Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 12 of 425
Found at i:3352831 original size:12 final size:12
Alignment explanation
Indices: 3352814--3352838 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3352804 GCCGACTACT
3352814 GTTACTGTTACC
1 GTTACTGTTACC
3352826 GTTACTGTTACC
1 GTTACTGTTACC
3352838 G
1 G
3352839 ATTCGACAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:3352866 original size:45 final size:45
Alignment explanation
Indices: 3352816--3352926 Score: 125
Period size: 45 Copynumber: 2.5 Consensus size: 45
3352806 CGACTACTGT
* * *
3352816 TACTGTTACCGTTACTGTTACCGATTC-GACAGTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCAAA
* * * *
3352861 TACTGTTACCATTGCTATTACAGATTCAGCACTTTGTGTGTTAAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCAAA
**
3352906 TACTGTTATTGTTACTGTTAC
1 TACTGTTACCGTTACTGTTAC
3352927 TGTTACCGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCAAA
Found at i:3352924 original size:6 final size:6
Alignment explanation
Indices: 3352906--3352949 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
3352896 GTGTGTTAAA
* * *
3352906 TACTGT TATTGT TACTGT TACTGT TACCGT TTCTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
3352950 TAGATACTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:3353376 original size:20 final size:20
Alignment explanation
Indices: 3353351--3353404 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
3353341 CTTCAGTAAA
3353351 CTTTTGGTGATGTGTATTTT
1 CTTTTGGTGATGTGTATTTT
*
3353371 CTTTTGGTGATGTATATTTT
1 CTTTTGGTGATGTGTATTTT
*
3353391 CTTTTGGTAATGTG
1 CTTTTGGTGATGTG
3353405 GAATGTACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.06, G:0.24, T:0.57
Consensus pattern (20 bp):
CTTTTGGTGATGTGTATTTT
Found at i:3360942 original size:13 final size:13
Alignment explanation
Indices: 3360924--3360961 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
3360914 ATGTTTTAAT
3360924 TATAATGAT-ATAA
1 TATAAT-ATAATAA
3360937 TATAATATAATAA
1 TATAATATAATAA
3360950 TATAATAATAAT
1 TATAAT-ATAAT
3360962 TAAATAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 2 0.09
13 16 0.70
14 5 0.22
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:3363896 original size:117 final size:116
Alignment explanation
Indices: 3363686--3363914 Score: 323
Period size: 117 Copynumber: 2.0 Consensus size: 116
3363676 GTTTTGTGGC
* * * * * *
3363686 TAAAGATGATTTGGTGGATAAGACCATAACTGGGTTATGGCACTATGAACGTAAAACCATTGTTG
1 TAAAGATGAATTGATGAATAAGACCATAACTCGGTTATGACACTATGAACGTAAAACCATGGTTG
* *
3363751 GACCATGGCAGTATTTATATGTAAGACCATAGATAGGCTATGGCATTAATG
66 AACCATGACAGTATTTATATGTAAGACCATAGATAGGCTATGGCATTAATG
* *
3363802 TAAATGATGAATTGATGAATAAGACCGTAACTCGGTTATGACACTATGAACGTAAGACCATGGTT
1 TAAA-GATGAATTGATGAATAAGACCATAACTCGGTTATGACACTATGAACGTAAAACCATGGTT
* * * *
3363867 GAACTATGATAGTGTTTATATGTAAGACCATAGCTAGGCTATGGCATT
65 GAACCATGACAGTATTTATATGTAAGACCATAGATAGGCTATGGCATT
3363915 CTGGTGATAA
Statistics
Matches: 98, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
116 4 0.04
117 94 0.96
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (116 bp):
TAAAGATGAATTGATGAATAAGACCATAACTCGGTTATGACACTATGAACGTAAAACCATGGTTG
AACCATGACAGTATTTATATGTAAGACCATAGATAGGCTATGGCATTAATG
Found at i:3366887 original size:85 final size:85
Alignment explanation
Indices: 3366772--3366994 Score: 240
Period size: 85 Copynumber: 2.6 Consensus size: 85
3366762 TCTAGGGTTG
* ** * * **
3366772 TAATATTTTTTTC-AGAATAATTAAAATAATTTTTATTTAATTT-ATTTCATT-TTTAGGATATT
1 TAATATTTTTTTCGA-AATAATTATAATAATTGATATTT-ATTTCATTTCATTATTGAGG-CACC
* * * *
3366834 TGGGTTTGAGTCTGGT-GTTGTAA
63 TAGGCTTGAGCCTGGTGGTAG-AA
3366857 TAATATTTTTTTCGAAATAATTATAATAATTGATATTTATTTCATTTCATTATTGAGGCACCTAG
1 TAATATTTTTTTCGAAATAATTATAATAATTGATATTTATTTCATTTCATTATTGAGGCACCTAG
3366922 GCTTGAGCCTGGTGGTAGAA
66 GCTTGAGCCTGGTGGTAGAA
*
3366942 TAATATTTTTTTTCGAAATAATTATAATAATTGCA-ATTTTTTTTCATTTCATT
1 TAATA-TTTTTTTCGAAATAATTATAATAATTG-ATA-TTTATTTCATTTCATT
3366995 CTCGAGAGTT
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
84 4 0.03
85 62 0.52
86 37 0.31
87 16 0.13
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (85 bp):
TAATATTTTTTTCGAAATAATTATAATAATTGATATTTATTTCATTTCATTATTGAGGCACCTAG
GCTTGAGCCTGGTGGTAGAA
Found at i:3367318 original size:181 final size:176
Alignment explanation
Indices: 3367007--3367468 Score: 438
Period size: 176 Copynumber: 2.6 Consensus size: 176
3366997 CGAGAGTTGG
* * * * * * *
3367007 GACACTTGGGCTTGAGTCTGGTGCTGCAGTAATATTTTTTTTGATTTTC-AAAATACTTATACT-
1 GACACTTAGGTTTGAGTCTGGTGCTGCAATAATATTTTTTTTTATTTTCTAGAATAATTATAATA
* * *
3367070 ATATATTATTTATTTCATTTCA-TTATCGGGGCACTT-AAGCTTGGGACTTGTGCTACAATATAT
66 AT-TATTATTTATTTCATTTCATTTAT--GGGCACTTGGA-CTTGAGACTTGAGCTACAATATA-
* *
3367133 TTTTTATTTTCCAAAATAACTACAATAATTGCTATTTGCTTCATTTCATTCCTGA
126 ---TT-TTTTCCAAAATAACTAAAATAATTGCTATTTACTTCATTTCATTCCTGA
*
3367188 GACACTTAGGTTTGAGGCTGGTGCTGCAATAATATTTTTTTTTTATTTTCTAGAATAATTATAAT
1 GACACTTAGGTTTGAGTCTGGTGCTGCAATAATA-TTTTTTTTTATTTTCTAGAATAATTATAAT
* * * *
3367253 AATTTTTATTTATTTCACTTCATTTATGGGCACTTGGACTTGAG-CTTGGAGCTGCAGTA-ATTT
65 AATTATTATTTATTTCATTTCATTTATGGGCACTTGGACTTGAGACTT-GAGCTACAATATATTT
** * * * **
3367316 TTTCTGAAATAATTAAAATAATTGTTATTTATTTCATTTCATTTTTGA
129 TTTCCAAAATAACTAAAATAATTGCTATTTACTTCATTTCATTCCTGA
* * * * * * * *
3367364 GGCATTTAGGTTTGAGTCTGGTGCTGTAATAATA--ATTTTTTA-TTTCTCGGATAACTACAATA
1 GACACTTAGGTTTGAGTCTGGTGCTGCAATAATATTTTTTTTTATTTTCTAGAATAATTATAATA
* * * *
3367426 ATTGTTATTTATTTCATTTTATTCATGGGCACTTGGGCTTGAG
66 ATTATTATTTATTTCATTTCATTTATGGGCACTTGGACTTGAG
3367469 GAAGGTGTTG
Statistics
Matches: 237, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
172 54 0.23
173 7 0.03
176 70 0.30
177 2 0.01
181 34 0.14
182 35 0.15
183 29 0.12
184 6 0.03
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.46
Consensus pattern (176 bp):
GACACTTAGGTTTGAGTCTGGTGCTGCAATAATATTTTTTTTTATTTTCTAGAATAATTATAATA
ATTATTATTTATTTCATTTCATTTATGGGCACTTGGACTTGAGACTTGAGCTACAATATATTTTT
TCCAAAATAACTAAAATAATTGCTATTTACTTCATTTCATTCCTGA
Found at i:3367517 original size:89 final size:89
Alignment explanation
Indices: 3367314--3368236 Score: 434
Period size: 90 Copynumber: 10.4 Consensus size: 89
3367304 CTGCAGTAAT
* ** * * *
3367314 TTTTTCTGAAATAATTAAAATAATTGTTATTTATTTCATTTCATTTTTGAGGCATTTAGGTTTGA
1 TTTTT-TGAAATAATTATAATAATTGTTATTTATTTCATTTCATTCATG-GGCACTTGGGCTTGA
* *
3367379 -GTCTGGTGCTGTAATAATAATTTTTTA
64 GGT-AGGTGCTGCAATAAT-ATTTTTTA
* * * * * *
3367406 TTTCTCG-GATAACTACAATAATTGTTATTTATTTCATTTTATTCATGGGCACTTGGGCTTGAGG
1 TTTTTTGAAATAATTATAATAATTGTTATTTATTTCATTTCATTCATGGGCACTTGGGCTTGAGG
* * *
3367470 AAGGTGTTGCGATAATATTTTTTA
66 TAGGTGCTGCAATAATATTTTTTA
** * *
3367494 TTTTTTGAAATAATTATAATAATTACTATTTATTTCATTTCATTTCGAT--GCACTTGAGTTTGA
1 TTTTTTGAAATAATTATAATAATTGTTATTTATTTCATTTCA-TTC-ATGGGCACTTGGGCTTGA
* * * * *
3367557 GTTTA--TGCTACAATAGTTTTTTTTT
64 G-GTAGGTGCTGCAATAATATTTTTTA
* * * * * * *
3367582 TCTAATTTTTAGAATAATCAGAATAATT-TCTATTTATTTCATTTTATTTCA-GGGCATTTGAGA
1 T-T--TTTTGA-AATAATTATAATAATTGT-TATTTATTTCATTTCA-TTCATGGGCACTTGGGC
* * * * *
3367645 TTGAGTTTGGTGTTGCGACAATATATTTTTA
60 TTGAGGTAGGTGCTGCAATAATAT-TTTTTA
* *
3367676 -TTTTTAAGAATAATTATAATAATT-TTAATTTATTTCATTTCATTCAAGGAGCACTTGGGCTTG
1 TTTTTTGA-AATAATTATAATAATTGTT-ATTTATTTCATTTCATTCATGG-GCACTTGGGCTTG
*
3367739 A-GTTGGTGCTGCAAT-AT-TTTTTTA
63 AGGTAGGTGCTGCAATAATATTTTTTA
* *** * * * * * * * *
3367763 CTTTCCAAAATAATAATAATAATTGCTATATATTTCATTTAATTCCTTAGGTACTTGGGATTGA-
1 TTTTTTGAAATAATTATAATAATTGTTATTTATTTCATTTCATT-CATGGGCACTTGGGCTTGAG
* *
3367827 GT--CTAG-TGCAACAA-ATTTTTT-
65 GTAGGT-GCTGCAATAATATTTTTTA
*** ** * * * *
3367848 TCTTTCCAAAATAATTATAATGTTTGCTATATATTTCATTTAATTC-TCGAGCACTTGGGCTTGA
1 T-TTTTTGAAATAATTATAATAATTGTTATTTATTTCATTTCATTCAT-GGGCACTTGGGCTTGA
* * *
3367912 GTCTA-TTGCTGCAAGAATATTTTGTTA
64 G-GTAGGTGCTGCAATAATATTTT-TTA
* * * * *
3367939 TTTTTTGGAATAACTATAATAATTGTAATTCA-TTCATTTCATTTCAGGGGCACTTGGGCTTGA-
1 TTTTTTGAAATAATTATAATAATTGTTATTTATTTCATTTCA-TTCATGGGCACTTGGGCTTGAG
** * *
3368002 GTCTTGTGCTACAATAA-AGTTATTTA
65 GT-AGGTGCTGCAATAATA-TTTTTTA
* * * * * * * *
3368028 ATTTTTGAATTAATTATAATAATTGCTATTAATTT--TTTCATTC-TCGGGAAAGTTGGTCTAGA
1 TTTTTTGAAATAATTATAATAATTGTTATTTATTTCATTTCATTCAT-GGG-CACTTGGGCTTGA
* * * * *
3368090 GTCTA-TTACTACAATAATATTTCTTA
64 G-GTAGGTGCTGCAATAATATTTTTTA
* * * * * *
3368116 TTTTCTAAAATAATTATAATAATTGCTATTTATTTCATTTCATTTTCA-GGACACTTAGGTTTGA
1 TTTTTTGAAATAATTATAATAATTGTTATTTATTTCATTTCA--TTCATGGGCACTTGGGCTTGA
3368180 -GTATGGTGCTGCAATAA-ATTTTTTA
64 GGTA-GGTGCTGCAATAATATTTTTTA
** * *
3368205 ACTTTT-AGAATAATTATAATAACTGCTATTTA
1 TTTTTTGA-AATAATTATAATAATTGTTATTTA
3368237 ATTTTCTTCA
Statistics
Matches: 636, Mismatches: 143, Indels: 107
0.72 0.16 0.12
Matches are distributed among these distances:
84 1 0.00
85 19 0.03
86 48 0.08
87 58 0.09
88 108 0.17
89 148 0.23
90 162 0.25
91 25 0.04
92 54 0.08
93 8 0.01
94 5 0.01
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (89 bp):
TTTTTTGAAATAATTATAATAATTGTTATTTATTTCATTTCATTCATGGGCACTTGGGCTTGAGG
TAGGTGCTGCAATAATATTTTTTA
Found at i:3367761 original size:182 final size:181
Alignment explanation
Indices: 3367422--3367761 Score: 433
Period size: 181 Copynumber: 1.9 Consensus size: 181
3367412 GGATAACTAC
* * *
3367422 AATAATTGTTATTTATTTCATTTTATTCATGGGCACTTGGGCTTGAGGAAGGTGTTGCGATAATA
1 AATAATTGTTATTTATTTCATTTTATTCATGGGCACTTGAGATTGAGGAAGGTGTTGCGACAATA
*
3367487 TTTTTTATTTTTTGAAATAATTATAATAATTACTATTTATTTCATTTCATTTCGATGCACTTGAG
66 TTTTTTATTTTTAGAAATAATTATAATAATTACTATTTATTTCATTTCATTTCGATGCACTTGAG
* *
3367552 TTTGAGTTTATGCTACAATAGTTTTTTTTTTCTAATTTTTAGAATAATCAG
131 CTTGAGTTGATGCTACAATAGTTTTTTTTTTCTAATTTTTAGAATAATCAG
* ***
3367603 AATAATT-TCTATTTATTTCATTTTATTTCA-GGGCATTTGAGATTGAGTTTGGTGTTGCGACAA
1 AATAATTGT-TATTTATTTCATTTTA-TTCATGGGCACTTGAGATTGAGGAAGGTGTTGCGACAA
*
3367666 TATATTTTTATTTTTA-AGAATAATTATAATAATT-TTAATTTATTTCATTTCA-TTCAAGGA-G
64 TAT-TTTTTATTTTTAGA-AATAATTATAATAATTACT-ATTTATTTCATTTCATTTC---GATG
* * *
3367727 CACTTGGGCTTGAGTTGGTGCTGCAATA-TTTTTTT
123 CACTTGAGCTTGAGTTGATGCTACAATAGTTTTTTT
3367762 ACTTTCCAAA
Statistics
Matches: 137, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
180 1 0.01
181 57 0.42
182 53 0.39
183 24 0.18
184 2 0.01
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.49
Consensus pattern (181 bp):
AATAATTGTTATTTATTTCATTTTATTCATGGGCACTTGAGATTGAGGAAGGTGTTGCGACAATA
TTTTTTATTTTTAGAAATAATTATAATAATTACTATTTATTTCATTTCATTTCGATGCACTTGAG
CTTGAGTTGATGCTACAATAGTTTTTTTTTTCTAATTTTTAGAATAATCAG
Found at i:3367876 original size:86 final size:87
Alignment explanation
Indices: 3367728--3367893 Score: 246
Period size: 86 Copynumber: 1.9 Consensus size: 87
3367718 TTCAAGGAGC
* * **
3367728 ACTTGGGCTTGAGTTGGTGCTGCAATATTTTTTTACTTTCCAAAATAATAATAATAATTGCTATA
1 ACTTGGGATTGAGTTAGTGCAACAATATTTTTTTACTTTCCAAAATAATAATAATAATTGCTATA
3367793 TATTTCATTTAATTCCTTAGGT
66 TATTTCATTTAATTCCTTAGGT
* **
3367815 ACTTGGGATTGAGTCTAGTGCAACAA-ATTTTTTT-CTTTCCAAAATAATTATAATGTTTGCTAT
1 ACTTGGGATTGAGT-TAGTGCAACAATATTTTTTTACTTTCCAAAATAATAATAATAATTGCTAT
3367878 ATATTTCATTTAATTC
65 ATATTTCATTTAATTC
3367894 TCGAGCACTT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
86 42 0.59
87 21 0.30
88 8 0.11
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (87 bp):
ACTTGGGATTGAGTTAGTGCAACAATATTTTTTTACTTTCCAAAATAATAATAATAATTGCTATA
TATTTCATTTAATTCCTTAGGT
Found at i:3368140 original size:177 final size:180
Alignment explanation
Indices: 3367910--3368248 Score: 431
Period size: 178 Copynumber: 1.9 Consensus size: 180
3367900 ACTTGGGCTT
* * * * **
3367910 GAGTCTATTGCTGCAAGAATATTTTGTTATTTTTTGGAATAACTATAATAATTG-TAATTCA-TT
1 GAGTCTATTACTACAAGAATATTTTCTTATTTTCTAAAATAACTATAATAATTGCT-ATTCATTT
* * * * *
3367973 CATTTCA-TTTCAGGGGCACTTGGGCTTGAGTCTTGTGCTACAATAAAGTTATTTAA-TTTTTGA
