Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 36 of 161
Found at i:10905298 original size:62 final size:62
Alignment explanation
Indices: 10905201--10905326 Score: 216
Period size: 62 Copynumber: 2.0 Consensus size: 62
10905191 AGATGGTAAG
*
10905201 GAAAGAGGTAACTAAAAGAGGCAATCTACATAAAGGTCAATCAATGTTAAAAGAGTAAAATA
1 GAAAGAGGTAACTAAAAGAGGCAACCTACATAAAGGTCAATCAATGTTAAAAGAGTAAAATA
* * *
10905263 GAAAGAGGTAACTGAAAGAGGCAACCTACATAAAGGTCAATCAATGTTAAAATAGTAGAATA
1 GAAAGAGGTAACTAAAAGAGGCAACCTACATAAAGGTCAATCAATGTTAAAAGAGTAAAATA
10905325 GA
1 GA
10905327 TGTAACACCC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.19
Consensus pattern (62 bp):
GAAAGAGGTAACTAAAAGAGGCAACCTACATAAAGGTCAATCAATGTTAAAAGAGTAAAATA
Found at i:10907774 original size:13 final size:13
Alignment explanation
Indices: 10907710--10907765 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
10907700 TATTACTTAT
*
10907710 TATATTATTATAA
1 TATAATATTATAA
*
10907723 TATAATATATATAC
1 TATAATAT-TATAA
*
10907737 T-TAATAATTATGA
1 TATAAT-ATTATAA
*
10907750 TTTAATATTATAA
1 TATAATATTATAA
10907763 TAT
1 TAT
10907766 TATAATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 23 0.68
14 11 0.32
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
TATAATATTATAA
Found at i:10914337 original size:13 final size:13
Alignment explanation
Indices: 10914321--10914345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10914311 TATATTATTA
10914321 ATATATTTAAATT
1 ATATATTTAAATT
10914334 ATATATTTAAAT
1 ATATATTTAAAT
10914346 GATAAATAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATTTAAATT
Found at i:10914338 original size:24 final size:21
Alignment explanation
Indices: 10914286--10914327 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10914276 CATATTTTCT
*
10914286 TTATATATTTATTTATATATTA
1 TTATATA-TTATTAATATATTA
*
10914308 TTCTATATTATTAATATATT
1 TTATATATTATTAATATATT
10914328 TAAATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATATATTATTAATATATTA
Found at i:10915263 original size:6 final size:6
Alignment explanation
Indices: 10915252--10915280 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
10915242 CCTTTCTTTC
10915252 CTATCT CTATCT CTATCT CTATCT CTATC
1 CTATCT CTATCT CTATCT CTATCT CTATC
10915281 CTGATGAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.48
Consensus pattern (6 bp):
CTATCT
Found at i:10916785 original size:10 final size:11
Alignment explanation
Indices: 10916767--10916795 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10916757 ATGAGGTGAG
10916767 AAGAATAGCTA
1 AAGAATAGCTA
10916778 AA-AATAGCTA
1 AAGAATAGCTA
10916788 AAGAATAG
1 AAGAATAG
10916796 AAATAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.59, C:0.07, G:0.17, T:0.17
Consensus pattern (11 bp):
AAGAATAGCTA
Found at i:10918782 original size:25 final size:25
Alignment explanation
Indices: 10918754--10918844 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
10918744 CCAATAAATG
10918754 GCTCGTAAGAGCTTCCCGTTATACA
1 GCTCGTAAGAGCTTCCCGTTATACA
** * * * **
10918779 GCTCACATGGGTTTCCCGTTATATG
1 GCTCGTAAGAGCTTCCCGTTATACA
*
10918804 GCTCGAAAGAGCTT-CCGTT-TACA
1 GCTCGTAAGAGCTTCCCGTTATACA
*
10918827 TGCTCGTATGAGCATTCC
1 -GCTCGTAAGAGC-TTCC
10918845 TGAATATGAA
Statistics
Matches: 47, Mismatches: 16, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
23 2 0.04
24 15 0.32
25 29 0.62
26 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (25 bp):
GCTCGTAAGAGCTTCCCGTTATACA
Found at i:10919930 original size:18 final size:18
Alignment explanation
Indices: 10919899--10919946 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
10919889 TGTCATTTGC
*
10919899 TTTCAAAACATTATTC-A
1 TTTCAAAACGTTATTCAA
*
10919916 TTTACAAATCGTTATTCAA
1 TTT-CAAAACGTTATTCAA
10919935 TTTCAAAACGTT
1 TTTCAAAACGTT
10919947 TTCTTATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (18 bp):
TTTCAAAACGTTATTCAA
Found at i:10920628 original size:18 final size:18
Alignment explanation
Indices: 10920600--10920644 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
10920590 ATTAGGCTCG
*
10920600 CAAAACATTATTC-ATTT
1 CAAAACGTTATTCAATTT
*
10920617 ACAAATCGTTATTCAATTT
1 -CAAAACGTTATTCAATTT
10920636 CAAAACGTT
1 CAAAACGTT
10920645 TTCTTATTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCAATTT
Found at i:10921238 original size:698 final size:698
