Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 76 of 213
Found at i:20604605 original size:20 final size:20
Alignment explanation
Indices: 20604580--20604620 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20604570 CTTAGTTGGC
20604580 ATTAGCATTACTGCTAGTGT
1 ATTAGCATTACTGCTAGTGT
20604600 ATTAGCATTACTGCTAGTGT
1 ATTAGCATTACTGCTAGTGT
20604620 A
1 A
20604621 GGAGAACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTAGCATTACTGCTAGTGT
Found at i:20615115 original size:21 final size:22
Alignment explanation
Indices: 20615056--20615115 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
20615046 TAATTTTATA
20615056 TTTTTTTTAATTATTTTTTTGAAC
1 TTTTTTTT-A-TATTTTTTTGAAC
* * *
20615080 -TTTTATAAGATTTTTTTGAAC
1 TTTTTTTTATATTTTTTTGAAC
20615101 TTTTTTTTATATTTT
1 TTTTTTTTATATTTT
20615116 AGTGAGGGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
21 12 0.41
22 12 0.41
23 5 0.17
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTTTTTATATTTTTTTGAAC
Found at i:20615205 original size:21 final size:21
Alignment explanation
Indices: 20615179--20615229 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
20615169 AGCGGTGGCG
*
20615179 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
*
20615200 GTGAGATTAGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
20615221 GTGAGATTA
1 GTGAGATTA
20615230 AAAACAATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.08, G:0.31, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:20623148 original size:19 final size:21
Alignment explanation
Indices: 20623124--20623162 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20623114 TACTATTTAT
20623124 TTGGT-CAAG-TATCGATACC
1 TTGGTCCAAGTTATCGATACC
*
20623143 TTGGTCCCAGTTATCGATAC
1 TTGGTCCAAGTTATCGATAC
20623163 TTTTACTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (21 bp):
TTGGTCCAAGTTATCGATACC
Found at i:20645797 original size:50 final size:50
Alignment explanation
Indices: 20645722--20645909 Score: 232
Period size: 50 Copynumber: 3.8 Consensus size: 50
20645712 TTTTTTGTAC
* * * * * ** *
20645722 TGCCAATGCCATATCCCAAATATGGTCTTGCATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
* * * ** *
20645772 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
* *
20645822 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACATCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
20645872 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAC
20645910 CTCTTTACCC
Statistics
Matches: 118, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 118 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
Found at i:20645856 original size:100 final size:100
Alignment explanation
Indices: 20645673--20645913 Score: 252
Period size: 100 Copynumber: 2.4 Consensus size: 100
20645663 GATAATAACA
* * ** * ** * *
20645673 TGCCAAAGCCATGTCCCAGACATGGTCTTACACGGGATGTTTTTTGTAC--TGCCAATGCCATAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCT-CGGTGCCAACGCCATAT
* * * **
20645736 CCCAAATATGGTCTTGCATGGGAGTTCTCATATCGG
65 CCCAAACATAGTCTTACATGGGACATCTCATATCGG
* * * * *
20645772 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATATC
* * *
20645837 CCAGACATAGTCTTACATGGGACATCTTATCTCGG
66 CCAAACATAGTCTTACATGGGACATCTCATATCGG
*
20645872 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
20645914 TTACCCAAAT
Statistics
Matches: 114, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
98 1 0.01
99 36 0.32
100 77 0.68
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATATC
CCAAACATAGTCTTACATGGGACATCTCATATCGG
Found at i:20648956 original size:56 final size:60
Alignment explanation
Indices: 20648850--20648990 Score: 175
Period size: 56 Copynumber: 2.4 Consensus size: 60
20648840 ACCCTAATTC
* * * *
20648850 GGATTACCCGTCCGGGCTAAATCTATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCTATCTTCCACATATTCTTCGAGAGGGCTATATCGATA
*
20648908 -GATCACCCGTCCGGGCTAGATCT-TCTT-CACACTATTCTTTGAGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCTATCTTCCACA-TATTCTTCGAGAGGGCTATATC--GATA
20648968 GGATCACCCGTCCGGGCTAGATC
1 GGATCACCCGTCCGGGCTAGATC
20648991 CTTTTTACCG
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
55 4 0.06
56 23 0.32
57 21 0.29
59 1 0.01
60 1 0.01
61 22 0.31
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCTATCTTCCACATATTCTTCGAGAGGGCTATATCGATA
Found at i:20653075 original size:67 final size:66
Alignment explanation
Indices: 20652961--20653217 Score: 306
Period size: 67 Copynumber: 3.8 Consensus size: 66
20652951 GAGGTATAGG
* *
20652961 GTGTAAGACCATAGCTCAACTATGGCAATGA-ATG-GA-TTCTGTTGGGACAGTAAACATGGGGT
1 GTGTAAGACCATAGCTC-ACTATGGCAA-CATA-GAGAGTTC-GTAGGGACAGTAAACATGGGGT
20653023 ATGTT
62 ATGTT
*
20653028 GTGTAAGACCATAGCTCATCTATGACAACATAGAGAGTTCGTAGGGACAGTAAACATGGGGTATG
1 GTGTAAGACCATAGCTCA-CTATGGCAACATAGAGAGTTCGTAGGGACAGTAAACATGGGGTATG
20653093 TT
65 TT
* * * *
20653095 GTGTAAGACCATAGCTCAGCTATGGCAGCATAGAGAGTTTGCTA-GGACAGTAAACACGAGGTAT
1 GTGTAAGACCATAGCTCA-CTATGGCAACATAGAGAGTTCG-TAGGGACAGTAAACATGGGGTAT
20653159 GTT
64 GTT
* * * * *
20653162 GTGTAAGACCATAGGTCGACTATGGCAACATAGAGAGTCCGTTGGAATAGTAAACA
1 GTGTAAGACCATAGCTC-ACTATGGCAACATAGAGAGTTCGTAGGGACAGTAAACA
20653218 CGGGAAGTCT
Statistics
Matches: 167, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
66 4 0.02
67 157 0.94
68 6 0.04
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (66 bp):
GTGTAAGACCATAGCTCACTATGGCAACATAGAGAGTTCGTAGGGACAGTAAACATGGGGTATGT
T
Found at i:20653193 original size:134 final size:134
Alignment explanation
Indices: 20652961--20653217 Score: 342
Period size: 134 Copynumber: 1.9 Consensus size: 134
20652951 GAGGTATAGG
* * * *
20652961 GTGTAAGACCATAGCTCAACTATGGCAATGAATGGATTCTGTTGGGACAGTAAACATGGGGTATG
1 GTGTAAGACCATAGCTCAACTATGGCAATGAATGGATTCTGCTAGGACAGTAAACACGAGGTATG
* *
20653026 TTGTGTAAGACCATAGCTCATCTATGACAACATAGAGAGTTCGTAGGGACAGTAAACATGGGGTA
66 TTGTGTAAGACCATAGCTCATCTATGACAACATAGAGAGTCCGTAGGAACAGTAAACATGGGGTA
20653091 TGTT
131 TGTT
* *
20653095 GTGTAAGACCATAGCTCAGCTATGGC-A-GCATAGAGAGTT-TGCTAGGACAGTAAACACGAGGT
1 GTGTAAGACCATAGCTCAACTATGGCAATGAAT-G-GA-TTCTGCTAGGACAGTAAACACGAGGT
* * * *
20653157 ATGTTGTGTAAGACCATAGGTCGA-CTATGGCAACATAGAGAGTCCGTTGGAATAGTAAACA
63 ATGTTGTGTAAGACCATAGCTC-ATCTATGACAACATAGAGAGTCCGTAGGAACAGTAAACA
20653218 CGGGAAGTCT
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
132 3 0.03
133 2 0.02
134 99 0.93
135 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (134 bp):
GTGTAAGACCATAGCTCAACTATGGCAATGAATGGATTCTGCTAGGACAGTAAACACGAGGTATG
TTGTGTAAGACCATAGCTCATCTATGACAACATAGAGAGTCCGTAGGAACAGTAAACATGGGGTA
TGTT
Found at i:20655194 original size:27 final size:27
Alignment explanation
Indices: 20655164--20655220 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
20655154 AGTCTATTGA
* * *
20655164 GACATTAAACACGAGGTAGTCTGTCAG
1 GACATTAAACACAAGGTAGCCCGTCAG
20655191 GACATTAAACACAAGGTAGCCCGTCAG
1 GACATTAAACACAAGGTAGCCCGTCAG
20655218 GAC
1 GAC
20655221 GTTATGTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
GACATTAAACACAAGGTAGCCCGTCAG
Found at i:20659980 original size:13 final size:13
Alignment explanation
Indices: 20659949--20659980 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
20659939 TGATTTTTTT
20659949 TATTTTTAAATAA
1 TATTTTTAAATAA
20659962 TA--TTTAAATAA
1 TATTTTTAAATAA
20659973 TATTTTTA
1 TATTTTTA
20659981 TAGACTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTTAAATAA
Found at i:20665624 original size:19 final size:20
Alignment explanation
Indices: 20665596--20665633 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20665586 ACTAAGGTAA
20665596 ATATGCAATT-ATAAATAAT
1 ATATGCAATTAATAAATAAT
*
20665615 ATATGGAATTAATAAATAA
1 ATATGCAATTAATAAATAA
20665634 CTGGAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (20 bp):
ATATGCAATTAATAAATAAT
Found at i:20667513 original size:70 final size:71
Alignment explanation
Indices: 20667237--20667803 Score: 388
Period size: 70 Copynumber: 8.1 Consensus size: 71
20667227 GATCTCCCCA
* * * * * ** * *
20667237 AAAATAGTTAGTGAGAGCTCAAGCTCCCAACTGTAGCT-TTAAGACTCGCAGGTTCAATACCGCA
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTGTAGATCTTAAGGCTCATAGGTTCAATATCGTA
20667301 GCCTCT
66 GCCTCT
* * * * * * * ** * **
20667307 GAAACAGGTAGCGATAGCTCAAGCTCCCAACTATAG-TTTTAAAGCTCCCAAGTTCAAT-TACAC
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTGTAGATCTTAAGGCTCATAGGTTCAATAT-CGT
20667370 AGCCTCT
65 AGCCTCT
* * * * * * * *
20667377 AAAGCAGTTAGCAAGAGCTCAAGCTCAC-ATTGT-GATCTTAAGGCTCGTAAGTTCAATATCGCA
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTGTAGATCTTAAGGCTCATAGGTTCAATATCGTA
*
20667440 GCCTTT
66 GCCTCT
** * * **
20667446 AAAACAGTTAGCGAGAGCCCAAGCTCTTAATTGTAGCT-TTAAGGCTTGTAGGTTCAATA-CTGT
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTGTAGATCTTAAGGCTCATAGGTTCAATATC-GT
*
20667509 AGCCTCC
65 AGCCTCT
* * * * * *
20667516 AAAATAGTTAACGAGAGCCTAAGCTCCC-AGT-TATGATCGTAAGGCTCATAGGTTTAATATCGT
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTGTA-GATCTTAAGGCTCATAGGTTCAATATCGT
*
20667579 AGCCTCC
65 AGCCTCT
* * * * ** * **
20667586 AAAACAGTTAGTGCGAGCCCAAGCTCCCAACTATAGCT-TTAAAACTCACAGGTTCAATATTATA
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTGTAGATCTTAAGGCTCATAGGTTCAATATCGTA
20667650 GCCTCT
66 GCCTCT
* * * *
20667656 AAAACAATTAGCGATAGCCCAAGCTCCTAACTGTA-ATCTTAAGGCTCATAGGTTCAATATCATA
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTGTAGATCTTAAGGCTCATAGGTTCAATATCGTA
20667720 GCCTCT
66 GCCTCT
* * * ** * ** * *
20667726 AAAATAGTTAGTGTGAGCTGAAGCT-CCAACTGTAGCT-TTAAGGCTCGCAGGTTCAACA-CTGC
1 AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTGTAGATCTTAAGGCTCATAGGTTCAATATC-GT
*
20667788 AACCTCT
65 AGCCTCT
20667795 AAAACAGTT
1 AAAACAGTT
20667804 GAAGCTTGCG
Statistics
Matches: 392, Mismatches: 90, Indels: 31
0.76 0.18 0.06
Matches are distributed among these distances:
68 4 0.01
69 99 0.25
70 280 0.71
71 7 0.02
72 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (71 bp):
AAAACAGTTAGCGAGAGCCCAAGCTCCCAACTGTAGATCTTAAGGCTCATAGGTTCAATATCGTA
GCCTCT
Found at i:20670413 original size:20 final size:19
Alignment explanation
Indices: 20670368--20670414 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
20670358 AATGTCAGTC
* *
20670368 TTATGAATAGTGGGGTCAA
1 TTATGAACAGTGGAGTCAA
20670387 TTCATGAACAGTGGAGTCAAA
1 TT-ATGAACAGTGGAGTC-AA
20670408 TTATGAA
1 TTATGAA
20670415 TAGTAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 4 0.17
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.30
Consensus pattern (19 bp):
TTATGAACAGTGGAGTCAA
Found at i:20672622 original size:79 final size:79
Alignment explanation
Indices: 20672524--20672677 Score: 245
Period size: 79 Copynumber: 1.9 Consensus size: 79
20672514 GATATGGAAG
* * *
20672524 GGATTGCTCGGAATTCTTTTAAGTACCTTTTATTTACAAAAGGTATTGGTGATATGGATCATATT
1 GGATTACTCGAAATTCTTTTAAGAACCTTTTATTTACAAAAGGTATTGGTGATATGGATCATATT
* *
20672589 TTAGCTGGTGATAT
66 TCAACTGGTGATAT
* *
