, Indels: 14
0.71 0.23 0.06
Matches are distributed among these distances:
48 30 0.18
49 45 0.27
50 91 0.54
51 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (50 bp):
TGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGATGCAG
Found at i:21331927 original size:98 final size:99
Alignment explanation
Indices: 21331803--21332104 Score: 453
Period size: 99 Copynumber: 3.1 Consensus size: 99
21331793 ATTACAATGG
* *
21331803 AATAGATTGAAGCCACAATGGTGAATCTTACTTCCCTGGCGATGCAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
*
21331868 CTACGGTGAATCTTGTTTCCCGACATTGCAATT-
66 CGACGGTGAATCTTGTTTCCCGACATTGCAATTA
*** * *
21331901 AATAGATTGAAGCCACAACAACGAATCTTACTTCCCTAGCGATGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
*
21331966 CGACGGTGAATCTTATTTCCCGACATTGCAATTA
66 CGACGGTGAATCTTGTTTCCCGACATTGCAATTA
* * * * *
21332000 AAAAGATTGAGGCCACAATGGGGAGTCTTACTTCCCTGGCGATGTAGTGGAACAGATTAAAGCTA
1 AATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
* *
21332065 CGACGGTGAATCTTGTTTCCTGACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCGACATTGCAATTA
21332099 AATAGA
1 AATAGA
21332105 AGAACCAATC
Statistics
Matches: 180, Mismatches: 23, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
98 89 0.49
99 91 0.51
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (99 bp):
AATAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTA
CGACGGTGAATCTTGTTTCCCGACATTGCAATTA
Found at i:21332256 original size:45 final size:44
Alignment explanation
Indices: 21332196--21332575 Score: 285
Period size: 45 Copynumber: 8.7 Consensus size: 44
21332186 GATCGCATCC
* * *
21332196 AGTCTTATC-CTCCTGAAGTTCCAGTGGGGCAGACTGAAGATGACA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGA-AACA
* * * * *
21332241 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAACA
* * * * * * *
21332286 A-TCCTATCT-CCTGAAGTTGTAG-AGAGCAGA-T--CGCATCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACA
* * * * *
21332324 AGTCTTATCCCCCTGAGGTTGCAGTGGGGTAGACTCAAGAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA-CA
* * *
21332369 AGTCTTATCTCCTTCAAGTTGCAGTGGAGCAGACTG-AGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAACA
* **
21332413 AGTCTTATC-CTCCT-AGAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGA-AGTTGCAGTGGAGCAGACTGAAGA-AACA
*
21332458 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA-CA
* * * *
21332503 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTGAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACA
* * ** *
21332547 AATCCTATCTCCCCAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
21332576 TGGATAAGAA
Statistics
Matches: 264, Mismatches: 54, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
38 3 0.01
39 7 0.03
40 11 0.04
41 6 0.02
42 8 0.03
43 14 0.05
44 67 0.25
45 145 0.55
46 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACA
Found at i:21332349 original size:128 final size:130
Alignment explanation
Indices: 21332111--21332401 Score: 356
Period size: 128 Copynumber: 2.3 Consensus size: 130
21332101 TAGAAGAACC
* ** ** * *
21332111 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATGGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGAATCCTATCTCTCTGAAGTTG
* * *
21332176 CAAAAGAGCAGATCGCATCCAGTCTTATCCTCCTGAAGTTCCAGTGGGGCAGACTGAAG-ATGAC
66 CAAAAGAGCAGATCGCATCCAGTCTTATCCCCCTGAAGTTCCAGTGGGGCAGACTCAAGAAAG-C
21332240 A
130 A
*
21332241 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT-AATCCTATCTC-CTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACAATGAATCCTATCTCTCTGAAGTT
* * * * * *
21332304 G-TAGAGAGCAGATCGCATCTAGTCTTATCCCCCTGAGGTTGCAGTGGGGTAGACTCAAGAAAGC
65 GCAAAAGAGCAGATCGCATCCAGTCTTATCCCCCTGAAGTTCCAGTGGGGCAGACTCAAGAAAGC
21332368 A
130 A
* * *
21332369 AGTCTTATCTCCTTCAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
21332402 CTGAGTAAGC
Statistics
Matches: 139, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
128 82 0.59
129 11 0.08
130 44 0.32
131 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (130 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAATGAATCCTATCTCTCTGAAGTTG
CAAAAGAGCAGATCGCATCCAGTCTTATCCCCCTGAAGTTCCAGTGGGGCAGACTCAAGAAAGCA
Found at i:21332422 original size:89 final size:90
Alignment explanation
Indices: 21332324--21332575 Score: 314
Period size: 89 Copynumber: 2.8 Consensus size: 90
21332314 GATCGCATCT
* *
21332324 AGTCTTATCCCCCTGAGGTTGCAGTGGGGTAGACTCAAGAAAGCAAGTCTTATCTCCTTCAAGTT
1 AGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTCAAGTT
* *
21332389 GCAGTGGAGCAGACT-GAGTAAGCA
66 GCAGTGGAGCAGACTCAAGAAAGCA
* * ** *
21332413 AGTCTTATCCTCCT-AGAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGT
1 AGTCTTATCCCCCTGAG-GTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTCAAGT
21332477 TGCAGTGGAGCAGACTCAAGAAAGCA
65 TGCAGTGGAGCAGACTCAAGAAAGCA
** * * * *
21332503 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTGAATAAA-CAAATCCTATCTCCC-CAAAGT
1 AGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTC-AAGT
*
21332566 TGTAGTGGAG
65 TGCAGTGGAG
21332576 TGGATAAGAA
Statistics
Matches: 140, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
88 2 0.01
89 96 0.69
90 41 0.29
91 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (90 bp):
AGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTCAAGTT
GCAGTGGAGCAGACTCAAGAAAGCA
Found at i:21332567 original size:134 final size:134
Alignment explanation
Indices: 21332324--21332573 Score: 340
Period size: 134 Copynumber: 1.9 Consensus size: 134
21332314 GATCGCATCT
* * * * * *
21332324 AGTCTTATCCCCCTGAGGTTGCAGTGGGGTAGACTCAAGAAAGCAAGTCTTATCTCCTTCAAGTT
1 AGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTCAAATT
* * * * * *
21332389 GCAGTGGAGCAGACTGAGTAAGCAAGTCTTATCCTCCTAGAGTTGCAGTGGGGCAGACTGAAGAT
66 GCAGTGGAGCAGACTGAATAAACAAATCCTATCCTCCCAAAGTTGCAGTGGGGCAGACTGAAGAT
21332454 GGCA
131 GGCA
* *
21332458 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAATT
1 AGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTCAAATT
* *
21332523 GCAGTGGGGCAGACTGAATAAACAAATCCTAT-CTCCCCAAAGTTGTAGTGG
66 GCAGTGGAGCAGACTGAATAAACAAATCCTATCCT-CCCAAAGTTGCAGTGG
21332574 AGTGGATAAG
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
133 2 0.02
134 97 0.98
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (134 bp):
AGTCTTATCCCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTCAAATT
GCAGTGGAGCAGACTGAATAAACAAATCCTATCCTCCCAAAGTTGCAGTGGGGCAGACTGAAGAT
GGCA
Found at i:21334239 original size:33 final size:34
Alignment explanation
Indices: 21334174--21334260 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 34
21334164 TTTTATAATT
* *
21334174 TATATATGTA-AT-TATTTTTTATAATCTATATA
1 TATATATATATATATATTTTTTATAATATATATA
* * *
21334206 TATATGTATATATCTATTTTTTAT-ATATGTATA
1 TATATATATATATATATTTTTTATAATATATATA
* *
21334239 TGTATATATATTTATATTTTTT
1 TATATATATATATATATTTTTT
21334261 TTCTAAAGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
32 8 0.18
33 27 0.60
34 10 0.22
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (34 bp):
TATATATATATATATATTTTTTATAATATATATA
Found at i:21338865 original size:44 final size:44
Alignment explanation
Indices: 21338817--21338924 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 44
21338807 AACTCATCGG
*
21338817 AATAATAACAGATACACGGTGGCCTGCACATAGTCCGT-CCTACC
1 AATAATAACAGATACACGGTGGCCTGAACATAGTCCGTGCC-ACC
*
21338861 AATAATAACAGATA-AGCGATGGCCTGAACATAGTCCGTGCCACC
1 AATAATAACAGATACA-CGGTGGCCTGAACATAGTCCGTGCCACC
*
21338905 AATAATAATAGATACACGGT
1 AATAATAACAGATACACGGT
21338925 AGATCAGCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
43 1 0.02
44 53 0.93
45 3 0.05
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (44 bp):
AATAATAACAGATACACGGTGGCCTGAACATAGTCCGTGCCACC
Found at i:21338963 original size:43 final size:42
Alignment explanation
Indices: 21338915--21339044 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 42
21338905 AATAATAATA
* *
21338915 GATACACGGTAGATCAGCACATAGCACCAGCTTTATAGTTAAT
1 GATACACGGTGGATCAGCACATAGCACCA-CTTTATAGTCAAT
* * ** *
21338958 GATACACGGTGGATCAGCACATAACACTACCCGTATAATCAAT
1 GATACACGGTGGATCAGCACATAGCACCA-CTTTATAGTCAAT
21339001 GATAC-CTGGTGGATCAGCACATAGCACCACTCTTATAGTCAAT
1 GATACAC-GGTGGATCAGCACATAGCACCACT-TTATAGTCAAT
21339044 G
1 G
21339045 TCATCTGGTA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.03
43 70 0.97
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
GATACACGGTGGATCAGCACATAGCACCACTTTATAGTCAAT
Found at i:21342858 original size:22 final size:20
Alignment explanation
Indices: 21342815--21342853 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21342805 CAATTTAAAA
21342815 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