65 CATTTCATTTTCA-GGACACTTAGGCTTGAGTATGGTGCTACAATAAA-TTATTTAACTTTTAGA
*
3368036 ATTAATTATAATAATTGCTA-TTAATTTT-TTCATTCTCGGGAAAGTTGGTCTA
128 A-TAATTATAATAACTGCTATTTAATTTTCTTCATTCTCGGGAAAGTTGGTCTA
* * *
3368088 GAGTCTATTACTACAATAATA-TTTCTTATTTTCTAAAATAATTATAATAATTGCTATTTATTTC
1 GAGTCTATTACTACAAGAATATTTTCTTATTTTCTAAAATAACTATAATAATTGCTATTCATTTC
* * *
3368152 ATTTCATTTTCAGGACACTTAGGTTTGAGTATGGTGCTGCAATAAATTTTTTAACTTTTAGAATA
66 ATTTCATTTTCAGGACACTTAGGCTTGAGTATGGTGCTACAATAAATTATTTAACTTTTAGAATA
3368217 ATTATAATAACTGCTATTTAATTTTCTTCATT
131 ATTATAATAACTGCTATTTAATTTTCTTCATT
3368249 TTCGAGGTAC
Statistics
Matches: 137, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
177 55 0.40
178 71 0.52
179 11 0.08
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (180 bp):
GAGTCTATTACTACAAGAATATTTTCTTATTTTCTAAAATAACTATAATAATTGCTATTCATTTC
ATTTCATTTTCAGGACACTTAGGCTTGAGTATGGTGCTACAATAAATTATTTAACTTTTAGAATA
ATTATAATAACTGCTATTTAATTTTCTTCATTCTCGGGAAAGTTGGTCTA
Found at i:3368326 original size:94 final size:90
Alignment explanation
Indices: 3367670--3368332 Score: 294
Period size: 89 Copynumber: 7.4 Consensus size: 90
3367660 CGACAATATA
* *
3367670 TTTTTATTTTTAAGAATAATTATAATAATT-TTAATTT-A-TTTCATTTCA--TTCAAGGAGCAC
1 TTTTTATTTTCAA-AATAATTATAATAATTGCT-ATTTAATTTTCA-TTCATTTTC-AGGA-CAC
* *
3367730 TTGGGCTTGAGT-TGGTGCTGCAAT--ATT
61 TTAGGCTTGAGTATAGTGCTGCAATAAATT
* * * * *
3367757 TTTTTACTTTCCAAAATAATAATAATAATTGCTATAT-A-TTTCATTTAATTCCTT-AGG-TACT
1 TTTTTA-TTTTCAAAATAATTATAATAATTGCTATTTAATTTTCA-TTCATT--TTCAGGACACT
* * * *
3367818 TGGGATTGAGTCTA--G-TGCAACAAATT
62 TAGGCTTGAGTATAGTGCTGCAATAAATT
* * ** * * * *
3367844 TTTTTCTTTCCAAAATAATTATAATGTTTGCTATAT-A-TTTCATTTAATTCTC--GAGCACTTG
1 TTTTTATTTTCAAAATAATTATAATAATTGCTATTTAATTTTCA-TTCATTTTCAGGA-CACTTA
* * *
3367905 GGCTTGAGTCTATTGCTGCAAGAATATT
64 GGCTTGAGTATAGTGCTGCAATAA-ATT
* *** * * * *
3367933 TTGTTATTTTTTGGAATAACTATAATAATTG-TAATTCA--TTCATTTCA-TTTCAGGGGCACTT
1 TTTTTA-TTTTCAAAATAATTATAATAATTGCTATTTAATTTTCA-TTCATTTTCA-GGACACTT
* * * *
3367994 GGGCTTGAGTCTTGTGCTACAATAAAGTT
63 AGGCTTGAGTATAGTGCTGCAATAAA-TT
* * ** * * * * *
3368023 ATTTAATTTTTGAATTAATTATAATAATTGCTA-TTAATTTT--TTCATTCTCGGGAAAGTT-GG
1 TTTTTATTTTCAAAATAATTATAATAATTGCTATTTAATTTTCATTCATTTTCAGGACACTTAGG
* * * * *
3368084 TCTAGAGTCTATTACTACAAT-AATAT
66 -CTTGAGTATAGTGCTGCAATAAAT-T
*
3368110 TTCTTATTTTCTAAAATAATTATAATAATTGCTATTT-A-TTTCATTTCATTTTCAGGACACTTA
1 TTTTTATTTTC-AAAATAATTATAATAATTGCTATTTAATTTTCA-TTCATTTTCAGGACACTTA
* *
3368173 GGTTTGAGTATGGTGCTGCAATAAATT
64 GGCTTGAGTATAGTGCTGCAATAAATT
* * * * *
3368200 TTTTAACTTTT-AGAATAATTATAATAACTGCTATTTAATTTTC-TTCATTTTCGAGG-TACTTG
1 TTTTTA-TTTTCAAAATAATTATAATAATTGCTATTTAATTTTCATTCATTTTC-AGGACACTTA
* *
3368262 GGCTTGAGTTTAGTGCACTGCAATTACATTT
64 GGCTTGAGTATAGTG--CTGCAA-TA-AATT
* *
3368293 TTTTTATTTTCCAAAATAGTTATAATAATTGCTATGTAAT
1 TTTTTATTTT-CAAAATAATTATAATAATTGCTATTTAAT
3368333 GGCCTAAATT
Statistics
Matches: 447, Mismatches: 84, Indels: 83
0.73 0.14 0.14
Matches are distributed among these distances:
83 1 0.00
84 1 0.00
85 21 0.05
86 42 0.09
87 71 0.16
88 63 0.14
89 99 0.22
90 87 0.19
91 24 0.05
92 6 0.01
93 8 0.02
94 24 0.05
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (90 bp):
TTTTTATTTTCAAAATAATTATAATAATTGCTATTTAATTTTCATTCATTTTCAGGACACTTAGG
CTTGAGTATAGTGCTGCAATAAATT
Found at i:3369101 original size:88 final size:88
Alignment explanation
Indices: 3368948--3369122 Score: 332
Period size: 88 Copynumber: 2.0 Consensus size: 88
3368938 TTTGCACCAA
*
3368948 ATCCGGAAGATTCAAATACGAAGCTAGATCGAGGAAAGGAAAAAGTTCGGGATTAGTAGAATTTT
1 ATCCGAAAGATTCAAATACGAAGCTAGATCGAGGAAAGGAAAAAGTTCGGGATTAGTAGAATTTT
3369013 ATTGTTTACAAACAAGTATCAAG
66 ATTGTTTACAAACAAGTATCAAG
*
3369036 ATCCGAAAGATTCAAATACGAAGCTAGATCGAGGAAAGGAAAAAGTTCGGGATTAGTAGATTTTT
1 ATCCGAAAGATTCAAATACGAAGCTAGATCGAGGAAAGGAAAAAGTTCGGGATTAGTAGAATTTT
3369101 ATTGTTTACAAACAAGTATCAA
66 ATTGTTTACAAACAAGTATCAA
3369123 TGTAAGTTCG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (88 bp):
ATCCGAAAGATTCAAATACGAAGCTAGATCGAGGAAAGGAAAAAGTTCGGGATTAGTAGAATTTT
ATTGTTTACAAACAAGTATCAAG
Found at i:3370615 original size:91 final size:87
Alignment explanation
Indices: 3370347--3370934 Score: 317
Period size: 90 Copynumber: 6.6 Consensus size: 87
3370337 ATGTATTTAA
* * * * * * *
3370347 TTTCATTCTCGGGACATTTGGGATTGAGTCTAGTGCTGCAATAATATTTTTTCTATTTCTAAAAT
1 TTTCATTCTCAGGTCACTTGGGCTTGAGTCTGGTGCTGTAATAATA--TTTT-T-TTT-TGAAAT
* **
3370412 AATCATAATAATTGCTATTTATTTCA-
61 AATTATAATAATTGAAATTTATTTCAT
* ** * * * * *
3370438 TTTAATTC-CGAAGG-CACTCAGACTTGATTTTGGTGCTATAATGATATTTTTTTATTTTCTGAA
1 TTTCATTCTC--AGGTCACTTGGGCTTGAGTCTGGTGCTGTAAT-A-A-TATTTT-TTTT-TGAA
*
3370501 ATAATTATAATAATTG-CA---A--TCAT
59 ATAATTATAATAATTGAAATTTATTTCAT
*
3370524 TTTCATTCACAGGTCACTTGGGCTTGAGTCTGGTGCTGTAATAAATATTTTATTTTTCGAAATAA
1 TTTCATTCTCAGGTCACTTGGGCTTGAGTCTGGTGCTGTAAT-AATATTTT-TTTTT-GAAATAA
* *
3370589 TTATGATAATTTTAAATTTATTTCA-
63 TTATAATAA-TTGAAATTTATTTCAT
* * * * * *
3370614 TTTCATTCTTAGGGCACTTAGGCTTGAGTCTAGTGCTGCAACAATATTTTTTTTTGAAATAATTA
1 TTTCATTCTCAGGTCACTTGGGCTTGAGTCTGGTGCTGTAATAATATTTTTTTTTGAAATAATTA
* ** *
3370679 TAATAGTTGCGATTTATTTTAT
66 TAATAATTGAAATTTATTTCAT
* * * * * * *
3370701 TTT-ATTTTTAGGT-TCTTGGGCTTGAGTATGATGTTGTAATAATATTTTATTTTATTTTAGGAA
1 TTTCATTCTCAGGTCACTTGGGCTTGAGTCTGGTGCTGTAATAATA---T-TTTT-TTTT-GAAA
*
3370764 TAATTATAATAATTGATATTTATTTC-T
60 TAATTATAATAATTGAAATTTATTTCAT
* * * * ** **
3370791 TTTCATTTTCAAGACACTTGGGTTTGAGTCTGGTGCACTAATAATATTTTTTTTATTTTTTAATA
1 TTTCATTCTCAGGTCACTTGGGCTTGAGTCTGGTGCTGTAATAATA---TTTTT-TTTTGAAATA
* * *
3370856 ATTATAATGACTGATATTTATTTCA-
62 ATTATAATAATTGAAATTTATTTCAT
* * ** *
3370881 TTTCATTCTCGAGG-CACTTGGCCTTGAGTCTAGTGCTACAATAAT-TTTTGTTTT
1 TTTCATTCTC-AGGTCACTTGGGCTTGAGTCTGGTGCTGTAATAATATTTTTTTTT
3370935 ATTTTTTTGG
Statistics
Matches: 390, Mismatches: 80, Indels: 60
0.74 0.15 0.11
Matches are distributed among these distances:
83 1 0.00
84 25 0.06
85 36 0.09
86 54 0.14
87 19 0.05
88 6 0.02
89 13 0.03
90 105 0.27
91 93 0.24
92 36 0.09
93 1 0.00
94 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (87 bp):
TTTCATTCTCAGGTCACTTGGGCTTGAGTCTGGTGCTGTAATAATATTTTTTTTTGAAATAATTA
TAATAATTGAAATTTATTTCAT
Found at i:3370641 original size:90 final size:86
Alignment explanation
Indices: 3370340--3370934 Score: 321
Period size: 91 Copynumber: 6.7 Consensus size: 86
3370330 ACATGCTATG
* * * * * *
3370340 TATTTAATTTCATTC-TCGGGACATTTGGGATTGAGTCTAGTGCTGCAATAATATTTTTTCTATT
1 TATTTCATTTCATTCTTAGGG-CACTTGGGCTTGAGTCTGGTGCTGTAATAATA--TTTT-T-TT
* * **
3370404 TCTAAAATAATCATAATAATTGCTATT
61 T-TGAAATAATTATAATAATTGAAATT
* ** * ** * * * * *
3370431 TATTTCATTTAATTCCGAAGGCACTCAGACTTGATTTTGGTGCTATAATGATATTTTTTTATTTT
1 TATTTCATTTCATTCTTAGGGCACTTGGGCTTGAGTCTGGTGCTGTAAT-A-A-TATTTT-TTTT
*
3370496 CTGAAATAATTATAATAATTGCAA-T
62 -TGAAATAATTATAATAATTGAAATT
* *
3370521 CATTTTCA-TTCA--C--AGGTCACTTGGGCTTGAGTCTGGTGCTGTAATAAATATTTTATTTTT
1 TA-TTTCATTTCATTCTTAGGGCACTTGGGCTTGAGTCTGGTGCTGTAAT-AATATTTT-TTTTT
* *
3370581 CGAAATAATTATGATAATTTTAAATT
63 -GAAATAATTATAATAA-TTGAAATT
* * * *
3370607 TATTTCATTTCATTCTTAGGGCACTTAGGCTTGAGTCTAGTGCTGCAACAATATTTTTTTTTGAA
1 TATTTCATTTCATTCTTAGGGCACTTGGGCTTGAGTCTGGTGCTGTAATAATATTTTTTTTTGAA
* **
3370672 ATAATTATAATAGTTGCGATT
66 ATAATTATAATAATTGAAATT
* * * ** * * *
3370693 TATTTTATTTTATTTTTA-GGTTCTTGGGCTTGAGTATGATGTTGTAATAATATTTTATTTTATT
1 TATTTCATTTCATTCTTAGGGCACTTGGGCTTGAGTCTGGTGCTGTAATAATA---T-TTTT-TT
* *
3370757 TTAGGAATAATTATAATAATTGATATT
61 TT-GAAATAATTATAATAATTGAAATT
* * * * **
3370784 TATTTCTTTTCATT-TTCAAGACACTTGGGTTTGAGTCTGGTGCACTAATAATATTTTTTTTATT
1 TATTTCATTTCATTCTT-AGGGCACTTGGGCTTGAGTCTGGTGCTGTAATAATA---TTTTT-TT
** * * *
3370848 TTTTAATAATTATAATGACTGATATT
61 TTGAAATAATTATAATAATTGAAATT
* * * ** *
3370874 TATTTCATTTCATTC-TCGAGGCACTTGGCCTTGAGTCTAGTGCTACAATAAT-TTTTGTTTT
1 TATTTCATTTCATTCTTAG-GGCACTTGGGCTTGAGTCTGGTGCTGTAATAATATTTTTTTTT
3370935 ATTTTTTTGG
Statistics
Matches: 392, Mismatches: 89, Indels: 52
0.74 0.17 0.10
Matches are distributed among these distances:
83 1 0.00
84 25 0.06
85 39 0.10
86 55 0.14
87 14 0.04
88 8 0.02
89 12 0.03
90 98 0.25
91 101 0.26
92 37 0.09
93 1 0.00
94 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (86 bp):
TATTTCATTTCATTCTTAGGGCACTTGGGCTTGAGTCTGGTGCTGTAATAATATTTTTTTTTGAA
ATAATTATAATAATTGAAATT
Found at i:3370935 original size:90 final size:90
Alignment explanation
Indices: 3370737--3371002 Score: 266
Period size: 90 Copynumber: 2.9 Consensus size: 90
3370727 TATGATGTTG
** * * *
3370737 TAATAATATTTTATTTTATTTTAGGAATAATTATAATAATTGATATTTATTTCTTTTCATTTTCA
1 TAATAATATTTT-TTTTATTTT-TTAATAATTATAATAACTGATATTTATTTCATTTCATTCTCA
** *
3370802 AGACACTTGGGTTTGAGTCTGGTGCAC
64 AGACACTTGGCCTTGAGTCTAGTGCAC
* *
3370829 TAATAATATTTTTTTTATTTTTTAATAATTATAATGACTGATATTTATTTCATTTCATTCTCGAG
1 TAATAATATTTTTTTTATTTTTTAATAATTATAATAACTGATATTTATTTCATTTCATTCTCAAG
*
3370894 GCACTTGGCCTTGAGTCTAGTGCTAC
66 ACACTTGGCCTTGAGTCTAGTGC-AC
* * * * * * *
3370920 -AATAAT-TTTTGTTTTATTTTTTTGGAATAGTTATAATAAGTGGTATTCATTTTATTTTATTTT
1 TAATAATATTTT-TTTTA-TTTTTT--AATAATTATAATAACTGATATTTATTTCATTTCATTCT
* * *
3370983 CAAGATATTTGGACTTGAGT
62 CAAGACACTTGGCCTTGAGT
3371003 TTGGCGTTGC
Statistics
Matches: 145, Mismatches: 24, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
89 4 0.03
90 67 0.46
91 17 0.12
92 12 0.08
93 45 0.31
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (90 bp):
TAATAATATTTTTTTTATTTTTTAATAATTATAATAACTGATATTTATTTCATTTCATTCTCAAG
ACACTTGGCCTTGAGTCTAGTGCAC
Found at i:3372508 original size:21 final size:21
Alignment explanation
Indices: 3372468--3372556 Score: 101
Period size: 21 Copynumber: 4.3 Consensus size: 21
3372458 CGAATACTCA
*
3372468 AACAGAAGCTCG-AA-AGCTG
1 AACAAAAGCTCGTAAGAGCTG
*
3372487 AATAAAAGCTCGTAAGAGCTG
1 AACAAAAGCTCGTAAGAGCTG
*
3372508 AACAGAAGCTCGTAAGAGCTG
1 AACAAAAGCTCGTAAGAGCTG
* * * *
3372529 AACAAAAACTCATTAGAGTTG
1 AACAAAAGCTCGTAAGAGCTG
3372550 AACAAAA
1 AACAAAA
3372557 AGTAAAACAC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
19 10 0.17
20 2 0.03
21 47 0.80
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (21 bp):
AACAAAAGCTCGTAAGAGCTG
Found at i:3372515 original size:40 final size:42
Alignment explanation
Indices: 3372468--3372553 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
3372458 CGAATACTCA
* * *
3372468 AACAGAAGCTCG-AA-AGCTGAATAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGCTG
* *
3372508 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCATTAGAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGCTG
3372550 AACA
1 AACA
3372554 AAAAGTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 12 0.31
41 2 0.05
42 25 0.64
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGCTG
Found at i:3374371 original size:44 final size:42
Alignment explanation
Indices: 3374228--3374378 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 42
3374218 TGCCGACGTT
* * * *
3374228 CCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTC
1 CCAGACGTGGTCTTACACGAAATCAAATA-CGATGCCAATGTC
*
3374271 CCAGACAG-GGTCTTACACGAAATCAAATACGATGCCAACGTC
1 CCAGAC-GTGGTCTTACACGAAATCAAATACGATGCCAATGTC
** * *
3374313 TTAGATGTGGTCTTACACGTAAATCATAAGT-TGATGCCAATGTC
1 CCAGACGTGGTCTTACACG-AAATCA-AA-TACGATGCCAATGTC
*
3374357 CCAGACGTGATCTTACACGAAA
1 CCAGACGTGGTCTTACACGAAA
3374379 ACACATATCG
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 25 0.28
43 34 0.38
44 28 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
CCAGACGTGGTCTTACACGAAATCAAATACGATGCCAATGTC
Found at i:3377068 original size:90 final size:87
Alignment explanation
Indices: 3376974--3377135 Score: 216
Period size: 89 Copynumber: 1.8 Consensus size: 87
3376964 ACACTTGGAC
* * *
3376974 TTGAGTCTGGTGCTACAATAATTTATTTTTATTTTCCAAAATAATTATAATAATAGCTATTTATT