Alignment explanation
Indices: 10919902--10921297 Score: 2792
Period size: 698 Copynumber: 2.0 Consensus size: 698
10919892 CATTTGCTTT
10919902 CAAAACATTATTCATTTACAAATCGTTATTCAATTTCAAAACGTTTTCTTATTGTGGAAACTTTT
1 CAAAACATTATTCATTTACAAATCGTTATTCAATTTCAAAACGTTTTCTTATTGTGGAAACTTTT
10919967 AAACAGTTTGCGTATTCGTGGTATTTTTGATAAAACATTAATTTCATTTGAAAATACGAGTTTTA
66 AAACAGTTTGCGTATTCGTGGTATTTTTGATAAAACATTAATTTCATTTGAAAATACGAGTTTTA
10920032 CCTAACACTAGCTGATTTAAATCATAAAACCGTATAAAAACCAAATTTAAACCAAAATCCGTAAA
131 CCTAACACTAGCTGATTTAAATCATAAAACCGTATAAAAACCAAATTTAAACCAAAATCCGTAAA
10920097 GGCCATAGTTATAGCAAAATACTCCCAAATAAAAGTAAAATCATAAATAGGTAATAAACAGTGTA
196 GGCCATAGTTATAGCAAAATACTCCCAAATAAAAGTAAAATCATAAATAGGTAATAAACAGTGTA
10920162 AAAGAAGTCATGTGGCCACCACTGAGTCCTCTGCAGCACCGACCCGTCTAAATCTGAGGATTACC
261 AAAGAAGTCATGTGGCCACCACTGAGTCCTCTGCAGCACCGACCCGTCTAAATCTGAGGATTACC
10920227 TGTACAGATAAAATAGAATGGGTGAGTTTACGTAAACTCAGTGTGTAATCCCATACAAATGAACA
326 TGTACAGATAAAATAGAATGGGTGAGTTTACGTAAACTCAGTGTGTAATCCCATACAAATGAACA
10920292 TACAGTAGACAGATAATCACAGTTTGGGCTTAAGCCCTTTTCAGTATCAGTATCAGTCCAGTTTG
391 TACAGTAGACAGATAATCACAGTTTGGGCTTAAGCCCTTTTCAGTATCAGTATCAGTCCAGTTTG
10920357 GGCCTTAGCCCATCTCAGTTCAAAAACAATCATGCAGTAGGGCTTTAGCCCATCACAGTATCAGT
456 GGCCTTAGCCCATCTCAGTTCAAAAACAATCATGCAGTAGGGCTTTAGCCCATCACAGTATCAGT
10920422 AGCAGTAACAAATATGCAGTCACAAAAATCCTACCCATCCAGTCTCTATAGACCATCTCCGTCCA
521 AGCAGTAACAAATATGCAGTCACAAAAATCCTACCCATCCAGTCTCTATAGACCATCTCCGTCCA
10920487 ACCCTACACTCTATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAGTAGTACCGAATG
586 ACCCTACACTCTATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAGTAGTACCGAATG
10920552 CGGTACTAGACAGTATTTGCAGTTGAGCTGCCACTAAAATTAGGCTCG
651 CGGTACTAGACAGTATTTGCAGTTGAGCTGCCACTAAAATTAGGCTCG
10920600 CAAAACATTATTCATTTACAAATCGTTATTCAATTTCAAAACGTTTTCTTATTGTGGAAACTTTT
1 CAAAACATTATTCATTTACAAATCGTTATTCAATTTCAAAACGTTTTCTTATTGTGGAAACTTTT
10920665 AAACAGTTTGCGTATTCGTGGTATTTTTGATAAAACATTAATTTCATTTGAAAATACGAGTTTTA
66 AAACAGTTTGCGTATTCGTGGTATTTTTGATAAAACATTAATTTCATTTGAAAATACGAGTTTTA
10920730 CCTAACACTAGCTGATTTAAATCATAAAACCGTATAAAAACCAAATTTAAACCAAAATCCGTAAA
131 CCTAACACTAGCTGATTTAAATCATAAAACCGTATAAAAACCAAATTTAAACCAAAATCCGTAAA
10920795 GGCCATAGTTATAGCAAAATACTCCCAAATAAAAGTAAAATCATAAATAGGTAATAAACAGTGTA
196 GGCCATAGTTATAGCAAAATACTCCCAAATAAAAGTAAAATCATAAATAGGTAATAAACAGTGTA
10920860 AAAGAAGTCATGTGGCCACCACTGAGTCCTCTGCAGCACCGACCCGTCTAAATCTGAGGATTACC
261 AAAGAAGTCATGTGGCCACCACTGAGTCCTCTGCAGCACCGACCCGTCTAAATCTGAGGATTACC
10920925 TGTACAGATAAAATAGAATGGGTGAGTTTACGTAAACTCAGTGTGTAATCCCATACAAATGAACA
326 TGTACAGATAAAATAGAATGGGTGAGTTTACGTAAACTCAGTGTGTAATCCCATACAAATGAACA
10920990 TACAGTAGACAGATAATCACAGTTTGGGCTTAAGCCCTTTTCAGTATCAGTATCAGTCCAGTTTG
391 TACAGTAGACAGATAATCACAGTTTGGGCTTAAGCCCTTTTCAGTATCAGTATCAGTCCAGTTTG
10921055 GGCCTTAGCCCATCTCAGTTCAAAAACAATCATGCAGTAGGGCTTTAGCCCATCACAGTATCAGT
456 GGCCTTAGCCCATCTCAGTTCAAAAACAATCATGCAGTAGGGCTTTAGCCCATCACAGTATCAGT
10921120 AGCAGTAACAAATATGCAGTCACAAAAATCCTACCCATCCAGTCTCTATAGACCATCTCCGTCCA
521 AGCAGTAACAAATATGCAGTCACAAAAATCCTACCCATCCAGTCTCTATAGACCATCTCCGTCCA
10921185 ACCCTACACTCTATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAGTAGTACCGAATG
586 ACCCTACACTCTATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAGTAGTACCGAATG
10921250 CGGTACTAGACAGTATTTGCAGTTGAGCTGCCACTAAAATTAGGCTCG
651 CGGTACTAGACAGTATTTGCAGTTGAGCTGCCACTAAAATTAGGCTCG
10921298 AGGCCTTTCA
Statistics
Matches: 698, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
698 698 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (698 bp):
CAAAACATTATTCATTTACAAATCGTTATTCAATTTCAAAACGTTTTCTTATTGTGGAAACTTTT
AAACAGTTTGCGTATTCGTGGTATTTTTGATAAAACATTAATTTCATTTGAAAATACGAGTTTTA
CCTAACACTAGCTGATTTAAATCATAAAACCGTATAAAAACCAAATTTAAACCAAAATCCGTAAA
GGCCATAGTTATAGCAAAATACTCCCAAATAAAAGTAAAATCATAAATAGGTAATAAACAGTGTA
AAAGAAGTCATGTGGCCACCACTGAGTCCTCTGCAGCACCGACCCGTCTAAATCTGAGGATTACC
TGTACAGATAAAATAGAATGGGTGAGTTTACGTAAACTCAGTGTGTAATCCCATACAAATGAACA
TACAGTAGACAGATAATCACAGTTTGGGCTTAAGCCCTTTTCAGTATCAGTATCAGTCCAGTTTG
GGCCTTAGCCCATCTCAGTTCAAAAACAATCATGCAGTAGGGCTTTAGCCCATCACAGTATCAGT
AGCAGTAACAAATATGCAGTCACAAAAATCCTACCCATCCAGTCTCTATAGACCATCTCCGTCCA
ACCCTACACTCTATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAGTAGTACCGAATG
CGGTACTAGACAGTATTTGCAGTTGAGCTGCCACTAAAATTAGGCTCG