20672603 GGATTACTCGAAATTCTTTTAAGAACTTTTTATTTACAAATGGTATTGGTGATATGGATCATATT
1 GGATTACTCGAAATTCTTTTAAGAACCTTTTATTTACAAAAGGTATTGGTGATATGGATCATATT
20672668 TCAACTGGTG
66 TCAACTGGTG
20672678 TGAACATATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (79 bp):
GGATTACTCGAAATTCTTTTAAGAACCTTTTATTTACAAAAGGTATTGGTGATATGGATCATATT
TCAACTGGTGATAT
Found at i:20675969 original size:20 final size:22
Alignment explanation
Indices: 20675946--20675992 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
20675936 TATTAGAAAT
20675946 TTTACTT-AAATAT-TTAAAAA
1 TTTACTTAAAATATGTTAAAAA
20675966 TTTA-TTAAAATATGTTAAAAA
1 TTTACTTAAAATATGTTAAAAA
*
20675987 TATACT
1 TTTACT
20675993 ACAATTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 2 0.09
20 10 0.43
21 10 0.43
22 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (22 bp):
TTTACTTAAAATATGTTAAAAA
Found at i:20676786 original size:16 final size:15
Alignment explanation
Indices: 20676767--20676797 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
20676757 AATTTGTAAT
20676767 TTTTTATACTATATTA
1 TTTTTATA-TATATTA
20676783 TTTTTATATATATTA
1 TTTTTATATATATTA
20676798 CGTAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTATATATATTA
Found at i:20682266 original size:29 final size:29
Alignment explanation
Indices: 20682231--20682297 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
20682221 TGTGATATGC
* *
20682231 GAACCCTAGGAACATGCGAGCCTATGTGT
1 GAACCCTAGGAACATGCGAGCATATGTGA
* * *
20682260 GAACCCTAGTAATATGCTAGCATATGTGA
1 GAACCCTAGGAACATGCGAGCATATGTGA
*
20682289 AAACCCTAG
1 GAACCCTAG
20682298 AAACTTGCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (29 bp):
GAACCCTAGGAACATGCGAGCATATGTGA
Found at i:20701879 original size:20 final size:20
Alignment explanation
Indices: 20701843--20701890 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
20701833 CCTTTGCATA
*
20701843 GCTCTGTTTAGCACTGCTTT
1 GCTCTGTTTAGCACTGCTAT
* **
20701863 GTTCTGTTTAGTTCTGCTAT
1 GCTCTGTTTAGCACTGCTAT
20701883 GCTCTGTT
1 GCTCTGTT
20701891 CTGTTATGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.08, C:0.21, G:0.21, T:0.50
Consensus pattern (20 bp):
GCTCTGTTTAGCACTGCTAT
Found at i:20701917 original size:25 final size:25
Alignment explanation
Indices: 20701857--20701905 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
20701847 TGTTTAGCAC
*
20701857 TGCTTTGTTCTGTTTAGTTCTGCTA
1 TGCTCTGTTCTGTTTAGTTCTGCTA
20701882 TGCTCTGTTCTG-TTATGTTCTGCT
1 TGCTCTGTTCTGTTTA-GTTCTGCT
20701906 CTGTCCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.06, C:0.18, G:0.20, T:0.55
Consensus pattern (25 bp):
TGCTCTGTTCTGTTTAGTTCTGCTA
Found at i:20725696 original size:28 final size:27
Alignment explanation
Indices: 20725648--20725708 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
20725638 AAATTAGCTC
* * *
20725648 GCTTATCGTATTATGTCGCACTTTGTT
1 GCTTATCATATTATGTCGCACTTCGGT
* *
20725675 GCTTATCAATATTATTTTGCACTTCGGT
1 GCTTATC-ATATTATGTCGCACTTCGGT
20725703 GCTTAT
1 GCTTAT
20725709 TGTTATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (27 bp):
GCTTATCATATTATGTCGCACTTCGGT
Found at i:20725730 original size:23 final size:25
Alignment explanation
Indices: 20725686--20725733 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
20725676 CTTATCAATA
*
20725686 TTATTTTGCACTTCGGTGCTTATTG
1 TTATTTTGCACATCGGTGCTTATTG
20725711 TTATTTT-CACATC-GTGCTTATTG
1 TTATTTTGCACATCGGTGCTTATTG
20725734 ATATATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 5 0.23
25 7 0.32
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.52
Consensus pattern (25 bp):
TTATTTTGCACATCGGTGCTTATTG
Found at i:20730353 original size:24 final size:24
Alignment explanation
Indices: 20730304--20730362 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
20730294 TAAAAATAAA
*
20730304 AATA-AATAATTTAATAACATTCTT
1 AATATAAT-ATTTAATAAAATTCTT
20730328 AATATAATATTTAATAATAATT-TT
1 AATATAATATTTAATAA-AATTCTT
20730352 AATATAATATT
1 AATATAATATT
20730363 ATTATTAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 26 0.81
25 6 0.19
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
AATATAATATTTAATAAAATTCTT
Found at i:20734717 original size:26 final size:26
Alignment explanation
Indices: 20734688--20734738 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
20734678 GATATGCAAG
*
20734688 ATATTAATCTTTTA-AATATTATACAA
1 ATATAAAT-TTTTAGAATATTATACAA
*
20734714 ATATAAATTTTTAGAATATTTTACA
1 ATATAAATTTTTAGAATATTATACA
20734739 TATTTTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (26 bp):
ATATAAATTTTTAGAATATTATACAA
Found at i:20740665 original size:118 final size:118
Alignment explanation
Indices: 20740510--20740746 Score: 474
Period size: 118 Copynumber: 2.0 Consensus size: 118
20740500 GACTATACCA
20740510 TGACTTGTGTCCAATTTAGATATAAAGGATAAAAGAATATGATACATGAAAAGTTTATCACGAAA
1 TGACTTGTGTCCAATTTAGATATAAAGGATAAAAGAATATGATACATGAAAAGTTTATCACGAAA
20740575 AGGTTATGTCGAATCACGACTTCTTGTAACTTGAGTAGCAATAAGCTCTCCCC
66 AGGTTATGTCGAATCACGACTTCTTGTAACTTGAGTAGCAATAAGCTCTCCCC
20740628 TGACTTGTGTCCAATTTAGATATAAAGGATAAAAGAATATGATACATGAAAAGTTTATCACGAAA
1 TGACTTGTGTCCAATTTAGATATAAAGGATAAAAGAATATGATACATGAAAAGTTTATCACGAAA
20740693 AGGTTATGTCGAATCACGACTTCTTGTAACTTGAGTAGCAATAAGCTCTCCCC
66 AGGTTATGTCGAATCACGACTTCTTGTAACTTGAGTAGCAATAAGCTCTCCCC
20740746 T
1 T
20740747 CACCTCGCTA
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (118 bp):
TGACTTGTGTCCAATTTAGATATAAAGGATAAAAGAATATGATACATGAAAAGTTTATCACGAAA
AGGTTATGTCGAATCACGACTTCTTGTAACTTGAGTAGCAATAAGCTCTCCCC
Found at i:20742092 original size:18 final size:19
Alignment explanation
Indices: 20742069--20742118 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
20742059 TAAGGAACTT
20742069 TGGTATCGATAAAAA-ATA
1 TGGTATCGATAAAAACATA
20742087 TGGTATCGATAAAAATCATA
1 TGGTATCGATAAAAA-CATA
20742107 TGGATATCGATA
1 TGG-TATCGATA
20742119 CTTTTTGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.52
20 6 0.21
21 8 0.28
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (19 bp):
TGGTATCGATAAAAACATA
Found at i:20743610 original size:53 final size:53
Alignment explanation
Indices: 20743553--20743659 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
20743543 TTCTATTAAA
20743553 TATTAAAACCAAAACCCTTTCATTACAAACTTGACCTTATTTTCAAATTCTCT
1 TATTAAAACCAAAACCCTTTCATTACAAACTTGACCTTATTTTCAAATTCTCT
20743606 TATTAAAACCAAAACCCTTTCATTACAAACTTGACCTTATTTTCAAATTCTCT
1 TATTAAAACCAAAACCCTTTCATTACAAACTTGACCTTATTTTCAAATTCTCT
20743659 T
1 T
20743660 TCATTCGCCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (53 bp):
TATTAAAACCAAAACCCTTTCATTACAAACTTGACCTTATTTTCAAATTCTCT
Found at i:20751915 original size:3 final size:3
Alignment explanation
Indices: 20751909--20751983 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
20751899 TTCTTCAATC
*
20751909 GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
20751957 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
20751984 ACGCCATTAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20762956 original size:27 final size:27
Alignment explanation
Indices: 20762914--20762974 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
20762904 ATTTTTAAAG
* *
20762914 AAAAATAGAAACTTTTGAAACAATA-TA
1 AAAAATAGAAAATTTT-AAACAAAATTA
* *
20762941 AAAAATATAAAATTTTAAATAAAATTA
1 AAAAATAGAAAATTTTAAACAAAATTA
20762968 AAAAATA
1 AAAAATA
20762975 ATTAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAAATAGAAAATTTTAAACAAAATTA
Found at i:20783645 original size:27 final size:27
Alignment explanation
Indices: 20783599--20783721 Score: 129
Period size: 27 Copynumber: 4.6 Consensus size: 27
20783589 GTACGTTGTC
* * * * *
20783599 AAGGCATTCTTTTTAGAGTTTTCCATG
1 AAGGCATTCCTTTCAGAGTCTACCACG
* * * *
20783626 AAGGCATTCCTTTCAAAGTTTTCCATG
1 AAGGCATTCCTTTCAGAGTCTACCACG
* *
20783653 AATGCATTCCATTCAGAGTCTACCACG
1 AAGGCATTCCTTTCAGAGTCTACCACG
* *
20783680 AAGGCATTCCCTTCAGAGTCTACCACA
1 AAGGCATTCCTTTCAGAGTCTACCACG
20783707 AAGGCATTCCTTTCA
1 AAGGCATTCCTTTCA
20783722 TATATTTCCA
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (27 bp):
AAGGCATTCCTTTCAGAGTCTACCACG
Found at i:20785499 original size:16 final size:16
Alignment explanation
Indices: 20785475--20785510 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
20785465 TGGTTCACTA
*
20785475 TAATAGAATAGGGTTG
1 TAATAGAATAGAGTTG
*
20785491 TAATTGAATAGAGTTG
1 TAATAGAATAGAGTTG
20785507 TAAT
1 TAAT
20785511 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (16 bp):
TAATAGAATAGAGTTG
Found at i:20785717 original size:26 final size:25
Alignment explanation
Indices: 20785668--20785723 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
20785658 ATTGTTATTA
* ** *
20785668 AATTTTAATAAAATTATTATTAAAT
1 AATTTTAATAAAAATAAAAATAAAT
20785693 ATATTTTAATAAAAATAAAAATAAAT
1 A-ATTTTAATAAAAATAAAAATAAAT
20785719 AATTT
1 AATTT
20785724 AATCATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTTTAATAAAAATAAAAATAAAT
Found at i:20785764 original size:61 final size:58
Alignment explanation
Indices: 20785669--20785806 Score: 172
Period size: 61 Copynumber: 2.3 Consensus size: 58
20785659 TTGTTATTAA
* * *
20785669 ATTTTAATAAAATTATTATTAAATATATTTTAATAAAAATAAAAATAAATAATTTAAT-CAT
1 ATTTTAATATAATTATTATTAAATACAATTTAAT-AAAAT---AATAAATAATTTAATACAT
*
20785730 ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAGCAT
1 ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATA-CAT
*
20785789 -TCTTAATATAATTATTAT
1 ATTTTAATATAATTATTAT
20785807 AAGAATTAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
57 14 0.20
58 17 0.24
59 3 0.04
60 5 0.07
61 31 0.44
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAATACAT
Found at i:20785828 original size:21 final size:21
Alignment explanation
Indices: 20785811--20785852 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20785801 TATTATAAGA
20785811 ATTAAAAAATATAATATATAAT
1 ATTAAAAAA-ATAATATATAAT
*
20785833 ATTACAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
20785853 CCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:20785842 original size:23 final size:22
Alignment explanation
Indices: 20785793--20785852 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 22
20785783 TAGCATTCTT
20785793 AATATAATTATTATAAGAATTAAAA
1 AATATAA-TA-TATAAGAATT-AAA
*
20785818 AATATAATATATAA-TATTACAA
1 AATATAATATATAAGAATTA-AA
20785840 AA-ATAATATATAA
1 AATATAATATATAA
20785853 CCTACTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 12 0.36
22 7 0.21
23 5 0.15
24 2 0.06
25 7 0.21
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATAATATATAAGAATTAAA
Found at i:20789021 original size:21 final size:21
Alignment explanation
Indices: 20788921--20789038 Score: 110
Period size: 21 Copynumber: 5.6 Consensus size: 21
20788911 GTGAGGGTTT
* *
20788921 ACACACCCGTGTGAAGGCCAC
1 ACACGCCCGTGTGGAGGCCAC
* * *
20788942 ACACGTCTGTGTGGAGGCTAC
1 ACACGCCCGTGTGGAGGCCAC
* * *
20788963 ACACGTCTGTGTGTAGGCCAC
1 ACACGCCCGTGTGGAGGCCAC
*