1 TTGAGTCTAGTACTACAATAAATT-TTTTTATTTTCCAAAATAATTATAATAATAG--ATTTATT
*
3377039 TCATTTCATTATGAGGCATTTGAGT
63 TCATTCCATTATGAGGCATTTGAGT
* * * * *
3377064 TTGAGTCTAGTATTGCAATAAATTTTTTTATTTTTCGAAATAATTATAATAATTGATTTATTTCA
1 TTGAGTCTAGTACTACAATAAATTTTTTTATTTTCCAAAATAATTATAATAATAGATTTATTTCA
3377129 TTCCATT
66 TTCCATT
3377136 TCATTTTTGG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 16 0.25
89 28 0.44
90 19 0.30
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.49
Consensus pattern (87 bp):
TTGAGTCTAGTACTACAATAAATTTTTTTATTTTCCAAAATAATTATAATAATAGATTTATTTCA
TTCCATTATGAGGCATTTGAGT
Found at i:3377380 original size:90 final size:86
Alignment explanation
Indices: 3377171--3377404 Score: 242
Period size: 86 Copynumber: 2.7 Consensus size: 86
3377161 TGGTATTGTA
* * * *
3377171 ATAATATTTTTTA-TTTTTTGAAATAATTATAATATTTTTTATTTATTTTATTTCATTTCTAAGG
1 ATAATATTTTTTATTTTTTTGGAATAATTATAATAATTTCTATTTATTTTATTTTATTTCTAAGG
*
3377235 TATTGAGTGTGAGCTGGTGTT
66 CATTGAGTGTGAGCTGGTGTT
* ** *
3377256 GTAATGATTTTTT-TTTTTTCAGAATAATTATAATAATTTCTATTTATTTTATTTTATTTCT-GG
1 ATAAT-ATTTTTTATTTTTTTGGAATAATTATAATAATTTCTATTTATTTTATTTTATTTCTAAG
* *
3377319 GCCACTTGGGCT-TGAGTTTGGTGTT
65 G-CA-TTGAG-TGTGAG-CTGGTGTT
* * * *
3377344 ATAATATTTTTTATATTTTTTTGGAATACTTATAATAGTTGCTATTTATTTCATTTTATTT
1 ATAATA-TTTTT-TATTTTTTTGGAATAATTATAATAATTTCTATTTATTTTATTTTATTT
3377405 TCAAAGCATT
Statistics
Matches: 122, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
85 6 0.05
86 49 0.40
87 9 0.07
88 17 0.14
89 1 0.01
90 40 0.33
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.57
Consensus pattern (86 bp):
ATAATATTTTTTATTTTTTTGGAATAATTATAATAATTTCTATTTATTTTATTTTATTTCTAAGG
CATTGAGTGTGAGCTGGTGTT
Found at i:3377380 original size:176 final size:176
Alignment explanation
Indices: 3377012--3377404 Score: 413
Period size: 176 Copynumber: 2.2 Consensus size: 176
3377002 TTATTTTCCA
* * * * * * * *
3377012 AAATAATTATAATAATAGCTATTTATTTCATTTCA-TTATGAGGCATTTGAGTTTGAGTCTAGTA
1 AAATAATTATAATAGTTGCTATTTATTTCATTTCATTTCTAAGGTA-TTGAGTGTGAG-CTGGTG
* * *
3377076 TTGCAATAAATTTTTTTATTTTTCGAAATAATTATAATAATTGATTTATTTCATTCCATTTCATT
64 TTGTAAT-GATTTTTTTATTTTTCGAAATAATTATAATAATT-ATCTATTTCATTCCATTTCATT
* * *
3377141 TTTGGGCATTTAGGCTTGTTTGGTATTGTAATAATATTTTTTATTTTTTG
127 TCTGGGCACTTAGGCTTGTTTGGTATTATAATAATATTTTTTATTTTTTG
* ** *
3377191 AAATAATTATAATATTTTTTATTTATTTTATTTCATTTCTAAGGTATTGAGTGTGAGCTGGTGTT
1 AAATAATTATAATAGTTGCTATTTATTTCATTTCATTTCTAAGGTATTGAGTGTGAGCTGGTGTT
** *
3377256 GTAATGATTTTTTT-TTTTTC-AGAATAATTATAATAATT-TCTATTT-ATTTTATTTTATTTCT
66 GTAATGATTTTTTTATTTTTCGA-AATAATTATAATAATTATCTATTTCATTCCATTTCATTTCT
* *
3377317 GGGCCACTTGGGCTTGAGTTTGGTGTTATAAT-AT-TTTTTATATTTTTTTG
130 GGG-CACTTAGGCTT--GTTTGGTATTATAATAATATTTTT-TA-TTTTTTG
* * *
3377367 GAATACTTATAATAGTTGCTATTTATTTCATTTTATTT
1 AAATAATTATAATAGTTGCTATTTATTTCATTTCATTT
3377405 TCAAAGCATT
Statistics
Matches: 178, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
173 15 0.08
174 20 0.11
175 5 0.03
176 73 0.41
177 8 0.04
178 10 0.06
179 40 0.22
180 7 0.04
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.54
Consensus pattern (176 bp):
AAATAATTATAATAGTTGCTATTTATTTCATTTCATTTCTAAGGTATTGAGTGTGAGCTGGTGTT
GTAATGATTTTTTTATTTTTCGAAATAATTATAATAATTATCTATTTCATTCCATTTCATTTCTG
GGCACTTAGGCTTGTTTGGTATTATAATAATATTTTTTATTTTTTG
Found at i:3381559 original size:21 final size:22
Alignment explanation
Indices: 3381519--3381560 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
3381509 ATACATTTAA
3381519 TTTTTATATTTTAATTAAATTAG
1 TTTTTATATTTT-ATTAAATTAG
3381542 TTTTTATATTTT-TTAAATT
1 TTTTTATATTTTATTAAATT
3381561 TTTATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTATATTTTATTAAATTAG
Found at i:3384258 original size:44 final size:44
Alignment explanation
Indices: 3384188--3384316 Score: 201
Period size: 44 Copynumber: 3.0 Consensus size: 44
3384178 AATCCCTGTG
* *
3384188 ACTAGAACTCATAG-TTGTATGGAGGGTGAACACCCTTGGCCAA
1 ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
*
3384231 ACTAGAACTCAGAGATTGTATGTAGGGTGAACACCCTTGGCCAA
1 ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
*
3384275 ACTAGAACTCACAGATTGTATGTAAGGTGAAC-CCC-TGGCCAA
1 ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
3384317 TGAGTCAACA
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
42 7 0.09
43 16 0.20
44 58 0.72
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (44 bp):
ACTAGAACTCACAGATTGTATGTAGGGTGAACACCCTTGGCCAA
Found at i:3397633 original size:17 final size:17
Alignment explanation
Indices: 3397613--3397646 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3397603 TAAGACTCGG
3397613 GAAAGAA-AAAGAAATAA
1 GAAAGAACAAA-AAATAA
3397630 GAAAGAACAAAAAATAA
1 GAAAGAACAAAAAATAA
3397647 ATCTTATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (17 bp):
GAAAGAACAAAAAATAA
Found at i:3399130 original size:9 final size:9
Alignment explanation
Indices: 3399116--3399140 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3399106 CAAATCTTCG
3399116 ATTTTATAT
1 ATTTTATAT
3399125 ATTTTATAT
1 ATTTTATAT
3399134 ATTTTAT
1 ATTTTAT
3399141 TTTCATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTATAT
Found at i:3401296 original size:113 final size:113
Alignment explanation
Indices: 3401093--3401314 Score: 426
Period size: 113 Copynumber: 2.0 Consensus size: 113
3401083 CTGGTTATAG
3401093 CAGTTAAGAACGTCCTAACCACCAATTCTTCCTTTAGCAGCTGGTTCCGGTACGACCTGCAAACC
1 CAGTTAAGAACGTCCTAACCACCAATTCTTCCTTTAGCAGCTGGTTCCGGTACGACCTGCAAACC
3401158 AACCTTTACCGATTATCTAACCGAGATAAACGTATTCCCGATTCGTAT
66 AACCTTTACCGATTATCTAACCGAGATAAACGTATTCCCGATTCGTAT
*
3401206 CAGTTAAGAACGTCCTAACCACCAATTCTTCCTTTAGCAGCTGGTTCCGGTACGACCTGTAAACC
1 CAGTTAAGAACGTCCTAACCACCAATTCTTCCTTTAGCAGCTGGTTCCGGTACGACCTGCAAACC
*
3401271 AACCTTTACCGATTATCTAATCGAGATAAACGTATTCCCGATTC
66 AACCTTTACCGATTATCTAACCGAGATAAACGTATTCCCGATTC
3401315 AAGTTCCCGG
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 107 1.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (113 bp):
CAGTTAAGAACGTCCTAACCACCAATTCTTCCTTTAGCAGCTGGTTCCGGTACGACCTGCAAACC
AACCTTTACCGATTATCTAACCGAGATAAACGTATTCCCGATTCGTAT
Found at i:3408224 original size:25 final size:23
Alignment explanation
Indices: 3408178--3408228 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
3408168 TAATCACTAT
*
3408178 TATTATTATTATATATTAATGTA
1 TATTATTATTACATATTAATGTA
*
3408201 TATTTTTATTACATATATATATGTA
1 TATTATTATTACATAT-TA-ATGTA
3408226 TAT
1 TAT
3408229 GTATATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.58
24 2 0.08
25 8 0.33
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTATTATTACATATTAATGTA
Found at i:3408233 original size:12 final size:12
Alignment explanation
Indices: 3408213--3408244 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3408203 TTTTTATTAC
3408213 ATATATATATGT
1 ATATATATATGT
*
3408225 ATATGTATATGT
1 ATATATATATGT
3408237 ATATATAT
1 ATATATAT
3408245 TTATACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (12 bp):
ATATATATATGT
Found at i:3408360 original size:26 final size:27
Alignment explanation
Indices: 3408331--3408391 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
3408321 TAATCACTAT
3408331 TATTATTATTATTATATAT-TA-GTGTA
1 TATTATT-TTATTATATATGTATGTGTA
3408357 TATT-TTTTATTATATATGTATGTGTA
1 TATTATTTTATTATATATGTATGTGTA
3408383 TATATATTT
1 TAT-TATTT
3408392 ATACATAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.35
25 4 0.13
26 12 0.39
27 1 0.03
28 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (27 bp):
TATTATTTTATTATATATGTATGTGTA
Found at i:3408517 original size:145 final size:145
Alignment explanation
Indices: 3408224--3408493 Score: 326
Period size: 144 Copynumber: 1.8 Consensus size: 145
3408214 TATATATATG
* ** **
3408224 TATATGTATATGTATATATATTTATACATAAGTATTATTTTTTAATTACTTTATTTTAGTATTTT
1 TATATGTATATGTATATATATTTATACATAAGTAGTATTTTTTAATTACTTTATTTTAACATCAT
* * *
3408289 TATTATATATATTAGCTTTTTGTATTTCAATCTAATCACTATTATTATTATTATTATATATTAGT
66 TATTATATATATTAGCTTTTTGTATTTCAATATAATCACTAGTATTATTATCATTATATATTAGT
** * *
3408354 GTATATTTTTTATTA
131 GTATATCATATATCA
*
3408369 TATATGTATGTGTATATATATTTATACAT-AGTAGTATTTTTTAATTACTTTATTTTAACATCAT
1 TATATGTATATGTATATATATTTATACATAAGTAGTATTTTTTAATTACTTTATTTTAACATCAT
* * * * **
3408433 TATTATATTATATTTGTTTTTTTTTGTATTTCATTATTATTGCTAGTATTATTATCATTAT
66 TATTATA-TATATTAG---CTTTTTGTATTTCAATATAATCACTAGTATTATTATCATTAT
3408494 CATCATTATT
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
144 37 0.35
145 35 0.33
148 34 0.32
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.58
Consensus pattern (145 bp):
TATATGTATATGTATATATATTTATACATAAGTAGTATTTTTTAATTACTTTATTTTAACATCAT
TATTATATATATTAGCTTTTTGTATTTCAATATAATCACTAGTATTATTATCATTATATATTAGT
GTATATCATATATCA
Found at i:3419753 original size:46 final size:45
Alignment explanation
Indices: 3419694--3419866 Score: 217
Period size: 46 Copynumber: 3.9 Consensus size: 45
3419684 TATTATGCCT
* * *
3419694 AAAAAAAA-TAATCAAGATGAAAACCGGAAAAGGGTGTCTTGATTA
1 AAAAAAAAGGAATCAAGATGAAAACCCGAAAAGGGCGTCTTGA-TA
3419739 AAAAAAAAGGAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATA
1 AAAAAAAAGGAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATA
* * *
3419784 AACAAAAAAGGAATCAAGATGAAGACCCGAAAAAGACGTCTTGAT-
1 AA-AAAAAAGGAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATA
* * * *
3419829 AAACAAAAGG-GTTAGGATGAAAACCCGAAAAGGGCGTC
1 AAAAAAAAGGAATCAAGATGAAAACCCGAAAAGGGCGTC
3419867 CTAATGAAGT
Statistics
Matches: 113, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
43 22 0.19
44 7 0.06
45 14 0.12
46 70 0.62
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.14
Consensus pattern (45 bp):
AAAAAAAAGGAATCAAGATGAAAACCCGAAAAGGGCGTCTTGATA
Found at i:3419816 original size:25 final size:24
Alignment explanation
Indices: 3419742--3419818 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 24
3419732 TTGATTAAAA
3419742 AAAAAGGAATCAAGATGAAAACCCG
1 AAAAAGGAATCAAGATG-AAACCCG
* ** ** *
3419767 AAAAGGGCGTCTTGAT-AAA--CA
1 AAAAAGGAATCAAGATGAAACCCG
3419788 AAAAAGGAATCAAGATGAAGACCCG
1 AAAAAGGAATCAAGATGAA-ACCCG
3419813 AAAAAG
1 AAAAAG
3419819 ACGTCTTGAT
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
21 12 0.33
22 2 0.06
23 4 0.11
25 18 0.50
ACGTcount: A:0.53, C:0.14, G:0.22, T:0.10
Consensus pattern (24 bp):
AAAAAGGAATCAAGATGAAACCCG
Found at i:3420717 original size:76 final size:76
Alignment explanation
Indices: 3420629--3421052 Score: 420
Period size: 76 Copynumber: 5.5 Consensus size: 76
3420619 TTTATTTATG
* * * *
3420629 TTTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCCCGGGTCACATG-TCGAGATATT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT-GAGGTATT
3420693 TTCAATTTCTTT
65 TTCAATTTCTTT
*** * *
3420705 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
* *
3420770 TCAATTTATGT
66 TCAATTTCTTT
**** * *
3420781 TTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
* * * *
3420846 TTAGTCTCTAT
66 TCAATTTCTTT
* *
3420857 TTTTTCAAAAAAATCAACTCATATAGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
1 TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
* * *
3420922 TTTTAGTTT-TTA
64 TTTCAATTTCTTT
* * * **
3420934 TTTTTCAAATCAATCAATTCAAATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATACTGAGGTAT
1 TTTTTCAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
*
3420999 TTTCAATTTTTTACT
64 TTTCAATTTCTT--T
** * * * * *
3421014 TTTTTTTAAAATTAACTCATAATCCGAAAGATGAGTTGA
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
3421053 ACGTCAGTTT
Statistics
Matches: 283, Mismatches: 57, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
75 3 0.01
76 125 0.44
77 62 0.22
78 86 0.30
80 7 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (76 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
TCAATTTCTTT
Found at i:3420893 original size:78 final size:77