Found at i:10923241 original size:848 final size:848
Alignment explanation
Indices: 10921986--10923681 Score: 3392
Period size: 848 Copynumber: 2.0 Consensus size: 848
10921976 GGCCTTAGCC
10921986 CATCTCAGTTCAAAAACAATCATGCAGTAGGGCTTTAGCCCATCACAGTATCAGTAGCAGTAACA
1 CATCTCAGTTCAAAAACAATCATGCAGTAGGGCTTTAGCCCATCACAGTATCAGTAGCAGTAACA
10922051 AATATGCAGTCACAAAAATCCTACCCATCCAGTCTCTATAGACCATCTCCGTCCAACCCTACACT
66 AATATGCAGTCACAAAAATCCTACCCATCCAGTCTCTATAGACCATCTCCGTCCAACCCTACACT
10922116 CTATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAGTAGTACCGAATGCGGTACTAGA
131 CTATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAGTAGTACCGAATGCGGTACTAGA
10922181 CAGTATTTGCAGTTGAGCTGCCACTAAAATTAGGCTCGAGGCCTTTCAGTATACTTCCTCTGAAC
196 CAGTATTTGCAGTTGAGCTGCCACTAAAATTAGGCTCGAGGCCTTTCAGTATACTTCCTCTGAAC
10922246 ATTATAATCCCCCAACCCAATGCAATGCAATATACAGATATGACATGCTATAACATAATATCATG
261 ATTATAATCCCCCAACCCAATGCAATGCAATATACAGATATGACATGCTATAACATAATATCATG
10922311 CATGTAAACAGGGCATACAGTATTAAATCAGTGGGACATCATCAAGCTTAATCATATCAATCATG
326 CATGTAAACAGGGCATACAGTATTAAATCAGTGGGACATCATCAAGCTTAATCATATCAATCATG
10922376 CAGTCATTTCAGTCAATTAGGGGTTTAGCTAAGCTTACCGACCCTACAGTAAGTTCACAGTCGAC
391 CAGTCATTTCAGTCAATTAGGGGTTTAGCTAAGCTTACCGACCCTACAGTAAGTTCACAGTCGAC
10922441 TTGGGCAACCCGTGCAACCTTATCAGTCAAACAGTAAAAATGGGCCTACAAGCCCATGATGTTCG
456 TTGGGCAACCCGTGCAACCTTATCAGTCAAACAGTAAAAATGGGCCTACAAGCCCATGATGTTCG
10922506 CCCATGTGGGCCCACAAGCTCGTGTGGTCCACATGACCCAAATTTTCCTTGGTATCGTGATCCAT
521 CCCATGTGGGCCCACAAGCTCGTGTGGTCCACATGACCCAAATTTTCCTTGGTATCGTGATCCAT
10922571 TTTAATGTAACCTGTACTAGTTAATTATTTATATGTGTTTCCACTATTTACTCATATGATCCTTC
586 TTTAATGTAACCTGTACTAGTTAATTATTTATATGTGTTTCCACTATTTACTCATATGATCCTTC
10922636 AAAGCTGTCTACTTGAGTCACTGTTACTAAATTATTTGTATCTTAAGCTACAAAGTTCTGAATTA
651 AAAGCTGTCTACTTGAGTCACTGTTACTAAATTATTTGTATCTTAAGCTACAAAGTTCTGAATTA
10922701 AGATCCACAAATTTTTCCTAAAATCAGACTCACATATCTTCTTACCATAAAATTTTAAAAATTAT
716 AGATCCACAAATTTTTCCTAAAATCAGACTCACATATCTTCTTACCATAAAATTTTAAAAATTAT
10922766 TGGTTTAGCCAATAAGTACAGTTTATTCTTTAAAGTTTCCCTTGTTTTGCTGTCTGACAGTTTTG
781 TGGTTTAGCCAATAAGTACAGTTTATTCTTTAAAGTTTCCCTTGTTTTGCTGTCTGACAGTTTTG
10922831 ACA
846 ACA
10922834 CATCTCAGTTCAAAAACAATCATGCAGTAGGGCTTTAGCCCATCACAGTATCAGTAGCAGTAACA
1 CATCTCAGTTCAAAAACAATCATGCAGTAGGGCTTTAGCCCATCACAGTATCAGTAGCAGTAACA
10922899 AATATGCAGTCACAAAAATCCTACCCATCCAGTCTCTATAGACCATCTCCGTCCAACCCTACACT
66 AATATGCAGTCACAAAAATCCTACCCATCCAGTCTCTATAGACCATCTCCGTCCAACCCTACACT
10922964 CTATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAGTAGTACCGAATGCGGTACTAGA
131 CTATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAGTAGTACCGAATGCGGTACTAGA
10923029 CAGTATTTGCAGTTGAGCTGCCACTAAAATTAGGCTCGAGGCCTTTCAGTATACTTCCTCTGAAC
196 CAGTATTTGCAGTTGAGCTGCCACTAAAATTAGGCTCGAGGCCTTTCAGTATACTTCCTCTGAAC
10923094 ATTATAATCCCCCAACCCAATGCAATGCAATATACAGATATGACATGCTATAACATAATATCATG
261 ATTATAATCCCCCAACCCAATGCAATGCAATATACAGATATGACATGCTATAACATAATATCATG
10923159 CATGTAAACAGGGCATACAGTATTAAATCAGTGGGACATCATCAAGCTTAATCATATCAATCATG
326 CATGTAAACAGGGCATACAGTATTAAATCAGTGGGACATCATCAAGCTTAATCATATCAATCATG
10923224 CAGTCATTTCAGTCAATTAGGGGTTTAGCTAAGCTTACCGACCCTACAGTAAGTTCACAGTCGAC
391 CAGTCATTTCAGTCAATTAGGGGTTTAGCTAAGCTTACCGACCCTACAGTAAGTTCACAGTCGAC
10923289 TTGGGCAACCCGTGCAACCTTATCAGTCAAACAGTAAAAATGGGCCTACAAGCCCATGATGTTCG
456 TTGGGCAACCCGTGCAACCTTATCAGTCAAACAGTAAAAATGGGCCTACAAGCCCATGATGTTCG
10923354 CCCATGTGGGCCCACAAGCTCGTGTGGTCCACATGACCCAAATTTTCCTTGGTATCGTGATCCAT
521 CCCATGTGGGCCCACAAGCTCGTGTGGTCCACATGACCCAAATTTTCCTTGGTATCGTGATCCAT
10923419 TTTAATGTAACCTGTACTAGTTAATTATTTATATGTGTTTCCACTATTTACTCATATGATCCTTC
586 TTTAATGTAACCTGTACTAGTTAATTATTTATATGTGTTTCCACTATTTACTCATATGATCCTTC
10923484 AAAGCTGTCTACTTGAGTCACTGTTACTAAATTATTTGTATCTTAAGCTACAAAGTTCTGAATTA
651 AAAGCTGTCTACTTGAGTCACTGTTACTAAATTATTTGTATCTTAAGCTACAAAGTTCTGAATTA
10923549 AGATCCACAAATTTTTCCTAAAATCAGACTCACATATCTTCTTACCATAAAATTTTAAAAATTAT
716 AGATCCACAAATTTTTCCTAAAATCAGACTCACATATCTTCTTACCATAAAATTTTAAAAATTAT
10923614 TGGTTTAGCCAATAAGTACAGTTTATTCTTTAAAGTTTCCCTTGTTTTGCTGTCTGACAGTTTTG
781 TGGTTTAGCCAATAAGTACAGTTTATTCTTTAAAGTTTCCCTTGTTTTGCTGTCTGACAGTTTTG
10923679 ACA
846 ACA
10923682 TTTCTGAACT
Statistics
Matches: 848, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
848 848 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (848 bp):