20788984 ACACGCCCGTGTAGAGGCCAC
1 ACACGCCCGTGTGGAGGCCAC
* * ** *
20789005 ACACACCCATGTGGAGGGGAG
1 ACACGCCCGTGTGGAGGCCAC
20789026 ACACGCCCGTGTG
1 ACACGCCCGTGTG
20789039 AGCAGCCCGT
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (21 bp):
ACACGCCCGTGTGGAGGCCAC
Found at i:20789122 original size:21 final size:18
Alignment explanation
Indices: 20789098--20789142 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
20789088 GGAGACACGG
20789098 CCGTGTAGAGATCTCACATGC
1 CCGTGTAGAGA---CACATGC
*
20789119 CCGTGTAGGGACACATGC
1 CCGTGTAGAGACACATGC
20789137 CCGTGT
1 CCGTGT
20789143 GGCCAGGCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 13 0.57
21 10 0.43
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.22
Consensus pattern (18 bp):
CCGTGTAGAGACACATGC
Found at i:20789856 original size:27 final size:26
Alignment explanation
Indices: 20789809--20789872 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
20789799 ATTCACCAAC
* * *
20789809 TAAAATAAGATAAATACATAAATACA
1 TAAAATAAAATAAAAAAATAAATACA
20789835 TAAAATAAAAATAAAAAAATAAATA-A
1 TAAAAT-AAAATAAAAAAATAAATACA
*
20789861 CTAAAACAAAAT
1 -TAAAATAAAAT
20789873 TACTCTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.20
Consensus pattern (26 bp):
TAAAATAAAATAAAAAAATAAATACA
Found at i:20806890 original size:21 final size:22
Alignment explanation
Indices: 20806848--20806900 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
20806838 CGTTGAAACC
*
20806848 AAAAATGAATCGTGTGTTTGAAT
1 AAAAATGAATC-TGTATTTGAAT
20806871 AAAAATGAAT-TGTATTTGAAT
1 AAAAATGAATCTGTATTTGAAT
*
20806892 AGAAATGAA
1 AAAAATGAA
20806901 AGGAATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 18 0.64
23 10 0.36
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.32
Consensus pattern (22 bp):
AAAAATGAATCTGTATTTGAAT
Found at i:20807230 original size:26 final size:25
Alignment explanation
Indices: 20807160--20807232 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
20807150 TATTTTCTCG
*
20807160 AAATTTTACTAAGGGCAAAATCATCA
1 AAATTTTACTAA-GGTAAAATCATCA
* *
20807186 AAATTTTATCAAAGGTAAAATCGTCA
1 AAATTTTA-CTAAGGTAAAATCATCA
*
20807212 AAATTTTGCTAAGGATAAAAT
1 AAATTTTACTAAGG-TAAAAT
20807233 AGGGATGGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.12
26 32 0.80
27 3 0.08
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (25 bp):
AAATTTTACTAAGGTAAAATCATCA
Found at i:20820914 original size:38 final size:38
Alignment explanation
Indices: 20820847--20820937 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
20820837 AAAAATAGTT
* *
20820847 GACATGTTTAACATGTATCCAGTTCAACAGTAGCAATA
1 GACATGCTTAACATGTATCCAGTTCAACAGTAACAATA
*** * *
20820885 GACATGCTTAACATGTATTTGGTTTAACAGTAACAGTA
1 GACATGCTTAACATGTATCCAGTTCAACAGTAACAATA
* *
20820923 GGCATGCTAAACATG
1 GACATGCTTAACATG
20820938 CAATCAGTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (38 bp):
GACATGCTTAACATGTATCCAGTTCAACAGTAACAATA
Found at i:20839613 original size:23 final size:23
Alignment explanation
Indices: 20839570--20839617 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
20839560 AATACGTTAA
20839570 AAATATTTTTTATGTATTATTTG
1 AAATATTTTTTATGTATTATTTG
20839593 AAAT-TTTTTTAT-TATAATATTTG
1 AAATATTTTTTATGTAT--TATTTG
20839616 AA
1 AA
20839618 TTGATAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.13
22 8 0.35
23 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (23 bp):
AAATATTTTTTATGTATTATTTG
Found at i:20846284 original size:87 final size:86
Alignment explanation
Indices: 20846176--20846334 Score: 246
Period size: 87 Copynumber: 1.8 Consensus size: 86
20846166 TACATACATA
* * * *
20846176 AGGTTGAGTTCTTACTCTTAATGAATTCATATCCCAGGGTTTGGGTGGTCCTATTGAGACAGGCT
1 AGGTTGAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTCGGTGGTCCTATTGAAACAGACT
20846241 TGATGAATTCATTGACATGTG
66 TGATGAATTCATTGACATGTG
** *
20846262 AGGTTGAGTTTCTTACTCTTAATGGGTTCATATCCTAGAGTTTCGGTGGTCCTATTGAAACAGAC
1 AGGTTGAG-TTCTTACTCTTAATGAATTCATATCCCAGAGTTTCGGTGGTCCTATTGAAACAGAC
20846327 TTGATGAA
65 TTGATGAA
20846335 CTCGTCGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
86 8 0.12
87 57 0.88
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (86 bp):
AGGTTGAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTCGGTGGTCCTATTGAAACAGACT
TGATGAATTCATTGACATGTG
Found at i:20848896 original size:24 final size:24
Alignment explanation
Indices: 20848869--20848920 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20848859 TTAGTAAGTC
*
20848869 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20848893 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20848917 AAAT
1 AAAT
20848921 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20850865 original size:24 final size:24
Alignment explanation
Indices: 20850838--20850889 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
20850828 TTAGTAAGTC
*
20850838 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
20850862 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
20850886 AAAT
1 AAAT
20850890 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:20855826 original size:17 final size:17
Alignment explanation
Indices: 20855789--20855826 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
20855779 ATTTAACCAT
*
20855789 TTTTATTTTTATTATAT
1 TTTTATTTTTATTATAA
20855806 TTTTATTTTTAGTT-TAA
1 TTTTATTTTTA-TTATAA
20855823 TTTT
1 TTTT
20855827 TGTTTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTATAA
Found at i:20862275 original size:17 final size:17
Alignment explanation
Indices: 20862219--20862276 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
20862209 CGGGCAAGAC
* *
20862219 ACACGGCCGAGTGCAAG
1 ACACGACCGTGTGCAAG
20862236 ACACGACC-T-TGC--G
1 ACACGACCGTGTGCAAG
* *
20862249 ACATGGCCGTGTGCAAG
1 ACACGACCGTGTGCAAG
20862266 ACACGACCGTG
1 ACACGACCGTG
20862277 CGACACAGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
13 7 0.23
14 1 0.03
15 6 0.19
17 17 0.55
ACGTcount: A:0.26, C:0.31, G:0.31, T:0.12
Consensus pattern (17 bp):
ACACGACCGTGTGCAAG
Found at i:20862288 original size:30 final size:30
Alignment explanation
Indices: 20862219--20862291 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
20862209 CGGGCAAGAC
* *
20862219 ACACGGCCGAGTGCAAGACACGACCTTGCG
1 ACACGGCCGTGTGCAAGACACGACCGTGCG
*
20862249 ACATGGCCGTGTGCAAGACACGACCGTGCG
1 ACACGGCCGTGTGCAAGACACGACCGTGCG
*
20862279 ACACAGCCGTGTG
1 ACACGGCCGTGTG
20862292 TGCCACAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.32, T:0.12
Consensus pattern (30 bp):
ACACGGCCGTGTGCAAGACACGACCGTGCG
Found at i:20875588 original size:21 final size:22
Alignment explanation
Indices: 20875559--20875601 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
20875549 GCTTGAGAGA
*
20875559 AATACTTTTTCTCTAAAAAAAG
1 AATACTTTTTATCTAAAAAAAG
20875581 AATA-TTTTTATCTAAAAAAAG
1 AATACTTTTTATCTAAAAAAAG
20875602 TGTGGGGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (22 bp):
AATACTTTTTATCTAAAAAAAG
Found at i:20883790 original size:15 final size:16
Alignment explanation
Indices: 20883752--20883792 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
20883742 AATGATTTTC
*
20883752 ATTTATT-TATATTAA
1 ATTTATTATTTATTAA
20883767 ATTTATTATTTATTAA
1 ATTTATTATTTATTAA
*
20883783 GTTT-TTATTT
1 ATTTATTATTT
20883793 TAAATAGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
ATTTATTATTTATTAA
Found at i:20883794 original size:16 final size:16
Alignment explanation
Indices: 20883753--20883794 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
20883743 ATGATTTTCA
20883753 TTTATTTATATTAAATT
1 TTTATTT-TATTAAATT
*
20883770 TATTA-TTTATTAAGTT
1 T-TTATTTTATTAAATT
20883786 TTTATTTTA
1 TTTATTTTA
20883795 AATAGATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 3 0.14
16 13 0.59
17 3 0.14
18 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTATTTTATTAAATT
Found at i:20884087 original size:26 final size:24
Alignment explanation
Indices: 20884030--20884106 Score: 61
Period size: 26 Copynumber: 3.1 Consensus size: 24
20884020 AATTTTCTAA
*
20884030 TTATTATTTAAAATTTAAA-TTAATT
1 TTATTA-TT-AAATTTAAATTTACTT
*
20884055 CTAATTACTTGAAATTTAAATTTACTT
1 -TTATTA-TT-AAATTTAAATTTACTT
*
20884082 TTATTATTACA-TTAAATTT-CTT
1 TTATTATTAAATTTAAATTTACTT
20884104 TTA
1 TTA
20884107 AATTATTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 6 0.14
23 8 0.18
24 2 0.05
25 2 0.05
26 21 0.48
27 5 0.11
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (24 bp):
TTATTATTAAATTTAAATTTACTT
Found at i:20886153 original size:50 final size:50
Alignment explanation
Indices: 20886042--20886289 Score: 262
Period size: 50 Copynumber: 4.8 Consensus size: 50
20886032 ATTTGGGTAA
* * *
20886042 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
20886098 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTCGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
20886148 AGAGGTCTCATGTAAGACCATGTTTGGGACATGACGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
20886198 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
20886248 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
20886290 GTACAAGAAA
Statistics
Matches: 165, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
50 123 0.75
53 3 0.02
55 1 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:20886229 original size:100 final size:102
Alignment explanation
Indices: 20886050--20886289 Score: 295
Period size: 100 Copynumber: 2.3 Consensus size: 102
20886040 AAAGAGATCC
* * *
20886050 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGA
1 CATGTAAGACCATGTTTGGGACATGACATTGGCACCA-T-AG--TATGAGAGGTCCCACGTAAGA
* **
20886115 CCATGTCTGGGACATGGCGTCGGCACCGAGATGAGAGGTCT
62 CCATGTCTGGGACATGGCATCGGCACCGAGATGAGAACTCT
* *
20886156 CATGTAAGACCATGTTTGGGACATGACGTTGGCACCA-AG-ATGAGAGGTCCCCCGTAAGACCAT
1 CATGTAAGACCATGTTTGGGACATGACATTGGCACCATAGTATGAGAGGTCCCACGTAAGACCAT
* * *
20886219 GTCTGGGACATGGCATGGGCACCTATATGAGAACTCT
66 GTCTGGGACATGGCATCGGCACCGAGATGAGAACTCT
* * * *
20886256 CATGTAAGACCATATCTGGGATATGGCATTGGCA
1 CATGTAAGACCATGTTTGGGACATGACATTGGCA
20886290 GTACAAGAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
100 82 0.69
103 2 0.02
106 34 0.29
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (102 bp):
CATGTAAGACCATGTTTGGGACATGACATTGGCACCATAGTATGAGAGGTCCCACGTAAGACCAT
GTCTGGGACATGGCATCGGCACCGAGATGAGAACTCT
Found at i:20886323 original size:49 final size:50
Alignment explanation
Indices: 20886106--20886328 Score: 173
Period size: 50 Copynumber: 4.5 Consensus size: 50
20886096 TGAGAGGTCC
* * * * * **
20886106 CATGTAAGACCATGTCTGGGACATGGCGTCGGCACCGAGATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
* * * * * * * ** *
20886156 CATGTAAGACCATGTTTGGGACATGACGTTGGCACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
** * *
20886206 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
* * * *
20886256 CATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AACATC-
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC-TCT