Alignment explanation
Indices: 3420635--3421007 Score: 423
Period size: 76 Copynumber: 4.9 Consensus size: 77
3420625 TATGTTTTTC
* * * *
3420635 AAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCCCGGGTCACATG-TCGAGATATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT-GAGGTATTTTCAAT
*
3420699 TTCTTTTTTTTC--
65 TTC-TATTTTTCAA
*** * *
3420711 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAGGTATTTTCAA-T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
*
3420775 T-TATGTTTCAAA
66 TCTATTTTTC-AA
* * * * *
3420787 AAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCGGGTCACACGCTGAGGTATTTTTAGTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
3420852 TCTATTTTTTCAA
66 TCTA-TTTTTCAA
* * * *
3420865 AAAAATCAACTCATATAGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTAGTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
*
3420930 TTTATTTTTCAA
66 TCTATTTTTCAA
** * * * **
3420942 ATCAATCAATTCAAATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATACTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
3421007 T
66 T
3421008 TTTACTTTTT
Statistics
Matches: 251, Mismatches: 39, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
73 6 0.02
75 2 0.01
76 106 0.42
77 65 0.26
78 67 0.27
79 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (77 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
TCTATTTTTCAA
Found at i:3421025 original size:155 final size:150
Alignment explanation
Indices: 3420615--3421034 Score: 432
Period size: 155 Copynumber: 2.7 Consensus size: 150
3420605 GATATCCTGA
* * * *
3420615 TATTTTTATTTATGTTTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCCCGGGTCAC
1 TATTTTTATTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* * * * * *
3420680 ATGTCGAGATATTTTCAATTTCTT-TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 ATCT-GAGGTATTTTCAATTTTTTATTTTTTAAAAAATCAACTCATATAGCGAGAAGTGAGTTGA
*
3420744 GCCTCAAATCACGCACTGAGG
130 GCCTCAAATCACACACTGAGG
* * * * *
3420765 TATTTTCA-ATTTATGTTTCAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCGGGT
1 TATTTTTATTTTTATTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* * * * *
3420829 CACACGCTGAGGTATTTT-TAGTCTCTATTTTTTCAAAAAAATCAACTCATATAGCGAGAAGTGA
63 CACA-TCTGAGGTATTTTCAATTTTTTATTTTTT--AAAAAATCAACTCATATAGCGAGAAGTGA
*** *
3420893 GTTGAGCCTCGGGTCACACGCTGAGG
125 GTTGAGCCTCAAATCACACACTGAGG
* * *
3420919 TATTTTTAGTTTTTATTTTTCAAATCAATCAATTCAAATTGCGAGAGGTGAGTTGAGCCTCAGGT
1 TATTTTTA-TTTTTATTTTTCAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
** *
3420984 CACATACTGAGGTATTTTCAATTTTTTACTTTTTTTTAAAATTAACTCATA
63 CACAT-CTGAGGTATTTTCAATTTTTTA-TTTTTTAAAAAATCAACTCATA
3421035 ATCCGAAAGA
Statistics
Matches: 215, Mismatches: 41, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
149 7 0.03
150 7 0.03
151 3 0.01
152 57 0.27
153 4 0.02
154 54 0.25
155 63 0.29
156 14 0.07
157 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (150 bp):
TATTTTTATTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
ATCTGAGGTATTTTCAATTTTTTATTTTTTAAAAAATCAACTCATATAGCGAGAAGTGAGTTGAG
CCTCAAATCACACACTGAGG
Found at i:3421212 original size:19 final size:19
Alignment explanation
Indices: 3421188--3421236 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
3421178 CTTATCTCCA
3421188 TGAAGTTGTAGCAGAACCC
1 TGAAGTTGTAGCAGAACCC
3421207 TGAAGTTGTAGCAGAACCC
1 TGAAGTTGTAGCAGAACCC
3421226 TGAAGTTGTAG
1 TGAAGTTGTAG
3421237 TGGAGCGGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (19 bp):
TGAAGTTGTAGCAGAACCC
Found at i:3422775 original size:23 final size:25
Alignment explanation
Indices: 3422744--3422794 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
3422734 TAATCACTAT
*
3422744 TATTATTATTATATAT-TA-ATGTA
1 TATTATTATTACATATGTATATGTA
*
3422767 TATTTTTATTACATATGTATATGTA
1 TATTATTATTACATATGTATATGTA
3422792 TAT
1 TAT
3422795 GTATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.58
24 2 0.08
25 8 0.33
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (25 bp):
TATTATTATTACATATGTATATGTA
Found at i:3422916 original size:26 final size:27
Alignment explanation
Indices: 3422887--3422947 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
3422877 ATCTAATCAC
3422887 TATTATTATTATTATATAT-TA-GTGTA
1 TATTATT-TTATTATATATGTATGTGTA
3422913 TATT-TTTTATTATATATGTATGTGTA
1 TATTATTTTATTATATATGTATGTGTA
3422939 TATATATTT
1 TAT-TATTT
3422948 ATACATGACC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.35
25 4 0.13
26 12 0.39
27 1 0.03
28 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (27 bp):
TATTATTTTATTATATATGTATGTGTA
Found at i:3423171 original size:23 final size:22
Alignment explanation
Indices: 3423125--3423171 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
3423115 CGGCCCTGGC
3423125 CTCCGTACCTCCAGCGCCGTACG
1 CTCCGTACCTCCAGCGCCG-ACG
3423148 CTCCGTACCGTCCAGCAGCC-ACG
1 CTCCGTACC-TCCAGC-GCCGACG
3423171 C
1 C
3423172 CCGCGCCAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 13 0.59
24 6 0.27
25 3 0.14
ACGTcount: A:0.15, C:0.49, G:0.21, T:0.15
Consensus pattern (22 bp):
CTCCGTACCTCCAGCGCCGACG
Found at i:3424616 original size:21 final size:20
Alignment explanation
Indices: 3424587--3424626 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3424577 TTTCCTTTAA
*
3424587 ACATATTCTTATATTATATT
1 ACATATTCTTATAATATATT
3424607 ACATAATTCTTATAATATAT
1 ACAT-ATTCTTATAATATAT
3424627 CTTTTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
ACATATTCTTATAATATATT
Found at i:3425308 original size:15 final size:15
Alignment explanation
Indices: 3425288--3425318 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3425278 TACTTGATTA
3425288 TTAGTCCATCATTTT
1 TTAGTCCATCATTTT
*
3425303 TTAGTCCATTATTTT
1 TTAGTCCATCATTTT
3425318 T
1 T
3425319 GTATCTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.58
Consensus pattern (15 bp):
TTAGTCCATCATTTT
Found at i:3425900 original size:132 final size:132
Alignment explanation
Indices: 3425659--3425995 Score: 401
Period size: 132 Copynumber: 2.6 Consensus size: 132
3425649 ATTATTCATT
* * * *
3425659 TAAAAATTCTTTAAAACGGAGACGA-GATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACG
1 TAAAAATCCTTTAAAACGAAGACGATG-TTCGATATTTGGCAATTCGCAGAATCGTGCCCTAACG
* * *
3425723 TGTTGGGTTGCAATTTCGCATTTGCTCAAAATGATCGAATATCCCTCCAAAATTTCATTCATGTC
65 TGCTGGGTTGCAATTTCGCATTTGCTCAAAATAATCGAATATCCCTCCAAAATCTCATTCATGTC
3425788 TTC
130 TTC
* * *
3425791 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCTGAATCGTGCCCTAACGT
1 TAAAAATCCTTTAAAACGAAGACGATGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGT
* * * * ** * *
3425856 GCTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAATGTCCCTTTAGAATCTCGTTCATGTCT
66 GCTGGGTTGCAATTTCGCATTTGCTCAAAATAATCGAATATCCCTCCAAAATCTCATTCATGTCT
3425921 TC
131 TC
* ** ** * * *
3425923 TAAAAA-CTCTTTAAAACAAAGAAAATACTCGATGTTTGGCAATTTG-AGAATCGTGCCCTATCG
1 TAAAAATC-CTTTAAAACGAAGACGATGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAACG
3425986 TGCTGGGTTG
65 TGCTGGGTTG
3425996 TGATTCCCCG
Statistics
Matches: 175, Mismatches: 28, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
131 26 0.15
132 148 0.85
133 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (132 bp):
TAAAAATCCTTTAAAACGAAGACGATGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAACGT
GCTGGGTTGCAATTTCGCATTTGCTCAAAATAATCGAATATCCCTCCAAAATCTCATTCATGTCT
TC
Found at i:3432848 original size:5 final size:5
Alignment explanation
Indices: 3432838--3432883 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
3432828 AACCTAAATT
*
3432838 AATAA AATAA AATAA AATAA TAA-AA TAATAA AATAA AACAA AATAA
1 AATAA AATAA AATAA AATAA -AATAA -AATAA AATAA AATAA AATAA
3432884 TATCTTCCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:3432859 original size:8 final size:8
Alignment explanation
Indices: 3432832--3432873 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
3432822 TAGCTTAACC
*
3432832 TAAATTAA
1 TAAAATAA
3432840 TAAAATAAAA
1 TAAAAT--AA
3432850 TAAAATAA
1 TAAAATAA
3432858 TAAAATAA
1 TAAAATAA
3432866 TAAAATAA
1 TAAAATAA
3432874 AACAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 23 0.74
10 8 0.26
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAAAATAA
Found at i:3432868 original size:26 final size:26
Alignment explanation
Indices: 3432832--3432885 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
3432822 TAGCTTAACC
* *
3432832 TAAATTAATAAAATAAAATAAAATAA
1 TAAAATAATAAAATAAAACAAAATAA
3432858 TAAAATAATAAAATAAAACAAAATAA
1 TAAAATAATAAAATAAAACAAAATAA
3432884 TA
1 TA
3432886 TCTTCCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (26 bp):
TAAAATAATAAAATAAAACAAAATAA
Found at i:3432885 original size:13 final size:13
Alignment explanation
Indices: 3432832--3432875 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
3432822 TAGCTTAACC
*
3432832 TAAATTAATAAAA
1 TAAAATAATAAAA
3432845 TAAAATAA-AATAA
1 TAAAATAATAA-AA
3432858 TAAAATAATAAAA
1 TAAAATAATAAAA
3432871 TAAAA
1 TAAAA
3432876 CAAAATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 2 0.07
13 24 0.86
14 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAAATAATAAAA
Found at i:3438642 original size:26 final size:26
Alignment explanation
Indices: 3438613--3438720 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
3438603 TGGTACAAAT
3438613 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
3438639 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
3438665 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
3438691 TGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGATTAGGTAAATGTTCCA
3438717 TGAT
1 TGAT
3438721 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 74 0.97
27 2 0.03
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:3440369 original size:27 final size:27
Alignment explanation
Indices: 3440330--3440469 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
3440320 GGAAGCGTCT
*
3440330 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
3440357 TGGTGGCTCTGCCAC-ATATATCTG-TCC
1 TGGTGGCTCTGCCACAAT-TATCTGAT-C
* *
3440384 TGGTGGCTATGCCACAATTATTTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
*
3440411 TGGTGGCTCTGCCAC-ATATATCTGTTC
1 TGGTGGCTCTGCCACAAT-TATCTGATC
3440438 TGGTGGCTCTGCCACAA-TATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
3440465 TGGTG
1 TGGTG
3440470 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 84 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:3440412 original size:54 final size:54
Alignment explanation
Indices: 3440330--3440469 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 54
3440320 GGAAGCGTCT
3440330 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
* *
3440384 TGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
*
3440438 TGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTG
3440470 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCC
Found at i:3440480 original size:27 final size:26
Alignment explanation
Indices: 3440330--3440487 Score: 147
Period size: 27 Copynumber: 5.9 Consensus size: 26
3440320 GGAAGCGTCT
* * *
3440330 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGACTCTGCCACAA-TATCTGTTC
* *
3440357 TGGTGGCTCTGCCACATATATCTGTCC
1 TGGTGACTCTGCCACA-ATATCTGTTC
* * * *
3440384 TGGTGGCTATGCCACAATTATTTGATC
1 TGGTGACTCTGCCACAA-TATCTGTTC
*
3440411 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGACTCTGCCACA-ATATCTGTTC
*
3440438 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGACTCTGCCACAATATCTGT-TC
*
3440465 TGGTGACT-TCGTCACAATATCTG
1 TGGTGACTCT-GCCACAATATCTG
3440488 GCAGCCTCGC
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
26 10 0.09
27 102 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
TGGTGACTCTGCCACAATATCTGTTC
Found at i:3442119 original size:29 final size:29
Alignment explanation