CATCTCAGTTCAAAAACAATCATGCAGTAGGGCTTTAGCCCATCACAGTATCAGTAGCAGTAACA
AATATGCAGTCACAAAAATCCTACCCATCCAGTCTCTATAGACCATCTCCGTCCAACCCTACACT
CTATGTGGGGATATAATCAACCCACCCATCCCTACACTCCAAGTAGTACCGAATGCGGTACTAGA
CAGTATTTGCAGTTGAGCTGCCACTAAAATTAGGCTCGAGGCCTTTCAGTATACTTCCTCTGAAC
ATTATAATCCCCCAACCCAATGCAATGCAATATACAGATATGACATGCTATAACATAATATCATG
CATGTAAACAGGGCATACAGTATTAAATCAGTGGGACATCATCAAGCTTAATCATATCAATCATG
CAGTCATTTCAGTCAATTAGGGGTTTAGCTAAGCTTACCGACCCTACAGTAAGTTCACAGTCGAC
TTGGGCAACCCGTGCAACCTTATCAGTCAAACAGTAAAAATGGGCCTACAAGCCCATGATGTTCG
CCCATGTGGGCCCACAAGCTCGTGTGGTCCACATGACCCAAATTTTCCTTGGTATCGTGATCCAT
TTTAATGTAACCTGTACTAGTTAATTATTTATATGTGTTTCCACTATTTACTCATATGATCCTTC
AAAGCTGTCTACTTGAGTCACTGTTACTAAATTATTTGTATCTTAAGCTACAAAGTTCTGAATTA
AGATCCACAAATTTTTCCTAAAATCAGACTCACATATCTTCTTACCATAAAATTTTAAAAATTAT
TGGTTTAGCCAATAAGTACAGTTTATTCTTTAAAGTTTCCCTTGTTTTGCTGTCTGACAGTTTTG
ACA
Found at i:10928423 original size:25 final size:25
Alignment explanation
Indices: 10928395--10928442 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10928385 ATAGTCTATC
* *
10928395 TATAGTAGTCTCAGTATATACTACG
1 TATAGCAGTCTCAGGATATACTACG
*
10928420 TATAGCAGTTTCAGGATATACTA
1 TATAGCAGTCTCAGGATATACTA
10928443 TCAAAGACAG
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:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (25 bp):
TATAGCAGTCTCAGGATATACTACG
Found at i:10930659 original size:47 final size:47
Alignment explanation
Indices: 10930608--10930701 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
10930598 ATACCCAACA
*
10930608 ACTTACTGAATTTGCACAAGTGCCGCTTAACGCTACGTAATCAAGAG
1 ACTTACTGAATTTGCACAAGTGCCACTTAACGCTACGTAATCAAGAG
10930655 ACTTACTGAATTTGCACAAGTGCCACTTAACGCTACGTAATCAAGAG
1 ACTTACTGAATTTGCACAAGTGCCACTTAACGCTACGTAATCAAGAG
10930702 GAAAGAATGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (47 bp):
ACTTACTGAATTTGCACAAGTGCCACTTAACGCTACGTAATCAAGAG
Found at i:10932244 original size:15 final size:15
Alignment explanation
Indices: 10932221--10932263 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
10932211 GAATGAGATT
*
10932221 TTTTAGCCCGTTTAG
1 TTTTGGCCCGTTTAG
10932236 TTTTGGCCCGTTTAG
1 TTTTGGCCCGTTTAG
10932251 TTTTGGCCCGTTT
1 TTTTGGCCCGTTT
10932264 TCCTATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.07, C:0.21, G:0.23, T:0.49
Consensus pattern (15 bp):
TTTTGGCCCGTTTAG
Found at i:10933310 original size:22 final size:22
Alignment explanation
Indices: 10933285--10933329 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10933275 TATATAATCA
10933285 AGTATCCATACTTAACAATTTG
1 AGTATCCATACTTAACAATTTG
10933307 AGTATCCATACTTAACAATTTG
1 AGTATCCATACTTAACAATTTG
10933329 A
1 A
10933330 TCACTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (22 bp):
AGTATCCATACTTAACAATTTG
Found at i:10936008 original size:22 final size:22
Alignment explanation
Indices: 10935982--10936024 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10935972 TTGAACCTTT
10935982 GATTAATTAACA-AGCCTTTTTG
1 GATTAATTAACATA-CCTTTTTG
10936004 GATTAATTAACATACCTTTTT
1 GATTAATTAACATACCTTTTT
10936025 TTTACTGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (22 bp):
GATTAATTAACATACCTTTTTG
Found at i:10936061 original size:5 final size:5
Alignment explanation
Indices: 10936045--10936096 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
10936035 CCTTTAATTC
10936045 TTTAA TTTTAA TTTAA TTT-A TTTAA --TAA TTTTAA TTTAA --TAA TTTAA
1 TTTAA -TTTAA TTTAA TTTAA TTTAA TTTAA -TTTAA TTTAA TTTAA TTTAA
10936092 TTTAA
1 TTTAA
10936097 GGAGGTCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
3 6 0.15
4 4 0.10
5 22 0.55
6 8 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:10936075 original size:23 final size:22
Alignment explanation
Indices: 10936047--10936092 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
10936037 TTTAATTCTT
*
10936047 TAATTTTAATTTAATTTATTTAA
1 TAATTTTAATTTAA-TAATTTAA
10936070 TAATTTTAATTTAATAATTTAA
1 TAATTTTAATTTAATAATTTAA
10936092 T
1 T
10936093 TTAAGGAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATTTTAATTTAATAATTTAA
Found at i:10936090 original size:13 final size:13
Alignment explanation
Indices: 10936058--10936096 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
10936048 AATTTTAATT
10936058 TAATTT-ATTTAA
1 TAATTTAATTTAA
10936070 TAATTTTAATTTAA
1 TAA-TTTAATTTAA