*
20886304 CGATGTAAGACTATGTCTGGGACAT
1 C-ATGTAAGACCATGTCTGGGACAT
20886329 AGCTTTGGCA
Statistics
Matches: 144, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
48 4 0.03
49 27 0.19
50 113 0.78
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
Found at i:20904126 original size:47 final size:47
Alignment explanation
Indices: 20904057--20904150 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
20904047 TCACTCTGTT
20904057 AGATGTTGAATACCTACCTCAGAATGGGGTACTCATAGATACTATTA
1 AGATGTTGAATACCTACCTCAGAATGGGGTACTCATAGATACTATTA
20904104 AGATGTTGAATACCTACCTCAGAATGGGGTACTCATAGATACTATTA
1 AGATGTTGAATACCTACCTCAGAATGGGGTACTCATAGATACTATTA
20904151 TTGGCGGATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (47 bp):
AGATGTTGAATACCTACCTCAGAATGGGGTACTCATAGATACTATTA
Found at i:20904800 original size:23 final size:23
Alignment explanation
Indices: 20904755--20904848 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 23
20904745 GGGCGTTACT
* * * *
20904755 AATACGCCACACAGGCATCACAG
1 AATATGCCACAAAGGCTTTACAG
* *
20904778 AATATTCCACAAAGACTTTACAG
1 AATATGCCACAAAGGCTTTACAG
**
20904801 AATATGCCACGTAGGCTTTATC-G
1 AATATGCCACAAAGGCTTTA-CAG
*
20904824 AATATGCCACAAAGGCTTTATAG
1 AATATGCCACAAAGGCTTTACAG
20904847 AA
1 AA
20904849 AATTACGTGT
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
23 55 0.98
24 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (23 bp):
AATATGCCACAAAGGCTTTACAG
Found at i:20906274 original size:17 final size:17
Alignment explanation
Indices: 20906252--20906288 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
20906242 TTGGTTGATA
20906252 CTCGCTTATCTCTCAAC
1 CTCGCTTATCTCTCAAC
*
20906269 CTCGCTTATCTCTCGAC
1 CTCGCTTATCTCTCAAC
20906286 CTC
1 CTC
20906289 ATTTAGCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.14, C:0.43, G:0.08, T:0.35
Consensus pattern (17 bp):
CTCGCTTATCTCTCAAC
Found at i:20909422 original size:29 final size:29
Alignment explanation
Indices: 20909390--20909458 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
20909380 AAAAAGTTTG
*
20909390 GTTCGGTTAATTTTTTTGAAA-AAATTTCA
1 GTTCGATTAATTTTTTT-AAATAAATTTCA
20909419 GTTCGATTAATTTTTTTAAATAAATTTC-
1 GTTCGATTAATTTTTTTAAATAAATTTCA
20909447 GTTTCGATTAAT
1 G-TTCGATTAAT
20909459 AGTTAAGGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 4 0.11
29 33 0.89
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (29 bp):
GTTCGATTAATTTTTTTAAATAAATTTCA
Found at i:20910622 original size:38 final size:38
Alignment explanation
Indices: 20910566--20910656 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
20910556 TTATCGATTG
* *
20910566 CATGTTTAA-CATGCCTACTATTAC-ATTTGAACCGAATA
1 CATG-TTAAGCATGTCTACTACTACTA-TTGAACCGAATA
* *
20910604 TATGTTAAGCATGTCTACTACTACTATTGAACTGAATA
1 CATGTTAAGCATGTCTACTACTACTATTGAACCGAATA
20910642 CATGTTAAGCATGTC
1 CATGTTAAGCATGTC
20910657 ATACCGCATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
37 4 0.09
38 41 0.89
39 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (38 bp):
CATGTTAAGCATGTCTACTACTACTATTGAACCGAATA
Found at i:20915100 original size:35 final size:35
Alignment explanation
Indices: 20915061--20915157 Score: 113
Period size: 35 Copynumber: 2.8 Consensus size: 35
20915051 ATTTATTGAT
* * *
20915061 ATTATGTTTCGCATATTGAGCATGCTATTATTCTG
1 ATTATGATTCGCATATTAAGCATGCCATTATTCTG
* *
20915096 ATTATGATTCGCATGTTAAGCATGCCATTATTTTG
1 ATTATGATTCGCATATTAAGCATGCCATTATTCTG
* * * *
20915131 ATTTTGATTCGTATGTTAAACATGCCA
1 ATTATGATTCGCATATTAAGCATGCCA
20915158 CTGTGATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (35 bp):
ATTATGATTCGCATATTAAGCATGCCATTATTCTG
Found at i:20916584 original size:16 final size:15
Alignment explanation
Indices: 20916544--20916595 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 15
20916534 AATATAGATT
*
20916544 ACTATAGATTGTG-A
1 ACTATAGATTCTGAA
* *
20916558 ACTCTAAATTCTGAAA
1 ACTATAGATTCTG-AA
20916574 ACTATAGATTCTGAA
1 ACTATAGATTCTGAA
20916589 ACTATAG
1 ACTATAG
20916596 TGACGAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 10 0.32
15 9 0.29
16 12 0.39
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
ACTATAGATTCTGAA
Found at i:20922765 original size:35 final size:35
Alignment explanation
Indices: 20922679--20922775 Score: 90
Period size: 35 Copynumber: 2.8 Consensus size: 35
20922669 ATTTATTGAT
*
20922679 ATTCTGATTCACATGTT-GAGCATG-CTATTATTCTG
1 ATTCTGATTCACATGTTAG-GCATGTC-ATTATTCTA
* * * **
20922714 ACTATGGTTCGTATGTTAGGCATGTCATTATTCTA
1 ATTCTGATTCACATGTTAGGCATGTCATTATTCTA
**
20922749 ATTCTGATTCACATGTTAAACATGTCA
1 ATTCTGATTCACATGTTAGGCATGTCA
20922776 CTATGATAAA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
35 45 0.96
36 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (35 bp):
ATTCTGATTCACATGTTAGGCATGTCATTATTCTA
Found at i:20924791 original size:68 final size:68
Alignment explanation
Indices: 20924682--20924810 Score: 249
Period size: 68 Copynumber: 1.9 Consensus size: 68
20924672 ATCATATTTG
20924682 GGCATGCCACTAATATCCCAATAGTTCTAAATTCCATCTACTTGGGCATTAAGGCTGAGTTCCTT
1 GGCATGCCACTAATATCCCAATAGTTCTAAATTCCATCTACTTGGGCATTAAGGCTGAGTTCCTT
20924747 AAT
66 AAT
*
20924750 GGCATGCCACTAATATCCCAGTAGTTCTAAATTCCATCTACTTGGGCATTAAGGCTGAGTT
1 GGCATGCCACTAATATCCCAATAGTTCTAAATTCCATCTACTTGGGCATTAAGGCTGAGTT
20924811 TTATACATAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (68 bp):
GGCATGCCACTAATATCCCAATAGTTCTAAATTCCATCTACTTGGGCATTAAGGCTGAGTTCCTT
AAT
Found at i:20933954 original size:26 final size:26
Alignment explanation
Indices: 20933925--20933986 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
20933915 ATAGTTACCC
20933925 ATTTTTTAGATT-TAT-TTTTATTTAAT
1 ATTTTTTA-ATTATATATTTTA-TTAAT
**
20933951 ATTTAGTAATTATATATTTTATTAAT
1 ATTTTTTAATTATATATTTTATTAAT
20933977 A-TTTTTAATT
1 ATTTTTTAATT
20933987 TTATGAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 10 0.33
26 15 0.50
27 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (26 bp):
ATTTTTTAATTATATATTTTATTAAT
Found at i:20940559 original size:27 final size:27
Alignment explanation
Indices: 20940490--20940561 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
20940480 GATGATGGGC
* *
20940490 CTGCCGCAAGCGGCACCAAAGGTGCCT
1 CTGCCACAAGCGGCACCAAAGGTGCCA
* * * * *
20940517 GTGGCAGAGGCAGCACCAAAGGTGCCA
1 CTGCCACAAGCGGCACCAAAGGTGCCA
20940544 CTGCCACAAGCGGCACCA
1 CTGCCACAAGCGGCACCA
20940562 CTTCAATTAT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.35, G:0.31, T:0.08
Consensus pattern (27 bp):
CTGCCACAAGCGGCACCAAAGGTGCCA
Found at i:20940606 original size:3 final size:3
Alignment explanation
Indices: 20940593--20940692 Score: 182
Period size: 3 Copynumber: 33.3 Consensus size: 3
20940583 CAGTCCAGCT
*
20940593 GAA GCA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
20940641 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
20940689 GAA G
1 GAA G
20940693 GTGGTACCGG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20941085 original size:76 final size:77
Alignment explanation
Indices: 20940880--20941087 Score: 199
Period size: 76 Copynumber: 2.6 Consensus size: 77
20940870 GTTTAGTTAT
* * *
20940880 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAATTAATACTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGT---AAA--AA-ACTATTATTATTGTTAGTTAT
20940945 AAGGATTAGTAAAAACCC
60 AAGGATTAGTAAAAACCC
* *** * * * ***
20940963 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATTT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAG-TAAAAAACTATTATTATTGTTAGTTATAAGGA
20941026 TTAGT-AAAACCC
65 TTAGTAAAAACCC
20941038 TAATTATTATTGTTAGTTAGTATTATT-TTGAGTAAAAAACTATTATTATT
1 TAATTATTATTGTTAGTTAGTATTATTGTT-AGTAAAAAACTATTATTATT
20941088 ATTGTGTTAG
Statistics
Matches: 102, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
75 25 0.25
76 44 0.43
77 3 0.03
78 1 0.01
82 18 0.18
83 11 0.11
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (77 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATAAGGAT
TAGTAAAAACCC
Found at i:20941097 original size:40 final size:40
Alignment explanation
Indices: 20941001--20941103 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
20940991 TAGTTTTTAC
* * **
20941001 ATTA-TATTATTGTTAGTTATTATTTTTAGTAAAACCCTA
1 ATTATTATTGTTGTTAGTTATTATTTTGAGTAAAAAACTA
20941040 ATTATTATTGTTAGTTAG-TATTATTTTGAGTAAAAAACTA
1 ATTATTATTGTT-GTTAGTTATTATTTTGAGTAAAAAACTA
20941080 TTATTATTATTG-TGTTAGTTATTA
1 --ATTATTATTGTTGTTAGTTATTA
20941104 GGATTAGTGG
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 4 0.07
40 30 0.55
41 11 0.20
42 10 0.18
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (40 bp):
ATTATTATTGTTGTTAGTTATTATTTTGAGTAAAAAACTA
Found at i:20945091 original size:153 final size:153
Alignment explanation
Indices: 20944806--20945717 Score: 1249
Period size: 153 Copynumber: 5.9 Consensus size: 153
20944796 TGCAACTTCA
* * * *
20944806 AAATAAATTTAGTAAAAAACTCTTATTTCGGCCATTTGTTTGTATTTTTTTCCCGGATTTTATTA
1 AAATAAATTTA--AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTA
* * * *
20944871 CTTT-AAAAAAATATACTATTTTCTATTTTTATTATTTTACATTATTTTAGTATATTATGTTTGA
64 CTTTCAAAAAAATATATTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
20944935 AATGTATTAATTTAGTGTGTTTTTT
129 AATGTATTAATTTAGTGTGTTTTTT
20944960 AAATAAA-TT-AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTTCCCGAATTTTATTAC
1 AAATAAATTTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTTCCCGAATTTTATTAC
* * * *
20945023 TTTCAATAAAAATATATTATTTTCTAATTTTATTATTTGACATTATTTTAGTACATTATATTTTA
65 TTTCAA-AAAAATATATTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
20945088 AATGTATTAATTTA--GTGTTTTTT
129 AATGTATTAATTTAGTGTGTTTTTT
* * * *
20945111 AAATAAATTTTAAAAAAACACTTATTTCGGCCCTTAGTTCGTATTTTTTCCCCGGATTTTATTAC
1 AAATAAA-TTTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTAC
* *
20945176 TTT-TAAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
65 TTTCAAAAAAATATATTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAA
20945240 ATGTATTAATTTAGTGTGTTTTTT
130 ATGTATTAATTTAGTGTGTTTTTT
* *
20945264 AAATGAATTTCAAAAAATAACCCTTATCTT-GGCCCTTTATTCGTA-TTTTTTCCCGAATTTTAT
1 AAATAAATTT--AAAAA-AACCCTTAT-TTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTAT
* *
20945327 TACTTTTAAAAAAATA-A-TATTTTTTAATTTTATTATTTTACATTATTTTAGTACATTATGTTT
62 TACTTTCAAAAAAATATATTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTT
* *
20945390 AAAATTTATTAATTTAGTGTGTTTTTT
127 GAAATGTATTAATTTAGTGTGTTTTTT
20945417 AAATAAATTTAAAAAAATAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCCGAATTTTATT
1 AAATAAATTT--AAAAA-AACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATT
*
20945481 ACTTTCAATAAAAATATATTATTTTATTATTTTATTATTTTACATTATTTTAGTACATTATGTTT
63 ACTTTCAA-AAAAATATATTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTT
20945546 GAAATGTATTAATTTAGTGTGTTTTTT
127 GAAATGTATTAATTTAGTGTGTTTTTT
* * * * ** *
20945573 AAATAAATTTAGTAAAAAAACCTTATTTCAGCCCTTTGTTCATATTTTTTTACCGAAGCCTCATT