Indices: 3442084--3442141 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
3442074 TTACTTAAAA
3442084 AAATTTATTGGTTGTGTAGTTTTTTTTTT
1 AAATTTATTGGTTGTGTAGTTTTTTTTTT
3442113 AAATTTATTGGTTGTGTAGTTTTTTTTTT
1 AAATTTATTGGTTGTGTAGTTTTTTTTTT
3442142 TTTACTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (29 bp):
AAATTTATTGGTTGTGTAGTTTTTTTTTT
Found at i:3445271 original size:20 final size:20
Alignment explanation
Indices: 3445246--3445292 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
3445236 TTCGAATTTA
* *
3445246 TATTTTTGTCTAAATTTTTT
1 TATTTTTGTCCAAATTTTCT
3445266 TATTTTTGTCCAAATTTTCT
1 TATTTTTGTCCAAATTTTCT
3445286 TATTTTT
1 TATTTTT
3445293 TGAGCATACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.68
Consensus pattern (20 bp):
TATTTTTGTCCAAATTTTCT
Found at i:3460068 original size:2 final size:2
Alignment explanation
Indices: 3460061--3460089 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3460051 CTGATGTAAC
3460061 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3460090 AGACACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:3462396 original size:13 final size:13
Alignment explanation
Indices: 3462378--3462409 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
3462368 AAGTTTAGTT
3462378 TTAATTAATGATG
1 TTAATTAATGATG
3462391 TTAATTAATGATG
1 TTAATTAATGATG
3462404 TTAATT
1 TTAATT
3462410 TGTCAGGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TTAATTAATGATG
Found at i:3463698 original size:15 final size:14
Alignment explanation
Indices: 3463678--3463728 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
3463668 ACAATTCTTT
3463678 AATATAAGTTATTAA
1 AATATAA-TTATTAA
3463693 AATATAA-TATTTCAA
1 AATATAATTA-TT-AA
3463708 ACATA-AATTATTAA
1 A-ATATAATTATTAA
3463722 AATATAA
1 AATATAA
3463729 CCTAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 5 0.16
14 7 0.23
15 14 0.45
16 5 0.16
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (14 bp):
AATATAATTATTAA
Found at i:3465278 original size:16 final size:16
Alignment explanation
Indices: 3465237--3465275 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
3465227 CATATTATTT
*
3465237 TTTTTGAATTTTTTATA
1 TTTTT-AATTTTATATA
3465254 TTTTTAATTTTATA-A
1 TTTTTAATTTTATATA
3465269 TTTTTAA
1 TTTTTAA
3465276 ATTATTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 8 0.38
17 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTTAATTTTATATA
Found at i:3472752 original size:46 final size:46
Alignment explanation
Indices: 3472619--3472837 Score: 171
Period size: 46 Copynumber: 4.7 Consensus size: 46
3472609 CATATCTGTA
* *
3472619 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-ATAG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCGA-GG
* *
3472665 CTGATGCATGTCCCAGACATGTCTTACACTAGCTTA-T-GTCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC--ACTCATCTCGAGG
* * * *
3472711 CCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGG
* * * * * * *
3472757 CCGATGTCATGTCTCAGGCACGGTCTTACACTGGCTCTCATAAT-GTGG
1 CCGATG-CATGTCCCAGACA-TGTCTTACACTAGCACTCAT-CTCGAGG
* *
3472805 CTGATGCATGTCCCAGTCATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
3472838 TCACACAAGT
Statistics
Matches: 139, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 66 0.47
47 22 0.16
48 23 0.17
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGG
Found at i:3472784 original size:94 final size:92
Alignment explanation
Indices: 3472619--3472842 Score: 224
Period size: 94 Copynumber: 2.4 Consensus size: 92
3472609 CATATCTGTA
*
3472619 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATAGCTGATGCATGTCCCAGA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGA
* **
3472682 CATGTCTTACACTAGCT-T-ATGTCTCGAGG
64 CAGGTCTTACACTAGCTCTCAT-AAT-GAGG
* * * * *
3472711 CCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCA-ATGCCGATGTCATGTCTCAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATA-GCCGATG-CATGTCCCAGA
* *
3472775 CACGGTCTTACACTGGCTCTCATAATGTGG
64 CA-GGTCTTACACTAGCTCTCATAATGAGG
* * *
3472805 CTGATGCATGTCCCAGTCATGTCTTACACTAGCTCACA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACACA
3472843 CAAGTGACCC
Statistics
Matches: 108, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
90 10 0.09
91 15 0.14
92 20 0.19
93 11 0.10
94 48 0.44
95 2 0.02
96 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACA
GGTCTTACACTAGCTCTCATAATGAGG
Found at i:3475603 original size:67 final size:67
Alignment explanation
Indices: 3475471--3475653 Score: 217
Period size: 67 Copynumber: 2.7 Consensus size: 67
3475461 GTGGGCTGTA
*
3475471 ATAGGGTATAATGTGTAAGACCATAGCTCGATTATGACAACACAGAGAGCTTGCCAAGACTTTAA
1 ATAGGGTATAATGTGTAAGACCATAGCTCGATTATGACAACATAGAGAGCTTGCCAAGACTTTAA
3475536 AC
66 AC
* * * * * **
3475538 ATGGGGTATAATGTGTAAGACCAGAGGTCGATTATGACAACATAGGGAG-TTCGTCTGGA-TGTT
1 ATAGGGTATAATGTGTAAGACCATAGCTCGATTATGACAACATAGAGAGCTT-GCCAAGACT-TT
*
3475601 AAAT
64 AAAC
* * * *
3475605 ATAAGGTATAACGTGTAAGACCATAGCTCGACTATGACAACATATAGAG
1 ATAGGGTATAATGTGTAAGACCATAGCTCGATTATGACAACATAGAGAG
3475654 TCCACAGAGA
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
66 3 0.03
67 94 0.97
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (67 bp):
ATAGGGTATAATGTGTAAGACCATAGCTCGATTATGACAACATAGAGAGCTTGCCAAGACTTTAA
AC
Found at i:3475692 original size:27 final size:27
Alignment explanation
Indices: 3475662--3475713 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3475652 AGTCCACAGA
*
3475662 GACAATAAATACGGGGTAGTCTGCCGG
1 GACAATAAACACGGGGTAGTCTGCCGG
*
3475689 GACAATAAACACGGGGTAGTTTGCC
1 GACAATAAACACGGGGTAGTCTGCC
3475714 AGGATAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (27 bp):
GACAATAAACACGGGGTAGTCTGCCGG
Found at i:3478812 original size:23 final size:23
Alignment explanation
Indices: 3478786--3478844 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
3478776 TACAGAACGT
*
3478786 GCCACAAAGGCATCACGGAATAC
1 GCCACAAAGGCATCACAGAATAC
* * * *
3478809 GCCACAAATGCATTATAGAATAT
1 GCCACAAAGGCATCACAGAATAC
*
3478832 GCCATAAAGGCAT
1 GCCACAAAGGCAT
3478845 AAAAAAGTTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.17
Consensus pattern (23 bp):
GCCACAAAGGCATCACAGAATAC
Found at i:3482597 original size:15 final size:16
Alignment explanation
Indices: 3482577--3482616 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
3482567 GTTTTAAGAA
3482577 AAAAATAAATA-AAAT
1 AAAAATAAATAGAAAT
*
3482592 AAAAATAAAAAGAAAT
1 AAAAATAAATAGAAAT
3482608 -AAAATAAAT
1 AAAAATAAAT
3482617 GGACTCAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAAATAAATAGAAAT
Found at i:3484243 original size:18 final size:18
Alignment explanation
Indices: 3484220--3484254 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3484210 GTAATAAAGG
3484220 AATAATAATC-ATACTTAT
1 AATAATAA-CAATACTTAT
3484238 AATAATAACAATACTTA
1 AATAATAACAATACTTA
3484255 ATAACAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAATAACAATACTTAT
Found at i:3484323 original size:18 final size:18
Alignment explanation
Indices: 3484300--3484334 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3484290 TAATGAAGAA
*
3484300 AAATAATTAAAAATAAAT
1 AAATAAATAAAAATAAAT
*
3484318 AAATAAATAAATATAAA
1 AAATAAATAAAAATAAA
3484335 GGGTAAAAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAATAAAAATAAAT
Found at i:3491498 original size:2 final size:2
Alignment explanation
Indices: 3491493--3491520 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3491483 AATCATAGAA
3491493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3491521 GAAAGTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3491834 original size:35 final size:36
Alignment explanation
Indices: 3491780--3491878 Score: 107
Period size: 35 Copynumber: 2.8 Consensus size: 36
3491770 ATTTATGAAT
* *
3491780 ATTCTGATTCGCATATTAATCATGCT-ATTATTCTG
1 ATTCTGATTTGCATGTTAATCATGCTCATTATTCTG
* * *
3491815 ATTTTGATTTGCATGTTAATCATG-TCGTTATTTTG
1 ATTCTGATTTGCATGTTAATCATGCTCATTATTCTG
*
3491850 ATTCTGATTCT-CATGTTAAGCATGC-CATT
1 ATTCTGATT-TGCATGTTAATCATGCTCATT
3491879 GTATTAAATC
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
34 1 0.02
35 51 0.96
36 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.47
Consensus pattern (36 bp):
ATTCTGATTTGCATGTTAATCATGCTCATTATTCTG
Found at i:3495242 original size:20 final size:19
Alignment explanation
Indices: 3495214--3495287 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 19
3495204 TTATTCATAC
3495214 TCAAGTTTATTGAACAAAAT
1 TCAA-TTTATTGAACAAAAT
*
3495234 TCAAATTTACTGAACAAAAT
1 TC-AATTTATTGAACAAAAT
3495254 TC-A--TACTT-AACAAAAT
1 TCAATTTA-TTGAACAAAAT
3495270 TCAATTTATTGAACAAAA
1 TCAATTTATTGAACAAAA
3495288 ATATACCCTA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
16 12 0.26
17 2 0.04
18 3 0.07
19 9 0.20
20 18 0.39
21 2 0.04
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (19 bp):
TCAATTTATTGAACAAAAT
Found at i:3495265 original size:16 final size:16
Alignment explanation
Indices: 3495241--3495272 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3495231 AATTCAAATT
3495241 TACTGAACAAAATTCA
1 TACTGAACAAAATTCA
*
3495257 TACTTAACAAAATTCA
1 TACTGAACAAAATTCA
3495273 ATTTATTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (16 bp):
TACTGAACAAAATTCA
Found at i:3500235 original size:40 final size:40
Alignment explanation
Indices: 3500191--3500300 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
3500181 TTCACAATTT
* *
3500191 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
3500231 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
3500271 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
3500301 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:3512147 original size:12 final size:11
Alignment explanation
Indices: 3512109--3512157 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
3512099 TATATATAAA
3512109 TTTTATTATA-
1 TTTTATTATAT
*
3512119 TGTTA-TATAT
1 TTTTATTATAT
3512129 TTTTATTATAT
1 TTTTATTATAT
3512140 TATTTATTATAT
1 T-TTTATTATAT
3512152 TTTTAT
1 TTTTAT
3512158 ATGTAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 4 0.12
10 8 0.24
11 11 0.32
12 11 0.32
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TTTTATTATAT
Found at i:3512147 original size:18 final size:19
Alignment explanation
Indices: 3512109--3512147 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
3512099 TATATATAAA
3512109 TTTTATTATATGTTATATAT
1 TTTTATTATA-GTTATATAT
*
3512129 TTTTATTATA-TTATTTAT
1 TTTTATTATAGTTATATAT
3512147 T
1 T
3512148 ATATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTATTATAGTTATATAT
Found at i:3512169 original size:40 final size:42
Alignment explanation
Indices: 3512114--3512193 Score: 103
Period size: 40 Copynumber: 1.9 Consensus size: 42
3512104 ATAAATTTTA
* *
3512114 TTATATGTTATATATTT-TT-ATTA-TATTATTTATTATATTT
1 TTATATGTAAAATATTTGTTAATTATTATTA-TTATTATATTT
3512154 TTATATGTAAAATATTTGTTACATTATTATTATTATTATA
1 TTATATGTAAAATATTTGTTA-ATTATTATTATTATTATA
3512194 CTACATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
40 15 0.44
41 2 0.06
43 12 0.35
44 5 0.15
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (42 bp):
TTATATGTAAAATATTTGTTAATTATTATTATTATTATATTT
Found at i:3519886 original size:40 final size:40
Alignment explanation
Indices: 3519841--3519970 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
3519831 CGGAATATAA
3519841 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
3519881 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
3519921 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
3519961 CCGGATATAA
1 CCGGATATAA
3519971 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:3519985 original size:40 final size:39
Alignment explanation
Indices: 3519857--3520007 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
3519847 ATAACCATGT
* * *
3519857 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