10936084 TAATTTAATTTAA
1 TAATTTAATTTAA
10936097 GGAGGTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 3 0.12
13 13 0.52
14 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTTAATTTAA
Found at i:10950995 original size:16 final size:16
Alignment explanation
Indices: 10950971--10951006 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10950961 TGGTTAACTA
* *
10950971 TAATTGAATAGAGCTG
1 TAATGGAATAAAGCTG
10950987 TAATGGAATAAAGCTG
1 TAATGGAATAAAGCTG
10951003 TAAT
1 TAAT
10951007 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31
Consensus pattern (16 bp):
TAATGGAATAAAGCTG
Found at i:10953284 original size:46 final size:44
Alignment explanation
Indices: 10953194--10953287 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
10953184 ATTACAACAT
*
10953194 CATTTCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
* *
10953238 CATTCCATTCAATCAAACA-ATTGAATTACTGATTACAGCTT-TATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACT-ATTACAG-TTCTATTC
10953284 CATT
1 CATT
10953288 ACAATTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
43 1 0.02
44 20 0.47
45 4 0.09
46 16 0.37
47 2 0.05
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:10953290 original size:16 final size:16
Alignment explanation
Indices: 10953269--10953323 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
10953259 TGAATTACTG
10953269 ATTACAGCTTTATTCC
1 ATTACAGCTTTATTCC
* *
10953285 ATTACA-ATTCTATTCA
1 ATTACAGCTT-TATTCC
* *
10953301 ATTACAGCTATATTTC
1 ATTACAGCTTTATTCC
10953317 ATTACAG
1 ATTACAG
10953324 TGAACCAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 2 0.06
16 28 0.90
17 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTACAGCTTTATTCC
Found at i:10960615 original size:18 final size:18
Alignment explanation
Indices: 10960589--10960634 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
10960579 AAAAGAGACT
*
10960589 TTGATATTGAAAGT-AAA
1 TTGAAATTGAAAGTGAAA
*
10960606 TTGTAAATTGAAAGTGCAA
1 TTG-AAATTGAAAGTGAAA
10960625 TTGAAATTGA
1 TTGAAATTGA
10960635 GAAAGTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 17 0.68
19 5 0.20
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (18 bp):
TTGAAATTGAAAGTGAAA
Found at i:10960762 original size:21 final size:22
Alignment explanation
Indices: 10960734--10960797 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
10960724 ACCTTGCCGA
10960734 TCAGGCACTATATGTGTCGTAT
1 TCAGGCACTATATGTGTCGTAT
* **
10960756 T-AGGCACCACGTGTGTCGT-T
1 TCAGGCACTATATGTGTCGTAT
* *
10960776 TCAGGCACTTTATGTGTTGTAT
1 TCAGGCACTATATGTGTCGTAT
10960798 ACTGCTTATG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAGGCACTATATGTGTCGTAT
Found at i:10961959 original size:13 final size:13
Alignment explanation
Indices: 10961941--10961972 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10961931 TTTCCAGCAA
10961941 TTATGAATTTATT
1 TTATGAATTTATT
10961954 TTATGAATTTATT
1 TTATGAATTTATT
*
10961967 TGATGA
1 TTATGA
10961973 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10968637 original size:26 final size:26
Alignment explanation
Indices: 10968608--10968666 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
10968598 CTGTTATATG
10968608 GCTCTTCATGAGCTTCCCGATTAAAA
1 GCTCTTCATGAGCTTCCCGATTAAAA
** * **
10968634 GCTCTTTGTGAGTTTCCCGATTAATG
1 GCTCTTCATGAGCTTCCCGATTAAAA
10968660 GCTCTTC
1 GCTCTTC
10968667 GGAGCTACCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGATTAAAA
Found at i:10968722 original size:25 final size:25
Alignment explanation
Indices: 10968647--10968745 Score: 71
Period size: 25 Copynumber: 4.0 Consensus size: 25
10968637 CTTTGTGAGT
* *
10968647 TTCCCGATTAATGGCTCTTCGGAGC
1 TTCCCGATTAATGGCTATCCGGAGC
* * ** *
10968672 TACCTGA-T-ATGGCTCA-CTTGAAC
1 TTCCCGATTAATGGCT-ATCCGGAGC
10968695 TTCCCGA-TATATGGCTATCCGGAGC
1 TTCCCGATTA-ATGGCTATCCGGAGC
* *
10968720 TTCCCGATTAATGGCTGTTCGGAGC
1 TTCCCGATTAATGGCTATCCGGAGC
10968745 T
1 T
10968746 ACCTGTTATT
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
23 15 0.27
24 2 0.04
25 36 0.65
26 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.31
Consensus pattern (25 bp):
TTCCCGATTAATGGCTATCCGGAGC
Found at i:10970717 original size:48 final size:48
Alignment explanation
Indices: 10970641--10970736 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
10970631 AAGAATACAA
* * *