1 AAATAAATTTA--AAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAA-TTTTATT
* *
20945638 -GTTTC-AAAAAATATATTATTTT-TATATTTTATTATTTTACGTTATTTTAGTACATTATGTTT
63 ACTTTCAAAAAAATATATTATTTTATA-ATTTTATTATTTTACATTATTTTAGTACATTATGTTT
* *
20945700 TAAATGCATTAATTTAGT
127 GAAATGTATTAATTTAGT
20945718 AAAAAACCCT
Statistics
Matches: 686, Mismatches: 50, Indels: 44
0.88 0.06 0.06
Matches are distributed among these distances:
150 28 0.04
151 107 0.16
152 8 0.01
153 244 0.36
154 140 0.20
155 55 0.08
156 100 0.15
157 4 0.01
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (153 bp):
AAATAAATTTAAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACT
TTCAAAAAAATATATTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
TGTATTAATTTAGTGTGTTTTTT
Found at i:20945372 original size:304 final size:301
Alignment explanation
Indices: 20944806--20945717 Score: 1273
Period size: 304 Copynumber: 3.0 Consensus size: 301
20944796 TGCAACTTCA
* * *
20944806 AAATAAA-TTTAGTAAAAAACTCTTATTTCGGCCATTTGTTTGTATTTTTTTCCCGGATTTTATT
1 AAATAAATTTTA--AAAAAACACTTATTTCGGCCCTTTGTTCGTA-TTTTTTCCCGGATTTTATT
* * *
20944870 ACTTTAAAAAAATATACTATTTTCTATTTTTATTATTTTACATTATTTTAGTATATTATGTTTGA
63 ACTTTAAAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGA
*
20944935 AATGTATTAATTTAGTGTGTTTTTTAAATAAATT--AAAAAACCCTTATTTCGGCCCTTTGTTCG
128 AATGTATTAATTTAGTGTGTTTTTTAAATAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCG
* *
20944998 TATTTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTATTTGA
193 TA-TTTTTTTCCCGAATTTTATTACTTTCAA-AAAAATA-A-TATTTTTTAATTTTATTATTTTA
*
20945063 CATTATTTTAGTACATTATATTTTAAATGTATTAATTTAGTGTTTTTT
254 CATTATTTTAGTACATTATGTTTTAAATGTATTAATTTAGTGTTTTTT
*
20945111 AAATAAATTTTAAAAAAACACTTATTTCGGCCCTTAGTTCGTATTTTTTCCCCGGATTTTATTAC
1 AAATAAATTTTAAAAAAACACTTATTTCGGCCCTTTGTTCGTATTTTTT-CCCGGATTTTATTAC
*
20945176 TTTTAAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
65 TTTAAAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
*
20945241 TGTATTAATTTAGTGTGTTTTTTAAATGAATTTCAAAAAATAACCCTTATCTT-GGCCCTTTATT
130 TGTATTAATTTAGTGTGTTTTTTAAAT-AATTT-AAAAAA-AACCCTTAT-TTCGGCCCTTTGTT
*
20945305 CGTA-TTTTTTCCCGAATTTTATTACTTTTAAAAAAATAATATTTTTTAATTTTATTATTTTACA
191 CGTATTTTTTTCCCGAATTTTATTACTTTCAAAAAAATAATATTTTTTAATTTTATTATTTTACA
* *
20945369 TTATTTTAGTACATTATGTTTAAAATTTATTAATTTAGTGTGTTTTTT
256 TTATTTTAGTACATTATGTTTTAAATGTATTAATTTA--GTGTTTTTT
* * *
20945417 AAATAAATTTAAAAAAATAACCCTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGAATTTTATTA
1 AAATAAATTT-TAAAAA-AACACTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTA
* *
20945482 CTTTCAATAAAAATATATTATTTTATTATTTTATTATTTTACATTATTTTAGTACATTATGTTTG
64 CTTT-AA-AAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTG
*
20945547 AAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAGTAAAAAAA-CCTTATTTCAGCCCTTTG
127 AAATGTATTAATTTAGTGTGTTTTTTAAAT-AATTTA--AAAAAAACCCTTATTTCGGCCCTTTG
* * ** * * *
20945611 TTCATATTTTTTTACCGAAGCCTCATT-GTTTCAAAAAATATATTA-TTTTTATATTTTATTATT
189 TTCGTATTTTTTTCCCGAA-TTTTATTACTTTCAAAAAA-ATAATATTTTTTA-ATTTTATTATT
* *
20945674 TTACGTTATTTTAGTACATTATGTTTTAAATGCATTAATTTAGT
251 TTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTAGT
20945718 AAAAAACCCT
Statistics
Matches: 548, Mismatches: 38, Indels: 39
0.88 0.06 0.06
Matches are distributed among these distances:
303 6 0.01
304 187 0.34
305 12 0.02
306 30 0.05
307 50 0.09
308 57 0.10
309 141 0.26
310 65 0.12
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (301 bp):
AAATAAATTTTAAAAAAACACTTATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACT
TTAAAAAAATATACTATTTTATAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT
GTATTAATTTAGTGTGTTTTTTAAATAATTTAAAAAAAACCCTTATTTCGGCCCTTTGTTCGTAT
TTTTTTCCCGAATTTTATTACTTTCAAAAAAATAATATTTTTTAATTTTATTATTTTACATTATT
TTAGTACATTATGTTTTAAATGTATTAATTTAGTGTTTTTT
Found at i:20945510 original size:8 final size:8
Alignment explanation
Indices: 20945497--20945532 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
20945487 AATAAAAATA
20945497 TATTATTT
1 TATTATTT
20945505 TATTATTT
1 TATTATTT
20945513 TATTATTT
1 TATTATTT
20945521 TACATTATTT
1 T--ATTATTT
20945531 TA
1 TA
20945533 GTACATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 18 0.69
10 8 0.31
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTATTT
Found at i:20945830 original size:130 final size:131
Alignment explanation
Indices: 20945578--20945815 Score: 318
Period size: 130 Copynumber: 1.8 Consensus size: 131
20945568 TTTTTAAATA
* *
20945578 AATTTAGTAAAAAAACCTTATTTCAGCCCTTTGTTCATATTTTTTTACCGAAGCCTCATTGTTTC
1 AATTTAGTAAAAAAACCTTATTTCAGCCCTTTGTTCATATTTTTTTA-CGAAACCTCATTCTTTC
* *
20945643 AAAAAATATATTATTTTTATATTTTATTATTTTACGTTATTTTAGTACATTATGTTTTAAATGCA
65 AAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGCA
20945708 TT
130 TT
* * * * ** *
20945710 AATTTAGTAAAAAACCCTTATTTCGGCTCTTTGTTCGTATTTTTTT-C-AAATTTTATTACTTTC
1 AATTTAGTAAAAAAACCTTATTTCAGCCCTTTGTTCATATTTTTTTACGAAACCTCATT-CTTTC
* * *
20945773 AAAAAATATTTTATTTTCGTATTTTATTATTTTACATTTTTTT
65 AAAAAATATATTATTTTCATATTTTATTATTTTACATTATTTT
20945816 CATATTTTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
129 6 0.07
130 43 0.47
132 42 0.46
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (131 bp):
AATTTAGTAAAAAAACCTTATTTCAGCCCTTTGTTCATATTTTTTTACGAAACCTCATTCTTTCA
AAAAATATATTATTTTCATATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGCAT
T
Found at i:20946012 original size:26 final size:27
Alignment explanation
Indices: 20945960--20946014 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
20945950 GAGTTTTTTC
* * *
20945960 ATGCTAAATAAATTTCATAAAATATAT
1 ATGCTAAATAAATATAATAAAACATAT
20945987 ATGCTAAATAAA-ATAATAAAACATAT
1 ATGCTAAATAAATATAATAAAACATAT
20946013 AT
1 AT
20946015 AATGTACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (27 bp):
ATGCTAAATAAATATAATAAAACATAT
Found at i:20946085 original size:10 final size:10
Alignment explanation
Indices: 20946070--20946205 Score: 53
Period size: 10 Copynumber: 13.2 Consensus size: 10
20946060 TTACCTTATT
20946070 TTTTTCTTTC
1 TTTTTCTTTC
*
20946080 TTTTTCCTTC
1 TTTTTCTTTC
** **
20946090 CCTCGCTCTTC
1 TTTTTCT-TTC
*
20946101 TTCTTCTTCTTC
1 TTTTTCTT--TC
*
20946113 TTCTTCTTCTC
1 TTTTTCTT-TC
*
20946124 CTTTTCTTTC
1 TTTTTCTTTC
*
20946134 -CTTTCTTCTC
1 TTTTTCTT-TC
* *
20946144 CTTTCCTTT-
1 TTTTTCTTTC
*
20946153 TCTTTCTTT-
1 TTTTTCTTTC
20946162 TTCTTTCTTCTC
1 TT-TTTCTT-TC
* *
20946174 CTTTACTTTC
1 TTTTTCTTTC
*
20946184 CTTTTCTTTC
1 TTTTTCTTTC
20946194 TTTTTCTTTC
1 TTTTTCTTTC
20946204 TT
1 TT
20946206 CTCCTTCTTT
Statistics
Matches: 93, Mismatches: 25, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
9 13 0.14
10 45 0.48
11 24 0.26
12 11 0.12
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.67
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:20946139 original size:20 final size:19
Alignment explanation
Indices: 20946098--20946225 Score: 95
Period size: 20 Copynumber: 6.6 Consensus size: 19
20946088 TCCCTCGCTC
*
20946098 TTCTTCTTCTTCTTC-TTC-
1 TTCTTCTCCTT-TTCTTTCT
20946116 TTCTTCTCCTTTTCTTTCCT
1 TTCTTCTCCTTTTCTTT-CT
*
20946136 TTCTTCTCCTTTCCTTTTCT
1 TTCTTCTCCTTTTC-TTTCT
* *
20946156 TTCTTTTTC-TTTCTTCTCCT
1 TTCTTCTCCTTTTCTT-T-CT
20946176 TTACTT-TCCTTTTCTTTCT
1 TT-CTTCTCCTTTTCTTTCT
* * *
20946195 TT-TTCTTTCTTCTCCTTCT
1 TTCTTC-TCCTTTTCTTTCT
20946214 TTCTTCTCCTTT
1 TTCTTCTCCTTT
20946226 AGTCGAATAG
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
17 5 0.06
18 14 0.16
19 25 0.28
20 32 0.36
21 12 0.14
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (19 bp):
TTCTTCTCCTTTTCTTTCT
Found at i:20946140 original size:35 final size:35
Alignment explanation
Indices: 20946101--20946225 Score: 92
Period size: 35 Copynumber: 3.8 Consensus size: 35
20946091 CTCGCTCTTC
20946101 TTCTTCTTCTTCTTCTTCTTCTCCTTTTCTTTCCT
1 TTCTTCTTCTTCTTCTTCTTCTCCTTTTCTTTCCT
* *
20946136 TTCTTCTCCTT-TCCTT-TTCT--TTCTT-TTT-CT
1 TTCTTCTTCTTCTTCTTCTTCTCCTT-TTCTTTCCT
* *
20946166 TTCTTC-TC--CTT-TACTT-TCCTTTTCTTTCTTT
1 TTCTTCTTCTTCTTCTTCTTCTCCTTTTCTTTC-CT
*
20946197 TTCTTTCTTCTCCTTCTTTCTTCTCCTTT
1 TTC-TTCTTCTTCTTC-TTCTTCTCCTTT
20946226 AGTCGAATAG
Statistics
Matches: 68, Mismatches: 7, Indels: 27
0.67 0.07 0.26
Matches are distributed among these distances:
27 2 0.03
28 5 0.07
29 6 0.09
30 8 0.12
31 9 0.13
32 5 0.07
33 6 0.09
34 4 0.06
35 13 0.19
37 4 0.06
38 6 0.09
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (35 bp):
TTCTTCTTCTTCTTCTTCTTCTCCTTTTCTTTCCT
Found at i:20946225 original size:10 final size:10
Alignment explanation
Indices: 20946098--20946225 Score: 76
Period size: 10 Copynumber: 13.2 Consensus size: 10
20946088 TCCCTCGCTC
*
20946098 TTCTTCTTC-
1 TTCTTCTCCT
*
20946107 TTCTTCTTC-
1 TTCTTCTCCT
20946116 TTCTTCTCCTT
1 TTCTTCTCC-T
20946127 TTCTT-TCCT
1 TTCTTCTCCT
20946136 TTCTTCTCCT
1 TTCTTCTCCT
*
20946146 TTCCTT-TTCT
1 TT-CTTCTCCT
* *
20946156 TTCTTTTTCT
1 TTCTTCTCCT
20946166 TTCTTCTCCT
1 TTCTTCTCCT
20946176 TTACTT-TCCTT
1 TT-CTTCTCC-T
20946187 TTCTT-T-CT
1 TTCTTCTCCT
*
20946195 TT-TTCT-TT
1 TTCTTCTCCT
* *
20946203 CTTCTCCTTCT
1 -TTCTTCTCCT
20946214 TTCTTCTCCT
1 TTCTTCTCCT
20946224 TT
1 TT
20946226 AGTCGAATAG
Statistics
Matches: 99, Mismatches: 9, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
7 2 0.02
8 5 0.05
9 29 0.29
10 48 0.48
11 15 0.15
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (10 bp):
TTCTTCTCCT
Found at i:20950532 original size:5 final size:5
Alignment explanation
Indices: 20950522--20950550 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
20950512 GGTAATAATA
20950522 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
20950551 AGGTATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:20951039 original size:3 final size:3
Alignment explanation
Indices: 20951031--20951068 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
20951021 TATATAGTAG
20951031 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20951069 GAGAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20953107 original size:11 final size:12
Alignment explanation
Indices: 20953089--20953127 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
20953079 ATTTAAAACG
20953089 ATATAAAAGAAA
1 ATATAAAAGAAA
20953101 A-ATAAAAGAAA
1 ATATAAAAGAAA
*
20953112 ATAAAAAAG-AA
1 ATATAAAAGAAA
20953123 ATATA
1 ATATA
20953128 TGTAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
ATATAAAAGAAA
Found at i:20953823 original size:44 final size:44
Alignment explanation
Indices: 20953750--20954321 Score: 341
Period size: 44 Copynumber: 12.8 Consensus size: 44
20953740 CTACTCCACC
* * * *
20953750 TTGATCTTCTTCACTGCCAATACAGGAAGACAAGGTCTTCTATAT
1 TTGATCTACTTCA-TGCCAATACATGAAGACAAGATCTTCTATCT
* * *
20953795 TTGATCTACTTCATGTCAATACATGAAGACAAGAACCAT-TATCT
1 TTGATCTACTTCATGCCAATACATGAAGACAAG-ATCTTCTATCT
* * *
20953839 TCGATCTACTTTATGTCAATACATGAAGACAAGATCCGTT-T-TCT