3519897 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
3519937 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
3519976 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
3520008 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:3519991 original size:80 final size:79
Alignment explanation
Indices: 3519841--3520007 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
3519831 CGGAATATAA
*
3519841 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
3519906 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
3519921 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
3519983 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
3520000 CCGGATAT
1 CCGGATAT
3520008 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:3528001 original size:40 final size:39
Alignment explanation
Indices: 3527875--3528003 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
3527865 CGGAATATAA
3527875 CCGGATATAA-CA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCAC-AATGCCTTCGGGTCTTAGC
* ** *
3527914 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCAC-AATGCCTTCGGGTCTTAGC
* *
3527954 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAA-TGCCTTCGGGTCTTAGC
3527994 CCGGATATAA
1 CCGGATATAA
3528004 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 11 0.14
40 64 0.84
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTTGCACAATGCCTTCGGGTCTTAGC
Found at i:3528018 original size:40 final size:39
Alignment explanation
Indices: 3527890--3528040 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
3527880 TATAACATGT
* * *
3527890 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
3527930 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
3527970 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
3528009 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
3528041 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:3528024 original size:80 final size:79
Alignment explanation
Indices: 3527889--3528040 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 79
3527879 ATATAACATG
*
3527889 TGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 TGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGC
3527954 CCGGATATAGCCACT
65 CCGGATATAGCCACT
* * ** * *
3527969 TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAG
1 TGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAG
3528032 CCCGGATAT
64 CCCGGATAT
3528041 CATTCAATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 46 0.73
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (79 bp):
TGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCC
CGGATATAGCCACT
Found at i:3535649 original size:176 final size:176
Alignment explanation
Indices: 3535433--3536018 Score: 842
Period size: 176 Copynumber: 3.3 Consensus size: 176
3535423 CGATGAGAAG
* *
3535433 CAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATAAAAGCAAATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAACA
* * *
3535498 AATCTGCCATCTCCATTTTGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATAC
66 GATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATAC
3535563 TGAAGCAGATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAA
131 TGAAGCAGATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAA
* *
3535609 CAAATTGAAGACATAGTAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAACA
* * *
3535674 GATCTGGCATCCCCATTTCGATGGAGAGCAGGTACATAGCAGGTTTAACCTTCAGGTGTTTATAC
66 GATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATAC
3535739 TGAAGCAGATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAA
131 TGAAGCAGATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAA
* * * * *
3535785 CAAATCGAAGACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAACA
* ** * * *
3535850 GATCTGGCATCTTCATTTCGACGGAGAGCATATACATAGCAGATCTAACCTTCAGATAATTT-TA
66 GATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGGT-GTTTATA
* *
3535914 CTGAAGCAGATCCAAGATGATTT-GACATCCTTGTGTTTACAA-GAA
130 CTGAAGCAGATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAA
* * * * * *
3535959 GCAAATCAAAGACATAGTAGGTCTAACCTTCAGATGTTTAT-AC-T-GAAGCAGATCCAAGAT
1 -CAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTT-TCACATCAAAGCAGATCCAAGAT
3536019 GATTTGGCAT
Statistics
Matches: 369, Mismatches: 38, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
173 15 0.04
174 3 0.01
175 49 0.13
176 299 0.81
177 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (176 bp):
CAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGATAACA
GATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGGTGTTTATAC
TGAAGCAGATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGGAA
Found at i:3536084 original size:87 final size:87
Alignment explanation
Indices: 3535531--3536116 Score: 432
Period size: 87 Copynumber: 6.7 Consensus size: 87
3535521 GAGAGCAGGT
* * *
3535531 ACATAGCAGGTCTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATTCTTG
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGCATCCTTG
* *
3535596 TGTTTACAAGGAACAAATTGAAG
65 TGTTTACAAGGAGCAAATCGAAG
* * * * *
3535619 ACATAGTAGATCTGACTTTCAGATGTTT-TCACATCAAAGCAGATCCAAGATAACAGATCTGGCA
1 ACATAGCAGATCTAACCTTCAGATGTTTAT-AC-T-GAAGCAGATCCAAGAT----GATTTGGCA
*** * * *
3535683 TCC--CCATTT-CGATGGAG---AGC-AGG
59 TCCTTGTGTTTAC-AAGGAGCAAATCGAAG
* * * *
3535706 TACATAGCAGGTTTAACCTTCAGGTGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATTCTT
1 -ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGCATCCTT
*
3535771 GTGTTTACAAGGAACAAATCGAAG
64 GTGTTTACAAGGAGCAAATCGAAG
* * * * * ** *
3535795 ACATAGCAGATTTCACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCAT
1 ACATAGCAGATCTAACCTTCAGATGTT-T-ATACTGAAGCAGATCCAAGAT----GATTTGGCAT
** * * *
3535860 -CTT-CATTT-CGACGGAG---AGC-ATAT
60 CCTTGTGTTTAC-AAGGAGCAAATCGA-AG
* *
3535883 ACATAGCAGATCTAACCTTCAGATAATTT-TACTGAAGCAGATCCAAGATGATTTGACATCCTTG
1 ACATAGCAGATCTAACCTTCAGAT-GTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTG
* *
3535947 TGTTTACAAGAAGCAAATCAAAG
65 TGTTTACAAGGAGCAAATCGAAG
* *
3535970 ACATAGTAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
3536035 GTTTACAAGGAGCAAATCGAAG
66 GTTTACAAGGAGCAAATCGAAG
* ** * ** * *
3536057 ACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATC
1 ACATAGCAGATCTAACCTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATC
3536117 TCTGTATTGC
Statistics
Matches: 383, Mismatches: 79, Indels: 73
0.72 0.15 0.14
Matches are distributed among these distances:
82 12 0.03
83 9 0.02
84 7 0.02
85 8 0.02
86 36 0.09
87 133 0.35
88 100 0.26
89 7 0.02
90 35 0.09
91 14 0.04
92 3 0.01
93 11 0.03
94 8 0.02
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (87 bp):
ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
GTTTACAAGGAGCAAATCGAAG
Found at i:3537781 original size:12 final size:11
Alignment explanation
Indices: 3537743--3537791 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
3537733 TATATATAAA
3537743 TTTTATTATA-
1 TTTTATTATAT
*
3537753 TGTTA-TATAT
1 TTTTATTATAT
3537763 TTTTATTATAT
1 TTTTATTATAT
3537774 TATTTATTATAT
1 T-TTTATTATAT
3537786 TTTTAT
1 TTTTAT
3537792 ATGTAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 4 0.12
10 8 0.24
11 11 0.32
12 11 0.32
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TTTTATTATAT
Found at i:3537781 original size:18 final size:19
Alignment explanation
Indices: 3537743--3537781 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
3537733 TATATATAAA
3537743 TTTTATTATATGTTATATAT
1 TTTTATTATA-GTTATATAT
*
3537763 TTTTATTATA-TTATTTAT
1 TTTTATTATAGTTATATAT
3537781 T
1 T
3537782 ATATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTATTATAGTTATATAT
Found at i:3537828 original size:41 final size:42
Alignment explanation
Indices: 3537719--3537828 Score: 97
Period size: 41 Copynumber: 2.7 Consensus size: 42
3537709 CTATTTATAT
* * *
3537719 TATTTGTAACATTA-TATATATAAAT-TTTATTATATGTTATA
1 TATTTGTTACATTATTAT-TATAAATATTTATTATATGTAAAA
* *
3537760 TATTT-TTA-TTATATTATT-TATTATATTT-TTATATGTAAAA
1 TATTTGTTACAT-TATTATTATA-AATATTTATTATATGTAAAA
*
3537800 TATTTGTTACATTATTATTATACATATTT
1 TATTTGTTACATTATTATTATAAATATTT
3537829 CATATTATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
39 3 0.05
40 22 0.40
41 27 0.49
42 3 0.05
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (42 bp):
TATTTGTTACATTATTATTATAAATATTTATTATATGTAAAA
Found at i:3542540 original size:15 final size:17
Alignment explanation
Indices: 3542507--3542543 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3542497 GGGTCAAGAT
*
3542507 AAAAATATCAAAAGTCA
1 AAAAATATCAAAAGACA
3542524 AAAAATAT-AAAA-ACA
1 AAAAATATCAAAAGACA
3542539 AAAAA
1 AAAAA
3542544 ATGACTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 8 0.42
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAAATATCAAAAGACA
Found at i:3543907 original size:23 final size:22
Alignment explanation
Indices: 3543881--3543924 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
3543871 CAATAACAGC
*
3543881 ATGCAGATAAACTGTAGGTAAAA
1 ATGCAGACAAACTGTA-GTAAAA
*
3543904 ATGCAGACACACTGTAGTAAA
1 ATGCAGACAAACTGTAGTAAA
3543925 GATGTGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (22 bp):
ATGCAGACAAACTGTAGTAAAA
Found at i:3548120 original size:7 final size:7
Alignment explanation
Indices: 3548102--3548147 Score: 56
Period size: 8 Copynumber: 6.1 Consensus size: 7
3548092 AGCAAAATTT
3548102 TAAAAAA
1 TAAAAAA
3548109 CTAAAAAA
1 -TAAAAAA
3548117 TAAAAAA
1 TAAAAAA
3548124 TATAAAAA
1 TA-AAAAA
3548132 TATAAAAA
1 TA-AAAAA
*
3548140 CAAAAAA
1 TAAAAAA
3548147 T
1 T
3548148 GATCTAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
7 14 0.40
8 21 0.60
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:3548122 original size:15 final size:15
Alignment explanation
Indices: 3548102--3548147 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
3548092 AGCAAAATTT
3548102 TAAAAAACTAAAAAA
1 TAAAAAACTAAAAAA
3548117 TAAAAAA-TATAAAAA
1 TAAAAAACTA-AAAAA
3548132 TATAAAAAC-AAAAAA
1 TA-AAAAACTAAAAAA
3548147 T
1 T
3548148 GATCTAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.07
15 20 0.71
16 6 0.21
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAAAACTAAAAAA
Found at i:3548350 original size:281 final size:281
Alignment explanation
Indices: 3547824--3548353 Score: 848
Period size: 281 Copynumber: 1.9 Consensus size: 281
3547814 TTTTTCTAGC
* *
3547824 AAAACTTAAAAAACATAAAATATAAAATATAAAAACAAAAAATGATCTAATTGGAGAATCGAAAC
1 AAAACTTAAAAAACAAAAAATATAAAATATAAAAACAAAAAATGATCTAATTAGAGAATCGAAAC
** * * *
3547889 TAAATCCACAACTTACAAATAGTACAAGACTAATAGCATAATTTAATCTTACCAATTTAATTGCT
66 TAAATCCACAACAAACAAATAGTACAAGACTAATAGCATAATTTAATCTAACAAATTTAACTGCT
3547954 AATGTTTATGCAAGTACTAGAATTTCAAATTAAAAAAGTAGAATAATTAAAATTGATCAAATAAA
131 AATGTTTATGCAAGTACTAGAATTTCAAATTAAAAAAGTAGAATAATTAAAATTGATCAAATAAA
* * *
3548019 ACTGAAAGGACTAAATCCACAACTTATGTACAGTACAAAGGTTAATAAAAAAAATGACTTCTTAC
196 ACTAAAAGGACTAAATCCACAACTTATGAACAGTACAAAGATTAATAAAAAAAATGACTTCTTAC
3548084 CTTATTCCAGCAAAATTTTAA
261 CTTATTCCAGCAAAATTTTAA
* *
3548105 AAAAC-TAAAAAATAAAAAATATAAAAATATAAAAACAAAAAATGATCTAATTAGAGAATATG-A
1 AAAACTTAAAAAACAAAAAATAT-AAAATATAAAAACAAAAAATGATCTAATTAGAGAAT-CGAA
* * *
3548168 ACTAAATCCACAACAAACATATAGTACGAGACTAATAGCATAATTTAATCTAATAAATTTAACTG
64 ACTAAATCCACAACAAACAAATAGTACAAGACTAATAGCATAATTTAATCTAACAAATTTAACTG
* * * *
3548233 CTATTGTTTATGCAAGTACTAGAATTTCAAATTAAAAAAGTAGAATAATTGAAATTGATTAGATA
129 CTAATGTTTATGCAAGTACTAGAATTTCAAATTAAAAAAGTAGAATAATTAAAATTGATCAAATA
*
3548298 AAACTAAAAGGACTAAATCCACAACTTATGAATAGTACAAAGATTAATAAAAAAAA
194 AAACTAAAAGGACTAAATCCACAACTTATGAACAGTACAAAGATTAATAAAAAAAA
3548354 GTCAATCATA
Statistics
Matches: 227, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
280 15 0.07
281 211 0.93
282 1 0.00
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (281 bp):
