Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 82 of 125
Found at i:25724354 original size:59 final size:58
Alignment explanation
Indices: 25723987--25724367 Score: 217
Period size: 59 Copynumber: 6.5 Consensus size: 58
25723977 AGAAGGTCTT
* ** * * **
25723987 TAAACTTTTCAAAAATCACATTTTAACCCTAAACT-TTTCAAAAATTACATTTTAACCC
1 TAAACTTTCCAAAAATCACATTTTAACCCCGAA-TATTCCAAAAATCACATTTTTCCCC
* ** * ** * * *
25724045 TCGAACTTTTAAAAAATCACATTTTTACCCCCGAACT-TTTAAAAAATTACACTTTTACCC
1 T-AAACTTTCCAAAAATCACA-TTTTAACCCCGAA-TATTCCAAAAATCACATTTTTCCCC
* ** * * *
25724105 TCAAAC-TTCCAGAAATTC-CATTTTTGTCCTCGAA-CTTCCAAAAATCACATTTTT-ACC
1 T-AAACTTTCCA-AAAATCACA-TTTTAACCCCGAATATTCCAAAAATCACATTTTTCCCC
* * **
25724162 TCGAAC-TTCCAAAAAATTACATTTTTCCCCCCGAAT-TTCCAAAAATCACATTTTTCCCC
1 T-AAACTTTCC-AAAAATCACA-TTTTAACCCCGAATATTCCAAAAATCACATTTTTCCCC
* * * * * * *
25724221 TCGAA-TTTCCAAAAACCACATTTTTGCACCCCGAACATTTCAAAAATTACATTTTTGCCC
1 T-AAACTTTCCAAAAATCACA-TTTT-AACCCCGAATATTCCAAAAATCACATTTTTCCCC
* *
25724281 TAAAC-TTCCAAAAATCACATTTTAACCCCGAATATTCCTAAAATGACATTTTTACCCC
1 TAAACTTTCCAAAAATCACATTTTAACCCCGAATATTCCAAAAATCACATTTTT-CCCC
* *
25724339 TAAAACTTTCC-AAAATTATATTTTAACCC
1 T-AAACTTTCCAAAAATCACATTTTAACCC
25724368 TAAACTCTTT
Statistics
Matches: 264, Mismatches: 44, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
57 40 0.15
58 70 0.27
59 87 0.33
60 67 0.25
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (58 bp):
TAAACTTTCCAAAAATCACATTTTAACCCCGAATATTCCAAAAATCACATTTTTCCCC
Found at i:25724903 original size:98 final size:98
Alignment explanation
Indices: 25724663--25725023 Score: 571
Period size: 98 Copynumber: 3.7 Consensus size: 98
25724653 TTATTTCGGG
** * *
25724663 TTTTGAAAATTTGTGCCTTAACTTACTAGGCACGATTTTTCTTCAAACCGGGATAATCGAATACC
1 TTTTGAAAATTTGTGCCTTAACTTACTAGGTGCGACTTTTCTTCAAATCGGGATAATCGAATACC
* * *
25724728 CTTAAAATGAGGTAATGTTTCTTTATCTCT-GA
66 CTTAAAACGAGGCAATGTTTCTTTATCTCTAGT
* * * *
25724760 TTTTGAAATTTTGTGCCTTAACTCACTAGGTGCGGCTTTTCTTCAAATCGAGATAATCGAATACC
1 TTTTGAAAATTTGTGCCTTAACTTACTAGGTGCGACTTTTCTTCAAATCGGGATAATCGAATACC
*
25724825 CTTAAAACGAGGCAATGTTTTTTTATCTCTAGT
66 CTTAAAACGAGGCAATGTTTCTTTATCTCTAGT
*
25724858 TTTTGAAAATTTGTGCCTTAACTTACTAGGTGCAACTTTTCTTCAAATCGGGATAATCGAATACC
1 TTTTGAAAATTTGTGCCTTAACTTACTAGGTGCGACTTTTCTTCAAATCGGGATAATCGAATACC
*
25724923 CTTAAAACGAGACAATGTTTCTTTATCTCTAGT
66 CTTAAAACGAGGCAATGTTTCTTTATCTCTAGT
* *
25724956 TTTTGAAAATTTGTGCCTTAACTTACTAGGTGCGACTTTTCTTCAAATCGGAATAATTGAATACC
1 TTTTGAAAATTTGTGCCTTAACTTACTAGGTGCGACTTTTCTTCAAATCGGGATAATCGAATACC
25725021 CTT
66 CTT
25725024 TTCCAAGGTT
Statistics
Matches: 241, Mismatches: 22, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
97 84 0.35
98 157 0.65
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (98 bp):
TTTTGAAAATTTGTGCCTTAACTTACTAGGTGCGACTTTTCTTCAAATCGGGATAATCGAATACC
CTTAAAACGAGGCAATGTTTCTTTATCTCTAGT
Found at i:25736663 original size:172 final size:172
Alignment explanation
Indices: 25736387--25736715 Score: 412
Period size: 172 Copynumber: 1.9 Consensus size: 172
25736377 AAAACAAGCT
* * * * *
25736387 ATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCATGCTCAATGTG
1 ATGCGGTCATCTTCCTGATGAGATACTAAGAAGCAGACCAAATCAATGAAACAAGGCTCAATATG
* * * * *
25736452 AGCAAAACTTTGAACACCAGCTTCTTAATGAGGTACTGAGAAGCAGGTCGAAGCAATAAACTGGT
66 AGCAAAACTTCGAACACCAGCTTCCTAATGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGT
*
25736517 C-GTGTTCCTAATGAGATA-TAGAGAAGTGGATTAAAACAAATG
131 CAG-CTTCCTAATGAGATACT-GAGAAGTGGATTAAAACAAATG
* ** *
25736559 ATGCGGTCATCTTCCTGATGAGATA-TAAAGAAGCATACTGAATTAATGAAACAAGGCTCAATAT
1 ATGCGGTCATCTTCCTGATGAGATACT-AAGAAGCAGACCAAATCAATGAAACAAGGCTCAATAT
*** * **
25736623 GATTGAAACTTCGAACCCCAGCTTCCTGGTGAGATACTGAGAAACAGGTCGAAGCAATAAAATGG
65 GAGCAAAACTTCGAACACCAGCTTCCTAATGAGATACTGAGAAACAGGTCGAAGCAATAAAATGG
*
25736688 TCAGCTTCCTGATGAGATACTGAGAAGT
130 TCAGCTTCCTAATGAGATACTGAGAAGT
25736716 TGACCTAATC
Statistics
Matches: 132, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
171 1 0.01
172 129 0.98
173 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (172 bp):
ATGCGGTCATCTTCCTGATGAGATACTAAGAAGCAGACCAAATCAATGAAACAAGGCTCAATATG
AGCAAAACTTCGAACACCAGCTTCCTAATGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGT
CAGCTTCCTAATGAGATACTGAGAAGTGGATTAAAACAAATG
Found at i:25736898 original size:209 final size:208
Alignment explanation
Indices: 25736521--25737010 Score: 696
Period size: 209 Copynumber: 2.3 Consensus size: 208
25736511 ACTGGTCGTG
* * * *
25736521 TTCCTAATGAGATATAGAGAAGTGGATTAAAACAAATGATGCGGTCATCTTCCTGATGAGATATA
1 TTCCTGATGAGATACAAAGAAGTGGATTAAAAC-AATGATGCGGTCATCTTCCTGATGAGATACA
* * * * **
25736586 AAGAAGCATACTGAATTAATGAAACAAGGCTCAATATGATTGAAACTTCGAACCCCAGCTTCCTG
65 GAGAAGTATACCGAATCAATGAAACAAGGCTCAATATGAGCGAAACTTCGAACCCCAGCTTCCTG
*
25736651 GTGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACTGAGAAGT
130 ATGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACTGAGAAGT
*
25736716 TGACCT-AA-TCTATC
195 GGA-CTAAATTC-ATC
* **
25736730 TTCCTGATGTGATACAAAGAAGTGGATTAAAACAGATGATGCAATCATCTTCCTGATGAGATACA
1 TTCCTGATGAGATACAAAGAAGTGGATTAAAACA-ATGATGCGGTCATCTTCCTGATGAGATACA
25736795 GAGAAGTATACCGAATCAATGAAACAAGGCTCAATATGAGCGAAACTTCGAACCCCAGCTTCCTG
65 GAGAAGTATACCGAATCAATGAAACAAGGCTCAATATGAGCGAAACTTCGAACCCCAGCTTCCTG
*
25736860 ATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACTGAGAAGT
130 ATGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACTGAGAAGT
*
25736925 GGACTAAATTCGTC
195 GGACTAAATTCATC
* * * * * * * *
25736939 TTCTTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGGTGGTCATCTTTCTGATAAGATACA
1 TTCCTGATGAGATACAAAGAAGTGGATTAAAACAA-TGATGCGGTCATCTTCCTGATGAGATACA
25737004 GAGAAGT
65 GAGAAGT
25737011 GGACCAAATC
Statistics
Matches: 249, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
208 4 0.02
209 243 0.98
210 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (208 bp):
TTCCTGATGAGATACAAAGAAGTGGATTAAAACAATGATGCGGTCATCTTCCTGATGAGATACAG
AGAAGTATACCGAATCAATGAAACAAGGCTCAATATGAGCGAAACTTCGAACCCCAGCTTCCTGA
TGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACTGAGAAGTG
GACTAAATTCATC
Found at i:25737008 original size:86 final size:86
Alignment explanation
Indices: 25736894--25737106 Score: 275
Period size: 86 Copynumber: 2.5 Consensus size: 86
25736884 AGCAATAAAA
* * * * * * *
25736894 TGGTCAGCTTCCTGATGAGATACTGAGAAGTGGACTAAATTCGTCTTCTTGATGAGATACAGAGA
1 TGGTCATCTTTCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAAAAA
**
25736959 AGCGGATTGAAACAAGTGAGG
66 AGCGGATCAAAACAAGTGAGG
* *
25736980 TGGTCATCTTTCTGATAAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAAAAA
1 TGGTCATCTTTCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAAAAA
*
25737045 AGCGGATCAAAACAAGTGATG
66 AGCGGATCAAAACAAGTGAGG
** *
25737066 CAGTCATC-TTCTTGATGAGATACTGAGAAGTAGACCAAATC
1 TGGTCATCTTTC-TGATGAGATACTGAGAAGTGGACCAAATC
25737107 AATGAAACCA
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 3 0.03
86 106 0.97
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (86 bp):
TGGTCATCTTTCTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAAAAA
AGCGGATCAAAACAAGTGAGG
Found at i:25737255 original size:295 final size:295
Alignment explanation
Indices: 25736685--25737305 Score: 942
Period size: 295 Copynumber: 2.1 Consensus size: 295
25736675 AGCAATAAAA
* * * * * * *
25736685 TGGTCAGCTTCCTGATGAGATACTGAGAAGTTGACCTAATCTATCTTCCTGATGTGATACAAAGA
1 TGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAAA
* * * *
25736750 AGTGGATTAAAACAGATGATGCAATCATCTTCCTGATGAGATACAGAGAAGTATACCGAATCAAT
66 AGCGGATCAAAACAGATGATGCAATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAAT
*
25736815 GAAACAAGGCTCAATATGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGG
131 GAAACAAGGCTCAATATGAGCGAAACTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGG
* * * *
25736880 TCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACTGAGAAGTGGACTAAATTCGTCTTCTTG
196 TCGAAGCAATAAAATGGTCAGCTTCCTGATAAGATACTGAGAAGTGGACCAAATTCATCTTCATG
*
25736945 ATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
261 ATGAGATACAGAGAAGCGGATTAAAACAAGTGAGG
* * *
25736980 TGGTCATCTTTCTGATAAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAAAAA
1 TGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAAA
* * *
25737045 AGCGGATCAAAACA-AGTGATGCAGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAAATCAA
66 AGCGGATCAAAACAGA-TGATGCAATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAA
* * *
25737109 TGAAACCAA-GCTCAATGTGAGCGACACTTCGAATCCCAACTTCCTGATGAGATACTGAGAAGCA
130 TGAAA-CAAGGCTCAATATGAGCGAAACTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCA
25737173 GGTCGAAGCAATAAAATGGTCAGCTTCCTGATAAGATACTGAGAAGTGGACCAAATTCATCTTCA
194 GGTCGAAGCAATAAAATGGTCAGCTTCCTGATAAGATACTGAGAAGTGGACCAAATTCATCTTCA
*
25737238 TGAT-AGGATATAGAGAAGCGGATTAAAACAAGTGAGG
259 TGATGA-GATACAGAGAAGCGGATTAAAACAAGTGAGG
*
25737275 CGGTCATCTTCCTGATGAGATACAGAGAAGT
1 TGGTCATCTTCCTGATGAGATACAGAGAAGT
25737306 ATACCAACTC
Statistics
Matches: 293, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
294 2 0.01
295 288 0.98
296 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.24
Consensus pattern (295 bp):
TGGTCATCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAAA
AGCGGATCAAAACAGATGATGCAATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAAT
GAAACAAGGCTCAATATGAGCGAAACTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGG
TCGAAGCAATAAAATGGTCAGCTTCCTGATAAGATACTGAGAAGTGGACCAAATTCATCTTCATG
ATGAGATACAGAGAAGCGGATTAAAACAAGTGAGG
Found at i:25737363 original size:209 final size:209
Alignment explanation
Indices: 25736980--25737426 Score: 599
Period size: 209 Copynumber: 2.1 Consensus size: 209
25736970 ACAAGTGAGG
* * * *
25736980 TGGTCATCTTTCTGATAAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAAAAA
1 TGGTCAGCTTCCTGATAAGATACAGAGAAGTGGACCAAATCCATCTTCATGATGAGATACAAAAA
* * *
25737045 AGCGGATCAAAACAAGTGATGCAGTCATCTTCTTGATGAGATACTGAGAAGTAGACCAAATCAAT
66 AGCGGATCAAAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAAT
* ** * * **
25737110 GAAACCAAGCTCAATGTGAGCGACACTTCGAATCCCAACTTCCTGATGAGATACTGAGAAGCAGG
131 GAAACAAAGCTCAATGCAAGCGAAACTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAA
*
25737175 TCGAAGCAATAAAA
196 TCAAAGCAATAAAA
* * * * *
25737189 TGGTCAGCTTCCTGATAAGATACTGAGAAGTGGACCAAATTCATCTTCATGAT-AGGATATAGAG
1 TGGTCAGCTTCCTGATAAGATACAGAGAAGTGGACCAAATCCATCTTCATGATGA-GATACAAAA
* * * *
25737253 AAGCGGATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAA
65 AAGCGGATCAAAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAA
* * * * *
25737318 TGAAACAAAGCTCAATGCAAGTGAAACTTTGAACCCCAGCTTCCTGATGAGGTATTGAGAAGCAA
130 TGAAACAAAGCTCAATGCAAGCGAAACTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAA
25737383 ATCAAAGCAATAAAA
195 ATCAAAGCAATAAAA
* *
25737398 TGGTCAGCTTCTTGATGAGATACAGAGAA
1 TGGTCAGCTTCCTGATAAGATACAGAGAA
25737427 ACAAACCAAT
Statistics
Matches: 205, Mismatches: 32, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
208 1 0.00
209 204 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (209 bp):
TGGTCAGCTTCCTGATAAGATACAGAGAAGTGGACCAAATCCATCTTCATGATGAGATACAAAAA
AGCGGATCAAAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAAT
GAAACAAAGCTCAATGCAAGCGAAACTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAA
TCAAAGCAATAAAA
Found at i:25737875 original size:18 final size:17
Alignment explanation
Indices: 25737852--25737892 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
25737842 TTAAATTGGT
* *
25737852 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-GTTAAAA
25737870 TTTAAATTTAGTTAAAA
1 TTTAAATTTAGTTAAAA
25737887 TTTAAA
1 TTTAAA
25737893 ATGGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAGTTAAAA
Found at i:25737876 original size:29 final size:28
Alignment explanation
Indices: 25737823--25737877 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
25737813 AAACTTTTGA
* *
25737823 TTTTAAGTTTATATTAAGTTTAAATTGG
1 TTTTAAATTTATATTAAATTTAAATTGG
*
25737851 TTTTAAATTTATTTTTAAATTTAAATT
1 TTTTAAATTTA-TATTAAATTTAAATT
25737878 TAGTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (28 bp):
TTTTAAATTTATATTAAATTTAAATTGG
Found at i:25739939 original size:118 final size:118
Alignment explanation
Indices: 25739660--25740035 Score: 378
Period size: 118 Copynumber: 3.2 Consensus size: 118
25739650 AAAGGTCCGT
* * *
25739660 AAACTTTTCAAAAATCATA-TTTTGA-CCTCGAACTTTTCAAAAATTATATTTTGACCCTCAAAC
1 AAAC-TTTCAAAAATCACATTTTTGACCCTC-AACTTTTCAAAAATTACATTTTTACCCTCAAAC
* * * *
25739723 -TCTTAAAAAA-TCACATTTTTACCCCTAAACTTTTTAAAAAATTACATTTTTACCCTA
64 TTC-CAAAAAATTC-CATTTTTACCCCTGAAC--TTTCAAAAATCACATTTTTACCCTA
* * * * *
25739780 AAACTTTCAAAAATTC-CATTTTTGTCCTTAAACTTCT-AAAAATCACATTTTTACCCT-AAACT
1 AAACTTTCAAAAA-TCACATTTTTGACCCTCAACTTTTCAAAAATTACATTTTTACCCTCAAACT
*
25739842 TCCAAAAAATTCCATTTTTACCCCCGAACTTTCAAAAATCACATTTTT-CCC-A