21342835 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
21342854 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:21342915 original size:32 final size:34
Alignment explanation
Indices: 21342874--21342951 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 34
21342864 AACTTTTTTG
*
21342874 GAAAATATTTTCA-AGA-AATC-TGCCAAACAACA
1 GAAAATATTTTCATACAGAATCAT-CCAAACAACA
* *
21342906 GAAAATATTTT-ATACAGATTCATCCAAACACCA
1 GAAAATATTTTCATACAGAATCATCCAAACAACA
21342939 GAAAATATTTTCA
1 GAAAATATTTTCA
21342952 GTTAATCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
31 1 0.03
32 13 0.33
33 23 0.59
34 2 0.05
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (34 bp):
GAAAATATTTTCATACAGAATCATCCAAACAACA
Found at i:21345902 original size:45 final size:45
Alignment explanation
Indices: 21345838--21345924 Score: 140
Period size: 45 Copynumber: 1.9 Consensus size: 45
21345828 CAGATACTCG
*
21345838 GTGGATTCAGCACATAGCAACCACCTTAT-TAATCAATGATGTCCA
1 GTGGAATCAGCACATAGCAACCACCTT-TCTAATCAATGATGTCCA
*
21345883 GTGGAATCAGCACATAGCAACCACCTTTCTAATTAATGATGT
1 GTGGAATCAGCACATAGCAACCACCTTTCTAATCAATGATGT
21345925 TCTGTTCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTTCTAATCAATGATGTCCA
Found at i:21345993 original size:51 final size:52
Alignment explanation
Indices: 21345935--21346070 Score: 215
Period size: 50 Copynumber: 2.7 Consensus size: 52
21345925 TCTGTTCACA
21345935 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TCCAGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCAGTACACG
* * *
21345986 TAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCAGTACACG
*
21346036 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
21346071 CACTTTCCTT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
49 4 0.05
50 41 0.53
51 32 0.42
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (52 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCAGTACACG
Found at i:21347581 original size:35 final size:35
Alignment explanation
Indices: 21347531--21347639 Score: 146
Period size: 35 Copynumber: 3.1 Consensus size: 35
21347521 TGCCCTGCCT
21347531 GACCTATATATCATTTACATGGTGTCACCTTGAAG
1 GACCTATATATCATTTACATGGTGTCACCTTGAAG
* * * * *
21347566 GACCTATATACCATTTACACGGTGCCACCTTAAAT
1 GACCTATATATCATTTACATGGTGTCACCTTGAAG
* * *
21347601 GACCTATATATCGTTTACATGGTGTCCCCTCGAAG
1 GACCTATATATCATTTACATGGTGTCACCTTGAAG
21347636 GACC
1 GACC
21347640 AGTTGATAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 61 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (35 bp):
GACCTATATATCATTTACATGGTGTCACCTTGAAG
Found at i:21350284 original size:21 final size:21
Alignment explanation
Indices: 21350239--21350298 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
21350229 CACAATTGGC
* *
21350239 AATAAAAATTAAAAGAAA-AA
1 AATAAAAATTGAAACAAATAA
21350259 AATAAAAATTGAAACAAATAA
1 AATAAAAATTGAAACAAATAA
*
21350280 CATAAAAATTGAAACAAAT
1 AATAAAAATTGAAACAAAT
21350299 TTTCTATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (21 bp):
AATAAAAATTGAAACAAATAA
Found at i:21352933 original size:40 final size:40
Alignment explanation
Indices: 21352888--21353096 Score: 184
Period size: 40 Copynumber: 5.4 Consensus size: 40
21352878 ATTGTATGAA
*
21352888 TGCACATATGTGCCCCTATTTGTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAT
* *
21352928 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGA-
1 TGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAT
* * *
21352967 T----AT--GTACCCCTATTTGTACTTAGGTACCCCTGAT
1 TGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAT
* * *
21353001 TGCACATACGTTCCCCT-GTTGTACTT-GAGTGCCCCTGAT
1 TGCACATACGTGCCCCTATTTGTACTTCGA-TACCCCTGAT
* * * * ** *
21353040 TGCACATACATGCCCTTGTTTGTACTTCGGTACTTCTGAA
1 TGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAT
* *
21353080 CGCACTTACGTGCCCCT
1 TGCACATACGTGCCCCT
21353097 GATTATATTC
Statistics
Matches: 136, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
33 27 0.20
34 1 0.01
35 2 0.01
38 3 0.02
39 32 0.24
40 70 0.51
41 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.34
Consensus pattern (40 bp):
TGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAT
Found at i:21352963 original size:20 final size:20
Alignment explanation
Indices: 21352900--21352965 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
21352890 CACATATGTG
* *
21352900 CCCCTATTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGGTA
* * * *
21352920 CCCCTGATTGCACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
21352940 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
21352960 CCCCTG
1 CCCCTG
21352966 ATATGTACCC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.15, C:0.35, G:0.17, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:21352982 original size:73 final size:72
Alignment explanation
Indices: 21352893--21353039 Score: 224
Period size: 73 Copynumber: 2.0 Consensus size: 72
21352883 ATGAATGCAC
* *
21352893 ATATGTGCCCCTATTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCG-
1 ATATGTACCCCTATTTGTACTTAGATACCCCTGATTGCACATACGTGCCCCTG-TTGTACTT-GA
21352957 GTACCCCTG
64 GTACCCCTG
* *
21352966 ATATGTACCCCTATTTGTACTTAGGTACCCCTGATTGCACATACGTTCCCCTGTTGTACTTGAGT
1 ATATGTACCCCTATTTGTACTTAGATACCCCTGATTGCACATACGTGCCCCTGTTGTACTTGAGT
*
21353031 GCCCCTG
66 ACCCCTG
21353038 AT
1 AT
21353040 TGCACATACA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 1 0.01
72 18 0.26
73 49 0.72
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.35
Consensus pattern (72 bp):
ATATGTACCCCTATTTGTACTTAGATACCCCTGATTGCACATACGTGCCCCTGTTGTACTTGAGT
ACCCCTG
Found at i:21353016 original size:20 final size:20
Alignment explanation
Indices: 21352993--21353054 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
21352983 TACTTAGGTA
*
21352993 CCCCTGATTGCACATACGTT
1 CCCCTGATTGCACATACGTG
* *
21353013 CCCCTG-TTGTACTTGA-GTG
1 CCCCTGATTGCACAT-ACGTG
*
21353032 CCCCTGATTGCACATACATG
1 CCCCTGATTGCACATACGTG
21353052 CCC
1 CCC
21353055 TTGTTTGTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.18, C:0.35, G:0.18, T:0.29
Consensus pattern (20 bp):
CCCCTGATTGCACATACGTG
Found at i:21353036 original size:39 final size:40
Alignment explanation
Indices: 21352973--21353072 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 40
21352963 CTGATATGTA
* * *
21352973 CCCCTATTTGTACTTAGGTACCCCTGATTGCACATACGTT
1 CCCCTGTTTGTACTTAGGTACCCCTGATTGCACATACATG
*
21353013 CCCCTG-TTGTACTT-GAGTGCCCCTGATTGCACATACATG
1 CCCCTGTTTGTACTTAG-GTACCCCTGATTGCACATACATG
* *
21353052 CCCTTGTTTGTACTTCGGTAC
1 CCCCTGTTTGTACTTAGGTAC
21353073 TTCTGAACGC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
38 1 0.02
39 33 0.65
40 16 0.31
41 1 0.02
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.35
Consensus pattern (40 bp):
CCCCTGTTTGTACTTAGGTACCCCTGATTGCACATACATG
Found at i:21358667 original size:40 final size:39
Alignment explanation
Indices: 21358595--21360304 Score: 953
Period size: 40 Copynumber: 43.5 Consensus size: 39
21358585 ATTATATGAA
*
21358595 TGCACATACGTG-CCC-GTATTGTATTTCGGTACCCTAGAT
1 TGCACATACGTGCCCCTGT-TTGTACTTCGGTACCCT-GAT
* *
21358634 TGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTAAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* *
21358674 TGCACGTACGTGCCCCTG-TTGTCCTTCGGTACACCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTAC-CCTGAT
* *
21358713 TGCACATACGTGCCCCTG-TTGTACTTAGATACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* * *
21358752 TGCACATACGTGCCCTTGTTTGTACTTCAGTACACTTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTAC-CCTGAT
*
21358792 TACACATACGTGCCCCTG-TTGTACTTCGGTACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* *
21358831 TGCACATACGTGCCCCT-ATTGTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* * * **
21358870 TGTACATACATGCCCCTATTTGTACTTCAATACCCTTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCC-TGAT
* *
21358910 TGCACATACGTGCCCCTG-TTGTACTTTGGTGCCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGT-ACCCTGAT
* * * *
21358949 TACACATACGTGCCCCTATTTGTACTTCGATACCCCTAAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* *
21358989 TGTACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* *
21359029 TACACATACGTGCCCCTG-TTGTACTTCGGTGCCCTTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCC-TGAT
* **
21359068 TGCACATACTTGCCCCTGTTTGTACTTCCATACTCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTAC-CCTGAT
* *
21359108 TGCACATACGTGCCCCTATTTGTACTTCGATACCCTTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCC-TGAT
* * *
21359148 TGCACATACGTGCCCCTATTTGTACTTCGATACCTCTAAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACC-CTGAT
* ** **