AAAACTTAAAAAACAAAAAATATAAAATATAAAAACAAAAAATGATCTAATTAGAGAATCGAAAC
TAAATCCACAACAAACAAATAGTACAAGACTAATAGCATAATTTAATCTAACAAATTTAACTGCT
AATGTTTATGCAAGTACTAGAATTTCAAATTAAAAAAGTAGAATAATTAAAATTGATCAAATAAA
ACTAAAAGGACTAAATCCACAACTTATGAACAGTACAAAGATTAATAAAAAAAATGACTTCTTAC
CTTATTCCAGCAAAATTTTAA
Found at i:3548746 original size:19 final size:19
Alignment explanation
Indices: 3548722--3548816 Score: 127
Period size: 19 Copynumber: 4.8 Consensus size: 19
3548712 AATCTTTAAG
3548722 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
3548741 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
3548760 GATATGCAGTCTTAAATAT
1 GATATGCAATCTTAGATAT
3548779 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
* *
3548800 GATCTTGTAATCTTAGA
1 GAT-ATGCAATCTTAGA
3548817 GATTTAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
19 48 0.72
20 3 0.04
21 8 0.12
22 8 0.12
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:3555398 original size:44 final size:44
Alignment explanation
Indices: 3555324--3555518 Score: 159
Period size: 44 Copynumber: 4.4 Consensus size: 44
3555314 GGGACAATGT
* * *
3555324 AGATCAAAGA-AACAAGATTTGGCATCCCTGTTTTTATAGGGAAC
1 AGATCAAAGATAGC-AGATCTGGCATCCCTGTGTTTATAGGGAAC
* * * **
3555368 ATATCAAAGATAGCAGATCTGACA-CTCCTGTGCTTATAGCAAAGC
1 AGATCAAAGATAGCAGATCTGGCATC-CCTGTGTTTATAGGGAA-C
**
3555413 AGATCAAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAAC
1 AGATCAAAGATAGCAGATC-TGGCATCCCTGTGTTTATAGGGAAC
** *
3555456 A-AGTTGAAGATAGCAGAT-TCGGCATCCCTGTATTTATAGGGAAC
1 AGA-TCAAAGATAGCAGATCT-GGCATCCCTGTGTTTATAGGGAAC
* *
3555500 AGATCGAAGATAGCTGATC
1 AGATCAAAGATAGCAGATC
3555519 GAAGATTTCA
Statistics
Matches: 118, Mismatches: 22, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
42 1 0.01
43 14 0.12
44 85 0.72
45 18 0.15
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (44 bp):
AGATCAAAGATAGCAGATCTGGCATCCCTGTGTTTATAGGGAAC
Found at i:3555581 original size:44 final size:44
Alignment explanation
Indices: 3555532--3556144 Score: 401
Period size: 44 Copynumber: 14.1 Consensus size: 44
3555522 GATTTCAGTA
* *
3555532 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC
*
3555576 TGGCATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGCAAATC
1 TGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGCAGATC
** * * * * **
3555620 TAACA-CTCCTGTGCTTACAGCGAAGC-AGATCAAAGATTTCAG--C
1 TGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAGATC
* * *
3555663 ATGGCATCCCTGTGTTTTTAGGGAACAAGTTGAAGATAGCAGATT
1 -TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC
*
3555708 TGGCATCCCTGTGTTTAT--TG-----G--GAAGATAGCAGATC
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC
** * * * * **
3555743 TAACA-CTCCTATGATTACAGTGAAGC-AGATCGAAGATTTCAG--C
1 TGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAGATC
* * * * *
3555786 ATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAAATCGCAGATT
1 -TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC
* *
3555831 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAACAGATC
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC
* * * * **
3555875 TGACATTCCTGTGATTATAGCGAAGC-AGATCGAAGATTTCAG--C
1 TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAGATC
* *
3555918 ATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 -TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC
***
3555963 TGGCATCCCTGTGTTTATAGGGAACAAAAAGAAGATAGCAGATC
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC
* * * * * ** **
3556007 TGACATTCTTATGCTTATAGTAAAGC-AGATCGAAGATTTCAG--C
1 TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAGATC
* * * *
3556050 ATGACATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 -TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC
* * * *
3556095 TGGAATTCCTGTGTTTATAGGGAACAAATCGAAGATAACAGATC
1 TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC
3556139 TGGCAT
1 TGGCAT
3556145 GTCCATTTCG
Statistics
Matches: 432, Mismatches: 101, Indels: 72
0.71 0.17 0.12
Matches are distributed among these distances:
34 1 0.00
35 24 0.06
37 3 0.01
42 2 0.00
43 49 0.11
44 307 0.71
45 46 0.11
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC
Found at i:3555594 original size:101 final size:101
Alignment explanation
Indices: 3555414--3555614 Score: 366
Period size: 101 Copynumber: 2.0 Consensus size: 101
3555404 TAGCAAAGCA
3555414 GATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTCGGC
1 GATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTCGGC
3555479 ATCCCTGTATTTATAGGGAACAGATCGAAGATAGCT
66 ATCCCTGTATTTATAGGGAACAGATCGAAGATAGCT
* * *
3555515 GATCGAAGATTTCAGTATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGC
1 GATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTCGGC
*
3555580 ATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
66 ATCCCTGTATTTATAGGGAACAGATCGAAGATAGC
3555615 AAATCTAACA
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 96 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (101 bp):
GATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTCGGC
ATCCCTGTATTTATAGGGAACAGATCGAAGATAGCT
Found at i:3555966 original size:132 final size:132
Alignment explanation
Indices: 3555729--3556140 Score: 662
Period size: 132 Copynumber: 3.1 Consensus size: 132
3555719 TGTTTATTGG
* * * *
3555729 GAAGATAGCAGATCTAACACTCCTATGATTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAACAGATCTGACATTCCTATGATTATAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
* *
3555794 CTTGTGTTTATAGGGAACAAGTTGAAAATCGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAA
66 CTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAA
3555859 TC
131 TC
* *
3555861 GAAGATAACAGATCTGACATTCCTGTGATTATAGCGAAGCAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAACAGATCTGACATTCCTATGATTATAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
*
3555926 CCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAA
66 CTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAA
**
3555991 AA
131 TC
* * * * *
3555993 GAAGATAGCAGATCTGACATTCTTATGCTTATAGTAAAGCAGATCGAAGATTTCAGCATGACATC
1 GAAGATAACAGATCTGACATTCCTATGATTATAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
* *
3556058 CTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGAATTCCTGTGTTTATAGGGAACAAA
66 CTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAA
3556123 TC
131 TC
3556125 GAAGATAACAGATCTG
1 GAAGATAACAGATCTG
3556141 GCATGTCCAT
Statistics
Matches: 256, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 256 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (132 bp):
GAAGATAACAGATCTGACATTCCTATGATTATAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
CTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAAA
TC
Found at i:3555966 original size:255 final size:257
Alignment explanation
Indices: 3555515--3556140 Score: 968
Period size: 255 Copynumber: 2.4 Consensus size: 257
3555505 GAAGATAGCT
* *
3555515 GATCGAAGATTTCAGTATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGC
1 GATCGAAGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGC
* * * * *
3555580 ATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAAATCTAACACTCCTGTGCTTACAGCGAAG
66 ATCCCTGTGTTTATAGGGAACAAATCGAAGATAACAGATCTGACACTCCTGTGATTACAGCGAAG
*
3555645 CAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTTTAGGGAACAAGTTGAAGATAGCAGATTTG
131 CAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTG
* *
3555710 GCATCCCTGTGTTTAT-TGG-GAAGATAGCAGATCTAACACTCCTATGATTACAGTGAAGCA
196 GCATCCCTGTGTTTATAGGGAGAAGATAGCAGATCTAACACTCCTATGATTACAGTAAAGCA
* *
3555770 GATCGAAGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAAATCGCAGATTTGGC
1 GATCGAAGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGC
* *
3555835 ATCCCTGTGTTTATAGGGAACAAATCGAAGATAACAGATCTGACATTCCTGTGATTATAGCGAAG
66 ATCCCTGTGTTTATAGGGAACAAATCGAAGATAACAGATCTGACACTCCTGTGATTACAGCGAAG
*
3555900 CAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTG
131 CAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTG
* * * * *
3555965 GCATCCCTGTGTTTATAGGGAACAAAAAGAAGATAGCAGATCTGACATTCTTATGCTTATAGTAA
196 GCATCCCTGTGTTTATAGGG-------AGAAGATAGCAGATCTAACACTCCTATGATTACAGTAA
3556030 AGCA
254 AGCA
* *
3556034 GATCGAAGATTTCAGCATGACATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGA
1 GATCGAAGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGC
*
3556099 ATTCCTGTGTTTATAGGGAACAAATCGAAGATAACAGATCTG
66 ATCCCTGTGTTTATAGGGAACAAATCGAAGATAACAGATCTG
3556141 GCATGTCCAT
Statistics
Matches: 337, Mismatches: 25, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
255 198 0.59
256 2 0.01
264 137 0.41
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (257 bp):
GATCGAAGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGC
ATCCCTGTGTTTATAGGGAACAAATCGAAGATAACAGATCTGACACTCCTGTGATTACAGCGAAG
CAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTG
GCATCCCTGTGTTTATAGGGAGAAGATAGCAGATCTAACACTCCTATGATTACAGTAAAGCA
Found at i:3556743 original size:19 final size:19
Alignment explanation
Indices: 3556719--3556816 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
3556709 AATCTTTAAG
3556719 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
3556738 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
3556757 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
3556774 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
3556793 GATATGTAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
3556814 GAT
1 GAT
3556817 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:3556749 original size:36 final size:35
Alignment explanation
Indices: 3556709--3556794 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 35
3556699 ATGGAAATAT
3556709 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCTTAGATATGATATGC
3556745 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATCTTAGATATGATATGC
3556781 AATC-TTAGATATGA
1 AATCTTTAGATATGA
3556795 TATGTAATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 37 0.79
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCTTAGATATGATATGC
Found at i:3556795 original size:36 final size:36
Alignment explanation
Indices: 3556725--3556796 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
3556715 TAAGGATATG
3556725 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
3556761 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
3556797 TGTAATCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:3556825 original size:22 final size:21
Alignment explanation
Indices: 3556719--3556833 Score: 97
Period size: 19 Copynumber: 5.9 Consensus size: 21
3556709 AATCTTTAAG
*
3556719 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTGAAGATAT
*
3556738 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTGAAGATAT
*
3556757 GATA--CAATCTT--AGATAT
1 GATATGTAATCTTGAAGATAT
*
3556774 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTGAAGATAT
3556793 GATATGTAATCTTGAAGATAT
1 GATATGTAATCTTGAAGATAT
* *
3556814 GATCTTGTAATCTTGGAGAT
1 GAT-ATGTAATCTTGAAGAT
3556834 TTAATTTGTA
Statistics
Matches: 88, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
17 17 0.19
19 48 0.55
21 9 0.10
22 14 0.16
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (21 bp):
GATATGTAATCTTGAAGATAT
Found at i:3568951 original size:13 final size:13
Alignment explanation
Indices: 3568933--3568971 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3568923 CTGACTTATC
3568933 AACACGACCATGG
1 AACACGACCATGG
3568946 AACACGACCATGG
1 AACACGACCATGG
*
3568959 AACACGCCCATGG
1 AACACGACCATGG
3568972 GAGGGAACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.33, G:0.23, T:0.08
Consensus pattern (13 bp):
AACACGACCATGG
Found at i:3571179 original size:14 final size:13
Alignment explanation
Indices: 3571145--3571194 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
3571135 GTACAAATTG
3571145 TATATATATTATTT