65 TCCAAAAAATTCCATTTTTACCCCTGAACTTTCAAAAATCACATTTTTACCCTA
* *
25739894 CCGAA-TTTCCAAAAATCACATTTTTGCACCCTCAACTTTTCAAAAATTACATTTTTACCCTCGA
1 --AAACTTT-CAAAAATCACATTTTTG-ACCCTCAACTTTTCAAAAATTACATTTTTACCCTCAA
* ** *
25739958 ACTTCC-AAAAATTCCATTTTTACCCCTGAACTTCCAAAAATCATGTTTTTACCCCA
62 ACTTCCAAAAAATTCCATTTTTACCCCTGAACTTTCAAAAATCACATTTTTACCCTA
* * *
25740014 AATCTTTCTAAAATGACATTTT
1 AAACTTTCAAAAATCACATTTT
25740036 ACCCCTAAAA
Statistics
Matches: 213, Mismatches: 28, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
114 1 0.00
115 8 0.04
116 33 0.15
117 9 0.04
118 98 0.46
119 44 0.21
120 18 0.08
121 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.37
Consensus pattern (118 bp):
AAACTTTCAAAAATCACATTTTTGACCCTCAACTTTTCAAAAATTACATTTTTACCCTCAAACTT
CCAAAAAATTCCATTTTTACCCCTGAACTTTCAAAAATCACATTTTTACCCTA
Found at i:25739970 original size:29 final size:29
Alignment explanation
Indices: 25739660--25740092 Score: 269
Period size: 29 Copynumber: 14.8 Consensus size: 29
25739650 AAAGGTCCGT
* * *
25739660 AAACTTTTCAAAAATCATATTTTGA-CCTC
1 AAAC-TTTCAAAAATTACATTTTTACCCTC
* * *
25739689 GAACTTTTCAAAAATTATATTTTGACCCTC
1 AAAC-TTTCAAAAATTACATTTTTACCCTC
* *
25739719 AAACTCTTAAAAAATCACATTTTTACCC-C
1 AAACT-TTCAAAAATTACATTTTTACCCTC
* *
25739748 TAAACTTTTTAAAAAATTACATTTTTACCCTA
1 -AAAC--TTTCAAAAATTACATTTTTACCCTC
* ** *
25739780 AAACTTTCAAAAATTCCATTTTTGTCCTT
1 AAACTTTCAAAAATTACATTTTTACCCTC
*
25739809 AAAC-TTCTAAAAATCACATTTTTACCCT-
1 AAACTTTC-AAAAATTACATTTTTACCCTC
* * *
25739837 AAACTTCCAAAAAATTCCATTTTTACCCCC
1 AAACTTTC-AAAAATTACATTTTTACCCTC
* * *
25739867 GAACTTTCAAAAATCACATTTTT-CCCACC
1 AAACTTTCAAAAATTACATTTTTACCC-TC
* *
25739896 GAA-TTTCCAAAAATCACATTTTTGCACCCTC
1 AAACTTT-CAAAAATTACATTTTT--ACCCTC
25739927 -AACTTTTCAAAAATTACATTTTTACCCTC
1 AAAC-TTTCAAAAATTACATTTTTACCCTC
* * *
25739956 GAACTTCCAAAAATTCCATTTTTACCC-C
1 AAACTTTCAAAAATTACATTTTTACCCTC
* * * **
25739984 TGAACTTCCAAAAATCATGTTTTTACCC-C
1 -AAACTTTCAAAAATTACATTTTTACCCTC
* * *
25740013 AAATCTTTCTAAAATGACA-TTTTACCCCTA
1 AAA-CTTTCAAAAATTACATTTTTA-CCCTC
* * * *
25740043 AAACTATCTAAAATTGCATTTTAACCC-C
1 AAACTTTCAAAAATTACATTTTTACCCTC
* *
25740071 AAACTCTCCAAAACTT-CATTTT
1 AAACT-TTCAAAAATTACATTTT
25740093 CAACCTCGAT
Statistics
Matches: 330, Mismatches: 51, Indels: 47
0.77 0.12 0.11
Matches are distributed among these distances:
28 32 0.10
29 203 0.62
30 47 0.14
31 41 0.12
32 7 0.02
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (29 bp):
AAACTTTCAAAAATTACATTTTTACCCTC
Found at i:25740083 original size:176 final size:176
Alignment explanation
Indices: 25739696--25740083 Score: 406
Period size: 176 Copynumber: 2.2 Consensus size: 176
25739686 CTCGAACTTT
* * * **
25739696 TCAAAAATTATATTTTGACCCTCAAACTCTTAAAAAATCACATTTTTACCCCTAAACTTTTTAAA
1 TCAAAAATCACATTTTAACCC-CAAACTCTCCAAAAATCACATTTTTACCCCTAAACTTTTTAAA
* ** * *
25739761 AAATTACATTTTTACCCTAAAACTTTCAAAAATTCCATTTTTGTCCTTAAACTTCTAAAAATCAC
65 AAATTACATTTTTACCCTAAAACTTCCAAAAATTCCATTTTTACCCCTAAACTTCCAAAAATCAC
* ** ** *
25739826 ATTTTTACCCTAAACTTCCAAAAAATTCCATTTTTACCCCCGAACTT
130 ATTTTTACCCCAAACTTCCAAAAAATGACATTTTTACCCCAAAACTA
** * * * * *
25739873 TCAAAAATCACATTTTTCCCACCGAA-TTTCCAAAAATCACATTTTTGCACCCTCAAC-TTTTCA
1 TCAAAAATCACATTTTAACC-CCAAACTCTCCAAAAATCACATTTTTAC-CCCTAAACTTTTTAA
** *
25739936 AAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTACCCCTGAACTTCCAAAAATCA
64 AAAATTACATTTTTACCCTAAAACTTCCAAAAATTCCATTTTTACCCCTAAACTTCCAAAAATCA
** * *
25740001 TGTTTTTACCCCAAATCTTTC-TAAAATGACA-TTTTACCCCTAAAACTA
129 CATTTTTACCCCAAA-CTTCCAAAAAATGACATTTTTACCCC-AAAACTA
* **
25740049 TCTAAAATTGCATTTTAACCCCAAACTCTCCAAAA
1 TCAAAAATCACATTTTAACCCCAAACTCTCCAAAA
25740084 CTTCATTTTC
Statistics
Matches: 170, Mismatches: 36, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
175 13 0.08
176 126 0.74
177 30 0.18
178 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (176 bp):
TCAAAAATCACATTTTAACCCCAAACTCTCCAAAAATCACATTTTTACCCCTAAACTTTTTAAAA
AATTACATTTTTACCCTAAAACTTCCAAAAATTCCATTTTTACCCCTAAACTTCCAAAAATCACA
TTTTTACCCCAAACTTCCAAAAAATGACATTTTTACCCCAAAACTA
Found at i:25740528 original size:100 final size:99
Alignment explanation
Indices: 25740363--25740628 Score: 446
Period size: 100 Copynumber: 2.7 Consensus size: 99
25740353 TTACTTCGAG
*
25740363 TTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGA-TTTTTCTTCAAACCGAGATAATCGAATAC
1 TTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTTCTTCAAACCGGGATAATCGAATAC
25740427 CCTTAAAACGAGGCAATGCTTCTTTATCTCTGAT
66 CCTTAAAACGAGGCAATGCTTCTTTATCTCTGAT
*
25740461 TTTTAAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTTTCTTCAAACCGGGATAATCGAATA
1 TTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGAC-TTTTTCTTCAAACCGGGATAATCGAATA
* *
25740526 CCCTTAAAACGAGGCAATGTTTCTTTATCTCTGGT
65 CCCTTAAAACGAGGCAATGCTTCTTTATCTCTGAT
* * *
25740561 TTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGAC-TATTCTTCAAATCGGGATAATCAAATAC
1 TTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTTCTTCAAACCGGGATAATCGAATAC
25740625 CCTT
66 CCTT
25740629 TTCCAAGGTT
Statistics
Matches: 158, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
98 63 0.40
100 95 0.60
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (99 bp):
TTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTTCTTCAAACCGGGATAATCGAATAC
CCTTAAAACGAGGCAATGCTTCTTTATCTCTGAT
Found at i:25745882 original size:58 final size:58
Alignment explanation
Indices: 25745792--25745909 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
25745782 GTTGTAAATA
25745792 TAGTGTGTTTACAACGAAACACTTGGAAGTATTTCGAGAATTATACCCAAAGTAGGAG
1 TAGTGTGTTTACAACGAAACACTTGGAAGTATTTCGAGAATTATACCCAAAGTAGGAG
25745850 TAGTGTGTTTACAACGAAACACTTGGAAGTATTTCGAGAATTATACCCAAAGTAGGAG
1 TAGTGTGTTTACAACGAAACACTTGGAAGTATTTCGAGAATTATACCCAAAGTAGGAG
25745908 TA
1 TA
25745910 AAGCTAAAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (58 bp):
TAGTGTGTTTACAACGAAACACTTGGAAGTATTTCGAGAATTATACCCAAAGTAGGAG
Found at i:25748640 original size:21 final size:21
Alignment explanation
Indices: 25748597--25748651 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
25748587 TAGAAGTAAG
*
25748597 ACTTGTTTCGGTAGAAGAGTC
1 ACTTGTATCGGTAGAAGAGTC
*
25748618 ACTTGTATCGGTAGAACTA-TC
1 ACTTGTATCGGTAGAA-GAGTC
*
25748639 ACTAGTATCGGTA
1 ACTTGTATCGGTA
25748652 AAAATCTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAGAGTC
Found at i:25750338 original size:24 final size:24
Alignment explanation
Indices: 25750311--25750361 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
25750301 AAACACATAA
* *
25750311 AAACAAATAATGCAAATTCAATCC
1 AAACAAATAATCCAAACTCAATCC
*
25750335 AAACACATAATCCAAACTCAATCC
1 AAACAAATAATCCAAACTCAATCC
25750359 AAA
1 AAA
25750362 GTTCCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.25, G:0.02, T:0.18
Consensus pattern (24 bp):
AAACAAATAATCCAAACTCAATCC
Found at i:25753376 original size:21 final size:21
Alignment explanation
Indices: 25753352--25753393 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
25753342 TTAAAGGAGC
25753352 CATTAAATCAATTAAATCAAT
1 CATTAAATCAATTAAATCAAT
*
25753373 CATTATATCAATTAAATCAAT
1 CATTAAATCAATTAAATCAAT
25753394 TTAATATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (21 bp):
CATTAAATCAATTAAATCAAT
Found at i:25756578 original size:78 final size:78
Alignment explanation
Indices: 25756448--25756661 Score: 243
Period size: 78 Copynumber: 2.7 Consensus size: 78
25756438 ATCAATTTTA
* * *
25756448 TTGAACAATAGGAATAGAATCCTGAAATAGAATTGTGCAACTTATTTCTGTTTGAAAACA-AAAA
1 TTGAACAATAGGAATA-AATCTTGAAACAGAATTGTTCAACTTATTTCTGTTTGAAAACAGAAAA
*
25756512 CTTGATTAAATTCTG
65 -TTGAATAAATTCTG
* * * * *
25756527 TTGAACAATATGAATAAATCTTGAAACAAAATTGTTTAA-TTACTTTATGTTTGGAAACAGAAAA
1 TTGAACAATAGGAATAAATCTTGAAACAGAATTGTTCAACTTA-TTTCTGTTTGAAAACAGAAAA
*
25756591 TTGAATAAATTTTG
65 TTGAATAAATTCTG
**** * *
25756605 TTGAATGGCAGGAATAAATCTTGAAACAGAATTATTCAATTTATTTCTGTTTGAAAA
1 TTGAACAATAGGAATAAATCTTGAAACAGAATTGTTCAACTTATTTCTGTTTGAAAA
25756662 TAGGATACAA
Statistics
Matches: 112, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 87 0.78
79 22 0.20
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (78 bp):
TTGAACAATAGGAATAAATCTTGAAACAGAATTGTTCAACTTATTTCTGTTTGAAAACAGAAAAT
TGAATAAATTCTG
Found at i:25764289 original size:40 final size:40
Alignment explanation
Indices: 25764222--25764518 Score: 177
Period size: 40 Copynumber: 7.2 Consensus size: 40
25764212 TCGTAAAAAA
* *** **
25764222 TAAAGTAATAGCGGCGTTTTTTTATAAACACTACAAAAGG
1 TAAAGCAATAGCGGCGTTTTGCCATAAACACCGCAAAAGG
* * * *
25764262 TAAAGCAATAGCGGCGCTTTCCCATAAATACCGCAAAATG
1 TAAAGCAATAGCGGCGTTTTGCCATAAACACCGCAAAAGG
* * * ** *
25764302 TAAAGTAATAGGGGCATTTATGGAAAAAACACCGCAAAAGG
1 TAAAGCAATAGCGGCGTTT-TGCCATAAACACCGCAAAAGG
* * * * *
25764343 TAAAGAGAAATAGCGGCATTTAAGACA-AAACACCGCAAAAGA
1 T-AA-AGCAATAGCGGCGTTT-TGCCATAAACACCGCAAAAGG
** *
25764385 TAAAGAACAATAGCGGCGTTTATGGGA-AAACACCACAAAAGG
1 TAAAG--CAATAGCGGCGTTT-TGCCATAAACACCGCAAAAGG
* * * *
25764427 TAAAGCAATAGCGGCGCTTTCCCATAAATACCGTAAAAGG
1 TAAAGCAATAGCGGCGTTTTGCCATAAACACCGCAAAAGG
* * * ** *
25764467 TAAAGAGCAATAACGGCATGTATGAGA-AAACACCGCAAAAGA
1 T-AA-AGCAATAGCGGCGT-TTTGCCATAAACACCGCAAAAGG
25764509 TAAAGCAATA
1 TAAAGCAATA
25764519 ACGACTTTTA
Statistics
Matches: 199, Mismatches: 49, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
39 2 0.01
40 81 0.41
41 22 0.11
42 74 0.37
43 20 0.10
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (40 bp):
TAAAGCAATAGCGGCGTTTTGCCATAAACACCGCAAAAGG
Found at i:25764381 original size:42 final size:42
Alignment explanation
Indices: 25764291--25764513 Score: 179
Period size: 42 Copynumber: 5.4 Consensus size: 42
25764281 TCCCATAAAT
* * * *
25764291 ACCGCAAAATGT-AA-AGTAATAGGGGCATTTATGGAAAAAAC
1 ACCGCAAAAGGTAAAGAGAAATAGCGGCATTTAT-GACAAAAC
*
25764332 ACCGCAAAAGGTAAAGAGAAATAGCGGCATTTAAGACAAAAC
1 ACCGCAAAAGGTAAAGAGAAATAGCGGCATTTATGACAAAAC
* * **
25764374 ACCGCAAAAGATAAAGA-ACAATAGCGGCGTTTATGGGAAAAC
1 ACCGCAAAAGGTAAAGAGA-AATAGCGGCATTTATGACAAAAC
* * ** ** *
25764416 ACCACAAAAGGT-AA-AGCAATAGCGGCGCTT-TCCCATAAAT
1 ACCGCAAAAGGTAAAGAGAAATAGCGGCATTTATGACA-AAAC
* * * * *
25764456 ACCGTAAAAGGTAAAGAGCAATAACGGCATGTATGAGAAAAC
1 ACCGCAAAAGGTAAAGAGAAATAGCGGCATTTATGACAAAAC
*
25764498 ACCGCAAAAGATAAAG
1 ACCGCAAAAGGTAAAG
25764514 CAATAACGAC
Statistics
Matches: 144, Mismatches: 30, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
39 2 0.01
40 26 0.18
41 16 0.11
42 83 0.58
43 17 0.12
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (42 bp):
ACCGCAAAAGGTAAAGAGAAATAGCGGCATTTATGACAAAAC
Found at i:25764472 original size:82 final size:81
Alignment explanation
Indices: 25764247--25764518 Score: 289
Period size: 82 Copynumber: 3.3 Consensus size: 81
25764237 GTTTTTTTAT
* * *
25764247 AAACACTACAAAAGGTAAAGCAATAGCGGCGCTTTCCCATAAATACCGCAAAATGTAAAG-TAAT
1 AAACACCACAAAAGGTAAAGCAATAGCGGCGCTTTCCCATAAATACCGCAAAAGGTAAAGACAAT
* *
25764311 AGGGGCATTTATGGAAA
66 AGCGGCATTTATGG-GA
* * * ** * *
25764328 AAACACCGCAAAAGGTAAAGAGAAATAGCGGC-ATTTAAGACA-AAACACCGCAAAAGATAAAGA
1 AAACACCACAAAAGGT-AA-AGCAATAGCGGCGCTTT--CCCATAAATACCGCAAAAGGTAAAG-
*
25764391 ACAATAGCGGCGTTTATGGGA
61 ACAATAGCGGCATTTATGGGA
*
25764412 AAACACCACAAAAGGTAAAGCAATAGCGGCGCTTTCCCATAAATACCGTAAAAGGTAAAGAGCAA
1 AAACACCACAAAAGGTAAAGCAATAGCGGCGCTTTCCCATAAATACCGCAAAAGGTAAAGA-CAA
* * *
25764477 TAACGGCATGTATGAGA
65 TAGCGGCATTTATGGGA
* *
25764494 AAACACCGCAAAAGATAAAGCAATA
1 AAACACCACAAAAGGTAAAGCAATA
25764519 ACGACTTTTA
Statistics
Matches: 155, Mismatches: 27, Indels: 17
0.78 0.14 0.09
Matches are distributed among these distances:
81 17 0.11
82 72 0.46
83 33 0.21
84 18 0.12
85 15 0.10
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.15
Consensus pattern (81 bp):
AAACACCACAAAAGGTAAAGCAATAGCGGCGCTTTCCCATAAATACCGCAAAAGGTAAAGACAAT
AGCGGCATTTATGGGA
Found at i:25766822 original size:13 final size:13
Alignment explanation
Indices: 25766804--25766828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25766794 TTTATATTCA
25766804 ACTAATTTGTAAT
1 ACTAATTTGTAAT
25766817 ACTAATTTGTAA
1 ACTAATTTGTAA
25766829 AGAATTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
ACTAATTTGTAAT
Found at i:25773532 original size:43 final size:43
Alignment explanation
Indices: 25773463--25773598 Score: 139
Period size: 43 Copynumber: 3.2 Consensus size: 43
25773453 TAATGTTAGT
* * * * *
25773463 GACGTTTGTGGGAAAAGTGTCACTAAAGACCATGCTCTATAGC
1 GACGTTTATGAGAAAAGCGTCGCTAAAGACCATGTTCTATAGC
* * * **
25773506 AACGTTTATGAGTAAAGCG-CAGCTAAAGACCATGTTTTATAAT
1 GACGTTTATGAGAAAAGCGTC-GCTAAAGACCATGTTCTATAGC
* * *
25773549 GACGTTTGTGGGAAAAGCGTCGCTAAAGACAATGTTCTATAGC
1 GACGTTTATGAGAAAAGCGTCGCTAAAGACCATGTTCTATAGC
25773592 GACGTTT
1 GACGTTT
25773599 TCTCACATAA
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
42 1 0.01
43 71 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (43 bp):
GACGTTTATGAGAAAAGCGTCGCTAAAGACCATGTTCTATAGC