21359188 TGCACATACGTGCCACTGTTTGTACTTTAGTA-TGTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTGAT
* * *
21359226 TACACATACGTGCCCCTATTT-TACCTCGGTACCCTTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCC-TGAT
*
21359265 TGCACATACGTG-CCCT-TATTGTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCCTGT-TTGTACTTCGGTA-CCCTGAT
* * *
21359304 TGCACATACATGCCCTTG-TTGTACTTCAGTACCCCTG-T
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* ** * * * * * *
21359342 TGTAC-TTTGATACCCCTGATTGCACATAC-ATGCCCTTG-T
1 TGCACATACG-TGCCCCTGTTTGTAC-TTCGGTACCC-TGAT
* * ** * * * *
21359381 T-CTTAC-TTCGGTACCGTTGATTGCACATAC-GTGCCCCT--T
1 TGC--ACATAC-GTGCCCCTGTTTGTAC-TTCGGT-ACCCTGAT
* * * * * * *
21359420 TGTAC-TTCGATGCCCCTGATTGCACATAC-GTGCCCCTGTT
1 TGCACATACG-TGCCCCTGTTTGTAC-TTCGGT-ACCCTGAT
* * * * * * * * * *
21359460 TGTACTTCCATACTCCTGATTGCACATAC-GTGCCCCT-AT
1 TGCACATACGTGCCCCTGTTTGTAC-TTCGGT-ACCCTGAT
* * * * * * * *
21359499 TGTACAT-CGGTACCTCTGATTGCACATAC-GTGCCCCTGTT
1 TGCACATAC-GTGCCCCTGTTTGTAC-TTCGGT-ACCCTGAT
* ** * * * * * *
21359539 TGTAC-TTTGATACCCCTGATTGCACATAC-GTGCCCCTGTT
1 TGCACATACG-TGCCCCTGTTTGTAC-TTCGGT-ACCCTGAT
* * * * * * *
21359579 TGTAC-TTCGGTACCCCTGATTGCACATAC-GTGCCCTTG-T
1 TGCACATAC-GTGCCCCTGTTTGTAC-TTCGGTACCC-TGAT
* * * * * * * * *
21359618 TGTAC-TTCGATACCCCTGATTGCACATAC-ATGCCTTTG-T
1 TGCACATACG-TGCCCCTGTTTGTAC-TTCGGTACC-CTGAT
* * * * * *
21359657 TGTAC-TTCAGTACCCCT-ATTGTACTTTGATACCCTTGAT
1 TGCACATAC-GTGCCCCTGTTTGTACTTCGGTACCC-TGAT
* *
21359696 TGCACATACATGCCCTTGTTCT-TACTTCGGTACCCTTGAT
1 TGCACATACGTGCCCCTGTT-TGTACTTCGGTACCC-TGAT
* *
21359736 TGCACATACGTGCCCCTG-TTGTACTTCGATGCCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGT-ACCCTGAT
* **
21359775 TGCACATACGTACCCCTGTTTGTACTTCCATACTCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTAC-CCTGAT
* *
21359815 TGCACATACATGCCCCT-ATTGTACTTCGGTACCCTTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCC-TGAT
*
21359854 TGCACATACGTGCCCCTGTTTGTACTTCGATACCCTTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCC-TGAT
* * * * **
21359894 TGCACATGCGTGGCACTATTTGTACTTTAGTACCCGTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCC-TGAT
** * *
21359934 AACACATACGTGGCCCT-ATTGTACTTCGGTACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* * *
21359973 TGCACATACTTGCCCTTG-TTGTACTTCGATACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* * *
21360012 TGCACATACATG-CCATG-TTGTACTTCAGTACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* * * * *
21360050 TACACATACATGCCCCTATTT-TACTTTGATACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* * *
21360089 TGCACATACATGCCCTTGTTCT-TACTTCGATACCCCTGAT
1 TGCACATACGTGCCCCTGTT-TGTACTTCGGTA-CCCTGAT
* * *
21360129 TGCACATACGTGCCACT-ATTGTACTTTGGTACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* * ** * *
21360168 TGCACGTATGTGCCCCTGTTTGTACTTCCATACTGCTAAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTAC-CCTGAT
* * *
21360208 TGCACATACGTGTCCCT-ATTGTACTTTGGTACCCCTGAT
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTGAT
* * *
21360247 TGCACATACGTACCCCTGTTTGTACTACGGTACTCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTAC-CCTGAT
* *
21360287 TGCACTTACATGCCCCTG
1 TGCACATACGTGCCCCTG
21360305 ATTATATTCA
Statistics
Matches: 1387, Mismatches: 213, Indels: 141
0.80 0.12 0.08
Matches are distributed among these distances:
37 11 0.01
38 126 0.09
39 594 0.43
40 639 0.46
41 17 0.01
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (39 bp):
TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTGAT
Found at i:21358685 original size:79 final size:78
Alignment explanation
Indices: 21358595--21360304 Score: 973
Period size: 79 Copynumber: 21.7 Consensus size: 78
21358585 ATTATATGAA
* * *
21358595 TGCACATACGTGCCCGTATTGTATTTCGGTACCCTAGATTGCACATATGTGCCCCTGTTTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGGTACCCT-GATTGCACATACGTGCCCCTGTTTGTACT
* *
21358660 TCGGTACCCCTAAT
65 TCGATACCCCTGAT
* * *
21358674 TGCACGTACGTGCCCCTGTTGTCCTTCGGTACACCTGATTGCACATACGTGCCCCTG-TTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGGTAC-CCTGATTGCACATACGTGCCCCTGTTTGTACT
*
21358738 TAGATACCCCTGAT
65 TCGATACCCCTGAT
* * * * *
21358752 TGCACATACGTGCCCTTGTTTGTACTTCAGTACACTTGATTACACATACGTGCCCCTG-TTGTAC
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTAC-CCTGATTGCACATACGTGCCCCTGTTTGTAC
*
21358816 TTCGGTACCCCTGAT
64 TTCGATACCCCTGAT
* * * *
21358831 TGCACATACGTGCCCCTATTGTACTTCGATACCCCTGATTGTACATACATGCCCCTATTTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTGTTTGTACT
* *
21358896 TCAATACCCTTGAT
65 TCGATACCCCTGAT
* * * * *
21358910 TGCACATACGTGCCCCTGTTGTACTTTGGTGCCCCTGATTACACATACGTGCCCCTATTTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGGT-ACCCTGATTGCACATACGTGCCCCTGTTTGTACT
*
21358975 TCGATACCCCTAAT
65 TCGATACCCCTGAT
* * * *
21358989 TGTACATACGTGCCCCTGTTTGTACTTCAGTACCCCTGATTACACATACGTGCCCCTG-TTGTAC
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTGTTTGTAC
* * *
21359053 TTCGGTGCCCTTGAT
64 TTCGATACCCCTGAT
* * ** *
21359068 TGCACATACTTGCCCCTGTTTGTACTTCCATACTCCTGATTGCACATACGTGCCCCTATTTGTAC
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTAC-CCTGATTGCACATACGTGCCCCTGTTTGTAC
*
21359133 TTCGATACCCTTGAT
64 TTCGATACCCCTGAT
* * *
21359148 TGCACATACGTGCCCCTATTTGTACTTCGATACCTCTAATTGCACATACGTGCCACTGTTTGTAC
1 TGCACATACGTGCCCCTA-TTGTACTTCGGTACC-CTGATTGCACATACGTGCCCCTGTTTGTAC
* **
21359213 TT-TAGTA--TGTGAT
64 TTCGA-TACCCCTGAT
* * *
21359226 TACACATACGTGCCCCTATTTTACCTCGGTACCCTTGATTGCACATACGTG-CCCT-TATTGTAC
1 TGCACATACGTGCCCCTATTGTACTTCGGTACCC-TGATTGCACATACGTGCCCCTGT-TTGTAC
21359289 TTCGATACCCCTGAT
64 TTCGATACCCCTGAT
* * * * * ** * * *
21359304 TGCACATACATGCCCTTGTTGTACTTCAGTACCCCTG-TTGTAC-TTTGATACCCCTGATTGCAC
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGATTGCACATACG-TGCCCCTGTTTGTAC
* * *
21359367 ATAC-ATGCCCTTG-T
64 -TTCGATACCCCTGAT
* * ** * * * * * *
21359381 T-CTTAC-TTCGGTACCGTTGATTGCACATAC-GTGCCCCT--TTGTAC-TTCGATGCCCCTGAT
1 TGC--ACATAC-GTGCCCCT-ATTGTAC-TTCGGT-ACCCTGATTGCACATACG-TGCCCCTGTT
* * * *
21359440 TGCACATACG-TGCCCCTGTT
59 TGTAC-TTCGATACCCCTGAT
* * * * * * * * * * * * * *
21359460 TGTACTTCCATACTCCTGATTGCACATAC-GTGCCCCT-ATTGTACAT-CGGTACCTCTGATTGC
1 TGCACATACGTGCCCCT-ATTGTAC-TTCGGT-ACCCTGATTGCACATAC-GTGCCCCTGTTTGT
* * *
21359522 ACATACG-TGCCCCTGTT
62 AC-TTCGATACCCCTGAT
* ** * * * * * * * * *
21359539 TGTAC-TTTGATACCCCTGATTGCACATAC-GTGCCCCTGTTTGTAC-TTCGGTACCCCTGATTG
1 TGCACATACG-TGCCCCT-ATTGTAC-TTCGGT-ACCCTGATTGCACATAC-GTGCCCCTGTTTG
* * * *
21359601 CACATACG-TGCCCTTG-T
61 TAC-TTCGATACCCCTGAT
* * * * * * * * * * * *
21359618 TGTAC-TTCGATACCCCTGATTGCACATAC-ATGCCTTTG-TTGTAC-TTCAGTACCCCT-ATTG
1 TGCACATACG-TGCCCCT-ATTGTAC-TTCGGTACC-CTGATTGCACATAC-GTGCCCCTGTTTG
* *
21359678 TACTTTGATACCCTTGAT
61 TACTTCGATACCCCTGAT
* * * *
21359696 TGCACATACATGCCCTTGTTCTTACTTCGGTACCCTTGATTGCACATACGTGCCCCTG-TTGTAC
1 TGCACATACGTGCCCCTATT-GTACTTCGGTACCC-TGATTGCACATACGTGCCCCTGTTTGTAC
*
21359760 TTCGATGCCCCTGAT
64 TTCGATACCCCTGAT
* * ** * *
21359775 TGCACATACGTACCCCTGTTTGTACTTCCATACTCCTGATTGCACATACATGCCCCT-ATTGTAC
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTAC-CCTGATTGCACATACGTGCCCCTGTTTGTAC
* *
21359839 TTCGGTACCCTTGAT
64 TTCGATACCCCTGAT
* * * * * *
21359854 TGCACATACGTGCCCCTGTTTGTACTTCGATACCCTTGATTGCACATGCGTGGCACTATTTGTAC
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTACCC-TGATTGCACATACGTGCCCCTGTTTGTAC
* *
21359919 TT-TAGTACCCGTGAT
64 TTCGA-TACCCCTGAT
** * * *
21359934 AACACATACGTGGCCCTATTGTACTTCGGTACCCCTGATTGCACATACTTGCCCTTG-TTGTACT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTGTTTGTACT
21359998 TCGATACCCCTGAT
65 TCGATACCCCTGAT
* * * * * * *
21360012 TGCACATACATG-CCATGTTGTACTTCAGTACCCCTGATTACACATACATGCCCCTATTT-TACT
1 TGCACATACGTGCCCCTATTGTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTGTTTGTACT
*
21360075 TTGATACCCCTGAT
65 TCGATACCCCTGAT
* * * * * * *
21360089 TGCACATACATGCCCTTGTTCTTACTTCGATACCCCTGATTGCACATACGTGCCACT-ATTGTAC
1 TGCACATACGTGCCCCTATT-GTACTTCGGTA-CCCTGATTGCACATACGTGCCCCTGTTTGTAC
* *
21360153 TTTGGTACCCCTGAT
64 TTCGATACCCCTGAT
* * * ** * * * *
21360168 TGCACGTATGTGCCCCTGTTTGTACTTCCATACTGCTAATTGCACATACGTGTCCCT-ATTGTAC
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTAC-CCTGATTGCACATACGTGCCCCTGTTTGTAC
* *
21360232 TTTGGTACCCCTGAT
64 TTCGATACCCCTGAT
* * * * * *
21360247 TGCACATACGTACCCCTGTTTGTACTACGGTACTCCTGAATGCACTTACATGCCCCTG
1 TGCACATACGTGCCCCT-ATTGTACTTCGGTAC-CCTGATTGCACATACGTGCCCCTG
21360305 ATTATATTCA
Statistics
Matches: 1346, Mismatches: 222, Indels: 125
0.80 0.13 0.07
Matches are distributed among these distances:
75 1 0.00
76 19 0.01
77 121 0.09
78 275 0.20
79 733 0.54
80 197 0.15