1 TTGATCTACTTCATGCCAATACATGAAGACAAGAT-C-TTCTATCT
* * * *
20953883 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATAT
1 TTGATCTACTTCATGCCAATACATGAAGACAAGATCTTCTATCT
* * * * * *
20953927 TTGATCTACTTCGCTGCCAGTATAGGAAAACAAGATCTGT-TTTCT
1 TTGATCTACTTC-ATGCCAATACATGAAGACAAGATCT-TCTATCT
* **
20953972 TTGATCTACTTCACGCCAATACATGAAGACAAGATCAGCTATCT
1 TTGATCTACTTCATGCCAATACATGAAGACAAGATCTTCTATCT
* * * * *
20954016 TTGATCTACTTCACGCCAATACATAAAGATAAGATCTGCTATAT
1 TTGATCTACTTCATGCCAATACATGAAGACAAGATCTTCTATCT
* * * * * * * *
20954060 TTGATCTATTTCGCTACCAGTATAGGAAAACAAGATCTGT-TTTCT
1 TTGATCTACTTC-ATGCCAATACATGAAGACAAGATCT-TCTATCT
* * ** * *
20954105 TCGATCTACTTCACGCCAATACATGAAGGTAAGATCTGCTATAT
1 TTGATCTACTTCATGCCAATACATGAAGACAAGATCTTCTATCT
* * * * * * * *
20954149 TTGATCAACTTCGCTGCCAGTATAGGAAGATAAGATCTGCTATAT
1 TTGATCTACTTC-ATGCCAATACATGAAGACAAGATCTTCTATCT
* * * * * * *
20954194 TTGATCAACTTCGCTGCCAGTATAGGAAGATAAGATCTGT-TTTCT
1 TTGATCTACTTC-ATGCCAATACATGAAGACAAGATCT-TCTATCT
* *** *
20954239 TCGATCTACTTC--GCCACCAGTATGGGAAGACAAGATCTGCTATCT
1 TTGATCTACTTCATGCCA--A-TACATGAAGACAAGATCTTCTATCT
* * * * * *
20954284 TCGATCCACTTCACTACCAATATAGGAAGACAGGATCT
1 TTGATCTACTTCA-TGCCAATACATGAAGACAAGATCT
20954322 GCAGCTTTTC
Statistics
Matches: 419, Mismatches: 88, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
42 5 0.01
43 3 0.01
44 204 0.49
45 203 0.48
46 1 0.00
48 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (44 bp):
TTGATCTACTTCATGCCAATACATGAAGACAAGATCTTCTATCT
Found at i:20953997 original size:133 final size:134
Alignment explanation
Indices: 20953752--20954323 Score: 664
Period size: 133 Copynumber: 4.3 Consensus size: 134
20953742 ACTCCACCTT
* * * * * *
20953752 GATCTTCTTCACTGCCAATACAGGAAGACAAGGTCTTCTATATTTGATCTACTTC-ATGTCAATA
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGTA
* * * * ** * * * * * * *
20953816 CATGAAGACAAGAACCATTATCTTCGATCTACTTTATGTCAATACATGAAGACAAGATCCGTTTT
66 TAGGAAAACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT
20953881 CTTC
131 CTTC
*
20953885 GATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGTA
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGTA
* *
20953949 TAGGAAAACAAGATCTGTTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCAGCTAT
66 TAGGAAAACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT
*
20954014 CTTT
131 CTTC
** * * *
20954018 GATCTACTTCAC-GCCAATACATAAAGATAAGATCTGCTATATTTGATCTATTTCGCTACCAGTA
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGTA
**
20954082 TAGGAAAACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGGTAAGATCTGCTAT
66 TAGGAAAACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT
* *
20954147 ATTT
131 CTTC
* * * * * *
20954151 GATCAACTTCGCTGCCAGTATAGGAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGTA
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGTA
* * * * * ***
20954216 TAGGAAGATAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTA
66 TAGGAAAACAAGATCTGTTTTCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTA
20954281 TCTTC
130 TCTTC
* * * *
20954286 GATCCACTTCACTACCAATATAGGAAGACAGGATCTGC
1 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
20954324 AGCTTTTCAA
Statistics
Matches: 378, Mismatches: 58, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
132 39 0.10
133 205 0.54
134 78 0.21
135 56 0.15
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (134 bp):
GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGTA
TAGGAAAACAAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT
CTTC
Found at i:20954224 original size:45 final size:45
Alignment explanation
Indices: 20953750--20954323 Score: 413
Period size: 45 Copynumber: 12.9 Consensus size: 45
20953740 CTACTCCACC
* * * * * * *
20953750 TTGATCTTCTTCACTGCCAATACAGGAAGACAAGGTCTTCTATAT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* * * * * * ***
20953795 TTGATCTACTTC-ATGTCAATACATGAAGACAAGAACCATTATCT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* ** * * * * * * *
20953839 TCGATCTACTT-TATGTCAATACATGAAGACAAGATCCGTTTTCT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* * * * * *
20953883 TCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATAT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* * *
20953927 TTGATCTACTTCGCTGCCAGTATAGGAAAACAAGATCTGTTTTCT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* * * * *
20953972 TTGATCTACTTCAC-GCCAATACATGAAGACAAGATCAGCTATCT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* * * ** * *
20954016 TTGATCTACTTCAC-GCCAATACATAAAGATAAGATCTGCTATAT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* * * * *
20954060 TTGATCTATTTCGCTACCAGTATAGGAAAACAAGATCTGTTTTCT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* * * * * ** *
20954105 TCGATCTACTTCAC-GCCAATACATGAAGGTAAGATCTGCTATAT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* * *
20954149 TTGATCAACTTCGCTGCCAGTATAGGAAGATAAGATCTGCTATAT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* * * *
20954194 TTGATCAACTTCGCTGCCAGTATAGGAAGATAAGATCTGTTTTCT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* ** *
20954239 TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCT
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
* * * * * *
20954284 TCGATCCACTTCACTACCAATATAGGAAGACAGGATCTGC
1 TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGC
20954324 AGCTTTTCAA
Statistics
Matches: 433, Mismatches: 91, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
44 216 0.50
45 217 0.50
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (45 bp):
TTGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCT
Found at i:20961028 original size:4 final size:4
Alignment explanation
Indices: 20961019--20961044 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20961009 AACGAAGATG
20961019 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
20961045 TACAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:20961298 original size:3 final size:3
Alignment explanation
Indices: 20961284--20961316 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
20961274 AATAAGTAGG
*
20961284 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20961317 ACAATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20962468 original size:99 final size:99
Alignment explanation
Indices: 20962291--20962733 Score: 564
Period size: 99 Copynumber: 4.5 Consensus size: 99
20962281 GTCTCGTCGA
* * * * * * *
20962291 GGAAATAAGATTCGTCGTTGCGGCTTCAATCTTTT-AGTTGCAATGTCGGGAAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGC
***** * * * * *
20962355 CACCATAGCGTCAATATGTTTCACTGCATCGCTT
66 TGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* * * * *
20962389 GGAAGTAAGATGCACCGTTGTGGCTTCAATCCTTTGAATTACAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGC
* * *
20962454 TGTCGTAGCTTCAATTTGCTCCGCTGCATCGCCT
66 TGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* * * *
20962488 GAGAAATAAGATTTGCCATTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCG
1 G-GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCG
*
20962553 CTGTTGTAACTTCAATCTGTTCCGCTGCATCGCCT
65 CTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
*
20962588 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGC
*
20962653 TATTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
66 TGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* *
20962687 AGAAGTAAGATTCGCCGTTATGGCTTCAATCTTTTGAATTGCAATGT
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGT
20962734 ATGGTTTCTT
Statistics
Matches: 300, Mismatches: 43, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
98 29 0.10
99 185 0.62
100 86 0.29
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (99 bp):
GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCGAGATTCGC
TGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
Found at i:20962599 original size:49 final size:49
Alignment explanation
Indices: 20962439--20962718 Score: 168
Period size: 50 Copynumber: 5.7 Consensus size: 49
20962429 ACAATGTCGG
* * * *
20962439 GGAAGTGAGATTCGCTGTCGTAGCTTCAATTTGCTCCGCTGCATCGCCT
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* * ** * * * **** **
20962488 GAGAAATAAGATTTGCCATTGTGGCTTCGATCTTTTGAATTGCAAT-GTCGG
1 G-GAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CCT
** *
20962539 GGAAGCGAGATTCGCTGTTGTAACTTCAATCTGTTCCGCTGCATCGCCT
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* * * * **** **
20962588 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTGAATTGCAAT-GTCGG
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CCT
** *
20962638 GGAAGCGAGATTCGCTATTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
* * * *
20962687 AGAAGTAAGATTCGCCGTTATGGCTTCAATCT
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCT
20962719 TTTGAATTGC
Statistics
Matches: 158, Mismatches: 66, Indels: 14
0.66 0.28 0.06
Matches are distributed among these distances:
49 64 0.41
50 90 0.57
51 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (49 bp):
GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT
Found at i:20975158 original size:3 final size:3
Alignment explanation
Indices: 20975144--20975176 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
20975134 AATAAGTAGG
*
20975144 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20975177 ACAATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20983304 original size:10 final size:11
Alignment explanation
Indices: 20983281--20983315 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
20983271 ATTTAAAACG
20983281 AAATAAAAGAA
1 AAATAAAAGAA
20983292 AAATAAAAGAA
1 AAATAAAAGAA
*
20983303 AATAAAAAAGAA
1 AA-ATAAAAGAA
20983315 A
1 A
20983316 TATATGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (11 bp):
AAATAAAAGAA
Found at i:20996069 original size:58 final size:58
Alignment explanation
Indices: 20995978--20996091 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
20995968 AAATTGGTGA
20995978 GAACCTCTAAGAACGTCATGTAAATATGAACGATAGTAACATTTCTCAATAGAGGGGG
1 GAACCTCTAAGAACGTCATGTAAATATGAACGATAGTAACATTTCTCAATAGAGGGGG
20996036 GAACCTCTAAGAACGTCATGTAAATAT-AGACGATAGTAACATTTCTCAATAGAGGG
1 GAACCTCTAAGAACGTCATGTAAATATGA-ACGATAGTAACATTTCTCAATAGAGGG
20996092 TCGTGTCCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
57 1 0.02
58 54 0.98
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (58 bp):
GAACCTCTAAGAACGTCATGTAAATATGAACGATAGTAACATTTCTCAATAGAGGGGG
Found at i:21005889 original size:13 final size:14
Alignment explanation
Indices: 21005858--21005890 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21005848 TTAAAATCAT
*
21005858 ATAAAAGGATATAA
1 ATAAAACGATATAA
21005872 ATAAAACGATAT-A
1 ATAAAACGATATAA
21005885 ATAAAA
1 ATAAAA
21005891 TAAATGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (14 bp):
ATAAAACGATATAA
Found at i:21013612 original size:15 final size:15
Alignment explanation
Indices: 21013592--21013646 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