1 TATATATATTA-TT
*
3571159 TTTATATATTATT
1 TATATATATTATT
*
3571172 TAT-CATATTATT
1 TATATATATTATT
3571184 TATAT-TATTAT
1 TATATATATTAT
3571195 ACATTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 17 0.55
13 4 0.13
14 10 0.32
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TATATATATTATT
Found at i:3571189 original size:21 final size:21
Alignment explanation
Indices: 3571163--3571208 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3571153 TTATTTTTTA
3571163 TATATTATT-TATCATATTATT
1 TATATTATTATA-CATATTATT
*
3571184 TATATTATTATACATTTTATT
1 TATATTATTATACATATTATT
3571205 TATA
1 TATA
3571209 AATTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATTATACATATTATT
Found at i:3571239 original size:19 final size:19
Alignment explanation
Indices: 3571204--3571240 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3571194 TACATTTTAT
*
3571204 TTATAAATTTTATTATATG
1 TTATAAATTTTACTATATG
*
3571223 TTATAAATTTTCCTATAT
1 TTATAAATTTTACTATAT
3571241 ATATATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
TTATAAATTTTACTATATG
Found at i:3584209 original size:46 final size:46
Alignment explanation
Indices: 3584028--3584209 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
3584018 TTTGACATGA
* * * * *
3584028 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
3584074 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
3584120 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
3584166 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
3584210 AGAGCACACA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 119 0.97
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:3586113 original size:19 final size:20
Alignment explanation
Indices: 3586085--3586123 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3586075 ACATATTTGA
3586085 TTTTCCCTTTTT-TTTCTTT
1 TTTTCCCTTTTTCTTTCTTT
*
3586104 TTTTCTCTTTTTCTTTCTTT
1 TTTTCCCTTTTTCTTTCTTT
3586124 CCTTCCCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCCCTTTTTCTTTCTTT
Found at i:3592625 original size:44 final size:44
Alignment explanation
Indices: 3591813--3592610 Score: 1046
Period size: 44 Copynumber: 18.1 Consensus size: 44
3591803 TCACCGATAG
*
3591813 CAGATTTGGCGTCTCTGTATTGATAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
3591857 CAGATTTGGTGTCTCTGTATTGGCAGAGAGTAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * *
3591901 CAGATTTGGCATCTCTGTATTGATAGAGAGCAAATCAAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * *
3591945 TAGATTTCGCGTTTCTGTATTGACAGAGAGCAGATCAAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
3591989 CAAATTTGGCGTCTCTGTATTGATAGTGAGCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * * *
3592033 CAAATTCGACGTCTCTATATTGACAGAGAGCAGATCTAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
3592077 CAGATTTGGTGTCTCTGTATTGACAGAGGGCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * * *
3592121 CAGATATGGCGT-TACTGTATTGACAGAGGGCAGATTGAAAATAA
1 CAGATTTGGCGTCT-CTGTATTGACAGAGAGCAGATCGAAGATGA
** * * *
3592165 CAGATTTAACATCTCTATATTAACAGAGAGCAGATCGAAGAT-A
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
3592208 GCAGATTTGACGTATCTGTATTGACAGAGAGCAAATCGAAGAT-A
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
3592252 GCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATTGAAGATGA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
3592297 CAGATTTGGCGTCTCTGTATTGACAGTGAGCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * *
3592341 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCTAAGAGGT
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
3592385 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
3592429 CAGATTTGGCGTCTCTGTATTGACAGAGGGCAAATTGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
3592473 CAGATTTGGCCTCTCTGTATTGACAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
3592517 CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT-A
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * * *
3592560 GCAGATTTGACGTCTCTGTATTGATAGAGGGCAGGTCAAAGATGA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
3592605 CAGATT
1 CAGATT
3592611 CGATTTCTCC
Statistics
Matches: 658, Mismatches: 90, Indels: 12
0.87 0.12 0.02
Matches are distributed among these distances:
43 3 0.00
44 652 0.99
45 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
Found at i:3594169 original size:12 final size:11
Alignment explanation
Indices: 3594136--3594182 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 11
3594126 ACAAATTGTA
3594136 TATATATTATTTT
1 TATATATTA--TT
3594149 TATATATTATT
1 TATATATTATT
3594160 TATCATATTATT
1 TAT-ATATTATT
3594172 TATATTATTAT
1 TATA-TATTAT
3594183 ACATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.19
12 17 0.53
13 9 0.28
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATATTATT
Found at i:3594177 original size:21 final size:21
Alignment explanation
Indices: 3594151--3594196 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3594141 ATTATTTTTA
3594151 TATATTATT-TATCATATTATT
1 TATATTATTATA-CATATTATT
*
3594172 TATATTATTATACATTTTATT
1 TATATTATTATACATATTATT
3594193 TATA
1 TATA
3594197 AATTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATTATACATATTATT
Found at i:3594848 original size:71 final size:69
Alignment explanation
Indices: 3594734--3594889 Score: 203
Period size: 71 Copynumber: 2.3 Consensus size: 69
3594724 GTTATTTTAA
* * *
3594734 GTTATATTTGCAT-AAA-ATATTGTTATATATTATGTAATTTATATTGTTAT-ATTCATTGTTTT
1 GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATCGTTATGA-TCATTGTTTT
3594796 CTAT-
65 CTATG
*
3594800 GTTATATTTTGCATGAAATATTATTATGTATGTATTATGTAATCTATATCGTTATGATCATTGTT
1 GTTATA-TTTGCATGAAATA-TATTAT-TATATATTATGTAATCTATATCGTTATGATCATTGTT
3594865 TTCTATG
63 TTCTATG
*
3594872 GTTATATCTGCATGAAAT
1 GTTATATTTGCATGAAAT
3594890 GATGATGCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
66 6 0.08
67 7 0.09
68 3 0.04
69 1 0.01
70 5 0.06
71 49 0.63
72 7 0.09
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (69 bp):
GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATCGTTATGATCATTGTTTTC
TATG
Found at i:3597420 original size:28 final size:28
Alignment explanation
Indices: 3597373--3597469 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
3597363 ATTTAAACCC
*
3597373 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
3597400 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
3597428 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
3597456 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
3597470 TGATCTACGC
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 9 0.14
28 56 0.86
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:3597514 original size:41 final size:41
Alignment explanation
Indices: 3597457--3597540 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
3597447 TTTGCTCTTT
3597457 AGGGGTAATTTCGTGATCTACGCTACTACACAAGCTAATTC
1 AGGGGTAATTTCGTGATCTACGCTACTACACAAGCTAATTC
3597498 AGGGGTAATTTCGTGATCTACGCTACTACACAAGCTAATTC
1 AGGGGTAATTTCGTGATCTACGCTACTACACAAGCTAATTC
3597539 AG
1 AG
3597541 TAATTTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (41 bp):
AGGGGTAATTTCGTGATCTACGCTACTACACAAGCTAATTC
Found at i:3598132 original size:27 final size:27
Alignment explanation
Indices: 3598102--3598163 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
3598092 GGGCAAAATG
3598102 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
3598129 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
3598156 GTAATTTT
1 GTAATTTT
3598164 TCAAACCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:3598178 original size:54 final size:54
Alignment explanation
Indices: 3598120--3598269 Score: 149
Period size: 54 Copynumber: 2.8 Consensus size: 54
3598110 ACCCCACAAG
** * * **
3598120 GGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCATT
1 GGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAGA
** *
3598174 GGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGA
1 GGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAGA
** * * * *
3598228 GGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
3598270 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 81 0.98
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAGA
Found at i:3598235 original size:81 final size:81
Alignment explanation
Indices: 3598117--3598269 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
3598107 TTTACCCCAC
** * **
3598117 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATTGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGAGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
3598181 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
3598198 AAGGGTATTTTAGTAATTTTA-CAAACCAGAGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGAGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
3598262 TGGTAATT
65 TGGTAATT
3598270 CTGTAAATTG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 2 0.03
81 59 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGAGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:3598276 original size:27 final size:27
Alignment explanation
Indices: 3598146--3598269 Score: 153
Period size: 27 Copynumber: 4.6 Consensus size: 27
3598136 TACCCTACAG
* *
3598146 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
* *
3598173 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
3598200 GGGTATTTTAGTAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTATAAACCAA
*
3598226 GAGGTATTTTGGTGATTTTATAAACCAA
1 G-GGTATTTTGGTAATTTTATAAACCAA
3598254 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
3598270 CTGTAAATTG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.02
27 77 0.94
28 3 0.04
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:3598283 original size:27 final size:27
Alignment explanation
Indices: 3598253--3598323 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
3598243 TTATAAACCA
* *
3598253 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
3598280 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
3598307 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
3598324 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:3611047 original size:43 final size:42
Alignment explanation
Indices: 3610971--3611058 Score: 158
Period size: 43 Copynumber: 2.1 Consensus size: 42
3610961 AATTTTGAGG
*
3610971 ATAAAATTTCTTTAAGAGGGGAGAGTTGTAACATCCCAAACA
1 ATAAAATTTCTTTAAGAGGGGAGAGTTGCAACATCCCAAACA
3611013 ATAAAATTTCTTTAAGGAGGGGAGAGTTGCAACATCCCAAACA
1 ATAAAATTTCTTTAA-GAGGGGAGAGTTGCAACATCCCAAACA
3611056 ATA
1 ATA
3611059 GGAGGTTAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 15 0.34
43 29 0.66
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (42 bp):
ATAAAATTTCTTTAAGAGGGGAGAGTTGCAACATCCCAAACA
Found at i:3619768 original size:43 final size:43
Alignment explanation
Indices: 3619707--3619795 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
3619697 AATTTTGAGG
3619707 ATAAAATTTCTTTAAGGAGGGGAGAGTTGTAACATCCCAAACA
1 ATAAAATTTCTTTAAGGAGGGGAGAGTTGTAACATCCCAAACA
3619750 ATAAAATTTCTTTAAGGAGGGGAGAGTTGTAACATCCCAAACA
1 ATAAAATTTCTTTAAGGAGGGGAGAGTTGTAACATCCCAAACA
3619793 ATA
1 ATA
3619796 GGAGGTTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (43 bp):
ATAAAATTTCTTTAAGGAGGGGAGAGTTGTAACATCCCAAACA
Found at i:3628501 original size:43 final size:43
Alignment explanation
Indices: 3628440--3628528 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
3628430 AATTTTGAGG
3628440 ATAAAATTTCTTTAAGGAGGGGAGAGTTGTAACATCCCAAACA
1 ATAAAATTTCTTTAAGGAGGGGAGAGTTGTAACATCCCAAACA
*
3628483 ATAAAATTTCTTTAAGGAGGGGAGAGTTGTAACTTCCCAAACA
1 ATAAAATTTCTTTAAGGAGGGGAGAGTTGTAACATCCCAAACA
3628526 ATA
1 ATA
3628529 GGAGGTTAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (43 bp):
ATAAAATTTCTTTAAGGAGGGGAGAGTTGTAACATCCCAAACA
Done.