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (78 bp):
TGCACATACGTGCCCCTATTGTACTTCGGTACCCTGATTGCACATACGTGCCCCTGTTTGTACTT
CGATACCCCTGAT
Found at i:21359355 original size:19 final size:19
Alignment explanation
Indices: 21359283--21359359 Score: 59
Period size: 19 Copynumber: 4.0 Consensus size: 19
21359273 CGTGCCCTTA
21359283 TTGTAC-TTCGATACCCCTG
1 TTGTACTTTC-ATACCCCTG
* * * * *
21359302 ATTGCACATACATGCCCTTG
1 -TTGTACTTTCATACCCCTG
21359322 TTGTAC-TTCAGTACCCCTG
1 TTGTACTTTCA-TACCCCTG
*
21359341 TTGTACTTTGATACCCCTG
1 TTGTACTTTCATACCCCTG
21359360 ATTGCACATA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
18 3 0.07
19 25 0.56
20 15 0.33
21 2 0.04
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (19 bp):
TTGTACTTTCATACCCCTG
Found at i:21359688 original size:58 final size:59
Alignment explanation
Indices: 21359617--21359848 Score: 181
Period size: 59 Copynumber: 3.9 Consensus size: 59
21359607 CGTGCCCTTG
*
21359617 TTGTACTTCGATACCCCTGATTGCACATACATGCCTTTGTT-GTACTTCAGTACCCCTA
1 TTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTCGTACTTCAGTACCCCTA
* * * * *
21359675 TTGTACTTTGATACCCTTGATTGCACATACATGCCCTTGTTCTTACTTCGGTACCCTTGA
1 TTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTCGTACTTCAGTACCCCT-A
* * * * * * * * *
21359735 TTGCACATACG-TGCCCCTG-TTGTAC-TTCGATGCCCCTGATT-GCACAT-ACGTACCCCTGT
1 TTGTAC-TTCGATACCCCTGATTGCACATAC-ATGCCCTTG-TTCGTACTTCA-GTACCCCT-A
* * * * *
21359794 TTGTACTTCCATACTCCTGATTGCACATACATGCCCCTATT-GTACTTCGGTACCC
1 TTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTCGTACTTCAGTACCC
21359849 TTGATTGCAC
Statistics
Matches: 133, Mismatches: 31, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
58 42 0.32
59 60 0.45
60 27 0.20
61 4 0.03
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (59 bp):
TTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTCGTACTTCAGTACCCCTA
Found at i:21359771 original size:98 final size:98
Alignment explanation
Indices: 21359277--21359776 Score: 335
Period size: 98 Copynumber: 5.1 Consensus size: 98
21359267 CACATACGTG
*
21359277 CCCTTATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTTC-AGTACCCCTG
1 CCCTGATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTTCGA-TACCCCTG
* * ** * * *
21359341 -TTGTACTTTGATACCCCTGATTGCACATACA-TGC
65 ATTGCACATACATGCCCCTG-TTGTAC-TTCAGTGC
* * * ** * * *
21359375 CCTTG-TTCTTACTTCGGTACCGTTGATTGCACATACGTGCCCCT-TTGTACTTCGATGCCCCTG
1 CCCTGATT-GTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTTCGATACCCCTG
* *
21359438 ATTGCACATACGTGCCCCTGTTTGTACTTCCA-TAC
65 ATTGCACATACATGCCCCTG-TTGTACTT-CAGTGC
* * * * * * * * * *
21359473 TCCTGATTGCACATACG-TGCCCCT-ATTGTACAT-C-GGTACCTCTGATTGCACATACG-TGCC
1 CCCTGATTGTAC-TTCGATACCCCTGATTGCACATACATG-CCCT-TG-TTGTAC-TTCGATACC
* * * ** * * *
21359533 CCTGTTTGTACTTTGATACCCCTGATTGCACAT-ACGTGC
61 CCTGATTGCACATACATGCCCCTG-TTGTACTTCA-GTGC
* * *
21359572 CCCTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCTTGTTGTACTTCGATACCCCTGA
1 CCCTGATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTTCGATACCCCTGA
** *
21359637 TTGCACATACATGCCTTTGTTGTACTTCAGTAC
66 TTGCACATACATGCCCCTGTTGTACTTCAGTGC
* * * * *
21359670 CCCT-ATTGTACTTTGATACCCTTGATTGCACATACATGCCCTTGTTCTTACTTCGGTACCCTTG
1 CCCTGATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTT-GTACTTCGATACCCCTG
*
21359734 ATTGCACATACGTGCCCCTGTTGTACTTC-GATGC
65 ATTGCACATACATGCCCCTGTTGTACTTCAG-TGC
21359768 CCCTGATTG
1 CCCTGATTG
21359777 CACATACGTA
Statistics
Matches: 302, Mismatches: 78, Indels: 43
0.71 0.18 0.10
Matches are distributed among these distances:
95 1 0.00
96 3 0.01
97 67 0.22
98 130 0.43
99 83 0.27
100 13 0.04
101 4 0.01
102 1 0.00
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (98 bp):
CCCTGATTGTACTTCGATACCCCTGATTGCACATACATGCCCTTGTTGTACTTCGATACCCCTGA
TTGCACATACATGCCCCTGTTGTACTTCAGTGC
Found at i:21359800 original size:177 final size:177
Alignment explanation
Indices: 21359492--21359848 Score: 504
Period size: 177 Copynumber: 2.0 Consensus size: 177
21359482 CACATACGTG
* * *
21359492 CCCCTATTGTACATCGGTACCTCTGATTGCACATACGTGCCCCTGTTTGTACTTTGATACCCCTG
1 CCCCTATTGTACATCGATACCTCTGATTGCACATACATGCCCCTGTTTGTACTTCGATACCCCTG
* * *
21359557 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCTTGTTGTA
66 ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTACCCCTGTTGTA
* ** *
21359622 CTTCGATACCCCTGATTGCACATACATGCCTTTGTTGTACTTCAGTA
131 CTTCCATACCCCTGATTGCACATACATGCCCCTATTGTACTTCAGTA
* * * * *
21359669 CCCCTATTGTACTTTGATACC-CTTGATTGCACATACATGCCCTTGTTCT-TACTTCGGTACCCT
1 CCCCTATTGTACATCGATACCTC-TGATTGCACATACATGCCCCTGTT-TGTACTTCGATACCCC
*
21359732 TGATTGCACATACGTGCCCCTG-TTGTACTTCGATGCCCCTGATTGCACATACGTACCCCTGTTT
64 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTACCCCTG-TT
* *
21359796 GTACTTCCATACTCCTGATTGCACATACATGCCCCTATTGTACTTCGGTA
128 GTACTTCCATACCCCTGATTGCACATACATGCCCCTATTGTACTTCAGTA
21359846 CCC
1 CCC
21359849 TTGATTGCAC
Statistics
Matches: 159, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
176 36 0.23
177 122 0.77
178 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.34
Consensus pattern (177 bp):
CCCCTATTGTACATCGATACCTCTGATTGCACATACATGCCCCTGTTTGTACTTCGATACCCCTG
ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTACCCCTGTTGTA
CTTCCATACCCCTGATTGCACATACATGCCCCTATTGTACTTCAGTA
Found at i:21360183 original size:20 final size:19
Alignment explanation
Indices: 21360121--21360185 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
21360111 TACTTCGATA
*
21360121 CCCCTGATTGCACATACGTG
1 CCCCTGATTGCAC-TATGTG
* * * *
21360141 CCACT-ATTGTACTTTGGTA
1 CCCCTGATTGCACTAT-GTG
21360160 CCCCTGATTGCACGTATGTG
1 CCCCTGATTGCAC-TATGTG
21360180 CCCCTG
1 CCCCTG
21360186 TTTGTACTTC
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 1 0.03
19 12 0.36
20 18 0.55
21 2 0.06
ACGTcount: A:0.17, C:0.32, G:0.20, T:0.31
Consensus pattern (19 bp):
CCCCTGATTGCACTATGTG
Found at i:21372678 original size:45 final size:45
Alignment explanation
Indices: 21372614--21372703 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
21372604 ATTACCAAGA
* *
21372614 TAGATTTGATAGAGATGAAGCTCAGAATGGGTGATCAAGGACTAC
1 TAGATTTGATAGAGATGAAGCTCAAAATGGGTGATCAAAGACTAC
*
21372659 TAGATTTGATAGAGATGAAGCTCAAAATGTGTGATCAAAGACTAC
1 TAGATTTGATAGAGATGAAGCTCAAAATGGGTGATCAAAGACTAC
21372704 ACGTTTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (45 bp):
TAGATTTGATAGAGATGAAGCTCAAAATGGGTGATCAAAGACTAC
Found at i:21382347 original size:21 final size:20
Alignment explanation
Indices: 21382300--21382350 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
21382290 GAGCAAGTAG
*
21382300 TGTTGAGTTTTGAAAACAGAA
1 TGTTGAG-TTTGAAAACACAA
* *
21382321 TATTGAGTTTGAAAACACTA
1 TGTTGAGTTTGAAAACACAA
21382341 TCGTTGAGTT
1 T-GTTGAGTT
21382351 GAATTATCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (20 bp):
TGTTGAGTTTGAAAACACAA
Found at i:21382495 original size:19 final size:19
Alignment explanation
Indices: 21382454--21382497 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
21382444 CATAATAAAT
**
21382454 CCAAAGTCCAAAACAAAGT
1 CCAAAGTCCAAAACAAAAC
21382473 CCAAA-TCCAAAACCAAAAC
1 CCAAAGTCCAAAA-CAAAAC
21382492 CCAAAG
1 CCAAAG
21382498 CAATTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.55, C:0.32, G:0.07, T:0.07
Consensus pattern (19 bp):
CCAAAGTCCAAAACAAAAC
Found at i:21382976 original size:39 final size:38
Alignment explanation
Indices: 21382911--21382992 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 38
21382901 GTCTAGCTGC
* *
21382911 CAGA-AACAGAATATTGTGGTCGAGCCACCAGATAATTTG
1 CAGATAACAGAATATTGTAGTCAAGCCACCAGATAA--TG
*
21382950 CAGATAAC-GAATATTGTAGTCAAGCCACTAGATAATG
1 CAGATAACAGAATATTGTAGTCAAGCCACCAGATAATG
21382987 CAGATA
1 CAGATA
21382993 TACTGCCAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
37 8 0.21
39 28 0.72
40 3 0.08
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (38 bp):
CAGATAACAGAATATTGTAGTCAAGCCACCAGATAATG
Found at i:21386927 original size:41 final size:40
Alignment explanation
Indices: 21386880--21387033 Score: 157
Period size: 41 Copynumber: 3.8 Consensus size: 40
21386870 AGGGGTACCA
* *
21386880 AAGTACAAAGAAGGGCACGTATGTGAAATTCAGGGGCATTG
1 AAGTACAAA-AAGGGCACGTATGTGCAATTCAGGGGCACTG
* * * * *
21386921 AAGTACAAACAGGGGCATGAATGAGCAATTCAGTGGCACTG
1 AAGTACAAA-AAGGGCACGTATGTGCAATTCAGGGGCACTG
* * * *
21386962 AAGTACAAATAGGGGCATGTATGTGCAATTCAGGGGTACCG
1 AAGTACAAA-AAGGGCACGTATGTGCAATTCAGGGGCACTG
*
21387003 AAGTAC-AAAAGAGGCACGTTTGTGCAATTCA
1 AAGTACAAAAAG-GGCACGTATGTGCAATTCA
21387034 ACGGTATTCA
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
39 2 0.02
40 19 0.20
41 74 0.78
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (40 bp):