10970641 GAACCACTTATGAAGCAAACATCGGTCATGGGTCCCCTTTTATTTTTT
1 GAACCACTTATGAAGCAAACATCAGTCATGAGTCCCCCTTTATTTTTT
*
10970689 GAACCACTTATGAAGCAAGCATCAGTCATGAGTCCCCCTTTATTTTTT
1 GAACCACTTATGAAGCAAACATCAGTCATGAGTCCCCCTTTATTTTTT
10970737 TGGTTTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (48 bp):
GAACCACTTATGAAGCAAACATCAGTCATGAGTCCCCCTTTATTTTTT
Found at i:10972760 original size:21 final size:22
Alignment explanation
Indices: 10972726--10972769 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
10972716 TTTTAAAAAA
*
10972726 TATTTATATGATTTTAATTTAT
1 TATTTATATAATTTTAATTTAT
*
10972748 TATTTA-ATAATTTTTATTTAT
1 TATTTATATAATTTTAATTTAT
10972769 T
1 T
10972770 GACTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTTATATAATTTTAATTTAT
Found at i:10977490 original size:41 final size:42
Alignment explanation
Indices: 10977445--10977561 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 42
10977435 ATCTGAGATT
*
10977445 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG-AAT-TA
1 TTCAGGCTTTATGCCTAGCAGGCTTGATGCCGGTGAAATGTA
* *
10977485 CTTCAGACTTTATGTCC-AGCAAGCTTTG-TGCCGGTGAAATGTA
1 -TTCAGGCTTTATG-CCTAGCAGGC-TTGATGCCGGTGAAATGTA
* *
10977528 -TCAGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGGCTTTATGCCTAGCAGGCTTGATGCCGGTG
10977562 TTTTATACAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
40 4 0.06
41 49 0.78
42 8 0.13
43 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (42 bp):
TTCAGGCTTTATGCCTAGCAGGCTTGATGCCGGTGAAATGTA
Found at i:10981510 original size:28 final size:27
Alignment explanation
Indices: 10981478--10981576 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 27
10981468 TTAATAAGTA
* *
10981478 CGCACACTTAGTGCTTAATAATCACACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
*
10981506 CGCACACTTAGTGCTT-TACCATTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
10981534 CGCACACTTAGTGCATT-TCAATTAAACT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
10981562 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10981577 AATCTCATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 57 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:10984413 original size:26 final size:26
Alignment explanation
Indices: 10984384--10984435 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
10984374 AGGGTATCTA
10984384 TTTACCCTTGGTTCAGCCATTTTTTG
1 TTTACCCTTGGTTCAGCCATTTTTTG
*
10984410 TTTACCCTTGGTTCAGTCATTTTTTG
1 TTTACCCTTGGTTCAGCCATTTTTTG
10984436 GCTGAGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.21, G:0.15, T:0.52
Consensus pattern (26 bp):
TTTACCCTTGGTTCAGCCATTTTTTG
Found at i:10985561 original size:14 final size:14
Alignment explanation
Indices: 10985542--10985571 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10985532 GGACTTTACC
10985542 TTGTTTTTACTTTT
1 TTGTTTTTACTTTT
10985556 TTGTTTTTACTTTT
1 TTGTTTTTACTTTT
10985570 TT
1 TT
10985572 AGTGTTGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (14 bp):
TTGTTTTTACTTTT
Found at i:10987905 original size:142 final size:142
Alignment explanation
Indices: 10987649--10987942 Score: 588
Period size: 142 Copynumber: 2.1 Consensus size: 142
10987639 GAAATTCATT
10987649 CAACACAAGGAAATGGACCAACATCCTTTTAGCTATGCATGTCTTGTAAGTTTTCCATGATGAAC
1 CAACACAAGGAAATGGACCAACATCCTTTTAGCTATGCATGTCTTGTAAGTTTTCCATGATGAAC
10987714 AAAACATTGAATTGTTTTTGAAAAAAGAAAATGAAAACTAAATTATACTATTTGCAGAATTTATG
66 AAAACATTGAATTGTTTTTGAAAAAAGAAAATGAAAACTAAATTATACTATTTGCAGAATTTATG
10987779 TTGCACAACTGG
131 TTGCACAACTGG
10987791 CAACACAAGGAAATGGACCAACATCCTTTTAGCTATGCATGTCTTGTAAGTTTTCCATGATGAAC
1 CAACACAAGGAAATGGACCAACATCCTTTTAGCTATGCATGTCTTGTAAGTTTTCCATGATGAAC
10987856 AAAACATTGAATTGTTTTTGAAAAAAGAAAATGAAAACTAAATTATACTATTTGCAGAATTTATG
66 AAAACATTGAATTGTTTTTGAAAAAAGAAAATGAAAACTAAATTATACTATTTGCAGAATTTATG
10987921 TTGCACAACTGG
131 TTGCACAACTGG
10987933 CAACACAAGG
1 CAACACAAGG
10987943 GAAGCTCTTG
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 152 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (142 bp):
CAACACAAGGAAATGGACCAACATCCTTTTAGCTATGCATGTCTTGTAAGTTTTCCATGATGAAC
AAAACATTGAATTGTTTTTGAAAAAAGAAAATGAAAACTAAATTATACTATTTGCAGAATTTATG
TTGCACAACTGG
Found at i:10996313 original size:45 final size:45
Alignment explanation
Indices: 10996249--10996337 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
10996239 CTTAAGTTTT