Found at i:25776224 original size:24 final size:24
Alignment explanation
Indices: 25776197--25776243 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
25776187 AAATATATTT
*
25776197 ATTTATATTTTTTCAATTTTATAC
1 ATTTATATTTTTTCAATCTTATAC
* *
25776221 ATTTTTATTTTTTTAATCTTATA
1 ATTTATATTTTTTCAATCTTATA
25776244 AAATTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (24 bp):
ATTTATATTTTTTCAATCTTATAC
Found at i:25776250 original size:24 final size:24
Alignment explanation
Indices: 25776197--25776251 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
25776187 AAATATATTT
* *
25776197 ATTTATATTTTTTCAATTTTATACA
1 ATTT-TATTTTTTCAATCTTATAAA
* *
25776222 TTTTTATTTTTTTAATCTTATAAA
1 ATTTTATTTTTTCAATCTTATAAA
25776246 ATTTTA
1 ATTTTA
25776252 AATATATCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTTTATTTTTTCAATCTTATAAA
Found at i:25780862 original size:21 final size:21
Alignment explanation
Indices: 25780837--25780878 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25780827 GTTCGTAATG
25780837 TTAAATTTGCATTTAAATGTA
1 TTAAATTTGCATTTAAATGTA
25780858 TTAAATTTGCATTTAAATGTA
1 TTAAATTTGCATTTAAATGTA
25780879 CCTTATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (21 bp):
TTAAATTTGCATTTAAATGTA
Found at i:25781277 original size:94 final size:94
Alignment explanation
Indices: 25781161--25781432 Score: 368
Period size: 94 Copynumber: 2.9 Consensus size: 94
25781151 TTAAGGAACA
* * * * *
25781161 TTATATGTACAGATACCATATCGATGGCTGAGGTACCGCATATGTTGTGAGTCCTCCTTAACTTA
1 TTATATGTACAGATACCATATCGATGACTGAGGTACCGCATATGTTGCGAGTCCTCATCAGCTTA
* *
25781226 ATGTGAGTAGCATCGTATACTGGTAATAG
66 GTGTGAGTAGCATCGTATACTAGTAATAG
* * * *
25781255 TTATATGTACAAATATCATATCGATGATTGAGGTACCGCATATGTTGCGAGTCCTCGTCAGCTTA
1 TTATATGTACAGATACCATATCGATGACTGAGGTACCGCATATGTTGCGAGTCCTCATCAGCTTA
* *
25781320 GTGT-ATGCAGCATCATATACTAGTAATAG
66 GTGTGA-GTAGCATCGTATACTAGTAATAG
* * *
25781349 TTATATGAACAGATACCATATCGATGACTGAGGTACCGCATATATTGCAAGTCCTCATCAGCTTA
1 TTATATGTACAGATACCATATCGATGACTGAGGTACCGCATATGTTGCGAGTCCTCATCAGCTTA
25781414 GTGTGAGCT-GCATCGTATA
66 GTGTGAG-TAGCATCGTATA
25781433 TCGGTAACAG
Statistics
Matches: 154, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
93 1 0.01
94 152 0.99
95 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (94 bp):
TTATATGTACAGATACCATATCGATGACTGAGGTACCGCATATGTTGCGAGTCCTCATCAGCTTA
GTGTGAGTAGCATCGTATACTAGTAATAG
Found at i:25782096 original size:24 final size:23
Alignment explanation
Indices: 25782061--25782108 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
25782051 TATCGATAGC
25782061 ATTATAGAAGTATCGGTAGTTCTG
1 ATTATAGAAGTATCGGTAG-TCTG
*
25782085 ATTATAGTAGTATCGGTAGTCTG
1 ATTATAGAAGTATCGGTAGTCTG
25782108 A
1 A
25782109 ATACTTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (23 bp):
ATTATAGAAGTATCGGTAGTCTG
Found at i:25783684 original size:8 final size:8
Alignment explanation
Indices: 25783673--25783699 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
25783663 TATATATACA
25783673 TATGTATG
1 TATGTATG
25783681 TATGTATG
1 TATGTATG
25783689 TATGTATG
1 TATGTATG
25783697 TAT
1 TAT
25783700 ACATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (8 bp):
TATGTATG
Found at i:25783690 original size:12 final size:12
Alignment explanation
Indices: 25783673--25783699 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25783663 TATATATACA
25783673 TATGTATGTATG
1 TATGTATGTATG
25783685 TATGTATGTATG
1 TATGTATGTATG
25783697 TAT
1 TAT
25783700 ACATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (12 bp):
TATGTATGTATG
Found at i:25785553 original size:11 final size:11
Alignment explanation
Indices: 25785537--25785563 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25785527 TAATTACATG
25785537 AAAAGTAAATT
1 AAAAGTAAATT
25785548 AAAAGTAAATT
1 AAAAGTAAATT
25785559 AAAAG
1 AAAAG
25785564 CATGAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (11 bp):
AAAAGTAAATT
Found at i:25786019 original size:95 final size:94
Alignment explanation
Indices: 25785906--25786507 Score: 342
Period size: 95 Copynumber: 6.4 Consensus size: 94
25785896 TTCTGGTGCT
* * * * * *
25785906 TCACTCCACTCTAGTGTAACCTTAGGGATGTTGAGATTTGCTATTTGTTTTAACCCACTTCTTTG
1 TCACTCCACTCCACTGTAACCTCAAGGATGTTGAGATTTGCTATCTGTTTTAACCCACTTCTCTG
* *
25785971 TACCTCACGAAGAAGATGGGATTTGAAGTG
66 TACCTCAC-AAGAAGATAGGATTTGAAGTC
* * * * ** *
25786001 TCACTCCACTCCATTGTAACCTCAGGGATGTTGAG-TTCTGCT-TCATTATTTTTATCTGAC-CC
1 TCACTCCACTCCACTGTAACCTCAAGGATGTTGAGATT-TGCTATC--T-GTTTTAACCCACTTC
* * *
25786063 AT-TGCAACT--CAAG-GGTATAGGATTCT-AA-TGC
62 -TCTGTACCTCACAAGAAG-ATAGGATT-TGAAGT-C
* * * * * * *
25786094 TTTACTCCACTCTAGTGTAACCTTAAGGACGTTGAGATTTGATACCTGTTTTAACCCACTTCTCT
1 -TCACTCCACTCCACTGTAACCTCAAGGATGTTGAGATTTGCTATCTGTTTTAACCCACTTCTCT
*
25786159 GTACCTCACCAAGAAAAT-GAGATTTGAAGTC
65 GTACCTCA-CAAGAAGATAG-GATTTGAAGTC
* * * * *
25786190 TCACTCCACTTCC-CTGTAACATCAAGGACGTTGAGGTCTGCT-TCCTATTTTAACCCACTTCTC
1 TCACTCCAC-TCCACTGTAACCTCAAGGATGTTGAGATTTGCTAT-CTGTTTTAACCCACTTCTC
*
25786253 TGTACCTCAACAGGAAGATAGGATTTGAAGTC
64 TGTACCTC-ACAAGAAGATAGGATTTGAAGTC
* * * ** * * * * *
25786285 TCACTCCACTCCACTGTAACCTTAAGGACGTTAATTTTTGCT-TCATTATTTTCATCCGAC-CCA
1 TCACTCCACTCCACTGTAACCTCAAGGATGTTGAGATTTGCTATC--TGTTTT-AACCCACTTCT
* * ** *
25786348 CTGCAACT--C-AGGGGTATAAGATTATG--GTGC
63 CTGTACCTCACAAGAAG-ATAGGATT-TGAAGT-C
* * * * * * *
25786378 TTCACTCCACTCCACTATAACCTCAGGGATGTTGAGATCTGTTACCTGTGTTAACCCACTTCTTT
1 -TCACTCCACTCCACTGTAACCTCAAGGATGTTGAGATTTGCTATCTGTTTTAACCCACTTCTCT
* * *
25786443 ATACCTCACTAGGAAGATGGGATTTGAAGTC
65 GTACCTCAC-AAGAAGATAGGATTTGAAGTC
*
25786474 TCACTCCACTCCACTGTAACCTCATGGATGTTGA
1 TCACTCCACTCCACTGTAACCTCAAGGATGTTGA
25786508 ACTCTGCTTC
Statistics
Matches: 381, Mismatches: 86, Indels: 80
0.70 0.16 0.15
Matches are distributed among these distances:
92 20 0.05
93 37 0.10
94 76 0.20
95 185 0.49
96 44 0.12
97 19 0.05
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (94 bp):
TCACTCCACTCCACTGTAACCTCAAGGATGTTGAGATTTGCTATCTGTTTTAACCCACTTCTCTG
TACCTCACAAGAAGATAGGATTTGAAGTC
Found at i:25786113 original size:189 final size:189
Alignment explanation
Indices: 25785793--25786233 Score: 625
Period size: 189 Copynumber: 2.3 Consensus size: 189
25785783 TGATGAATAG
* *
25785793 GAAGATGGGATTTGAAGTCTCAGTCCACTCCACTGTAACCTCATA-GACGTTGAGCTCTACTTCA
1 GAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTAACCTCA-AGGACGTTGAGCTCTGCTTCA
**
25785857 TTATTTTCATCCGACCCACTACAACTCAAGGGTATAGGATTCTGGTGCTTCACTCCACTCTAGTG
65 TTATTTTCATCCGACCCACTACAACTCAAGGGTATAGGATTCTAATGCTTCACTCCACTCTAGTG
* * * ** * *
25785922 TAACCTTAGGGATGTTGAGATTTGCTATTTGTTTTAACCCACTTCTTTGTACCTCACGAA
130 TAACCTTAAGGACGTTGAGATTTGATACCTGTTTTAACCCACTTCTCTGTACCTCACCAA
* * * * *
25785982 GAAGATGGGATTTGAAGTGTCACTCCACTCCATTGTAACCTCAGGGATGTTGAGTTCTGCTTCAT
1 GAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTAACCTCAAGGACGTTGAGCTCTGCTTCAT
* * * * *
25786047 TATTTTTATCTGACCCATTGCAACTCAAGGGTATAGGATTCTAATGCTTTACTCCACTCTAGTGT
66 TATTTTCATCCGACCCACTACAACTCAAGGGTATAGGATTCTAATGCTTCACTCCACTCTAGTGT
25786112 AACCTTAAGGACGTTGAGATTTGATACCTGTTTTAACCCACTTCTCTGTACCTCACCAA
131 AACCTTAAGGACGTTGAGATTTGATACCTGTTTTAACCCACTTCTCTGTACCTCACCAA
* * * *
25786171 GAAAATGAGATTTGAAGTCTCACTCCACTTCC-CTGTAACATCAAGGACGTTGAGGTCTGCTTC
1 GAAGATGGGATTTGAAGTCTCACTCCAC-TCCACTGTAACCTCAAGGACGTTGAGCTCTGCTTC
25786234 CTATTTTAAC
Statistics
Matches: 221, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
189 218 0.99
190 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (189 bp):
GAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTAACCTCAAGGACGTTGAGCTCTGCTTCAT
TATTTTCATCCGACCCACTACAACTCAAGGGTATAGGATTCTAATGCTTCACTCCACTCTAGTGT
AACCTTAAGGACGTTGAGATTTGATACCTGTTTTAACCCACTTCTCTGTACCTCACCAA
Found at i:25786128 original size:94 final size:94
Alignment explanation
Indices: 25785816--25786129 Score: 232
Period size: 94 Copynumber: 3.3 Consensus size: 94
25785806 GAAGTCTCAG
* * * * * *
25785816 TCCACTCCACTGTAACCTCATA-GACGTTGAGCTCTACTTCATTATTTTCATCCGACCCACTACA
1 TCCACTCCAGTGTAACCTCA-AGGACGTTGAGTTCTGCTTCATTATTTTTATCCGACCCATTGCA
**
25785880 ACTCAAGGGTATAGGATTCTGGTGCTTCAC
65 ACTCAAGGGTATAGGATTCTAATGCTTCAC
* * * * * * * *
25785910 TCCACTCTAGTGTAACCTTAGGGATGTTGAGATT-TGC-T-ATT-TGTTTTAACCCACTTCTTTG
1 TCCACTCCAGTGTAACCTCAAGGACGTTGAG-TTCTGCTTCATTAT-TTTTATCCGAC-CCATTG
* * * *
25785971 TACCTCACGAAGAAG-ATGGGATT-TGAA-G-TGTCAC
63 CAACT--C-AAG-GGTATAGGATTCT-AATGCT-TCAC
* * * *
25786005 TCCACTCCATTGTAACCTCAGGGATGTTGAGTTCTGCTTCATTATTTTTATCTGACCCATTGCAA
1 TCCACTCCAGTGTAACCTCAAGGACGTTGAGTTCTGCTTCATTATTTTTATCCGACCCATTGCAA
*
25786070 CTCAAGGGTATAGGATTCTAATGCTTTAC
66 CTCAAGGGTATAGGATTCTAATGCTTCAC
* *
25786099 TCCACTCTAGTGTAACCTTAAGGACGTTGAG
1 TCCACTCCAGTGTAACCTCAAGGACGTTGAG
25786130 ATTTGATACC
Statistics
Matches: 164, Mismatches: 38, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
91 1 0.01
92 12 0.07
93 18 0.11
94 62 0.38
95 40 0.24
96 18 0.11
97 12 0.07
98 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (94 bp):
TCCACTCCAGTGTAACCTCAAGGACGTTGAGTTCTGCTTCATTATTTTTATCCGACCCATTGCAA
CTCAAGGGTATAGGATTCTAATGCTTCAC
Found at i:25786387 original size:189 final size:188
Alignment explanation
Indices: 25786190--25786664 Score: 627
Period size: 189 Copynumber: 2.5 Consensus size: 188
25786180 ATTTGAAGTC
* * * *
25786190 TCACTCCACTTCCCTGTAACATCAAGGACGTTGAGGTCTGCTTCCTATTTTAACCCACTTCTCTG
1 TCACTCCAC-TCCCTGTAACCTCAAGGACGTTGAGATCTGCTTCCTGTTTTAACCCACTTCTTTG
* *
25786255 TACCTCAAC-AGGAAGATAGGATTTGAAGTCTCACTCCACTCCACTGTAACCTTAAGGACGTT-A
65 TACCTC-ACTAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTAACCTCAAGGACGTTGA
* * *
25786318 ATTTTTGCTTCATTATTTTCATCCGACC-CACTGCAACTCAGGGGTATAAGATTATGGTGCT
129 A-CTCTGCTTCATTATTTTCATCCGACCTAAC-GCAACTCAGGGGTATAAGATTATGGTGCT
* * * *
25786379 TCACTCCACTCCACTATAACCTCAGGGATGTTGAGATCTG-TTACCTGTGTTAACCCACTTCTTT
1 TCACTCCACTCC-CTGTAACCTCAAGGACGTTGAGATCTGCTT-CCTGTTTTAACCCACTTCTTT
* * *
25786443 ATACCTCACTAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTAACCTCATGGATGTTGA
64 GTACCTCACTAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTAACCTCAAGGACGTTGA
* * *
25786508 ACTCTGCTTCATTATTTTCATTCGACCTAACGCAACTCAGGGGTATAGGATTCTGGTGCT
129 ACTCTGCTTCATTATTTTCATCCGACCTAACGCAACTCAGGGGTATAAGATTATGGTGCT
* * *
25786568 TCAATCCACTCTACTGTAACCTC-AGAGACGTTGAGATCTGCTACCTGTTTTAACCCACTTCTTT
1 TCACTCCACTC-CCTGTAACCTCAAG-GACGTTGAGATCTGCTTCCTGTTTTAACCCACTTCTTT
* *
25786632 GTACCTCACTAGGAAGATGGGTTTTAAAGTCTC
64 GTACCTCACTAGGAAGATGGGATTTGAAGTCTC
25786665 TTGGTCCATT
Statistics
Matches: 249, Mismatches: 29, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
188 8 0.03
189 236 0.95
190 5 0.02
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (188 bp):
TCACTCCACTCCCTGTAACCTCAAGGACGTTGAGATCTGCTTCCTGTTTTAACCCACTTCTTTGT
ACCTCACTAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTAACCTCAAGGACGTTGAAC
TCTGCTTCATTATTTTCATCCGACCTAACGCAACTCAGGGGTATAAGATTATGGTGCT
Found at i:25786426 original size:284 final size:284
Alignment explanation
Indices: 25785953--25786517 Score: 738
Period size: 284 Copynumber: 2.0 Consensus size: 284
25785943 TTGCTATTTG
* * * *
25785953 TTTTAACCCACTTCTTTGTACCTCACGAAGAAGATGGGATTTGAAGTGTCACTCCACTCCATTGT
1 TTTTAACCCACTTCTCTGTACCTCACGAAGAAGATAGGATTTGAAGTCTCACTCCACTCCACTGT
* * * * * * *
25786018 AACCTCAGGGATGTTGAGTTCTGCTTCATTATTTTTATCTGACCCATTGCAACTCAAGGGTATAG
66 AACCTCAAGGACGTTAAGTTCTGCTTCATTATTTTCATCCGACCCACTGCAACTCAAGGGTATAA
* * * * * * * *
25786083 GATTCTAATGCTTTACTCCACTCTAGTGTAACCTTAAGGACGTTGAGATTTGATACCTGTTTTAA
131 GATTATAATGCTTCACTCCACTCCACTATAACCTCAAGGACGTTGAGATCTGATACCTGTGTTAA
*
25786148 CCCACTTCTCTGTACCTCACCAAGAAAATGAGATTTGAAGTCTCACTCCACTTCC-CTGTAACAT
196 CCCACTTCTCTATACCTCACCAAGAAAATGAGATTTGAAGTCTCACTCCAC-TCCACTGTAACAT
**
25786212 CAAGGACGTTGAGGTCTGCTTCCTA
260 CAAGGACGTTGAACTCTGCTTCCTA
*
25786237 TTTTAACCCACTTCTCTGTACCTCAAC-AGGAAGATAGGATTTGAAGTCTCACTCCACTCCACTG
1 TTTTAACCCACTTCTCTGTACCTC-ACGAAGAAGATAGGATTTGAAGTCTCACTCCACTCCACTG
* * * *
25786301 TAACCTTAAGGACGTTAATTTTTGCTTCATTATTTTCATCCGACCCACTGCAACTCAGGGGTATA
65 TAACCTCAAGGACGTTAAGTTCTGCTTCATTATTTTCATCCGACCCACTGCAACTCAAGGGTATA
** * * *
25786366 AGATTATGGTGCTTCACTCCACTCCACTATAACCTCAGGGATGTTGAGATCTGTTACCTGTGTTA
130 AGATTATAATGCTTCACTCCACTCCACTATAACCTCAAGGACGTTGAGATCTGATACCTGTGTTA
* * * * * *
25786431 ACCCACTTCTTTATACCTCACTAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGTAACCT
195 ACCCACTTCTCTATACCTCACCAAGAAAATGAGATTTGAAGTCTCACTCCACTCCACTGTAACAT
* *
25786496 CATGGATGTTGAACTCTGCTTC
260 CAAGGACGTTGAACTCTGCTTC
25786518 ATTATTTTCA
Statistics
Matches: 239, Mismatches: 40, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
283 3 0.01
284 234 0.98
285 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (284 bp):
TTTTAACCCACTTCTCTGTACCTCACGAAGAAGATAGGATTTGAAGTCTCACTCCACTCCACTGT
AACCTCAAGGACGTTAAGTTCTGCTTCATTATTTTCATCCGACCCACTGCAACTCAAGGGTATAA