AAGTACAAAAAGGGCACGTATGTGCAATTCAGGGGCACTG
Found at i:21386933 original size:20 final size:20
Alignment explanation
Indices: 21386910--21386979 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
21386900 ATGTGAAATT
21386910 CAGGGGCATTGAAGTACAAA
1 CAGGGGCATTGAAGTACAAA
*
21386930 CAGGGGCA-TGAA-TGAGCAATT
1 CAGGGGCATTGAAGT-A-CAA-A
* *
21386951 CAGTGGCACTGAAGTACAAA
1 CAGGGGCATTGAAGTACAAA
*
21386971 TAGGGGCAT
1 CAGGGGCAT
21386980 GTATGTGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 1 0.03
19 5 0.13
20 17 0.44
21 10 0.26
22 5 0.13
23 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.17
Consensus pattern (20 bp):
CAGGGGCATTGAAGTACAAA
Found at i:21387498 original size:26 final size:27
Alignment explanation
Indices: 21387448--21387501 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
21387438 AACTTTTATC
*
21387448 ATTTTCACAAATAAATCCCTAAATACA
1 ATTTTCACAAATAAATCACTAAATACA
* *
21387475 ATTTTCATAAA-AAATCACTTAATACA
1 ATTTTCACAAATAAATCACTAAATACA
21387501 A
1 A
21387502 CTTGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (27 bp):
ATTTTCACAAATAAATCACTAAATACA
Found at i:21396276 original size:12 final size:12
Alignment explanation
Indices: 21396251--21396289 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21396241 ACTCGCTTCT
* *
21396251 TTACTTACTCAC
1 TTACTTGCTTAC
*
21396263 TTACTTGTTTAC
1 TTACTTGCTTAC
21396275 TTACTTGCTTAC
1 TTACTTGCTTAC
21396287 TTA
1 TTA
21396290 AATAACTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:21396612 original size:50 final size:50
Alignment explanation
Indices: 21396537--21396734 Score: 171
Period size: 50 Copynumber: 3.8 Consensus size: 50
21396527 TTTTCTGTAC
* * * **
21396537 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * **** * *
21396587 TGCCCATGCCATGTCCCAGACATGGTCATGTGGGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
21396637 TGCCAACGCCATGTCCCAGAAATGGCCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
21396693 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
21396735 TTACCCAAAT
Statistics
Matches: 112, Mismatches: 30, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
50 72 0.64
53 2 0.02
56 38 0.34
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:21397106 original size:30 final size:29
Alignment explanation
Indices: 21397070--21397130 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
21397060 CCTTGACTCG
21397070 AACTTTGGAAAAATTACGA-TTTTGCCTCTA
1 AACTTTGGAAAAATTAC-ACTTTTGCC-CTA
* *
21397100 AACTTTGGTATAATTACACTTTTGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCTA
21397129 AA
1 AA
21397131 GCTCGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTGCCCTA
Found at i:21403847 original size:24 final size:24
Alignment explanation
Indices: 21403815--21403861 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
21403805 CTAAATTTAT
*
21403815 AACACTTTCCTTTC-CTTTCTCTTC
1 AACACTTTCC-ATCACTTTCTCTTC
*
21403839 AACATTTTCCATCACTTTCTCTT
1 AACACTTTCCATCACTTTCTCTT
21403862 ATTTCCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (24 bp):
AACACTTTCCATCACTTTCTCTTC
Found at i:21406836 original size:33 final size:33
Alignment explanation
Indices: 21406798--21407019 Score: 116
Period size: 33 Copynumber: 6.4 Consensus size: 33
21406788 GTAGAATCTC
21406798 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
* * * *
21406831 TACTTAGCAACCCCTTTCACATTTAAGATACAGTGGG-ATCTG
1 CACTTAGCAACCAC---CA-A--TGA-AT-C-G-GGGAATCAG
21406873 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
* * * *
21406906 CACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATTAG
1 CACTTAGCAA-CCAC--CA-A--T-GAAT-CGG-GGAATCAG
* *
21406948 CACTTAGCAACCACCAATGAATTGGGGAATCAA
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
* *
21406981 AACTTAGCAACC-CC--T---TGGGGGAATCAG
1 CACTTAGCAACCACCAATGAATCGGGGAATCAG
21407008 CACTTAGCAACC
1 CACTTAGCAACC
21407020 CCCTTTATAT
Statistics
Matches: 149, Mismatches: 20, Indels: 46
0.69 0.09 0.21
Matches are distributed among these distances:
27 21 0.14
30 1 0.01
32 5 0.03
33 44 0.30
34 7 0.05
35 5 0.03
36 7 0.05
37 2 0.01
38 2 0.01
39 7 0.05
40 5 0.03
41 6 0.04
42 34 0.23
43 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGAATCGGGGAATCAG
Found at i:21406901 original size:75 final size:75
Alignment explanation
Indices: 21406721--21406996 Score: 401
Period size: 75 Copynumber: 3.7 Consensus size: 75
21406711 GGTGGATTTA
* * *
21406721 GCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAA-GATA
*
21406786 CGGTAGAATCT
65 CGGTGGAATCT
* *
21406797 CCACTTAGCAACCACCAATGAATCGGGGAATCAGTACTTAGCAACCCCTTTCACATTTAAGATAC
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATAC
* *
21406862 AGTGGGATCT
66 GGTGGAATCT
* * *
21406872 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATAC
21406937 GGTGGAAT-T
66 GGTGGAATCT
* **
21406946 AGCACTTAGCAACCACCAATGAATTGGGGAATCAAAACTTAGCAACCCCTT
1 -GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
21406997 GGGGGAATCA
Statistics
Matches: 180, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
74 1 0.01
75 124 0.69
76 55 0.31
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (75 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATAC
GGTGGAATCT
Found at i:21407125 original size:51 final size:50
Alignment explanation
Indices: 21407049--21407239 Score: 228
Period size: 51 Copynumber: 3.8 Consensus size: 50
21407039 CCAGTTCACA
*
21407049 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT-CGATACACG
* * * *
21407100 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTA-TCGATACACG
* * *
21407151 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCGA-TACACG
21407201 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
21407240 TTCACTTTTA
Statistics
Matches: 118, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
49 6 0.05
50 38 0.32
51 70 0.59
52 3 0.03
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCGATACACG
Found at i:21407224 original size:101 final size:102
Alignment explanation
Indices: 21407047--21407231 Score: 313
Period size: 101 Copynumber: 1.8 Consensus size: 102
21407037 TACCAGTTCA
* *
21407047 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
21407112 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
21407149 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTAG-TACACGTAGTAGCCTG
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATC-AGATACACGTAGTAGCCTG
21407211 CACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
21407232 CCATCACTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
101 39 0.49
102 36 0.46
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
Found at i:21411713 original size:20 final size:20
Alignment explanation
Indices: 21411688--21411729 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
21411678 TTTTCTACTA
*
21411688 TAGGCTCTGAGGTTCGCACT
1 TAGGCTCAGAGGTTCGCACT
21411708 TAGGCTCAGAGGTTCGCACT
1 TAGGCTCAGAGGTTCGCACT
21411728 TA
1 TA
21411730 TGATGCGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (20 bp):
TAGGCTCAGAGGTTCGCACT
Found at i:21412536 original size:21 final size:20
Alignment explanation
Indices: 21412512--21412560 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
21412502 TACTTCTCTG
* *
21412512 TTTTTATTTTTTTCTTTTCT
1 TTTTTATTGTTTTCTTTTAT
* *
21412532 CTTTTAAATGTTTTCTTTTAT
1 -TTTTTATTGTTTTCTTTTAT
21412553 TTTTTATT
1 TTTTTATT
21412561 ATTATTGTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTTATTGTTTTCTTTTAT
Found at i:21414826 original size:16 final size:16
Alignment explanation
Indices: 21414800--21414840 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
21414790 AGGAGGAAAG
21414800 AGGGTTT-GAAG-GATA
1 AGGGTTTAGAAGAG-TA
21414815 AGGGTTTAGAAGAGTA
1 AGGGTTTAGAAGAGTA
*
21414831 AGTGTTTAGA
1 AGGGTTTAGA
21414841 TGAAGTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (16 bp):
AGGGTTTAGAAGAGTA
Found at i:21420362 original size:27 final size:27
Alignment explanation
Indices: 21420323--21420763 Score: 424
Period size: 27 Copynumber: 16.4 Consensus size: 27
21420313 GGCCATAACA
*
21420323 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
21420350 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
21420377 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* **
21420404 GTCATTCTACCCTATGAGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
21420431 GTCATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * *
21420458 ATAATTCTACCCTATG-GAGGTATTTTG
1 GTCATTTTACCCTATGAG-GGTATTTCG
* *
21420485 ATCATTTTAGCCTAT-AGGGGTATTTCG
1 GTCATTTTACCCTATGA-GGGTATTTCG
* *
21420512 ATCATTTTACCCTAAGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
21420539 GTCATTTTACCCTAT-AGGGGTATTTCT