*
10996249 AGCTTGGTATGAATATTATTGTCAATATAGGATAATATGAATTTC
1 AGCTTGGTATGAATATTATTGTCAATATAGGAAAATATGAATTTC
*
10996294 AGCTTGGTATGAATATTATTGTTAATATAGGAAAATATGAATTT
1 AGCTTGGTATGAATATTATTGTCAATATAGGAAAATATGAATTT
10996338 GATTGTGCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.40
Consensus pattern (45 bp):
AGCTTGGTATGAATATTATTGTCAATATAGGAAAATATGAATTTC
Found at i:10998347 original size:24 final size:24
Alignment explanation
Indices: 10998306--10998351 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
10998296 ATATATTTTA
*
10998306 TAAAATTATTATTTAAATAATAAT
1 TAAAATTATTATTGAAATAATAAT
10998330 TAAAATTATTGA-TGAAATAATA
1 TAAAATTATT-ATTGAAATAATA
10998352 TTTGAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
TAAAATTATTATTGAAATAATAAT
Found at i:11000905 original size:22 final size:22
Alignment explanation
Indices: 11000856--11000916 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
11000846 CTCCTATTAT
* *
11000856 TAGCACATTAGTGCTCTCCGTT
1 TAGCACATTTGTGCTCTCCGTA
* *
11000878 TCGCACATTTGTGCTCTCTGTA
1 TAGCACATTTGTGCTCTCCGTA
11000900 TAGCAC-TTTGGTGCTCT
1 TAGCACATTT-GTGCTCT
11000917 TTGTTTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 3 0.09
22 30 0.91
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (22 bp):
TAGCACATTTGTGCTCTCCGTA
Found at i:11005790 original size:50 final size:50
Alignment explanation
Indices: 11005666--11005914 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
11005656 GATAATAACA
* * ** * *
11005666 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11005717 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11005767 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11005817 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
11005872 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
11005915 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11005844 original size:100 final size:104
Alignment explanation
Indices: 11005665--11005914 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
11005655 TGATAATAAC
**
11005665 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11005730 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11005767 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11005830 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
11005872 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11005915 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:11006030 original size:13 final size:13
Alignment explanation
Indices: 11006009--11006040 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11005999 GCTTGGATCA
*
11006009 TCATCAAATAAAT
1 TCATAAAATAAAT
11006022 TCATAAAATAAAT
1 TCATAAAATAAAT
11006035 TCATAA
1 TCATAA
11006041 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11006287 original size:30 final size:30
Alignment explanation
Indices: 11006252--11006309 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11006242 CCTCGACTCT
*
11006252 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
11006282 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
11006310 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:11016600 original size:30 final size:31
Alignment explanation
Indices: 11016561--11016620 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
11016551 GGAGGTGGGA
*
11016561 TGGGAAGGGAATAAAAGTTTTAAGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAAGGGAAAAG
* **
11016592 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAAGGGAAAA
11016621 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAAGGGAAAAG
Found at i:11017500 original size:31 final size:31
Alignment explanation
Indices: 11017465--11017533 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
11017455 CTTGACAATC
**
11017465 TAGTGACTTAAATAAAAACTTTTGAATAGTT
1 TAGTGACTTAAATAAAAACTTTCAAATAGTT
*
11017496 TAGTGACTTAAATGAAAACTTTCAAATAGTT
1 TAGTGACTTAAATAAAAACTTTCAAATAGTT
11017527 TAGTGAC
1 TAGTGAC
11017534 AAAATTGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAACTTTCAAATAGTT
Found at i:11019059 original size:21 final size:21
Alignment explanation
Indices: 11019012--11019060 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
11019002 AATGTGTCAT
11019012 AATTATTAAAATACTTAATAA
1 AATTATTAAAATACTTAATAA
*
11019033 AA-TATTAAAGATAC-TATTAA
1 AATTATTAAA-ATACTTAATAA
11019053 AATTATTA