GATTATAATGCTTCACTCCACTCCACTATAACCTCAAGGACGTTGAGATCTGATACCTGTGTTAA
CCCACTTCTCTATACCTCACCAAGAAAATGAGATTTGAAGTCTCACTCCACTCCACTGTAACATC
AAGGACGTTGAACTCTGCTTCCTA
Found at i:25787261 original size:112 final size:112
Alignment explanation
Indices: 25787061--25787286 Score: 319
Period size: 112 Copynumber: 2.0 Consensus size: 112
25787051 TATTCCTTAT
* *
25787061 ATCGTTTGACCACTAACCGCTATTTCAATGCAAAAATGCTTGAATAGGATTGTAAGGTGGATAAA
1 ATCGTTGGACCACTAACCGCTATTTCAATGCAAAAATGCTTGAATAGGATTGTAAGGAGGATAAA
* * * **
25787126 ATTGAATTGTATTGAAGGTAAAGCTTGCATGACTGGAAAGATTAAAA
66 ATTGAATTGTATTGAAGGCAAAGCTCGCATGAATAAAAAGATTAAAA
* * * *
25787173 ATCGTTGGTCCACTAATCGTTATTTCAATGTAAAAATGCTTGAATAGG-TTCGTAAGGAGGATAA
1 ATCGTTGGACCACTAACCGCTATTTCAATGCAAAAATGCTTGAATAGGATT-GTAAGGAGGATAA
* *
25787237 AATTGAATTTTATTGGAGGCAAAGCTCGCATGAATAAAAAGATTAAAA
65 AATTGAATTGTATTGAAGGCAAAGCTCGCATGAATAAAAAGATTAAAA
25787285 AT
1 AT
25787287 GATCCATATT
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
111 2 0.02
112 98 0.98
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (112 bp):
ATCGTTGGACCACTAACCGCTATTTCAATGCAAAAATGCTTGAATAGGATTGTAAGGAGGATAAA
ATTGAATTGTATTGAAGGCAAAGCTCGCATGAATAAAAAGATTAAAA
Found at i:25787634 original size:10 final size:9
Alignment explanation
Indices: 25787594--25787658 Score: 80
Period size: 9 Copynumber: 7.3 Consensus size: 9
25787584 TCGACCTCTC
25787594 TTTTTTC-T
1 TTTTTTCTT
*
25787602 TTTTTCCTT
1 TTTTTTCTT
*
25787611 CTCTTTTC-T
1 -TTTTTTCTT
*
25787620 TTTTTCCTT
1 TTTTTTCTT
25787629 TTTTTTCTT
1 TTTTTTCTT
25787638 TTTTTTCTT
1 TTTTTTCTT
25787647 TTTTTTCTT
1 TTTTTTCTT
25787656 TTT
1 TTT
25787659 GGGTGAATAC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
8 11 0.23
9 32 0.67
10 5 0.10
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:25787658 original size:7 final size:7
Alignment explanation
Indices: 25787592--25787650 Score: 50
Period size: 7 Copynumber: 8.1 Consensus size: 7
25787582 CCTCGACCTC
25787592 TCTTTTT
1 TCTTTTT
25787599 TCTTTTT
1 TCTTTTT
25787606 TCCTTCTCTTT
1 T-C-T-T-TTT
25787617 TCTTTTT
1 TCTTTTT
*
25787624 TCCTTTT
1 TCTTTTT
*
25787631 T-TTTCT
1 TCTTTTT
25787637 T-TTTTT
1 TCTTTTT
25787643 TCTTTTT
1 TCTTTTT
25787650 T
1 T
25787651 TTCTTTTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 9 0.21
7 24 0.56
8 2 0.05
9 2 0.05
10 2 0.05
11 4 0.09
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TCTTTTT
Found at i:25794912 original size:52 final size:52
Alignment explanation
Indices: 25794847--25795033 Score: 286
Period size: 52 Copynumber: 3.6 Consensus size: 52
25794837 TTTCCCATTT
* * * *
25794847 TATACTCATGATGACACAAAGTCATCGGACCTTA-AATCTGTAATAGGATCCA
1 TATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAA-AGGATTCA
*
25794899 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCA
* *
25794951 TATACTCACGATGACACATAGTCATCGAAACTTATAATCCGTAAAGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCA
*
25795003 TATACTCACAATGACACATAGTCATCGGACC
1 TATACTCACGATGACACATAGTCATCGGACC
25795034 CTTTTTTTCA
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
52 115 0.93
53 8 0.07
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (52 bp):
TATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATTCA
Found at i:25796986 original size:18 final size:17
Alignment explanation
Indices: 25796963--25796996 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25796953 AGTTTGGGCC
25796963 ATTTGGGCTTTAGGTTTA
1 ATTTGGG-TTTAGGTTTA
*
25796981 ATTTGGGTTTGGGTTT
1 ATTTGGGTTTAGGTTT
25796997 TTAGGGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.03, G:0.32, T:0.53
Consensus pattern (17 bp):
ATTTGGGTTTAGGTTTA
Found at i:25797897 original size:21 final size:21
Alignment explanation
Indices: 25797873--25797945 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
25797863 CTTATAACTT
25797873 CTACCGATACAAGTACATAAA
1 CTACCGATACAAGTACATAAA
* *
25797894 CTACCGATAC--CTACTATGTAA
1 CTACCGATACAAGTAC-AT-AAA
*
25797915 CTACCGATAAAAGTACATAAA
1 CTACCGATACAAGTACATAAA
25797936 CTACCGATAC
1 CTACCGATAC
25797946 TTCTAATTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 3 0.07
20 2 0.05
21 32 0.76
22 2 0.05
23 3 0.07
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.22
Consensus pattern (21 bp):
CTACCGATACAAGTACATAAA
Found at i:25802488 original size:8 final size:8
Alignment explanation
Indices: 25802475--25802557 Score: 51
Period size: 9 Copynumber: 9.5 Consensus size: 8
25802465 GCATTTAATT
25802475 AAATTTTA
1 AAATTTTA
25802483 AAATTTTA
1 AAATTTTA
25802491 AAATTATTAGA
1 AAATT-TT--A
25802502 AAATTTTA
1 AAATTTTA
*
25802510 TAATTTTTA
1 -AAATTTTA
**
25802519 CACTTTTTA
1 -AAATTTTA
25802528 AATATTTTA
1 AA-ATTTTA
*
25802537 ATGATTTT-
1 A-AATTTTA
25802545 AAATTTTGA
1 AAATTTT-A
25802554 AAAT
1 AAAT
25802558 AACTTTTATA
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
7 5 0.08
8 16 0.27
9 31 0.52
10 2 0.03
11 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (8 bp):
AAATTTTA
Found at i:25807959 original size:17 final size:17
Alignment explanation
Indices: 25807937--25807975 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
25807927 AACTTTTGAT
* *
25807937 TTTAAATTTATATTAAG
1 TTTAAATTGATATTAAA
*
25807954 TTTAAATTGATTTTAAA
1 TTTAAATTGATATTAAA
25807971 TTTAA
1 TTTAA
25807976 TAAAGAGTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTAAATTGATATTAAA
Found at i:25808721 original size:16 final size:16
Alignment explanation
Indices: 25808700--25808733 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
25808690 TTGAATGAAT
25808700 ATTAATATTAATAATA
1 ATTAATATTAATAATA
25808716 ATTAATATTAATAATA
1 ATTAATATTAATAATA
25808732 AT
1 AT
25808734 AAAGTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAATATTAATAATA
Found at i:25810043 original size:15 final size:16
Alignment explanation
Indices: 25810021--25810067 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
25810011 AAATACGAAG
*
25810021 TAATATAATAAGCAGA
1 TAATATAATATGCAGA
25810037 TAA-ATAATATGC-GA
1 TAATATAATATGCAGA
*
25810051 AAATATAATATGCAGA
1 TAATATAATATGCAGA
25810067 T
1 T
25810068 GCAAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 17 0.65
16 5 0.19
ACGTcount: A:0.53, C:0.06, G:0.13, T:0.28
Consensus pattern (16 bp):
TAATATAATATGCAGA
Found at i:25810058 original size:30 final size:30
Alignment explanation
Indices: 25810022--25810082 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
25810012 AATACGAAGT
25810022 AATATAATAAGCAGAT-AAATAATATGCGAA
1 AATATAATAAGCAGATCAAATAA-ATGCGAA
*
25810052 AATATAATATGCAGATGCAAATAAATGCGAA
1 AATATAATAAGCAGAT-CAAATAAATGCGAA
25810083 TATTGGTGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 15 0.54
31 7 0.25
32 6 0.21
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (30 bp):
AATATAATAAGCAGATCAAATAAATGCGAA
Found at i:25810304 original size:30 final size:30
Alignment explanation
Indices: 25810261--25810547 Score: 325
Period size: 30 Copynumber: 9.6 Consensus size: 30
25810251 TGGCAAAATC
* *
25810261 AGGGTTAAAAATGTAATATTGGAAAAGTTTT
1 AGGGTT-AAAATGTAATTTTAGAAAAGTTTT
* * *
25810292 AGGGTTAAAATGTAATATCAAAAAAGTTTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
* *
25810322 AGGGTTAAAATGTGATTTTGGAAAAGTTTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
* *
25810352 AGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
*
25810382 AGGGTCAAAATGTAATTTTTAG-AAAGTTTT
1 AGGGTTAAAATGTAA-TTTTAGAAAAGTTTT
* *
25810412 AGGGGT-AAATGCAATTTTTAG-AAAGTTTT
1 AGGGTTAAAATGTAA-TTTTAGAAAAGTTTT
25810441 -GAGGTTAAAATGTAATTTTAGAAAAGTTTT
1 AG-GGTTAAAATGTAATTTTAGAAAAGTTTT
* *
25810471 GGGGTTAAAATGCAATTTTA-AAAAGTTTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
* *
25810500 AAGGTCAAAATGTAATTTTAG-AAAGTTTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
* * *
25810529 AAGGTCAAAATATAATTTT
1 AGGGTTAAAATGTAATTTT
25810548 TAGGTAGTTT
Statistics
Matches: 228, Mismatches: 22, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
28 1 0.00
29 82 0.36
30 133 0.58
31 12 0.05
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (30 bp):
AGGGTTAAAATGTAATTTTAGAAAAGTTTT
Found at i:25810958 original size:5 final size:5
Alignment explanation
Indices: 25810940--25810976 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
25810930 ATCCTAGAGG
*
25810940 CGGGTT CGGGT CGGAT CGGGT CGGGT CGGGT CGGGT C
1 CGGG-T CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT C
25810977 CGCGGATACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.03, C:0.22, G:0.54, T:0.22
Consensus pattern (5 bp):
CGGGT
Found at i:25811284 original size:18 final size:19
Alignment explanation
Indices: 25811261--25811309 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
25811251 TGATTTCCCT
25811261 TCCTTTTTCTTTCTTT-TC
1 TCCTTTTTCTTTCTTTCTC
*
25811279 TCCTTTTT-TATCTTTCTC
1 TCCTTTTTCTTTCTTTCTC
*
25811297 TCTTTTTTTCTTT
1 TC-CTTTTTCTTT
25811310 TTTAAAACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 6 0.24
18 12 0.48
19 5 0.20
20 2 0.08
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (19 bp):
TCCTTTTTCTTTCTTTCTC
Found at i:25811294 original size:25 final size:25
Alignment explanation
Indices: 25811266--25811313 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25811256 TCCCTTCCTT
*
25811266 TTTCTTTCTTTTCTCCTTTTTTATC
1 TTTCTCTCTTTTCTCCTTTTTTATC
* *
25811291 TTTCTCTCTTTTTTTCTTTTTTA
1 TTTCTCTCTTTTCTCCTTTTTTA
25811314 AAACCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTCTCTCTTTTCTCCTTTTTTATC
Found at i:25811296 original size:16 final size:15
Alignment explanation
Indices: 25811265--25811309 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 15
25811255 TTCCCTTCCT
25811265 TTTTCTTTCTTTTCTCC
1 TTTT-TTTC-TTTCTCC
25811282 TTTTTTATCTTTCTCTC
1 TTTTTT-TCTTTCTC-C
25811299 TTTTTTTCTTT
1 TTTTTTTCTTT
25811310 TTTAAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTCTTTCTCC
Found at i:25812436 original size:6 final size:6
Alignment explanation
Indices: 25812421--25812479 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
25812411 TTAAATTTGA
* * *
25812421 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT AAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
25812469 ATAAAT TTAAA
1 TTAAAT TTAAA
25812480 ACCCATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:25812455 original size:14 final size:14
Alignment explanation
Indices: 25812436--25812463 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25812426 CTTAAATTTA
25812436 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
25812450 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
25812464 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:25812954 original size:76 final size:76
Alignment explanation
Indices: 25812828--25813364 Score: 887
Period size: 76 Copynumber: 7.0 Consensus size: 76
25812818 TTGAAAATTC
* * *
25812828 ATCTTGCTCTTACTAT-AACTTCAAAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 ATCTTGCTCTTACT-TCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
25812892 GGATAGGAAATG
65 GGATAGGAAATG
*
25812904 ATCTTGCTCTTACTTCAATTTCAGAGATACAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
25812969 GATAGGAAATG
66 GATAGGAAATG
25812980 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
*
25813045 AGGATAGGAAAAG
64 AGGATAGGAAATG
* * * *
25813058 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
25813123 GATAGGAAATG
66 GATAGGAAATG
** *
25813134 ATCTTGCTCTTACTTCAATTTCAGAGATGCAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
25813199 GATAGGAAATG
66 GATAGGAAATG
*
25813210 ATCTTGCTCTTACTTCAATTTCAGAGATACAGACTTGATATCCAGTCTTTACTTCAATTTCAAGA
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAG-CTTTACTTCAATTTCAAGA
25813275 GGATAGGAAATG
65 GGATAGGAAATG
* * *
25813287 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
25813352 GATAGGAAATG
66 GATAGGAAATG
25813363 AT
1 AT
25813365 GTTGGTGCTC
Statistics
Matches: 435, Mismatches: 22, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
75 1 0.00
76 288 0.66
77 73 0.17
78 73 0.17
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:25813132 original size:154 final size:152
Alignment explanation
Indices: 25812828--25813455 Score: 889
Period size: 154 Copynumber: 4.0 Consensus size: 152
25812818 TTGAAAATTC
* * * *
25812828 ATCTTGCTCTTACTAT-AACTTCAAAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 ATCTTGCTCTTACT-TCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGA
* * *
25812892 GGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATACAGACTTGATATCCAGCTTTACTT
65 GGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTT
25812957 CAATTTCAAGAGGATAGGAAATG
130 CAATTTCAAGAGGATAGGAAATG
*
25812980 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAG
* * *
25813045 AGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACT
64 AGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACT
25813110 TCAATTTCAAGAGGATAGGAAATG
129 TCAATTTCAAGAGGATAGGAAATG