1 GTCATTTTACCCTATGA-GGGTATTTCG
* * *
21420566 GTCATTTTCCCCTATGGGGGTATTTCT
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
21420593 GTCATTTTCCCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
21420620 ATCATTCTACCCTATGAAGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * **
21420647 ATCATTCTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* * * * * **
21420674 GTTATTTT-TCTTACGTGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
21420700 GTCATTTTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
21420727 GTCATTTTACCCTAT-AGAGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
21420753 GTCATTTTACC
1 GTCATTTTACC
21420764 TATTTTAGGG
Statistics
Matches: 353, Mismatches: 54, Indels: 15
0.84 0.13 0.04
Matches are distributed among these distances:
26 41 0.12
27 310 0.88
28 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:21420387 original size:54 final size:54
Alignment explanation
Indices: 21420323--21420763 Score: 480
Period size: 54 Copynumber: 8.2 Consensus size: 54
21420313 GGCCATAACA
* * *
21420323 GTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
* * **
21420377 GTCATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
* * * * *
21420431 GTCATTTTACCTTATGGGGGTATTTTGATAATTCTACCCTATG-GAGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAG-GGTATTTCG
* * * *
21420485 ATCATTTTAGCCTATAGGGGTATTTCGATCATTTTACCCTAAGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
* * * *
21420539 GTCATTTTACCCTATAGGGGTATTTCTG-TCATTTTCCCCTATGGGGGTATTTCT
1 GTCATTTTACCCTATGGGGGTATTTC-GATCATTTTACCCTATGAGGGTATTTCG
* * *
21420593 GTCATTTTCCCCTATGGGGGTATTTCGATCATTCTACCCTATGAAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
* * * * * * * * **
21420647 ATCATTCTACCCTATGGGGGTATTT-TAGTTATTTT-TCTTACGTGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGAGGGTATTTCG
* * *
21420700 GTCATTTTATCCTATGGGGGTATTTC-AGTCATTTTACCCTAT-AGAGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGAGGGTATTTCG
21420753 GTCATTTTACC
1 GTCATTTTACC
21420764 TATTTTAGGG
Statistics
Matches: 322, Mismatches: 58, Indels: 15
0.82 0.15 0.04
Matches are distributed among these distances:
53 62 0.19
54 258 0.80
55 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCG
Found at i:21420420 original size:81 final size:81
Alignment explanation
Indices: 21420323--21420763 Score: 476
Period size: 81 Copynumber: 5.5 Consensus size: 81
21420313 GGCCATAACA
*
21420323 GTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
21420388 CTATGGGGGTATTTCG
66 CTATGGGGGTATTTCG
* * * * * * *
21420404 GTCATTCTACCCTATGAGGGTATTTTAGTCATTTTACCTTATGGGGGTATTTTGATAATTCTACC
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
* *
21420469 CTATGGAGGTATTTTG
66 CTATGGGGGTATTTCG
* * * *
21420485 ATCATTTTAGCCTAT-AGGGGTATTTC-GATCATTTTACCCTAAGAGGGTATTTCGGTCATTTTA
1 GTCATTTTACCCTATGA-GGGTATTTCAG-TCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
* *
21420548 CCCTATAGGGGTATTTCT
64 CCCTATGGGGGTATTTCG
* * * * * *
21420566 GTCATTTTCCCCTATGGGGGTATTTCTGTCATTTTCCCCTATGGGGGTATTTCGATCATTCTACC
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
**
21420631 CTATGAAGGTATTTCG
66 CTATGGGGGTATTTCG
* * * * * * * * * ** *
21420647 ATCATTCTACCCTATGGGGGTATTTTAGTTATTTT-TCTTACGTGGGTATTTTAGTCATTTTATC
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
*
21420711 CTATGGGGGTATTTCA
66 CTATGGGGGTATTTCG
* **
21420727 GTCATTTTACCCTAT-AGAGTATTTTGGTCATTTTACC
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACC
21420764 TATTTTAGGG
Statistics
Matches: 292, Mismatches: 63, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
79 15 0.05
80 49 0.17
81 227 0.78
82 1 0.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
CTATGGGGGTATTTCG
Found at i:21428286 original size:48 final size:48
Alignment explanation
Indices: 21428208--21428301 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
21428198 AAGACACCAT
* *
21428208 TTGTGGACAAGCCACCACATAGTTGTCGATAACGACCACATAATCACA
1 TTGTGGACAAGCCACCACATAATTGCCGATAACGACCACATAATCACA
*
21428256 TTGTGGACAAGCCACCACATAATTGCCGATAACGGCCACATAATCA
1 TTGTGGACAAGCCACCACATAATTGCCGATAACGACCACATAATCA
21428302 ATTTATGTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (48 bp):
TTGTGGACAAGCCACCACATAATTGCCGATAACGACCACATAATCACA
Found at i:21431988 original size:19 final size:19
Alignment explanation
Indices: 21431961--21431997 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21431951 TCCTTCAAAG
* *
21431961 AATATATGAACAAAATGTT
1 AATACATGAAAAAAATGTT
21431980 AATACATGAAAAAAATGT
1 AATACATGAAAAAAATGT
21431998 GTCTTCATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (19 bp):
AATACATGAAAAAAATGTT
Found at i:21436914 original size:14 final size:14
Alignment explanation
Indices: 21436897--21436929 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
21436887 TTTCTTTCTA
21436897 TTTTTCTTATTTTC
1 TTTTTCTTATTTTC
21436911 TTTTTCTTATTTTC
1 TTTTTCTTATTTTC
21436925 TTTTT
1 TTTTT
21436930 TTTTTTGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTATTTTC
Found at i:21436916 original size:22 final size:21
Alignment explanation
Indices: 21436883--21436935 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
21436873 AAGAATACAA
21436883 ATTTTTTCTTTC-TATTTTTCTT
1 ATTTTTT-TTTCTTA-TTTTCTT
21436905 ATTTTCTTTTTCTTATTTTCTT
1 ATTTT-TTTTTCTTATTTTCTT
21436927 -TTTTTTTTT
1 ATTTTTTTTT
21436936 GCTGCCAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.17
21 4 0.14
22 16 0.55
23 4 0.14
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (21 bp):
ATTTTTTTTTCTTATTTTCTT
Found at i:21440351 original size:38 final size:39
Alignment explanation
Indices: 21440309--21440581 Score: 113
Period size: 38 Copynumber: 7.2 Consensus size: 39
21440299 ACTTCGAGGA
* *
21440309 GACACCGAGTTGACGGTTATCTACTAATCCTTT-GGGGC
1 GACACCGAGTTGACAGTTATCTACTGATCCTTTCGGGGC
* *
21440347 GACACC-ATGTTAACCA-TTATCTACTGGT-CTTTCGGGGC
1 GACACCGA-GTTGA-CAGTTATCTACTGATCCTTTCGGGGC
* * * *
21440385 -AGCACCGTGTTGATAGTTATCTACTGATCCTTT-AGGGT
1 GA-CACCGAGTTGACAGTTATCTACTGATCCTTTCGGGGC
* * * * * *
21440423 AACACC-ATGTTGA-TGATGATCTACT-AGCCTTTCAGGGT
1 GACACCGA-GTTGACAG-TTATCTACTGATCCTTTCGGGGC
* * * * *
21440461 GACAACGTGTTGACAGTTATCTACTGGTCC-TTCGAGGA
1 GACACCGAGTTGACAGTTATCTACTGATCCTTTCGGGGC
* * * * * * * *
21440499 AACACCGTGTTAACGGTTATCTATTGGTCC-TTCAGGGT
1 GACACCGAGTTGACAGTTATCTACTGATCCTTTCGGGGC
* * * * *
21440537 GACA-TGATGTTGACAATTATCTACTGTTCC-TTCGAGGT
1 GACACCGA-GTTGACAGTTATCTACTGATCCTTTCGGGGC
21440575 GACACCG
1 GACACCG
21440582 TGTAAACTGT
Statistics
Matches: 176, Mismatches: 43, Indels: 31
0.70 0.17 0.12
Matches are distributed among these distances:
37 15 0.09
38 151 0.86
39 10 0.06
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (39 bp):
GACACCGAGTTGACAGTTATCTACTGATCCTTTCGGGGC
Found at i:21440415 original size:76 final size:76
Alignment explanation
Indices: 21440317--21440568 Score: 199
Period size: 76 Copynumber: 3.3 Consensus size: 76
21440307 GAGACACCGA
* * * * * * *
21440317 GTTGACGGTTATCTACTAATCCTTTGGGGCGACACCATGTTAACCATTATCTACTGGTCTTTC-G
1 GTTGACAGTTATCTACTGATCCTTTAGGGCAACACCATGTTAACCATGATCTACTAGCCTTTCAG
*
21440381 GG-GCAGCACCGT
66 GGTG-A-CAACGT
* * * **
21440393 GTTGATAGTTATCTACTGATCCTTTAGGGTAACACCATGTTGATGATGATCTACTAGCCTTTCAG
1 GTTGACAGTTATCTACTGATCCTTTAGGGCAACACCATGTTAACCATGATCTACTAGCCTTTCAG
21440458 GGTGACAACGT
66 GGTGACAACGT
* * * * ** * * *
21440469 GTTGACAGTTATCTACTGGTCC-TTCGAGGAAACACCGTGTTAACGGTTATCTATTGGTCC-TTC
1 GTTGACAGTTATCTACTGATCCTTTAG-GGCAACACCATGTTAACCATGATCTACTAG-CCTTTC
*
21440532 AGGGTGAC-ATGAT
64 AGGGTGACAACG-T
* *
21440545 GTTGACAATTATCTACTGTTCCTT
1 GTTGACAGTTATCTACTGATCCTT
21440569 CGAGGTGACA
Statistics
Matches: 143, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
75 5 0.03
76 130 0.91
77 7 0.05
78 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (76 bp):
GTTGACAGTTATCTACTGATCCTTTAGGGCAACACCATGTTAACCATGATCTACTAGCCTTTCAG
GGTGACAACGT
Found at i:21456297 original size:199 final size:199
Alignment explanation
Indices: 21455950--21456342 Score: 705
Period size: 199 Copynumber: 2.0 Consensus size: 199
21455940 TATTGAGTTG
*
21455950 ATGGAAACCTTGCTGTGTAACACCCCTAACCTGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
1 ATGGAAACCTTGCTGTGTAACACCCCTAACCCGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
*
21456015 ACCGCAAAAACGTAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
66 ACCGCAAAAACATAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
21456080 ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGGT
131 ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGGT
21456145 TACA
196 TACA
* * * *
21456149 ATGGAAGCCTTGCTGTGTAACACCCTTAACCCGTACCCGTCGCCGGAATAGGTTTACAGAGCATC