21013582 ACTCTCCTCA
*
21013592 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
21013607 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
21013622 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
21013636 TTCTTTT-TCTC
1 TTCTTTTCTCTC
21013647 GATCAATAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:21017867 original size:47 final size:47
Alignment explanation
Indices: 21017816--21018373 Score: 911
Period size: 47 Copynumber: 11.7 Consensus size: 47
21017806 TTAGGATTCT
* * *
21017816 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
21017863 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
21017910 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
21017957 ATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
21018004 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
21018053 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
21018102 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
21018151 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
21018198 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
21018245 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
21018292 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
21018339 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
21018374 TCCCGAAGGG
Statistics
Matches: 487, Mismatches: 21, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 342 0.70
49 144 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:21018256 original size:288 final size:284
Alignment explanation
Indices: 21017837--21018373 Score: 932
Period size: 288 Copynumber: 1.9 Consensus size: 284
21017827 GTGAACATGC
21017837 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* *
21017902 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAA
66 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
21017967 TGTGAAAGTGTATATATGTGATAA-AGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
131 TGTGAAAGTGTATATATGTGATAAGA-CCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
* * * *
21018031 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
193 ATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAGGCCTAA
21018096 TGGCCGATGTGATGAATGTGAAAGTGTAT
256 TGGCCGATGTGATGAATGTGAAAGTGTAT
*
21018125 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
21018190 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
21018255 TGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
131 TGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * *
21018320 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
196 TGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
21018374 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
284 10 0.04
285 1 0.00
286 44 0.18
288 182 0.76
289 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (284 bp):
ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTAT
Found at i:21018548 original size:37 final size:37
Alignment explanation
Indices: 21018492--21018570 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21018482 CCGAGCTCTA
* * *
21018492 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
21018529 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21018566 AAGAC
1 AAGAC
21018571 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21019810 original size:96 final size:95
Alignment explanation
Indices: 21019699--21019875 Score: 266
Period size: 96 Copynumber: 1.9 Consensus size: 95
21019689 CTAATTTATG
* * *
21019699 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTAT-AGTTTGCTCCACTG
1 GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGC-ATCT-TGAATTTGCTCCACTG
21019763 CAACTTCAAGCAGATAAGACTTGTGGCTTTAA
64 CAACTTCAAGCAGATAAGACTTGTGGCTTTAA
* *
21019795 GCTTTAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCGTCTTGAATTTGCTCCACTGCA
1 GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCATCTTGAATTTGCTCCACTGCA
* *
21019860 ACTTCAGGGAGATAAG
66 ACTTCAAGCAGATAAG
21019876 GTTTATAGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
94 1 0.01
95 32 0.44
96 40 0.55
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (95 bp):
GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCATCTTGAATTTGCTCCACTGCA
ACTTCAAGCAGATAAGACTTGTGGCTTTAA
Found at i:21019832 original size:51 final size:45
Alignment explanation
Indices: 21019699--21020183 Score: 187
Period size: 45 Copynumber: 10.6 Consensus size: 45
21019689 CTAATTTATG
*
21019699 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
* * * * * * * * *
21019744 TCTATAGTTTGCTCCACTGCAACTTCAAGCAGATAAGACTTGTGGCTTTAA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA--T-TCGC--T-A
* *
21019795 GCTTTAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGC--
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
* * * * * **
21019838 GTCTTGAATTTGCTCCACTGCAACTTCAGGGAGATAAGGTT-TATA
1 G-CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
* * ** * *
21019883 GCTTTAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
* *** ** * * * **
21019928 TCTCCGATCTACTCCACTGTAACTTTAGGGAGATAAGATT-TATA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
* * * * * * * *
21019972 ACTTCAATTTGCTCCACCGTAACTTCA-GGAAGATAAGATTTGTAATTTATA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTCG------CTA
* * *
21020023 TCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGACTT-GTTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTA
* * * * * **
21020068 TCTTCAGTCCGTTCCACTGCAACTTCAGGGAGATAAGACTT-ATTA
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTA
* * * ** * *
21020113 TCTTCAGTCCATTCCACTGCAACTTCAGGGAGATAAGACTT-G-TG
1 GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTA
* *
21020157 GCTTTAATCTGCTCCACTACAACTTCA
1 GCTTTAATCTGTTCCACTGCAACTTCA
21020184 AGGAGATACG
Statistics
Matches: 339, Mismatches: 81, Indels: 41
0.74 0.18 0.09
Matches are distributed among these distances:
43 4 0.01
44 117 0.35
45 143 0.42
47 1 0.00
48 6 0.02
49 1 0.00
50 1 0.00
51 60 0.18
52 6 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (45 bp):
GCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTA
Found at i:21019875 original size:44 final size:44
Alignment explanation
Indices: 21019800--21020196 Score: 183
Period size: 44 Copynumber: 8.8 Consensus size: 44
21019790 TTTAAGCTTT
* * * *
21019800 AATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCGTCTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCATCTTG
* * * * *
21019844 AATTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTA-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTAGCATCTTG
* ** * *
21019888 AATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTATCTCCG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGC-ATCT-TG
* * * * * *
21019934 -ATCTACTCCACTGTAACTTTAGGGAGATAAGATTTA-TAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCATCTTG
* * * * ** *
21019977 AATTTGCTCCACCGTAACTTCAGGAAGATAAGATTTGTAATTTATATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GCATCTTG
* * * * *
21020028 AATCTGTTCCACTGCAACTTTAGGGAAATAAGACTT-GTTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAG-CATCTTG
* * * ** *
21020073 AGTCCGTTCCACTGCAACTTCAGGGAGATAAGACTTATTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCATCTTG
* *** *** *
21020118 AGTCCATTCCACTGCAACTTCAGGGAGATAAGACTT-GTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCATCTTG
* * *
21020162 AATCTGCTCCACTACAACTTCAAGGAGATACGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
21020197 TACAGCCTGT
Statistics
Matches: 274, Mismatches: 64, Indels: 31
0.74 0.17 0.08
Matches are distributed among these distances:
43 5 0.02
44 117 0.43
45 115 0.42
46 3 0.01
47 1 0.00
49 1 0.00
50 1 0.00
51 31 0.11
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCATCTTG
Found at i:21019889 original size:95 final size:96
Alignment explanation
Indices: 21019699--21019889 Score: 260
Period size: 95 Copynumber: 2.0 Consensus size: 96
21019689 CTAATTTATG
* * *
21019699 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTATAGTTTGCTCCACTGC
1 GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCTATCTATAATTTGCTCCACTGC
* *
21019764 AACTTCAAGCAGATAAGACTTGTGGCTTTAA
66 AACTTCAAGCAGATAAGACTTATAGCTTTAA
* *
21019795 GCTTTAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGC-GTCT-TGAATTTGCTCCACTG
1 GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCTATCTAT-AATTTGCTCCACTG
* * **
21019858 CAACTTCAGGGAGATAAGGTTTATAGCTTTAA
65 CAACTTCAAGCAGATAAGACTTATAGCTTTAA
21019890 TCTGCTCTAC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
94 1 0.01
95 42 0.51
96 40 0.48
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (96 bp):
GCTTCAATCTGTTCCACTGCAACCTCAGGGAAATAAGATTAGCTATCTATAATTTGCTCCACTGC
AACTTCAAGCAGATAAGACTTATAGCTTTAA
Found at i:21019970 original size:89 final size:89
Alignment explanation
Indices: 21019850--21020197 Score: 225
Period size: 89 Copynumber: 3.8 Consensus size: 89
21019840 CTTGAATTTG
* * * * *
21019850 CTCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAA-AGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTGCTCCACCGCAACTTCAAGA-A
21019914 GATAAGATTTGCTATCTCCGATCTA
65 GATAAGATTTGCTATCTCCGATCTA
* * * * *
21019939 CTCCACTGTAACTTTAGGGAGATAAGATTTATAACTTCAATTTGCTCCACCGTAACTTCAGGAAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTGCTCCACCGCAACTTCAAGAAG
* *** *
21020004 ATAAGATTTGTAATTTATATCTTTAATCTG
66 ATAAGATTTG------CTATCTCCGATCTA
* * * * * * * * * *
21020034 TTCCACTGCAACTTTAGGGAAATAAGACTTGT-TATCTTCAGTCCGTTCCACTGCAACTTCAGGG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TT-TATAACTTCAATCTGCTCCACCGCAACTTCAAGA
* ** * *
21020098 AGATAAGACTTATTATCTTC-AGTCCA
64 AGATAAGATTTGCTATCTCCGA-TCTA
* * * ** * ** *
21020124 TTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGCTCCACTACAACTTCAAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTGCTCCACCGCAACTTCAAGAAG
*
21020189 ATACGATTT
66 ATAAGATTT
21020198 ACAGCCTGTC
Statistics
Matches: 203, Mismatches: 45, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
88 1 0.00
89 98 0.48
90 34 0.17
95 33 0.16
96 36 0.18
97 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (89 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTGCTCCACCGCAACTTCAAGAAG
ATAAGATTTGCTATCTCCGATCTA
Found at i:21020085 original size:45 final size:45
Alignment explanation
Indices: 21020033--21020155 Score: 210
Period size: 45 Copynumber: 2.7 Consensus size: 45
21020023 TCTTTAATCT
* *
21020033 GTTCCACTGCAACTTTAGGGAAATAAGACTTGTTATCTTCAGTCC
1 GTTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAGTCC
*
21020078 GTTCCACTGCAACTTCAGGGAGATAAGACTTATTATCTTCAGTCC
1 GTTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAGTCC
*
21020123 ATTCCACTGCAACTTCAGGGAGATAAGACTTGT
1 GTTCCACTGCAACTTCAGGGAGATAAGACTTGT
21020156 GGCTTTAATC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 73 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
GTTCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTCAGTCC
Found at i:21029578 original size:45 final size:46
Alignment explanation
Indices: 21029509--21029667 Score: 182
Period size: 45 Copynumber: 3.5 Consensus size: 46
21029499 TACACGGTGG
* * * * *
21029509 ATCAGCACACATC-ACCACCGTTATAGTCAATAGTACTC-GGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGGTGAA
*
21029553 ATCAGCACATAGCAACCACCTTTATACTCAATGGTAC-CGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGGTGAA
* * * * *
21029598 ATCAACACATAGCAACCACCTATATAACCATTGGTA-TCTGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGGTGAA
*
21029643 ATCAGCACATAACAACCACCTTTAT
1 ATCAGCACATAGCAACCACCTTTAT
21029668 TTTCATTAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
44 12 0.12
45 86 0.88
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (46 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATGGTACTCGGGTGAA
Found at i:21029684 original size:90 final size:90
Alignment explanation
Indices: 21029547--21029712 Score: 244
Period size: 90 Copynumber: 1.8 Consensus size: 90
21029537 AATAGTACTC
* **
21029547 GGTGAAATCAGCACATAGCAACCACCTTTATACTCAATGGTACCGGGTGAAATCAACACATAGCA
1 GGTGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAACACATAGCA
21029612 -ACCACCTATATAACCATTGGTATCT
66 TA-CACCTATATAACCATTGGTATCT
** * * *
21029637 GGTGAAATCAGCACATAACAACCACCTTTATTTTCATTAATATCGGGTGGAATCAACACATAGCA
1 GGTGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAACACATAGCA
21029702 TACACCTATAT
66 TACACCTATAT
21029713 TTCCAACGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
90 66 0.99
91 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (90 bp):
GGTGAAATCAGCACATAACAACCACCTTTATACTCAATAATACCGGGTGAAATCAACACATAGCA
TACACCTATATAACCATTGGTATCT
Found at i:21029691 original size:45 final size:45
Alignment explanation
Indices: 21029547--21029701 Score: 184
Period size: 45 Copynumber: 3.4 Consensus size: 45
21029537 AATAGTACTC
* * * *
21029547 GGTGAAATCAGCACATAGCAACCACCTTTATACTCAATGGTACCG
1 GGTGAAATCAACACATAGCAACCACCTTTATAATCATTGGTATCG
* * *
21029592 GGTGAAATCAACACATAGCAACCACCTATATAACCATTGGTATCT
1 GGTGAAATCAACACATAGCAACCACCTTTATAATCATTGGTATCG
* * ** **
21029637 GGTGAAATCAGCACATAACAACCACCTTTATTTTCATTAATATCG
1 GGTGAAATCAACACATAGCAACCACCTTTATAATCATTGGTATCG
*
21029682 GGTGGAATCAACACATAGCA
1 GGTGAAATCAACACATAGCA
21029702 TACACCTATA
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (45 bp):
GGTGAAATCAACACATAGCAACCACCTTTATAATCATTGGTATCG
Found at i:21030080 original size:30 final size:29
Alignment explanation
Indices: 21030046--21030115 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 29
21030036 CCTTGACTCG
21030046 AACTTTAGAAAAATTACAATTTTTCCCCTA
1 AACTTTAGAAAAATTACAATTTTTCCCC-A
* * * * *
21030076 AACTTTTGCATATTTACACTTTTTCCCCA
1 AACTTTAGAAAAATTACAATTTTTCCCCA
21030105 AAGC-TTAGAAA
1 AA-CTTTAGAAA
21030116 TTAAACTTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.37
Consensus pattern (29 bp):
AACTTTAGAAAAATTACAATTTTTCCCCA
Found at i:21032163 original size:23 final size:23
Alignment explanation
Indices: 21032120--21032163 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
21032110 GTATGGAGCT
*
21032120 ATAGGCATGTGATGTATTCAAAC
1 ATAGGCATGTGATATATTCAAAC
*
21032143 ATAGGTATGT-ATATATGTCAA
1 ATAGGCATGTGATATAT-TCAA
21032164 TAAAGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (23 bp):
ATAGGCATGTGATATATTCAAAC
Found at i:21032871 original size:41 final size:41
Alignment explanation
Indices: 21032814--21032999 Score: 336
Period size: 41 Copynumber: 4.5 Consensus size: 41
21032804 GACTATACGT
*
21032814 CTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
21032855 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
21032896 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
21032937 CTAGCAGGCTAAGTTCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
21032978 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
21033000 ATCTATTAAA
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:21036578 original size:40 final size:40
Alignment explanation
Indices: 21036534--21036765 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
21036524 ATAACCACAA
* * * *
21036534 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
21036574 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
21036614 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
21036654 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
21036694 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
21036734 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
21036766 CATTCAAATG
Statistics
Matches: 182, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 177 0.97
41 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:21043116 original size:7 final size:7
Alignment explanation
Indices: 21043106--21043131 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21043096 GAATGAGAGT
21043106 GTGAGGG
1 GTGAGGG
21043113 GTGAGGG
1 GTGAGGG
21043120 GTGAGGG
1 GTGAGGG
21043127 GTGAG
1 GTGAG
21043132 TTGAATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (7 bp):
GTGAGGG
Found at i:21046810 original size:5 final size:5
Alignment explanation
Indices: 21046800--21046843 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
21046790 AATGCATATG
21046800 ATGCA ATGCA ATGCA ATGCTA ATGC- ATG-A ATGCA ATG-A ATGCA A
1 ATGCA ATGCA ATGCA ATGC-A ATGCA ATGCA ATGCA ATGCA ATGCA A
21046844 AAAATACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 10 0.29
5 20 0.57
6 5 0.14
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (5 bp):
ATGCA
Found at i:21046815 original size:10 final size:9
Alignment explanation
Indices: 21046790--21046843 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
21046780 TATGAGTTTT
21046790 AATGCATATG
1 AATGCA-ATG
21046800 -ATGCAATG
1 AATGCAATG
21046808 CAATGCAATG
1 -AATGCAATG
21046818 CTAATGC-ATG
1 --AATGCAATG
21046828 AATGCAATG
1 AATGCAATG
21046837 AATGCAA
1 AATGCAA
21046844 AAAATACATT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
8 8 0.21
9 15 0.38
10 11 0.28
11 5 0.13
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (9 bp):
AATGCAATG
Found at i:21050504 original size:4 final size:4
Alignment explanation
Indices: 21050492--21050525 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
21050482 TGATATATAT
21050492 AATA TAATA AATA AATA AATA AATA AATA AATA A
1 AATA -AATA AATA AATA AATA AATA AATA AATA A
21050526 TCTAAAGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:21052500 original size:16 final size:17
Alignment explanation
Indices: 21052444--21052499 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
21052434 TCAAACGTCC
* *
21052444 AAAAAAAATTTCCTAGT
1 AAAAAACATTTCCTAAT
*
21052461 AAAAAACATTTCGTAAT
1 AAAAAACATTTCCTAAT
21052478 AAAAAACATTTCCTAAT
1 AAAAAACATTTCCTAAT
21052495 CAAAA
1 -AAAA
21052500 CTCTATGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 30 0.88
18 4 0.12
ACGTcount: A:0.55, C:0.14, G:0.04, T:0.27
Consensus pattern (17 bp):
AAAAAACATTTCCTAAT
Found at i:21054475 original size:18 final size:18
Alignment explanation
Indices: 21054452--21054486 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
21054442 ATACATACTT
21054452 ATTAAATTAATCAATCTC
1 ATTAAATTAATCAATCTC
21054470 ATTAAATTAATCAATCT
1 ATTAAATTAATCAATCT
21054487 ATTGAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATCAATCTC
Found at i:21057822 original size:44 final size:44
Alignment explanation
Indices: 21057756--21057843 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
21057746 CATTTATTCA
* *
21057756 AAAAGAAAAATGAAAAATTAAGTATCTGATAAAATGAACGGGAT
1 AAAAGAAAAATGAAAAAATAAGTATCCGATAAAATGAACGGGAT
21057800 AAAAGAAAAATGAAAAAATAAGTATCCGATAAAATGAACGGGAT
1 AAAAGAAAAATGAAAAAATAAGTATCCGATAAAATGAACGGGAT
21057844 TTTATCTCGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (44 bp):
AAAAGAAAAATGAAAAAATAAGTATCCGATAAAATGAACGGGAT
Found at i:21058778 original size:17 final size:17
Alignment explanation
Indices: 21058756--21058789 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21058746 TTTTTGTTGG
21058756 TGACATTTCCAACCCTT
1 TGACATTTCCAACCCTT
21058773 TGACATTTCCAACCCTT
1 TGACATTTCCAACCCTT
21058790 GAATAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (17 bp):
TGACATTTCCAACCCTT
Found at i:21070587 original size:101 final size:101
Alignment explanation
Indices: 21070482--21070665 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 101
21070472 TGGCAGTTTA
* *
21070482 TATATGTAAGACCATAG-TCGGGCTATGGCATTCTGATGATAAGACCATAACTAGGTTATGGCAC
1 TATATGTAAGACCATAGCT-GGGCTATGACATTCTAATGATAAGACCATAACTAGGTTATGGCAC
21070546 TATAAACATAAGACCATGGTTGGACTACAACAATGTT
65 TATAAACATAAGACCATGGTTGGACTACAACAATGTT
* * *
21070583 TATATGTAAGACCATAGCTGGGCTATGACATTCTAATGATAAGACCATAAGTGGGTTATGGTACT
1 TATATGTAAGACCATAGCTGGGCTATGACATTCTAATGATAAGACCATAACTAGGTTATGGCACT
* *
21070648 ATGAACGTAAGACCATGG
66 ATAAACATAAGACCATGG
21070666 CAGGGCCATG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
101 74 0.99
102 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (101 bp):
TATATGTAAGACCATAGCTGGGCTATGACATTCTAATGATAAGACCATAACTAGGTTATGGCACT
ATAAACATAAGACCATGGTTGGACTACAACAATGTT
Found at i:21070630 original size:33 final size:33
Alignment explanation
Indices: 21070488--21070631 Score: 94
Period size: 33 Copynumber: 4.3 Consensus size: 33
21070478 TTTATATATG
* *
21070488 TAAGACCATAG-TCGGGCTATGGCATTCTGATGA
1 TAAGACCATAGCT-GGGCTATGACATTCTAATGA
* * * * * * **
21070521 TAAGACCATAACTAGGTTATGGCACTATAAACA
1 TAAGACCATAGCTGGGCTATGACATTCTAATGA
* * * ** *
21070554 TAAGACCATGGTTGGACTACAACAATGTTTATATG-
1 TAAGACCATAGCTGGGCTATGAC-AT-TCTA-ATGA
21070589 TAAGACCATAGCTGGGCTATGACATTCTAATGA
1 TAAGACCATAGCTGGGCTATGACATTCTAATGA
21070622 TAAGACCATA
1 TAAGACCATA
21070632 AGTGGGTTAT
Statistics
Matches: 79, Mismatches: 27, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
32 3 0.04
33 50 0.63
34 4 0.05
35 21 0.27
36 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGACATTCTAATGA
Found at i:21076105 original size:30 final size:30
Alignment explanation
Indices: 21076069--21076235 Score: 138
Period size: 30 Copynumber: 5.5 Consensus size: 30
21076059 GGTTGATACC
*
21076069 ATCCCTTTCCATAATTCAATAACCGAAGCT
1 ATCCCTTTCCATAATTCAATAGCCGAAGCT
* *
21076099 ATCCCTTTCCATTATTCAATAGCCAAAGCT
1 ATCCCTTTCCATAATTCAATAGCCGAAGCT
** * *** * * * *
21076129 ATCTTTTTTCATAATTTTGGTGGTCGTCA-CC
1 ATCCCTTTCCATAA-TTCAATAGCCG-AAGCT
**
21076160 ATCCCTTTCCATAATTTGATAGCCGAAGCT
1 ATCCCTTTCCATAATTCAATAGCCGAAGCT
* * *
21076190 ATCCCTTTTCATGACTCAATAGCCGAAGCT
1 ATCCCTTTCCATAATTCAATAGCCGAAGCT
*
21076220 ATCCCTTTTCATAATT
1 ATCCCTTTCCATAATT
21076236 TTGATAGTCG
Statistics
Matches: 104, Mismatches: 30, Indels: 6
0.74 0.21 0.04
Matches are distributed among these distances:
29 1 0.01
30 85 0.82
31 17 0.16
32 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.10, T:0.37
Consensus pattern (30 bp):
ATCCCTTTCCATAATTCAATAGCCGAAGCT
Done.