**
25813134 ATCTTGCTCTTACTTCAATTTCAGAGATGCAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
* * *
25813199 GATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATACAGACTTGATATCCAGTCTTTACTT
66 GATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAG-CTCTACTT
25813264 CAATTTCAAGAGGATAGGAAATG
130 CAATTTCAAGAGGATAGGAAATG
* *
25813287 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
* *
25813352 GATAGGAAATGATGTTGGTGCTCCGTCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTT
66 GATAGGAAA--A-------G----ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGAT
*
25813417 ATCCAGCTCTACTTCAATTTCAAGAGGATAGGAGATG
116 ATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAATG
25813454 AT
1 AT
25813456 GTTTGATTGA
Statistics
Matches: 429, Mismatches: 28, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
151 1 0.00
152 110 0.26
153 100 0.23
154 144 0.34
162 1 0.00
166 21 0.05
167 31 0.07
168 21 0.05
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (152 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
GATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTC
AATTTCAAGAGGATAGGAAATG
Found at i:25813441 original size:91 final size:89
Alignment explanation
Indices: 25813288--25813458 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 89
25813278 TAGGAAATGA
25813288 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
25813353 ATAGGAAATGATGTTGGTGCTCCG
66 ATAGGAAATGATGTTGGTGCTCCG
*
25813377 TCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTCTACTTCAATTTCAAGA
1 TCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA
*
25813442 GGATAGGAGATGATGTT
64 GGATAGGAAATGATGTT
25813459 TGATTGATCT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
89 21 0.27
91 57 0.73
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (89 bp):
TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
ATAGGAAATGATGTTGGTGCTCCG
Found at i:25825485 original size:30 final size:30
Alignment explanation
Indices: 25825449--25825509 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
25825439 AATACGAAGC
*
25825449 AATATAATAAGCAGAT-AAATAATATGCGAA
1 AATATAAGAAGCAGATCAAATAA-ATGCGAA
*
25825479 AATATAAGATGCAGATGCAAATAAATGCGAA
1 AATATAAGAAGCAGAT-CAAATAAATGCGAA
25825510 TATTGGTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 14 0.52
31 7 0.26
32 6 0.22
ACGTcount: A:0.54, C:0.08, G:0.16, T:0.21
Consensus pattern (30 bp):
AATATAAGAAGCAGATCAAATAAATGCGAA
Found at i:25825589 original size:28 final size:29
Alignment explanation
Indices: 25825548--25825620 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
25825538 ATCAAGGTTG
* *
25825548 AAAATGGGACTTTTGGA-TACCCG-GGGGC
1 AAAATGGTAATTTTGGACT-CCCGAGGGGC
**
25825576 AAAATGGTAATTTTGGACTTTCGAGGGGC
1 AAAATGGTAATTTTGGACTCCCGAGGGGC
25825605 AAAATGGTAATTTTGG
1 AAAATGGTAATTTTGG
25825621 TGAAATTGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 17 0.44
29 22 0.56
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (29 bp):
AAAATGGTAATTTTGGACTCCCGAGGGGC
Found at i:25825729 original size:30 final size:30
Alignment explanation
Indices: 25825689--25826005 Score: 373
Period size: 30 Copynumber: 10.6 Consensus size: 30
25825679 TGGCAAAATC
* * *
25825689 AGGGTCAAAATGTAATGTTGGAAAAGTTTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
* *
25825719 -GAGGTTAAAATGTAATATTAAAAAAGTTTT
1 AG-GGTTAAAATGTAATTTTAGAAAAGTTTT
* * *
25825749 TGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
*
25825779 AGGGTTAAAATGCAATTTTTAGAAAA-TTTT
1 AGGGTTAAAATGTAA-TTTTAGAAAAGTTTT
*
25825809 GAGGG-CAAAATGTAATTTTTA-AAAAGTTTT
1 -AGGGTTAAAATGTAA-TTTTAGAAAAGTTTT
25825839 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
*
25825869 AGGGTTAAAATGTAATTTT-GGAAAGTTTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
*
25825898 AGGGTTAAAATGCAATTTTTAG-AAAGTTTT
1 AGGGTTAAAATGTAA-TTTTAGAAAAGTTTT
25825928 AGGGTTAAAATGTAATTTTAG-AAAGTTTT
1 AGGGTTAAAATGTAATTTTAGAAAAGTTTT
*
25825957 AGGGTTTAAATGTAAATTTTAG-AAAGTTTT
1 AGGGTTAAAATGT-AATTTTAGAAAAGTTTT
* *
25825987 -GAGGTAAAAATATAATTTT
1 AG-GGTTAAAATGTAATTTT
25826006 TGGGCAGTTT
Statistics
Matches: 254, Mismatches: 22, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
29 70 0.28
30 169 0.67
31 15 0.06
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.39
Consensus pattern (30 bp):
AGGGTTAAAATGTAATTTTAGAAAAGTTTT
Found at i:25825898 original size:59 final size:59
Alignment explanation
Indices: 25825689--25826005 Score: 385
Period size: 59 Copynumber: 5.3 Consensus size: 59
25825679 TGGCAAAATC
* * *
25825689 AGGGTCAAAATGTAATGTTGGAAAAGTTTT-GAGGTTAAAATGTAATATTAAAAAAGTTTT
1 AGGGTCAAAATGTAATTTTGG-AAAGTTTTAG-GGTTAAAATGTAATTTTAGAAAAGTTTT
* *
25825749 TGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTTAAAATGCAATTTTTAGAAAA-TTTT
1 AGGGTCAAAATGTAATTTTGG-AAAGTTTTAGGGTTAAAATGTAA-TTTTAGAAAAGTTTT
**
25825809 GAGGG-CAAAATGTAATTTTTAAAAAGTTTTAGGGTTAAAATGTAATTTTAGAAAAGTTTT
1 -AGGGTCAAAATGTAA-TTTTGGAAAGTTTTAGGGTTAAAATGTAATTTTAGAAAAGTTTT
* *
25825869 AGGGTTAAAATGTAATTTTGGAAAGTTTTAGGGTTAAAATGCAATTTTTAG-AAAGTTTT
1 AGGGTCAAAATGTAATTTTGGAAAGTTTTAGGGTTAAAATGTAA-TTTTAGAAAAGTTTT
* * *
25825928 AGGGTTAAAATGTAATTTTAGAAAGTTTTAGGGTTTAAATGTAAATTTTAG-AAAGTTTT
1 AGGGTCAAAATGTAATTTTGGAAAGTTTTAGGGTTAAAATGT-AATTTTAGAAAAGTTTT
* *
25825987 -GAGGTAAAAATATAATTTT
1 AG-GGTCAAAATGTAATTTT
25826006 TGGGCAGTTT
Statistics
Matches: 230, Mismatches: 18, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
58 1 0.00
59 116 0.50
60 97 0.42
61 16 0.07
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.39
Consensus pattern (59 bp):
AGGGTCAAAATGTAATTTTGGAAAGTTTTAGGGTTAAAATGTAATTTTAGAAAAGTTTT
Found at i:25826725 original size:17 final size:18
Alignment explanation
Indices: 25826702--25826744 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
25826692 TTTCTTTTTC
25826702 TTTTCTTTTCTC-CTTT-
1 TTTTCTTTTCTCTCTTTA
25826718 TTTATC-TTTCTCTCTTTA
1 TTT-TCTTTTCTCTCTTTA
25826736 TTTTCTTTT
1 TTTTCTTTT
25826745 TTAAAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCTTTTCTCTCTTTA
Found at i:25826727 original size:16 final size:17
Alignment explanation
Indices: 25826702--25826743 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
25826692 TTTCTTTTTC
25826702 TTTTCTTT-TCTCCTTT-
1 TTTTCTTTCTCT-CTTTA
25826718 TTTATCTTTCTCTCTTTA
1 TTT-TCTTTCTCTCTTTA
25826736 TTTTCTTT
1 TTTTCTTT
25826744 TTTAAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 14 0.61
18 6 0.26
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCTTTCTCTCTTTA
Found at i:25827045 original size:15 final size:15
Alignment explanation
Indices: 25827025--25827053 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25827015 TTTTATATAT
25827025 ATTTTATTATTAATA
1 ATTTTATTATTAATA
25827040 ATTTTATTATTAAT
1 ATTTTATTATTAAT
25827054 GCTGCCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTATTATTAATA
Found at i:25827899 original size:14 final size:14
Alignment explanation
Indices: 25827880--25827907 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25827870 ACTTAAATTT
25827880 AAAGTAAATTTAAA
1 AAAGTAAATTTAAA
25827894 AAAGTAAATTTAAA
1 AAAGTAAATTTAAA
25827908 TTTAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAGTAAATTTAAA
Found at i:25827910 original size:31 final size:31
Alignment explanation
Indices: 25827867--25827925 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
25827857 TAAATTTGAT
*
25827867 TAAACTTAAATTTAAAGTAAATTTAAAAAAG
1 TAAACTTAAATTTAAAATAAATTTAAAAAAG
*
25827898 TAAATTTAAATTTAAAATAAATTTAAAA
1 TAAACTTAAATTTAAAATAAATTTAAAA
25827926 CCCATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (31 bp):
TAAACTTAAATTTAAAATAAATTTAAAAAAG
Found at i:25828994 original size:30 final size:30
Alignment explanation
Indices: 25828952--25829131 Score: 122
Period size: 30 Copynumber: 6.1 Consensus size: 30
25828942 AAAGGTCCCT
*
25828952 AAACTATC-CAAAAATAATATTTTGACCCCC
1 AAACT-TCTCAAAAATAATATTTTTACCCCC
*
25828982 AAACTTCTCAAAAA-ATATATTTTTACCCCT
1 AAACTTCTCAAAAATA-ATATTTTTACCCCC
* * * **
25829012 AAACTT-TCCAAAAATTACATTTTAACCCTA
1 AAACTTCT-CAAAAATAATATTTTTACCCCC
*** * *
25829042 AAACTTCTCAAAAATTGCATTTTCA-CCCT
1 AAACTTCTCAAAAATAATATTTTTACCCCC
* *
25829071 AAACTT-TCCAAAAATTATATTTTTACCCTC
1 AAACTTCT-CAAAAATAATATTTTTACCCCC
* * *
25829101 AAAATTC-C-AAAATTACATTTTTACCCCC
1 AAACTTCTCAAAAATAATATTTTTACCCCC
25829129 AAA
1 AAA
25829132 TCTCCAAAAA
Statistics
Matches: 123, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
28 22 0.18
29 27 0.22
30 73 0.59
31 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.01, T:0.33
Consensus pattern (30 bp):
AAACTTCTCAAAAATAATATTTTTACCCCC
Found at i:25829025 original size:29 final size:29
Alignment explanation
Indices: 25828948--25829142 Score: 152
Period size: 29 Copynumber: 6.7 Consensus size: 29
25828938 CCCAAAAGGT
* *
25828948 CCCTAAACTATCCAAAAATAATATTTTGAC
1 CCCTAAACTTTCCAAAAAT-ATATTTTTAC
* *
25828978 CCCCAAACTTCTCAAAAAATATATTTTTAC
1 CCCTAAACTT-TCCAAAAATATATTTTTAC
* *
25829008 CCCTAAACTTTCCAAAAAT-TACATTTTAA
1 CCCTAAACTTTCCAAAAATATA-TTTTTAC
*
25829037 CCCTAAAAC-TTCTCAAAAAT-TGCATTTTCA-
1 CCCT-AAACTTTC-CAAAAATAT--ATTTTTAC
25829067 CCCTAAACTTTCCAAAAATTATATTTTTA-
1 CCCTAAACTTTCCAAAAA-TATATTTTTAC
* * *
25829096 CCCTCAAA-ATTCCAAAATTACATTTTTAC
1 CCCT-AAACTTTCCAAAAATATATTTTTAC
* *
25829125 CCCCAAA-TCTCCAAAAAT
1 CCCTAAACTTTCCAAAAAT
25829143 TCCATTTTTT
Statistics
Matches: 136, Mismatches: 18, Indels: 24
0.76 0.10 0.13
Matches are distributed among these distances:
28 22 0.16
29 51 0.38
30 49 0.36
31 13 0.10
32 1 0.01
ACGTcount: A:0.40, C:0.26, G:0.01, T:0.33
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAAATATATTTTTAC
Found at i:25829084 original size:59 final size:60
Alignment explanation
Indices: 25828948--25829150 Score: 227
Period size: 60 Copynumber: 3.5 Consensus size: 60
25828938 CCCAAAAGGT
* * * * ** * *
25828948 CCCTAAACTATCCAAAAATAATATTTTGACCCCCAAACTTCTCAAAAAATATATTTTTAC
1 CCCTAAACTTTCCAAAAATTACATTTTAACCCTAAAACTTCTCAAAAATTACATTTTTAC
* *
25829008 CCCTAAACTTTCCAAAAATTACATTTTAACCCTAAAACTTCTCAAAAATTGCATTTTCA-
1 CCCTAAACTTTCCAAAAATTACATTTTAACCCTAAAACTTCTCAAAAATTACATTTTTAC
* *
25829067 CCCTAAACTTTCCAAAAATTATATTTTTACCCTCAAAA-TTC-C-AAAATTACATTTTTAC
1 CCCTAAACTTTCCAAAAATTACATTTTAACCCT-AAAACTTCTCAAAAATTACATTTTTAC
* * *
25829125 CCCCAAA-TCTCCAAAAATTCCATTTT
1 CCCTAAACTTTCCAAAAATTACATTTT
25829151 TTACCTTGAA
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
57 29 0.24
58 7 0.06
59 34 0.28
60 53 0.43
ACGTcount: A:0.39, C:0.26, G:0.01, T:0.34
Consensus pattern (60 bp):
CCCTAAACTTTCCAAAAATTACATTTTAACCCTAAAACTTCTCAAAAATTACATTTTTAC
Found at i:25829143 original size:29 final size:29
Alignment explanation
Indices: 25828958--25829238 Score: 144
Period size: 29 Copynumber: 9.6 Consensus size: 29
25828948 CCCTAAACTA
* * *
25828958 TCCAAAAATAATATTTTGACCCCCAAA-C
1 TCCAAAAATTACATTTTTACCCCCAAATC
* * * *
25828986 TTCTCAAAAAATATATTTTTACCCCTAAACTT
1 -TC-CAAAAATTACATTTTTACCCCCAAA-TC
* * *
25829018 TCCAAAAATTACA-TTTTAACCCTAAAAC
1 TCCAAAAATTACATTTTTACCCCCAAATC
* * * *
25829046 TTCTCAAAAATTGCATTTTCA-CCCTAAACTT
1 -TC-CAAAAATTACATTTTTACCCCCAAA-TC
* *
25829077 TCCAAAAATTATATTTTTACCCTCAAAAT-
1 TCCAAAAATTACATTTTTACCC-CCAAATC
25829106 TCC-AAAATTACATTTTTACCCCCAAATC
1 TCCAAAAATTACATTTTTACCCCCAAATC
* *** *
25829134 TCCAAAAATTCCATTTTTTA-CCTTGAATT
1 TCCAAAAATTACA-TTTTTACCCCCAAATC
* * * *
25829163 TCCAAAAATTACCA-TTTTACCCTCGAGTT
1 TCCAAAAATTA-CATTTTTACCCCCAAATC
* ** * *
25829192 TCTAAAAATTACCGTTTTACCCCCGAACC
1 TCCAAAAATTACATTTTTACCCCCAAATC
*
25829221 TCTAAAAATTACCATTTT
1 TCCAAAAATTA-CATTTT
25829239 ACTCTGAGCA
Statistics
Matches: 200, Mismatches: 36, Indels: 31
0.75 0.13 0.12
Matches are distributed among these distances:
27 5 0.03
28 26 0.13
29 95 0.47
30 64 0.32
31 10 0.05
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTACCCCCAAATC
Found at i:25836642 original size:60 final size:60
Alignment explanation
Indices: 25836568--25836686 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 60
25836558 TACATTAGTA
* * * *
25836568 ATCACCTAACTATTAGTAAATTTCTCTTTTGGTAATCTAATTATGAAAAGTTACAAAATG
1 ATCACCCAACTATTAGTAAATTTCTCTTTTGGTAACCCAACTATGAAAAGTTACAAAATG
* * *
25836628 ATCACCCAACTATTAGTAAATTTCTTTTTTGGTCACCCAACTATGAAAAGTTATAAAAT
1 ATCACCCAACTATTAGTAAATTTCTCTTTTGGTAACCCAACTATGAAAAGTTACAAAAT
25836687 AATAACTTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (60 bp):
ATCACCCAACTATTAGTAAATTTCTCTTTTGGTAACCCAACTATGAAAAGTTACAAAATG
Found at i:25836838 original size:60 final size:61
Alignment explanation
Indices: 25836772--25836905 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 61
25836762 TAGTTAGCTA
* * *
25836772 GTGACCAAAAAAGACAAAATT-GAATAGTTGGGTGATCATTTTATAACTTTTCATAGTTGG
1 GTGACCAAAAAAGACAAAATTAGAATAGTTGAGTGACCATTTTATAACTTTTCATAGTTAG
* * * * * *
25836832 GTGACC-AAAAA-ATAAATTTACTAATAGTTGAGTGACCATTTTGTAATTTTTTATAGTTAG
1 GTGACCAAAAAAGACAAAATTA-GAATAGTTGAGTGACCATTTTATAACTTTTCATAGTTAG