1 ATGGAAACCTTGCTGTGTAACACCCCTAACCCGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
* *
21456214 ACCGCAAAAACATAACTCAAATCATTCATGTCTAACATTTTATAATAATTCCAAAATCTAATCAA
66 ACCGCAAAAACATAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
*
21456279 ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACACTTTAGAAACGATTCGG
131 ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGG
21456343 GACTAAATCG
Statistics
Matches: 185, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
199 185 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (199 bp):
ATGGAAACCTTGCTGTGTAACACCCCTAACCCGTACCCGTCGCCGAAATAGGGTTACAGAGCATC
ACCGCAAAAACATAACTCAAATCATTCATGTCCAACATTTCATAATAATTCCAAAATCTAATCAA
ACACATGCATATCGTCCCTTATTTGAGCCCTCGAGGCCTTAGAGACAATTTAGAAACGATTCGGT
TACA
Found at i:21458964 original size:11 final size:11
Alignment explanation
Indices: 21458950--21458979 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
21458940 ACATTTTTTC
21458950 AAAATTTTCCT
1 AAAATTTTCCT
21458961 AAAATTTTCCT
1 AAAATTTTCCT
21458972 AAAATTTT
1 AAAATTTT
21458980 ACTTTTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATTTTCCT
Found at i:21461069 original size:40 final size:40
Alignment explanation
Indices: 21461014--21461093 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
21461004 ATAATCTTTA
21461014 ATTTCCTCTTTACTTAATCTCTTACTCATTCACTTACTTG
1 ATTTCCTCTTTACTTAATCTCTTACTCATTCACTTACTTG
21461054 ATTTCCTCTTTACTTAATCTCTTACTCATTCACTTACTTG
1 ATTTCCTCTTTACTTAATCTCTTACTCATTCACTTACTTG
21461094 TATACTTAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.28, G:0.03, T:0.50
Consensus pattern (40 bp):
ATTTCCTCTTTACTTAATCTCTTACTCATTCACTTACTTG
Found at i:21461088 original size:20 final size:20
Alignment explanation
Indices: 21461025--21461089 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
21461015 TTTCCTCTTT
21461025 ACTTAATCTCTTACTCATTC
1 ACTTAATCTCTTACTCATTC
* * * *
21461045 ACTTACT-TGATTTCCTC-TTT
1 ACTTAATCT--CTTACTCATTC
21461065 ACTTAATCTCTTACTCATTC
1 ACTTAATCTCTTACTCATTC
21461085 ACTTA
1 ACTTA
21461090 CTTGTATACT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 6 0.18
20 21 0.64
21 6 0.18
ACGTcount: A:0.23, C:0.28, G:0.02, T:0.48
Consensus pattern (20 bp):
ACTTAATCTCTTACTCATTC
Found at i:21461099 original size:20 final size:19
Alignment explanation
Indices: 21461035--21461099 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
21461025 ACTTAATCTC
21461035 TTACTCATTCACTTACTTG
1 TTACTCATTCACTTACTTG
* * * *
21461054 ATTTCCTC-TTTACTTAATCTC
1 --TTACTCATTCACTTACT-TG
21461075 TTACTCATTCACTTACTTG
1 TTACTCATTCACTTACTTG
21461094 TATACT
1 T-TACT
21461100 TAGATAACTC
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
19 7 0.21
20 20 0.61
21 6 0.18
ACGTcount: A:0.22, C:0.26, G:0.03, T:0.49
Consensus pattern (19 bp):
TTACTCATTCACTTACTTG
Found at i:21461567 original size:56 final size:50
Alignment explanation
Indices: 21461303--21461600 Score: 235
Period size: 50 Copynumber: 5.9 Consensus size: 50
21461293 TGATAATAAC
* ** * *
21461303 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGT--
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCGTCTCG
* * * * * * * * *
21461351 ACTGCGAATGCGATATCCCAGATATGGTCTTACATGGGA-GTTCACATATTG
1 A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCGTCTCG
* * ** * * *
21461402 GTGCCCATGCCATGTCTAAGACATGGTCTTAC-GGGAGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GACCTTTCGTCTCG
* * *
21461452 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCGTCTCG
*
21461502 ATGCCAATGCCATGTCCCATACATGGTCTTACATGGGACCTTTCATGATCTCAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTC--G-TCTC---G
* * *
21461558 ATGTCAATGCCATGTCCCAGACGTGGTCTTACATGGGATCTTT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTT
21461601 TTACCCAAAT
Statistics
Matches: 202, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
48 4 0.02
49 38 0.19
50 112 0.55
51 3 0.01
52 1 0.00
53 4 0.02
56 40 0.20
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCGTCTCG
Found at i:21477015 original size:16 final size:17
Alignment explanation
Indices: 21476996--21477029 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
21476986 ATTTTCACAA
21476996 TCTAGAGTTTTCT-TAG
1 TCTAGAGTTTTCTATAG
*
21477012 TCTATAGTTTTCTATAG
1 TCTAGAGTTTTCTATAG
21477029 T
1 T
21477030 TTTCATAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (17 bp):
TCTAGAGTTTTCTATAG
Found at i:21477032 original size:26 final size:26
Alignment explanation
Indices: 21476996--21477047 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
21476986 ATTTTCACAA
*
21476996 TCTAGAGTTTTCTTAGTCTATAGTTT
1 TCTAGAGTTTTCATAGTCTATAGTTT
*
21477022 TCTATAGTTTTCATAGTCTATAGTTT
1 TCTAGAGTTTTCATAGTCTATAGTTT
21477048 CACATCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.13, T:0.54
Consensus pattern (26 bp):
TCTAGAGTTTTCATAGTCTATAGTTT
Found at i:21478099 original size:50 final size:51
Alignment explanation
Indices: 21477957--21478100 Score: 166
Period size: 50 Copynumber: 2.8 Consensus size: 51
21477947 TAAAACAACA
* * *
21477957 TTTGTGGATAA-CCAACCACTAATTTGCAGATAAACTACCACTAATAACACT
1 TTTGTGGACAAGCC-ACCACTAATTTGCAGATATACTACCACTAATAACAAT
* * * * * *
21478008 TTTGTGGACAAGCCACCCCTAATATGCAGATTTCCTGCCACTGAT-ACAAT
1 TTTGTGGACAAGCCACCACTAATTTGCAGATATACTACCACTAATAACAAT
* *
21478058 TTTGTGGACATGCCACCACTGATTTGCAGATATACTACCACTA
1 TTTGTGGACAAGCCACCACTAATTTGCAGATATACTACCACTA
21478101 CTTCGACCTT
Statistics
Matches: 75, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
50 39 0.52
51 34 0.45
52 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (51 bp):
TTTGTGGACAAGCCACCACTAATTTGCAGATATACTACCACTAATAACAAT
Found at i:21483203 original size:7 final size:7
Alignment explanation
Indices: 21483191--21483234 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
21483181 AATGTTACAT
21483191 TTTATTA
1 TTTATTA
21483198 TTTATTA
1 TTTATTA
21483205 TTTATTA
1 TTTATTA
21483212 TTTATTA
1 TTTATTA
21483219 TTTATTA
1 TTTATTA
21483226 TTTATTA
1 TTTATTA
21483233 TT
1 TT
21483235 GTACTAATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:21484137 original size:51 final size:49
Alignment explanation
Indices: 21483979--21484159 Score: 263
Period size: 49 Copynumber: 3.7 Consensus size: 49
21483969 AAGCAGTGGT
* * *
21483979 AGTATATCTGCAAGTTAGTGATGGCTTGTCCACAAAATTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
*
21484028 AATATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
* * * *
21484077 AGTATATCTGCATATTAGTGGTGGCTTTTCCACAAAAGAGTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCAC-AAA-ATTTATCAATGGC
*
21484128 AGTTTATCTGCAAATCAGTGGTGGCTTGTCCA
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCA
21484160 TAAATGGTGT
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
49 74 0.63
50 3 0.03
51 40 0.34
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (49 bp):
AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAATGGC
Found at i:21484147 original size:100 final size:98
Alignment explanation
Indices: 21483979--21484159 Score: 283
Period size: 100 Copynumber: 1.8 Consensus size: 98
21483969 AAGCAGTGGT
*
21483979 AGTATATCTGCAAGTTAGTGATGGCTTGTCCACAAAATTTATCAATGGCAATATATCTGCAAATC
1 AGTATATCTGCAAGTTAGTGATGGCTTGTCCACAAAAGTTATCAATGGCAATATATCTGCAAATC
21484044 AGTGGTGGCTTGTCCACAAAATTTATCAATGGC
66 AGTGGTGGCTTGTCCACAAAATTTATCAATGGC
* * * *
21484077 AGTATATCTGCATA-TTAGTGGTGGCTTTTCCACAAAAGAGTTATCAATGGCAGTTTATCTGCAA
1 AGTATATCTGCA-AGTTAGTGATGGCTTGTCCAC-AAA-AGTTATCAATGGCAATATATCTGCAA
21484141 ATCAGTGGTGGCTTGTCCA
63 ATCAGTGGTGGCTTGTCCA
21484160 TAAATGGTGT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
98 29 0.39
99 4 0.05
100 42 0.56
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (98 bp):
AGTATATCTGCAAGTTAGTGATGGCTTGTCCACAAAAGTTATCAATGGCAATATATCTGCAAATC
AGTGGTGGCTTGTCCACAAAATTTATCAATGGC
Found at i:21484524 original size:29 final size:29
Alignment explanation
Indices: 21484467--21484528 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
21484457 TTTAAATAAA
*
21484467 TATGGACTTTTATTTATGATTTGGATTTT
1 TATGGACTTTTATTGATGATTTGGATTTT
*
21484496 TATGGAC-TTTATTGCT-ATTTAGGACTTTT
1 TATGGACTTTTATTGATGATTT-GGA-TTTT
21484525 TATG
1 TATG
21484529 TTCAATTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.14
28 10 0.34
29 15 0.52
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (29 bp):
TATGGACTTTTATTGATGATTTGGATTTT
Found at i:21490015 original size:21 final size:20
Alignment explanation
Indices: 21489976--21490016 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
21489966 ACTTTAAAAT
*
21489976 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATGATATTAAC
*