*
25836892 GTGATCAAAAAAGA
1 GTGACCAAAAAAGA
25836906 AATTTACTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
58 6 0.10
59 5 0.08
60 43 0.72
61 5 0.08
62 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (61 bp):
GTGACCAAAAAAGACAAAATTAGAATAGTTGAGTGACCATTTTATAACTTTTCATAGTTAG
Found at i:25836909 original size:60 final size:60
Alignment explanation
Indices: 25836794--25836927 Score: 187
Period size: 60 Copynumber: 2.2 Consensus size: 60
25836784 GACAAAATTG
* * * *
25836794 AATAGTTGGGTGATCATTTTATAACTTTTCATAGTTGGGTGACCAAAAAATAAATTTACT
1 AATAGTTGAGTGACCATTTTATAACTTTTCATAGTTAGGTGACCAAAAAAGAAATTTACT
* * * *
25836854 AATAGTTGAGTGACCATTTTGTAATTTTTTATAGTTAGGTGATCAAAAAAGAAATTTACT
1 AATAGTTGAGTGACCATTTTATAACTTTTCATAGTTAGGTGACCAAAAAAGAAATTTACT
*
25836914 AATAATTGAGTGAC
1 AATAGTTGAGTGAC
25836928 TACTAGTGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (60 bp):
AATAGTTGAGTGACCATTTTATAACTTTTCATAGTTAGGTGACCAAAAAAGAAATTTACT
Found at i:25837298 original size:19 final size:20
Alignment explanation
Indices: 25837260--25837307 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
25837250 ACAAATTTTA
25837260 AAAAATAATATTTATAAACAGT
1 AAAAA-AATATTTATAAACA-T
25837282 AAAAAAATA-TT-TAAACAT
1 AAAAAAATATTTATAAACAT
25837300 AAATAAAA
1 AAA-AAAA
25837308 AAAAGTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.16
19 10 0.40
20 2 0.08
21 4 0.16
22 5 0.20
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAAAATATTTATAAACAT
Found at i:25837713 original size:124 final size:125
Alignment explanation
Indices: 25837568--25837807 Score: 351
Period size: 124 Copynumber: 1.9 Consensus size: 125
25837558 CTTTTTGCTC
* *
25837568 AAAAATTATATAAAATAATAATTAAAAATTCGAAATTTAA-AAAGTCAATGTAAGACCAAATCTT
1 AAAAATTATATAAAATAATAATTAAAAATTCCAAA-TTAAGAAAATCAATGTAAGACCAAATCTT
* *
25837632 TTCCATATTTATTTATCATGACCT-CA-TTAAAAAAAGTAGAATGACGCATTGCAATATAA
65 TTCCATATTGATTTATCATAACCTCCATTTAAAAAAAGTAGAATGACGCATTGCAATATAA
*
25837691 AAAAATTTATATAAAATAATAATTAAAATTTCCAAATTAAGAAAATCAATGTAAGACCAAATCTT
1 AAAAA-TTATATAAAATAATAATTAAAAATTCCAAATTAAGAAAATCAATGTAAGACCAAATCTT
* * ** *
25837756 TTCCATATTGATTTCTCATAACTTCCATTTAAAAAGGGTAGAATGATGCATT
65 TTCCATATTGATTTATCATAACCTCCATTTAAAAAAAGTAGAATGACGCATT
25837808 CTTATATAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
123 9 0.09
124 71 0.69
125 2 0.02
126 21 0.20
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (125 bp):
AAAAATTATATAAAATAATAATTAAAAATTCCAAATTAAGAAAATCAATGTAAGACCAAATCTTT
TCCATATTGATTTATCATAACCTCCATTTAAAAAAAGTAGAATGACGCATTGCAATATAA
Found at i:25841093 original size:60 final size:60
Alignment explanation
Indices: 25841002--25841214 Score: 218
Period size: 60 Copynumber: 3.5 Consensus size: 60
25840992 TTTTTGTCAG
* ***
25841002 AAAAAAATTT-AAATTTTTTTTGGTGTTGGCCATTTGATGGCCGACACCCCCTTTTCTCGA
1 AAAAAAATTTCAAA-ATTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGA
** *
25841062 AAAAAAGA-TTCAAAATTTTTTGGTGTTGGCCATCAAATGATCGACA-CCCCTTATCTCGA
1 AAAAAA-ATTTCAAAATTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGA
* * *
25841121 GAAAAAAATTTCAAATTTTTTTTGTGTTGGCTATCAAATGGCCGACACCCCCTATTTCTCG-
1 -AAAAAAATTTCAAAATTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCT-TTTCTCGA
* *** * *
25841182 AGAAAAATTTTTGATTTTTTTTGTGTTGGCCAT
1 AAAAAAATTTCAAAATTTTTTGGTGTTGGCCAT
25841215 TTTTCTCGAA
Statistics
Matches: 129, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
59 13 0.10
60 101 0.78
61 9 0.07
62 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (60 bp):
AAAAAAATTTCAAAATTTTTTGGTGTTGGCCATCAAATGGCCGACACCCCCTTTTCTCGA
Found at i:25842080 original size:17 final size:17
Alignment explanation
Indices: 25842060--25842140 Score: 81
Period size: 17 Copynumber: 4.8 Consensus size: 17
25842050 TTTAAATCTT
* *
25842060 AATTCATTTTGATTTTA
1 AATTTATTTTGAATTTA
* * *
25842077 AATTTACTATAAATTTA
1 AATTTATTTTGAATTTA
* * *
25842094 AACTTATTTGGAGTTTA
1 AATTTATTTTGAATTTA
*
25842111 AATTTATTTTAAATTTA
1 AATTTATTTTGAATTTA
25842128 AATTTATTTTGAA
1 AATTTATTTTGAA
25842141 ATAAAAATTT
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 48 1.00
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (17 bp):
AATTTATTTTGAATTTA
Found at i:25842092 original size:24 final size:24
Alignment explanation
Indices: 25842040--25842092 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
25842030 AATTAAACTC
*
25842040 AATTTTAGATTTTAAATCTTAATT
1 AATTTTAGATTTTAAATCTTAATA
*
25842064 CATTTT-GATTTTAAAT-TTACTATA
1 AATTTTAGATTTTAAATCTTA--ATA
25842088 AATTT
1 AATTT
25842093 AAACTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 3 0.12
23 10 0.42
24 11 0.46
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
AATTTTAGATTTTAAATCTTAATA
Found at i:25842148 original size:18 final size:17
Alignment explanation
Indices: 25842110--25842151 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
25842100 TTTGGAGTTT
**
25842110 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATAA
25842127 AAATTTATTTTGAAATAA
1 AAATTTATTTT-AAATAA
25842145 AAATTTA
1 AAATTTA
25842152 AATTTAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
AAATTTATTTTAAATAA
Found at i:25843967 original size:6 final size:6
Alignment explanation
Indices: 25843949--25844083 Score: 113
Period size: 6 Copynumber: 23.0 Consensus size: 6
25843939 TTAAATTGAT
* *
25843949 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTT--A TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
25843992 TTTAGA TTT-AT TTTAAA TTTAAAA TTAAATA TTTAAA TTT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTT-AAA TTTAA-A TTTAAA TTTAAA TTTAAA
** *
25844040 TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A TTTAAA
25844084 AGTCCAAATG
Statistics
Matches: 104, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
4 8 0.08
5 11 0.11
6 64 0.62
7 21 0.20
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:25843985 original size:27 final size:27
Alignment explanation
Indices: 25843947--25844012 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
25843937 AGTTAAATTG
25843947 ATTTTAAATTTATTTAAATTTAGATTT
1 ATTTTAAATTTATTTAAATTTAGATTT
25843974 ATTTTAAATTTATTTAAATTTAGATTT
1 ATTTTAAATTTATTTAAATTTAGATTT
25844001 ATTTTAAATTTA
1 ATTTTAAATTTA
25844013 AAATTAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (27 bp):
ATTTTAAATTTATTTAAATTTAGATTT
Found at i:25844038 original size:11 final size:11
Alignment explanation
Indices: 25843939--25844052 Score: 80
Period size: 11 Copynumber: 10.5 Consensus size: 11
25843929 GACTCTTGAG
* *
25843939 TTAAATTGATT
1 TTAAATTTAAT
25843950 TTAAATTT-AT
1 TTAAATTTAAT
25843960 TTAAATTTAGAT
1 TTAAATTTA-AT
*
25843972 TT-ATTTTAAAT
1 TTAAATTT-AAT
25843983 TT--ATTTAAAT
1 TTAAATTT-AAT
* *
25843993 TTAGATTTATT
1 TTAAATTTAAT
*
25844004 TTAAATTTAAAA
1 TTAAATTT-AAT
25844016 TTAAA--T-AT
1 TTAAATTTAAT
25844024 TTAAATTTAAT
1 TTAAATTTAAT
25844035 TTAAATTTAAAT
1 TTAAATTT-AAT
25844047 TTAAAT
1 TTAAAT
25844053 AAAAATTAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
8 6 0.07
10 20 0.24
11 34 0.40
12 24 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:25844050 original size:37 final size:36
Alignment explanation
Indices: 25843949--25844083 Score: 132
Period size: 37 Copynumber: 3.6 Consensus size: 36
25843939 TTAAATTGAT
* **
25843949 TTTAAATTT-ATTTAAATTTAGATTTATTTTAAATTTA
1 TTTAAATTTAATTTAAATTTAAATTTAAATTAAA--TA
*
25843986 TTTAAATTTAGATTT-ATTTTAAATTTAAAATTAAATA
1 TTTAAATTTA-ATTTAAATTTAAATTT-AAATTAAATA
*
25844023 TTTAAATTTAATTTAAATTTAAATTTAAA-TAAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATTAAATA
*
25844058 TTAAAATATTAAATTTAACATTTAAA
1 TTTAAAT-TT-AATTTAA-ATTTAAA
25844084 AGTCCAAATG
Statistics
Matches: 84, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
35 11 0.13
36 9 0.11
37 38 0.45
38 16 0.19
39 10 0.12
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (36 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATTAAATA
Found at i:25844070 original size:31 final size:30
Alignment explanation
Indices: 25844003--25844083 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
25843993 TTAGATTTAT
* * *
25844003 TTTAAATTTAAAATTAAATATTTAAATTTAA
1 TTTAAATTTAAATTTAAATA-TAAAATTAAA
25844034 TTTAAATTTAAATTTAAATA-AAAATTAAAA
1 TTTAAATTTAAATTTAAATATAAAATT-AAA
25844064 TATTAAATTTAACATTTAAA
1 T-TTAAATTTAA-ATTTAAA
25844084 AGTCCAAATG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 5 0.11
30 3 0.07
31 29 0.66
32 7 0.16
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (30 bp):
TTTAAATTTAAATTTAAATATAAAATTAAA
Found at i:25844131 original size:14 final size:14
Alignment explanation
Indices: 25844112--25844164 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
25844102 CATGGCCCAT
25844112 GGCCCAATTACAAA
1 GGCCCAATTACAAA
25844126 GGCCCAATTACAAA
1 GGCCCAATTACAAA
*
25844140 GGCCCAATT--AAG
1 GGCCCAATTACAAA
25844152 GGCCCAATTACAA
1 GGCCCAATTACAA
25844165 TAGTCCAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 11 0.31
14 25 0.69
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:25844161 original size:26 final size:27
Alignment explanation
Indices: 25844112--25844164 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
25844102 CATGGCCCAT
25844112 GGCCCAATTACAAAGGCCCAATTACAAA
1 GGCCCAATTA-AAAGGCCCAATTACAAA
*
25844140 GGCCCAATT-AAGGGCCCAATTACAA
1 GGCCCAATTAAAAGGCCCAATTACAA
25844165 TAGTCCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.62
28 9 0.38
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.15
Consensus pattern (27 bp):
GGCCCAATTAAAAGGCCCAATTACAAA
Found at i:25844233 original size:20 final size:21
Alignment explanation
Indices: 25844208--25844247 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
25844198 GTGCCTACTG
*
25844208 CTGCTGGCCACC-AGCTCCAT
1 CTGCTGACCACCAAGCTCCAT
25844228 CTGCTGACCACCAAGCTCCA
1 CTGCTGACCACCAAGCTCCA
25844248 CCATGCCCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.20, C:0.45, G:0.17, T:0.17
Consensus pattern (21 bp):
CTGCTGACCACCAAGCTCCAT
Found at i:25845844 original size:161 final size:163
Alignment explanation
Indices: 25845669--25845978 Score: 484
Period size: 162 Copynumber: 1.9 Consensus size: 163
25845659 TCAATTTAGT
* * *
25845669 CCTTTGACTGTTTGACTGTACCATAGGCTGCCACGTGTCA-CTTTTTGGATTATTTCTGCATTTA
1 CCTTTGACTGTTTGACTGCACCAGAGGCTGCCACCTGTCATCTTTTTGGATTATTTCTGCATTTA
* *
25845733 GTCCTTCTTATTTTTTATTTGTTTTAATTTAATCC-CAAATCAAC-TTTATTTTAATTACGAAAT
66 GTCCTTCTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTA-TTTAATTACAAAAT
25845796 TGGCCCAATAA-TTTTTCAAGGTTTATAAACTAGA
130 TGGCCCAA-AATTTTTTCAAGGTTTATAAACTAGA
*
25845830 CCTTTGACTGTTTGACTGCACCAGAGGTTGCCACCTGTCATCTTTTTGGATTATTTCTGCATTTA
1 CCTTTGACTGTTTGACTGCACCAGAGGCTGCCACCTGTCATCTTTTTGGATTATTTCTGCATTTA
* * *
25845895 GTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTTAAATCGACTTTTATTTAATTACAAAATT
66 GTCCTTCTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAAATT
*
25845960 GGTCCAAAATTTTTTCAAG
131 GGCCCAAAATTTTTTCAAG
25845979 ATTTTCAAAT
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
161 36 0.27
162 59 0.44
163 36 0.27
164 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (163 bp):
CCTTTGACTGTTTGACTGCACCAGAGGCTGCCACCTGTCATCTTTTTGGATTATTTCTGCATTTA
GTCCTTCTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAAAATT
GGCCCAAAATTTTTTCAAGGTTTATAAACTAGA
Found at i:25846111 original size:30 final size:30
Alignment explanation
Indices: 25846075--25846270 Score: 276
Period size: 30 Copynumber: 6.6 Consensus size: 30
25846065 AAATTGTCCA
25846075 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCTAAAACTTTTCC
*
25846105 AAAATTACATTTTGACCCCAAAAC-TTTCC
1 AAAATTACATTTTGACCCTAAAACTTTTCC
*
25846134 TAAAATTACATTTTGACCCTAAAACTTTCCC
1 -AAAATTACATTTTGACCCTAAAACTTTTCC
* * *
25846165 AAAATTATATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCTAAAACTTTTCC
25846195 AAAATTACATTTTGACACC-AAAACTTTTCC
1 AAAATTACATTTTGAC-CCTAAAACTTTTCC
*
25846225 AAAATTACATTTCGACCCTAAAA-TTTT-C
1 AAAATTACATTTTGACCCTAAAACTTTTCC
25846253 AAAATTACCATTTT-ACCC
1 AAAATTA-CATTTTGACCC
25846271 CCGAATCTTT
Statistics
Matches: 150, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
28 12 0.08
29 16 0.11
30 116 0.77
31 6 0.04
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCTAAAACTTTTCC
Found at i:25846229 original size:90 final size:88
Alignment explanation
Indices: 25846065--25846294 Score: 295
Period size: 90 Copynumber: 2.6 Consensus size: 88
25846055 GTAAGCCTCT
* * *
25846065 AAATTGTCCAAAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACT
1 AAATT-TCC-AAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACACCAAAACT
*
25846130 TTCCTAAAATTACATTTTGACCCTA
64 TTCCTAAAATTACATTTCGACCCTA
*
25846155 AAACTTTCCCAAAATTATATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACACCAAAACT
1 AAA-TTT-CCAAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACACCAAAAC-
25846220 TTTCC-AAAATTACATTTCGACCCTA
63 TTTCCTAAAATTACATTTCGACCCTA