21489996 CAAGTTCAAAATTATATTAAC
1 CAAGTT-AAAATGATATTAAC
21490017 AACTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (20 bp):
CAAGTTAAAATGATATTAAC
Found at i:21500062 original size:52 final size:52
Alignment explanation
Indices: 21499867--21500062 Score: 187
Period size: 52 Copynumber: 3.8 Consensus size: 52
21499857 CAACACTTGA
* * *
21499867 TGTGCCCATATGCGAGTTGTAGTCAATGTGCAAGCTATGCTAATGTGT-ATT
1 TGTGCCCATATGCGAGTTGTAGTCAATATGCGAGCTATGCTAATGTGTGAGT
* * * ** * * * *
21499918 TGCGCCTATCTATGAGTTGTAGTCAATATACGCGAGCTATGCTATTATGCGTGT
1 TGTGCCCATATGCGAGTTGTAGTCAATAT--GCGAGCTATGCTAATGTGTGAGT
* * *
21499972 TGTGCCCATATGCGAGCTGTAGTCAATATGTGAACTATGCTAATGTGTGAGT
1 TGTGCCCATATGCGAGTTGTAGTCAATATGCGAGCTATGCTAATGTGTGAGT
* * * * *
21500024 TGTACCCATGTGTGAGTTGTGGTCAATGTGCGAGCTATG
1 TGTGCCCATATGCGAGTTGTAGTCAATATGCGAGCTATG
21500063 ACATGTGTAA
Statistics
Matches: 110, Mismatches: 32, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
51 23 0.21
52 48 0.44
53 15 0.14
54 24 0.22
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.34
Consensus pattern (52 bp):
TGTGCCCATATGCGAGTTGTAGTCAATATGCGAGCTATGCTAATGTGTGAGT
Found at i:21500402 original size:22 final size:22
Alignment explanation
Indices: 21500376--21500420 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
21500366 ACCATCCTTT
21500376 TTGTAATTTTTGTAAATGTAAA
1 TTGTAATTTTTGTAAATGTAAA
21500398 TTGTAATTTTTGTAAATGTAAA
1 TTGTAATTTTTGTAAATGTAAA
21500420 T
1 T
21500421 ATCGGGGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (22 bp):
TTGTAATTTTTGTAAATGTAAA
Found at i:21510542 original size:13 final size:13
Alignment explanation
Indices: 21510524--21510553 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21510514 AACCAGTAGA
21510524 ATATTTTATATCT
1 ATATTTTATATCT
*
21510537 ATATTTTGTATCT
1 ATATTTTATATCT
21510550 ATAT
1 ATAT
21510554 AACTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (13 bp):
ATATTTTATATCT
Found at i:21510620 original size:13 final size:13
Alignment explanation
Indices: 21510602--21510630 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21510592 TAACTACTAT
21510602 TATTTTGTATCTA
1 TATTTTGTATCTA
21510615 TATTTTGTATCTA
1 TATTTTGTATCTA
21510628 TAT
1 TAT
21510631 AACTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (13 bp):
TATTTTGTATCTA
Found at i:21511834 original size:42 final size:42
Alignment explanation
Indices: 21511788--21511893 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
21511778 AATTGATATT
*
21511788 TGATTTGCATGTTAAACATGCCAACAATGAT-AAACTGAGATA
1 TGATTTGCATGTTAAGCATGCCAACAATGATGAAA-TGAGATA
* * * * * * * *
21511830 TGATTTGTATGTTAAGTATGCCGACTATGTTGATATTAGATT
1 TGATTTGCATGTTAAGCATGCCAACAATGATGAAATGAGATA
21511872 TGATTTGCATGTTAAGCATGCC
1 TGATTTGCATGTTAAGCATGCC
21511894 TACTGATAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 50 0.96
43 2 0.04
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (42 bp):
TGATTTGCATGTTAAGCATGCCAACAATGATGAAATGAGATA
Found at i:21513182 original size:23 final size:23
Alignment explanation
Indices: 21513156--21513222 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
21513146 GTGCCACACT
21513156 GATATGTAGCCGAAGCTACCACC
1 GATATGTAGCCGAAGCTACCACC
* * *
21513179 GATATGTAACCGTAGCTACCACT
1 GATATGTAGCCGAAGCTACCACC
* *
21513202 AAAATGTAGCCGAAGCTACCA
1 GATATGTAGCCGAAGCTACCA
21513223 TTGATTAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (23 bp):
GATATGTAGCCGAAGCTACCACC
Found at i:21514672 original size:24 final size:24
Alignment explanation
Indices: 21514594--21514686 Score: 86
Period size: 24 Copynumber: 3.9 Consensus size: 24
21514584 TACTACAAAA
*
21514594 ATTGAGTGGCTT-ATCCACAATGAT
1 ATTGAGTGGCTTGA-CCACAACGAT
* *
21514618 A-TGAATGGCTTGTCCACAAC-ACT
1 ATTGAGTGGCTTGACCACAACGA-T
*
21514641 AACT-AGTGGCTTGACCACAACGAT
1 -ATTGAGTGGCTTGACCACAACGAT
*
21514665 ATTGAGTGGCTTGGCCACAACG
1 ATTGAGTGGCTTGACCACAACG
21514687 TGGAGTGTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
22 1 0.02
23 18 0.32
24 35 0.62
25 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
ATTGAGTGGCTTGACCACAACGAT
Found at i:21517168 original size:15 final size:15
Alignment explanation
Indices: 21517145--21517185 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
21517135 TTCAGATTGT
21517145 GATTGTGAAACTATA
1 GATTGTGAAACTATA
*
21517160 GATTTTGAAACTATA
1 GATTGTGAAACTATA
*
21517175 GACTGTGAAAC
1 GATTGTGAAAC
21517186 AAATAGACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (15 bp):
GATTGTGAAACTATA
Found at i:21522309 original size:30 final size:30
Alignment explanation
Indices: 21522253--21522310 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21522243 TCTGAGCTTT
*
21522253 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
1 GGGGCAAAAGTGTAATTATGCAAAAGTTTA
* * *
21522283 GGGGCAAAATTGTAATTTTGCCAAAGTT
1 GGGGCAAAAGTGTAATTATGCAAAAGTT
21522311 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAGTGTAATTATGCAAAAGTTTA
Found at i:21522753 original size:50 final size:50
Alignment explanation
Indices: 21522646--21522892 Score: 230
Period size: 50 Copynumber: 4.8 Consensus size: 50
21522636 ATTTGGGTAA
* *
21522646 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
21522702 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * * * *
21522752 AGAGGTCCCCCGTAAGACCATGTCTGGGCCATAGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
21522802 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * * * *
21522851 AAACATCCCATGTAAGAACATGTCTAGGACATAGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21522893 TGTTATTATC
Statistics
Matches: 163, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 81 0.50
53 3 0.02
55 1 0.01
56 40 0.25
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:21522891 original size:49 final size:49
Alignment explanation
Indices: 21522799--21522892 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
21522789 GGGCACCGAT
* * * *
21522799 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC
1 ATGAGAACTCCCATGTAAGAACATATCTAGGACATAGCATTGGCAGTAC
* *
21522848 ATGA-AACATCCCATGTAAGAACATGTCTAGGACATAGCTTTGGCA
1 ATGAGAAC-TCCCATGTAAGAACATATCTAGGACATAGCATTGGCA
21522893 TGTTATTATC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.08
49 35 0.92
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (49 bp):
ATGAGAACTCCCATGTAAGAACATATCTAGGACATAGCATTGGCAGTAC
Found at i:21532208 original size:20 final size:20
Alignment explanation
Indices: 21532183--21532221 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21532173 TACTTTCTTC
21532183 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
21532203 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
21532222 AAATAACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:21532531 original size:50 final size:50
Alignment explanation
Indices: 21532409--21532645 Score: 183
Period size: 50 Copynumber: 4.6 Consensus size: 50
21532399 TAATAACATG
* * *
21532409 CCAAAGCCATGTCCCAAACATGGTCTTACATGAGATGTT-TCCTATAC--TA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGA-GTTCTCATAT-CGGTA
* * * *
21532458 CAAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATCGGTA
* ** * ** *
21532508 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATCGGTA
* * * ** **
21532558 CCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCAT-A--TCGGT-A
*
21532612 TGCCAATGCCATGTCCCAAACATGGTCTTACATG
1 --CCAATGCCATGTCCCAGACATGGTCTTACATG
21532646 GGGTCTCATC
Statistics
Matches: 152, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
48 4 0.03
49 35 0.23
50 80 0.53
53 3 0.02
54 1 0.01
56 29 0.19
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATCGGTA
Found at i:21534172 original size:13 final size:14
Alignment explanation
Indices: 21534154--21534194 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
21534144 GATACAGATA
21534154 CAGATA-ACAAAAT
1 CAGATATACAAAAT
* *
21534167 CAGATATGCAGAA-
1 CAGATATACAAAAT
21534180 CAGATATACAAAAT
1 CAGATATACAAAAT
21534194 C
1 C
21534195 CTATCCCCCG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.54, C:0.17, G:0.12, T:0.17
Consensus pattern (14 bp):
CAGATATACAAAAT
Found at i:21545123 original size:43 final size:43
Alignment explanation
Indices: 21545062--21545167 Score: 140
Period size: 43 Copynumber: 2.5 Consensus size: 43
21545052 GTGTTCTTGT
* * *
21545062 GTAAGACCCTATGTGGGACAGAGGCAACGAGATGTGATTTCGA
1 GTAAGACCCTGTGTGGGACAGAGGCAACGAGATGTAATTGCGA
* * ** *
21545105 GTAAGACCCTGTGTGGGACAGTGGCATCGATTTGTAATTGGGA
1 GTAAGACCCTGTGTGGGACAGAGGCAACGAGATGTAATTGCGA
21545148 GTAAGACCCTGTGTGGGACA
1 GTAAGACCCTGTGTGGGACA
21545168 TCGACAATGT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (43 bp):
GTAAGACCCTGTGTGGGACAGAGGCAACGAGATGTAATTGCGA
Done.