* * * * *
25846245 AAATTTTCAAAATTACCATTTTACCCCCGAATCTTTT--AAAATTCCATTTT
1 AAATTTCCAAAATTA-CATTTTAACCCCAAAACTTTTCCAAAATTACATTTT
25846295 TAAACCCCGA
Statistics
Matches: 125, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
87 12 0.10
88 8 0.06
89 20 0.16
90 76 0.61
91 9 0.07
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (88 bp):
AAATTTCCAAAATTACATTTTAACCCCAAAACTTTTCCAAAATTACATTTTGACACCAAAACTTT
CCTAAAATTACATTTCGACCCTA
Found at i:25846323 original size:60 final size:59
Alignment explanation
Indices: 25846253--25846563 Score: 389
Period size: 60 Copynumber: 5.2 Consensus size: 59
25846243 TAAAATTTTC
* *
25846253 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTT-AACCCCGATTTCACCG
* * *
25846313 AAAATTACCATTTTACCCCCCCGAAACTTAC-AAAATTCTATTTTTAACCTCGATTTCACCG
1 AAAATTACCATTTTA--CCCCCGAAGCTT-CTAAAATTCCATTTTTAACCCCGATTTCACCG
*
25846374 -AAATTACCATTTTACACCACTCGAAGCTTCTAAAATTTCATTTTT-ACCCCGATTTCACCG
1 AAAATTACCATTTTAC-CC-C-CGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
* * *
25846434 -AAATTACCATTTTACCCCCGAAGCTTCTAAAATTTCATTTTTAACCTCGATTTCACCCA
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCA-CCG
* * * * *
25846493 AAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACA-CT
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
25846551 AAAATTACCATTT
1 AAAATTACCATTT
25846564 GCCCCCGGGT
Statistics
Matches: 223, Mismatches: 18, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
57 24 0.11
58 26 0.12
59 6 0.03
60 109 0.49
61 34 0.15
62 24 0.11
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
Found at i:25846472 original size:28 final size:28
Alignment explanation
Indices: 25846381--25846474 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
25846371 CCGAAATTAC
25846381 CATTTTACACCACTCGAAGCTTCTAAAATTT
1 CATTTTAC-CC-C-CGAAGCTTCTAAAATTT
* *
25846412 CATTTTTA-CCCCG-A-TTTC-ACCGAAATTAC
1 CA-TTTTACCCCCGAAGCTTCTA---AAATT-T
25846441 CATTTTACCCCCGAAGCTTCTAAAATTT
1 CATTTTACCCCCGAAGCTTCTAAAATTT
25846469 CATTTT
1 CATTTT
25846475 TAACCTCGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 21
0.67 0.05 0.28
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 1 0.02
28 18 0.36
29 13 0.26
30 3 0.06
31 5 0.10
32 6 0.12
ACGTcount: A:0.29, C:0.28, G:0.06, T:0.37
Consensus pattern (28 bp):
CATTTTACCCCCGAAGCTTCTAAAATTT
Found at i:25846489 original size:118 final size:119
Alignment explanation
Indices: 25846253--25846563 Score: 427
Period size: 118 Copynumber: 2.6 Consensus size: 119
25846243 TAAAATTTTC
25846253 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAACCCCGATTTCACCGAAAAT
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTT-AACCCCGATTTCACCG-AAAT
25846318 TACCATTTTACCCCCCCGAAACTTACAAAATTCTATTTTTAACCTCGATTTCA-CC-
64 TACCATTTTA-CCCCCCGAAACTTACAAAATTCTATTTTTAACCTCGATTTCACCCA
* * * *
25846373 GAAATTACCATTTTACACCACTCGAAGCTTCTAAAATTTCATTTTT-ACCCCGATTTCACCGAAA
1 AAAATTACCATTTTAC-CC-C-CGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCGAAA
*
25846437 TTACCATTTTA-CCCCCGAAGCTT-CTAAAATT-TCATTTTTAACCTCGATTTCACCCA
63 TTACCATTTTACCCCCCGAAACTTAC-AAAATTCT-ATTTTTAACCTCGATTTCACCCA
* * **
25846493 AAAATTGCCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTACACTAAAATTA
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCGAAATTA
25846558 CCATTT
66 CCATTT
25846564 GCCCCCGGGT
Statistics
Matches: 170, Mismatches: 13, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
117 23 0.14
118 61 0.36
119 4 0.02
120 43 0.25
121 17 0.10
122 1 0.01
123 21 0.12
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (119 bp):
AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCGAAATTA
CCATTTTACCCCCCGAAACTTACAAAATTCTATTTTTAACCTCGATTTCACCCA
Found at i:25846553 original size:29 final size:30
Alignment explanation
Indices: 25846403--25846563 Score: 79
Period size: 29 Copynumber: 5.5 Consensus size: 30
25846393 CTCGAAGCTT
* *
25846403 CTAAAATT-TCATTTTT-ACCCCGATTTCA
1 CTAAAATTACCATTTTTAACCCCGATTACA
** * *
25846431 CCGAAATTACCA-TTTTACCCCCGA--AGCTT
1 CTAAAATTACCATTTTTAACCCCGATTA-C-A
* * *
25846460 CTAAAATT-TCATTTTTAACCTCGATTTCACC
1 CTAAAATTACCATTTTTAACCCCGA-TT-ACA
* * * * *
25846491 CAAAAATTGCCA-TTTTACCCCCGAAT-CTT
1 CTAAAATTACCATTTTTAACCCCGATTAC-A
*
25846520 TTAAAATT-CCATTTTTAACCCCGATTACA
1 CTAAAATTACCATTTTTAACCCCGATTACA
25846549 CTAAAATTACCATTT
1 CTAAAATTACCATTT
25846564 GCCCCCGGGT
Statistics
Matches: 95, Mismatches: 24, Indels: 26
0.66 0.17 0.18
Matches are distributed among these distances:
28 17 0.18
29 49 0.52
30 8 0.08
31 17 0.18
32 3 0.03
33 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.37
Consensus pattern (30 bp):
CTAAAATTACCATTTTTAACCCCGATTACA
Found at i:25858625 original size:67 final size:66
Alignment explanation
Indices: 25858496--25859055 Score: 443
Period size: 68 Copynumber: 8.2 Consensus size: 66
25858486 ACATCGTCCC
* *
25858496 CTTGAAATTGAAGTAGAGTGGATAACATCGTCCCCTTGAAATTGAAGTAGAGTGGATAACACAAT
1 CTTGAAATTGAAGTAGAGTGGACAACA-CATCCCCTTGAAATTGAAGTAGAGTGGATAACAC-AT
25858561 CCT
64 CCT
* * * *
25858564 CTTGAAATTGAAGTAGAGTGGATAACACATCCTCTTGAAATTGAAGAAGAGTAGATAACACATCC
1 CTTGAAATTGAAGTAGAGTGGACAACACATCCCCTTGAAATTGAAGTAGAGTGGATAACACATCC
25858629 -
66 T
* * * ** **
25858629 CCTGAAATTGAAGTAGAGTGGACAACACGTCTTCATCTCTGAAATTGAAGTAAGAG-CAATGTCA
1 CTTGAAATTGAAGTAGAGTGGACAACACATC--C-CCT-TGAAATTGAAGT-AGAGTGGATAACA
25858693 C--CCT
61 CATCCT
* * * *
25858697 CTTGAAATTAAAGAAGAGTGGATAACACATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 CTTGAAATTGAAGTAGAGTGGACAACACATCCCCTTGAAATTGAAGTAGAGTGGATAACACATC-
25858762 TCAT
65 -C-T
* * *
25858766 CTCTGAAATTGAAGTA-AG-AG-CAACGTCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGT
1 CT-TGAAATTGAAGTAGAGTGGACAAC-ACATCCCCTTGAAATTGAAGTAGAGTGGATAACACAT
25858827 CTTCAT
64 C--C-T
* *
25858833 CTCTGAAATTGAAGTA-AG-AG-CAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT
1 CT-TGAAATTGAAGTAGAGTGGACAACA-CATCCCCTTGAAATTGAAGTAGAGTGGATAACACAT
25858895 CTTCAT
64 C--C-T
*
25858901 CTCTGAAATTGAAGTA-AG-AG-CAACATCATCCCATCCTTGAAATTGAAGTAGAGTGGATAACA
1 CT-TGAAATTGAAGTAGAGTGGACAACA-CAT-CC--CCTTGAAATTGAAGTAGAGTGGATAACA
*
25858963 CGTCTTCAT
61 CATC--C-T
* ** *
25858972 CTCTGAAATTGAAGTA-AG-AG-CAATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGT
1 CT-TGAAATTGAAGTAGAGTGGACAA-CACATCCCCTTGAAATTGAAGTAGAGTGGATAACACAT
25859034 CTTCAT
64 C--C-T
25859040 CTCTGAAATTGAAGTA
1 CT-TGAAATTGAAGTA
25859056 AGAGCAATGT
Statistics
Matches: 442, Mismatches: 30, Indels: 40
0.86 0.06 0.08
Matches are distributed among these distances:
63 4 0.01
64 17 0.04
65 30 0.07
66 6 0.01
67 101 0.23
68 181 0.41
69 23 0.05
70 17 0.04
71 63 0.14
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (66 bp):
CTTGAAATTGAAGTAGAGTGGACAACACATCCCCTTGAAATTGAAGTAGAGTGGATAACACATCC
T
Found at i:25858827 original size:168 final size:167
Alignment explanation
Indices: 25858519--25858892 Score: 551
Period size: 168 Copynumber: 2.2 Consensus size: 167
25858509 TAGAGTGGAT
* *
25858519 AACATCGTCCCCTTGAAATTGAAGTAGAGTGGATAACACAATCCTCTTGAAATTGAAGTAGAGTG
1 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACAATCCCCTTGAAATTGAAGTAGAGTG
*
25858584 GATAACACATCCTCTTGAAATTGAAGAAGAGTAGATAACACATCCCCTGAAATTGAAGTAGAGTG
66 GATAACACATCCTCTTGAAATTGAAGAAGAGTAGACAACACATCCCCTGAAATTGAAGTAGAGTG
25858649 GACAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
131 GACAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
** * *
25858686 AATGTCA-CCCTCTTGAAATTAAAGAAGAGTGGATAACAC-ATCCCCTTGAAATTGAAGTAGAGT
1 AACATCATCCC-CTTGAAATTGAAGTAGAGTGGATAACACAATCCCCTTGAAATTGAAGTAGAGT
* * * *
25858749 GGATAACACGTCTTCATCTCTGAAATTGAAGTA-AG-AG-CAACGTCATCCCTTGAAATTGAAGT
65 GGATAACACATC--C-TCT-TGAAATTGAAGAAGAGTAGACAAC-ACATCCCCTGAAATTGAAGT
*
25858811 AGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
125 AGAGTGGACAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
25858854 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACAC
1 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACAC
25858893 GTCTTCATCT
Statistics
Matches: 184, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
166 37 0.20
167 33 0.18
168 94 0.51
169 8 0.04
170 12 0.07
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (167 bp):
AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACAATCCCCTTGAAATTGAAGTAGAGTG
GATAACACATCCTCTTGAAATTGAAGAAGAGTAGACAACACATCCCCTGAAATTGAAGTAGAGTG
GACAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
Found at i:25858904 original size:68 final size:68
Alignment explanation
Indices: 25858720--25859096 Score: 641
Period size: 68 Copynumber: 5.5 Consensus size: 68
25858710 AAGAGTGGAT
25858720 AACA-CATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
1 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
25858784 AGC
66 AGC
*
25858787 AACGTCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
1 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
25858851 AGC
66 AGC
25858854 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
1 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
25858919 AGC
66 AGC
25858922 AACATCATCCCATCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGT
1 AACATCAT-CC--CCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGT
25858987 AAGAGC
63 AAGAGC
**
25858993 AATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
1 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
25859058 AGC
66 AGC
** * *
25859061 AATGTCATCCTCTTGAAATTGAAGTAAAGTTGGATA
1 AACATCATCCCCTTGAAATTGAAGTAGAG-TGGATA
25859097 GCGAAGTCTT
Statistics
Matches: 298, Mismatches: 6, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
67 69 0.23
68 155 0.52
69 8 0.03
70 2 0.01
71 64 0.21
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (68 bp):
AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
AGC
Found at i:25859009 original size:139 final size:137
Alignment explanation
Indices: 25858720--25859096 Score: 654
Period size: 139 Copynumber: 2.8 Consensus size: 137
25858710 AAGAGTGGAT
25858720 AACA-CATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
1 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
25858784 AGCAACGTCAT-C-CCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
66 AGCAACGTCATCCTCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
25858847 TAAGAGC
131 TAAGAGC
25858854 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
1 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
*
25858919 AGCAACATCATCCCATCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGA
66 AGCAACGTCAT-CC-TCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGA
25858984 AGTAAGAGC
129 AGTAAGAGC
**
25858993 AATGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
1 AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
* *
25859058 AGCAATGTCATCCT-CTTGAAATTGAAGTAAAGTTGGATA
66 AGCAACGTCATCCTCCTTGAAATTGAAGTAGAG-TGGATA
25859097 GCGAAGTCTT
Statistics
Matches: 231, Mismatches: 6, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
134 4 0.02
135 70 0.30
136 17 0.07
137 8 0.03
138 2 0.01
139 130 0.56
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (137 bp):
AACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
AGCAACGTCATCCTCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAG
TAAGAGC
Found at i:25859448 original size:11 final size:11
Alignment explanation
Indices: 25859371--25859456 Score: 77
Period size: 11 Copynumber: 7.5 Consensus size: 11
25859361 GACTCTTGAG
* *
25859371 TTAAATTGATT
1 TTAAATTTAAT
25859382 TTAAATTT-AT
1 TTAAATTTAAT
25859392 TTAAATTTAGAT
1 TTAAATTTA-AT
*
25859404 TT-ATTTTAAAT
1 TTAAATTT-AAT
*
25859415 TTAAATTAAATAT
1 TTAAATT-TA-AT
25859428 TTAAATTTAAT
1 TTAAATTTAAT
25859439 TTAAATTTAAAT
1 TTAAATTT-AAT
25859451 TTAAAT
1 TTAAAT
25859457 AAAAATTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
10 9 0.15
11 25 0.40
12 19 0.31
13 9 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:25859484 original size:7 final size:6
Alignment explanation
Indices: 25859381--25859487 Score: 105
Period size: 6 Copynumber: 18.0 Consensus size: 6
25859371 TTAAATTGAT
* * *
25859381 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAA TTAAATA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
** *
25859427 TTTAAA TTT-AA TTTAAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
25859475 TTTAACA TTTAAA
1 TTTAA-A TTTAAA
25859488 AGTCCAAATG
Statistics
Matches: 84, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 56 0.67
7 16 0.19
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:25859535 original size:14 final size:14
Alignment explanation
Indices: 25859516--25859568 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
25859506 CATGGCCCAT
25859516 GGCCCAATTACAAA
1 GGCCCAATTACAAA
25859530 GGCCCAATTACAAA
1 GGCCCAATTACAAA
*
25859544 GGCCCAATT--AAG
1 GGCCCAATTACAAA
25859556 GGCCCAATTACAA
1 GGCCCAATTACAA
25859569 TAGTCCAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 11 0.31
14 25 0.69
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:25859565 original size:26 final size:27
Alignment explanation
Indices: 25859516--25859568 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
25859506 CATGGCCCAT
25859516 GGCCCAATTACAAAGGCCCAATTACAAA
1 GGCCCAATTA-AAAGGCCCAATTACAAA
*
25859544 GGCCCAATT-AAGGGCCCAATTACAA
1 GGCCCAATTAAAAGGCCCAATTACAA
25859569 TAGTCCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.62
28 9 0.38
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.15
Consensus pattern (27 bp):
GGCCCAATTAAAAGGCCCAATTACAAA
Found at i:25859637 original size:20 final size:21
Alignment explanation
Indices: 25859612--25859651 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
25859602 GTGCCTACTG
*
25859612 CTGCTGGCCACC-AGCTCCAT
1 CTGCTGACCACCAAGCTCCAT
25859632 CTGCTGACCACCAAGCTCCA
1 CTGCTGACCACCAAGCTCCA
25859652 CCATGCCCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.20, C:0.45, G:0.17, T:0.17
Consensus pattern (21 bp):
CTGCTGACCACCAAGCTCCAT
Found at i:25860959 original size:29 final size:30
Alignment explanation
Indices: 25860859--25860965 Score: 171
Period size: 30 Copynumber: 3.5 Consensus size: 30
25860849 CTCTAAATTG
25860859 TCCAGAAATTACATTTTGACCCCAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
25860890 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
25860920 TCCAAAATTACATTTCGACCCCAAAA-TTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
25860949 TCAAAAATTACCATTTT
1 TCCAAAATTA-CATTTT
25860966 TTTAAAATTC
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
29 12 0.17
30 56 0.78
31 4 0.06
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:25861017 original size:29 final size:29
Alignment explanation
Indices: 25860968--25861244 Score: 124
Period size: 29 Copynumber: 9.5 Consensus size: 29
25860958 ACCATTTTTT
*
25860968 TAAAATTCCGTTTTTAACCCCGATTTCATC
1 TAAAATTCC-ATTTTAACCCCGATTTCATC
* * *
25860998 GAAAATTACCATTTTACCCCCGAAACTT-A-C
1 TAAAATT-CCATTTTAACCCCG--ATTTCATC
* **
25861028 -AAAATTCTATTTTTAACCCTAATTTCA-C
1 TAAAATTCCA-TTTTAACCCCGATTTCATC
** * ** *
25861056 CGAAATTACCATTTTACCCCCGA-AGCTTC
1 TAAAATT-CCATTTTAACCCCGATTTCATC
*
25861085 TAAAATTTCATTTTTAACCCCGATTTCA-C
1 TAAAATTCCA-TTTTAACCCCGATTTCATC
** * ** *
25861114 CGAAATTACCATTTTACCCCCGA-AGCTTC
1 TAAAATT-CCATTTTAACCCCGATTTCATC
* *
25861143 TAAAATTTCATTTTTAACCTCGATTTCA-C
1 TAAAATTCCA-TTTTAACCCCGATTTCATC
* * * * *
25861172 CAAAATTGCCATTTTACCCCCGA-ATCTTT
1 TAAAATT-CCATTTTAACCCCGATTTCATC
*
25861201 TAAAATTCCATTTTTAACCCCGATTACA-C
1 TAAAATTCCA-TTTTAACCCCGATTTCATC
25861230 TAAAATTACCATTTT
1 TAAAATT-CCATTTT
25861245 GCCCCCGGGT
Statistics
Matches: 176, Mismatches: 52, Indels: 39
0.66 0.19 0.15
Matches are distributed among these distances:
27 3 0.02
28 15 0.09
29 123 0.70
30 29 0.16
31 3 0.02
32 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (29 bp):
TAAAATTCCATTTTAACCCCGATTTCATC
Found at i:25861090 original size:58 final size:58
Alignment explanation
Indices: 25860968--25861251 Score: 367
Period size: 58 Copynumber: 4.9 Consensus size: 58
25860958 ACCATTTTTT
** * *
25860968 TAAAATTCCGTTTTTAACCCCGATTTCATCGAAAATTACCATTTTACCCCCGAAACTTAC
1 TAAAATTCTATTTTTAACCCCGATTTCACCG-AAATTACCATTTTACCCCCGAAGCTT-C
**
25861028 -AAAATTCTATTTTTAACCCTAATTTCACCGAAATTACCATTTTACCCCCGAAGCTTC
1 TAAAATTCTATTTTTAACCCCGATTTCACCGAAATTACCATTTTACCCCCGAAGCTTC
25861085 TAAAATT-TCATTTTTAACCCCGATTTCACCGAAATTACCATTTTACCCCCGAAGCTTC
1 TAAAATTCT-ATTTTTAACCCCGATTTCACCGAAATTACCATTTTACCCCCGAAGCTTC
* * * * *
25861143 TAAAATT-TCATTTTTAACCTCGATTTCACCAAAATTGCCATTTTACCCCCGAATCTTT
1 TAAAATTCT-ATTTTTAACCCCGATTTCACCGAAATTACCATTTTACCCCCGAAGCTTC
* * ** *
25861201 TAAAATTCCATTTTTAACCCCGATTACACTAAAATTACCATTTTGCCCCCG
1 TAAAATTCTATTTTTAACCCCGATTTCACCGAAATTACCATTTTACCCCCG
25861252 GGTATCCATA
Statistics
Matches: 202, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
57 2 0.01
58 175 0.87
59 25 0.12
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (58 bp):
TAAAATTCTATTTTTAACCCCGATTTCACCGAAATTACCATTTTACCCCCGAAGCTTC
Found at i:25861273 original size:116 final size:114
Alignment explanation
Indices: 25860965--25861286 Score: 344
Period size: 116 Copynumber: 2.8 Consensus size: 114
25860955 ATTACCATTT
* * * *
25860965 TTTTAAAATTCCGTTTTTAACCCCGATTTCATCGAAAATTACCATTTTACCCCC-GAAACTTACA
1 TTTTAAAATTCCATTTTTAACCCCGATTTCA-CCAAAATTACCATTTTACCCCCGGATA--TCCA
* *
25861029 AAAT-TCTATTTTTAACCCTAATTTCACCGAAATTACCATTTTACCCCCGAAGC
63 AAATCTC-ATTTTTAACCC-GATTTCACCAAAATTACCATTTTACCCCCGAAGC
* * * * *
25861082 TTCTAAAATTTCATTTTTAACCCCGATTTCACCGAAATTACCATTTTACCCCCGAAGCT-TCTAA
1 TTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCG--GATATCCAA
* * *
25861146 AATTTCATTTTTAACCTCGATTTCACCAAAATTGCCATTTTACCCCCGAATC
64 AATCTCATTTTTAACC-CGATTTCACCAAAATTACCATTTTACCCCCGAAGC
* * * *
25861198 TTTTAAAATTCCATTTTTAACCCCGATTACACTAAAATTACCATTTTGCCCCCGGGTATCCATAA
1 TTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGGATATCCA-AA
* * *
25861263 GTCTCGTTTTTCACCCCGATTTCA
65 ATCTCATTTTT-AACCCGATTTCA
25861287 TCATTTATCA
Statistics
Matches: 172, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
114 2 0.01
115 3 0.02
116 132 0.77
117 34 0.20
119 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.36
Consensus pattern (114 bp):
TTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGGATATCCAAAA
TCTCATTTTTAACCCGATTTCACCAAAATTACCATTTTACCCCCGAAGC
Found at i:25863802 original size:17 final size:16
Alignment explanation
Indices: 25863780--25863834 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
25863770 AAAAAATAAT
25863780 AATTAGAATATACAGGA
1 AATTAGAATATACA-GA
*
25863797 AATTAGAA-AGA-A-A
1 AATTAGAATATACAGA
*
25863810 AATTAAAATATACAAGA
1 AATTAGAATATAC-AGA
25863827 AATTAGAA
1 AATTAGAA
25863835 ATTAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.27
14 2 0.07
15 1 0.03
16 3 0.10
17 16 0.53
ACGTcount: A:0.62, C:0.04, G:0.13, T:0.22
Consensus pattern (16 bp):
AATTAGAATATACAGA
Found at i:25863846 original size:30 final size:30
Alignment explanation
Indices: 25863786--25863878 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
25863776 TAATAATTAG
* ** *
25863786 AATATACAGGAAATTAGAAAGAAAAATTAA
1 AATATACAAGAAATTAGAAATTAAATTTAA
25863816 AATATACAAGAAATTAGAAATTAAATTTAA
1 AATATACAAGAAATTAGAAATTAAATTTAA
* *
25863846 AATA-AAAACGGAAATTACAAATTAAATTTAA
1 AATATACAA--GAAATTAGAAATTAAATTTAA
25863877 AA
1 AA
25863879 AGTAAACGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
29 3 0.05
30 30 0.55
31 22 0.40
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.25
Consensus pattern (30 bp):
AATATACAAGAAATTAGAAATTAAATTTAA
Found at i:25864382 original size:24 final size:24
Alignment explanation
Indices: 25864355--25864413 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
25864345 TTGGTCCTGA
* *
25864355 GGCTGGTAATCGGGCTCGTCCGCG
1 GGCTCGTAATCGGGCTCATCCGCG
* * *
25864379 GGCTCGTCATTGGGCTCATCCTCG
1 GGCTCGTAATCGGGCTCATCCGCG
*
25864403 GGCTCGGAATC
1 GGCTCGTAATC
25864414 TGAACCGGGG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.10, C:0.31, G:0.36, T:0.24
Consensus pattern (24 bp):
GGCTCGTAATCGGGCTCATCCGCG
Found at i:25864405 original size:12 final size:12
Alignment explanation
Indices: 25864364--25864408 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
25864354 AGGCTGGTAA
25864364 TCGGGCTCGTCC
1 TCGGGCTCGTCC
* *
25864376 GCGGGCTCGTCA
1 TCGGGCTCGTCC
* *
25864388 TTGGGCTCATCC
1 TCGGGCTCGTCC
25864400 TCGGGCTCG
1 TCGGGCTCG
25864409 GAATCTGAAC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.04, C:0.36, G:0.36, T:0.24
Consensus pattern (12 bp):
TCGGGCTCGTCC
Found at i:25865927 original size:60 final size:61
Alignment explanation
Indices: 25865846--25866201 Score: 248
Period size: 60 Copynumber: 6.0 Consensus size: 61
25865836 TTTAAAATAT
* * * * * *
25865846 GGGGTGTCTGCCATTTGATGGCAAACATAAAAAAAATTT-GAATTTTTTTCTCAAGAAAAG
1 GGGGTGTCGGCCATTTAATGGCCAACATCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAG
* ****
25865906 GGGGTGTCGGCCATTTAATGGCTAACATCAAAAAAATTTAAAAAAAAATTTCTCGAGAAAAAG
1 GGGGTGTCGGCCATTTAATGGCCAACATCAAAAAAATTT-AAAATTTTTTTCTCGAG-AAAAG
** * * * * *
25865969 AAGGTGTCGACCATTTGATGACCAACA-CCAAAAAATTTAAAATTTTTTTCTTGAGAAAAG
1 GGGGTGTCGGCCATTTAATGGCCAACATCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAG
* ** * * *
25866029 GGGGTGTCGACCATGCAATGGCCTACACCAAAAAAATTTGAAATTTTTTTCTCGAG-AAAG
1 GGGGTGTCGGCCATTTAATGGCCAACATCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAG
* ** * * * ** * *
25866089 GCGGTGTCGGTAATTTGATGGTCAATA-CCCAAAAATGT--AATTTTTTT-T-GA-AATA-
1 GGGGTGTCGGCCATTTAATGGCCAACATCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAG
* * * * ** *
25866143 GGGGTGTCGACCATTTAATGACTAACA-CTAAAAAATTTTGAATTTTTTTCTCGAAAAAA
1 GGGGTGTCGGCCATTTAATGGCCAACATCAAAAAAATTTAAAATTTTTTTCTCGAGAAAA
25866202 ATATAATTTT
Statistics
Matches: 227, Mismatches: 59, Indels: 21
0.74 0.19 0.07
Matches are distributed among these distances:
54 26 0.11
55 4 0.02
56 10 0.04
57 10 0.04
58 2 0.01
59 11 0.05
60 81 0.36
61 37 0.16
62 20 0.09
63 26 0.11
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (61 bp):
GGGGTGTCGGCCATTTAATGGCCAACATCAAAAAAATTTAAAATTTTTTTCTCGAGAAAAG
Found at i:25866877 original size:21 final size:21
Alignment explanation
Indices: 25866852--25866891 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
25866842 TAAAAGTTAT
25866852 TTTTTATAAAAATACATAAGA
1 TTTTTATAAAAATACATAAGA
*
25866873 TTTTTATGAAAATACATAA
1 TTTTTATAAAAATACATAA
25866892 AAATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTTATAAAAATACATAAGA
Found at i:25871856 original size:5 final size:6
Alignment explanation
Indices: 25871842--25871866 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25871832 TTTAGAGCCC
25871842 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
25871867 AAAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:25873890 original size:16 final size:15
Alignment explanation
Indices: 25873869--25873898 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
25873859 TGTAATTTCT
25873869 ATTCACCAAAAAAAAA
1 ATTCA-CAAAAAAAAA
25873885 ATTCACAAAAAAAA
1 ATTCACAAAAAAAA
25873899 TGAAAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.70, C:0.17, G:0.00, T:0.13
Consensus pattern (15 bp):
ATTCACAAAAAAAAA
Found at i:25875493 original size:68 final size:68
Alignment explanation
Indices: 25875407--25875546 Score: 244
Period size: 68 Copynumber: 2.1 Consensus size: 68
25875397 TAGAAACCTT
*
25875407 AAGGAGTTGTCTCTTAGGACTTTGGGGGTATAAGTTTTAAGTGATTTTAAGGTTAAACCTTACCC
1 AAGGAGTTGTCTCTTAGGACTTTGGGGGTATAAGTTTTAAGTGATTGTAAGGTTAAACCTTACCC
25875472 TAA
66 TAA
* *
25875475 AAGGAGTTGTCTCTTAGGACTTTGGGGGTATAAGTTTTAAGTGATTGTAAGGTTAAATCTTGCCC
1 AAGGAGTTGTCTCTTAGGACTTTGGGGGTATAAGTTTTAAGTGATTGTAAGGTTAAACCTTACCC
*
25875540 TCA
66 TAA
25875543 AAGG
1 AAGG
25875547 TTATACAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (68 bp):
AAGGAGTTGTCTCTTAGGACTTTGGGGGTATAAGTTTTAAGTGATTGTAAGGTTAAACCTTACCC
TAA
Found at i:25876055 original size:38 final size:36
Alignment explanation
Indices: 25876011--25876081 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 36
25876001 TTTTTTAAAA
*
25876011 TTAAAAAT-ATTTCTATACTTTTTTATTAATTTTAATTT
1 TTAAAAATAATTTATATA-TTTTTTA--AATTTTAATTT
25876049 TTAAAAATAATTTATATATTTTTTAAATTTTAA
1 TTAAAAATAATTTATATATTTTTTAAATTTTAA
25876082 AAAATAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 8 0.26
38 15 0.48
39 8 0.26
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (36 bp):
TTAAAAATAATTTATATATTTTTTAAATTTTAATTT
Found at i:25877139 original size:21 final size:22
Alignment explanation
Indices: 25877099--25877140 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25877089 CATTTAAAAA
25877099 AAGTTATCAACAATAATATTTT
1 AAGTTATCAACAATAATATTTT
25877121 AAGTTAAT-AACAA-AATATTT
1 AAGTT-ATCAACAATAATATTT
25877141 ATATTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 10 0.53
23 2 0.11
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (22 bp):
AAGTTATCAACAATAATATTTT
Found at i:25877278 original size:17 final size:17
Alignment explanation
Indices: 25877256--25877290 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
25877246 TTAATTAAGC
25877256 ATCAATTTAAAATAAAG
1 ATCAATTTAAAATAAAG
25877273 ATCAATTTAAAATAAAG
1 ATCAATTTAAAATAAAG
25877290 A
1 A
25877291 GTTAGATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
ATCAATTTAAAATAAAG
Found at i:25877372 original size:14 final size:17
Alignment explanation
Indices: 25877334--25877371 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
25877324 TATTAAATTA
25877334 ATTTTTTATTTTAATAT
1 ATTTTTTATTTTAATAT
25877351 ATTTTTTATTTT-ATA-
1 ATTTTTTATTTTAATAT
25877366 ATTTTT
1 ATTTTT
25877372 AATAATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 3 0.14
17 12 0.57
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTATTTTAATAT
Done.