1 AATTATTA
11019061 TTAATGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTATTAAAATACTTAATAA
Found at i:11020778 original size:18 final size:19
Alignment explanation
Indices: 11020755--11020792 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11020745 TTCTATTTTA
11020755 TTCATTAA-TAAATTATTT
1 TTCATTAACTAAATTATTT
*
11020773 TTCATTAACTAAGTTATTT
1 TTCATTAACTAAATTATTT
11020792 T
1 T
11020793 CCATGAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (19 bp):
TTCATTAACTAAATTATTT
Found at i:11020985 original size:32 final size:30
Alignment explanation
Indices: 11020944--11021002 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
11020934 TTTTTTTTGT
*
11020944 TAAATTACACCTATGGTCACTCAATTATTAG
1 TAAATTACA-CTATGATCACTCAATTATTAG
*
11020975 TAAATTTACACTTTGATCACTCAATTAT
1 TAAA-TTACACTATGATCACTCAATTAT
11021003 AAAAAATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.39
Consensus pattern (30 bp):
TAAATTACACTATGATCACTCAATTATTAG
Found at i:11020995 original size:31 final size:30
Alignment explanation
Indices: 11020960--11021032 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
11020950 ACACCTATGG
* * * *
11020960 TCACTCAATTATTAGTAAATTTACACTTTGA
1 TCACTCAATTATTA-AAAAATTACAATTTAA
11020991 TCACTCAATTA-TAAAAAATTACAATTTAA
1 TCACTCAATTATTAAAAAATTACAATTTAA
*
11021020 TCACTAAATTATT
1 TCACTCAATTATT
11021033 CCAATTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 22 0.61
30 3 0.08
31 11 0.31
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (30 bp):
TCACTCAATTATTAAAAAATTACAATTTAA
Found at i:11022332 original size:63 final size:63
Alignment explanation
Indices: 11022247--11022420 Score: 222
Period size: 63 Copynumber: 2.8 Consensus size: 63
11022237 AGAAGGTATC
* * * * *
11022247 GGTGTAGGAAATGATTGAGCATGCTGTGGTGCTTGTGTAAAATAAATTGGTGATGACTGTGTT
1 GGTGCAGGGAATGATTGAGCATGTTGTGGTGCTTGTGTAAAATAAACTGGTGATGACTATGTT
* * *
11022310 GGTGCAGGGAATGATTGTGCATGTTGTGATGCTTGTGTAAAATAAACTGGTGCTGACTATGTT
1 GGTGCAGGGAATGATTGAGCATGTTGTGGTGCTTGTGTAAAATAAACTGGTGATGACTATGTT
** * * **
11022373 GGTGCAATGAATGATTGCGCGTGTTGTGGTGCAAGTGTAAAATAAACT
1 GGTGCAGGGAATGATTGAGCATGTTGTGGTGCTTGTGTAAAATAAACT
11022421 AGTGCGTGTT
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 96 1.00
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.33
Consensus pattern (63 bp):
GGTGCAGGGAATGATTGAGCATGTTGTGGTGCTTGTGTAAAATAAACTGGTGATGACTATGTT
Found at i:11035506 original size:18 final size:19
Alignment explanation
Indices: 11035470--11035507 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11035460 TTATAAAAAG
*
11035470 ATTCAAAATAATTTTTAAA
1 ATTCAAAATAATTTATAAA
*
11035489 ATTCAAACT-ATTTATAAA
1 ATTCAAAATAATTTATAAA
11035507 A
1 A
11035508 ATGCCAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTCAAAATAATTTATAAA
Found at i:11040533 original size:23 final size:23
Alignment explanation
Indices: 11040507--11040576 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
11040497 TGAGGTTTGC
11040507 ATTATTTGTATCCAAAGCTTAGA
1 ATTATTTGTATCCAAAGCTTAGA
* * * *
11040530 ATTA----T-TCTAAATCTAAGC
1 ATTATTTGTATCCAAAGCTTAGA
11040548 ATTATTTGTATCCAAAGCTTAGA
1 ATTATTTGTATCCAAAGCTTAGA
11040571 ATTATT
1 ATTATT
11040577 CTAAATCAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
18 13 0.38
19 1 0.03
22 1 0.03
23 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (23 bp):
ATTATTTGTATCCAAAGCTTAGA
Found at i:11040550 original size:41 final size:41
Alignment explanation
Indices: 11040505--11040583 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
11040495 TGTGAGGTTT
11040505 GCATTATTTGTATCCAAAGCTTAGAATTATTCTAAATCTAA
1 GCATTATTTGTATCCAAAGCTTAGAATTATTCTAAATCTAA
11040546 GCATTATTTGTATCCAAAGCTTAGAATTATTCTAAATC
1 GCATTATTTGTATCCAAAGCTTAGAATTATTCTAAATC
11040584 AGATAGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (41 bp):
GCATTATTTGTATCCAAAGCTTAGAATTATTCTAAATCTAA
Found at i:11044054 original size:21 final size:21
Alignment explanation
Indices: 11044016--11044200 Score: 115
Period size: 21 Copynumber: 8.8 Consensus size: 21
11044006 GAAGTTCGAA
* ** *
11044016 AGCTGAACAGAAGTTCATGAG
1 AGCTAAACAGAAACTCATAAG
11044037 AGCTAAACAGAAACTCATAAG
1 AGCTAAACAGAAACTCATAAG
* * * *
11044058 GGTTGAACAGAAGCTCATAAG
1 AGCTAAACAGAAACTCATAAG
* *
11044079 AGCTTAAC-GAAAACTTATAAG
1 AGCTAAACAG-AAACTCATAAG
* * *
11044100 GGTTAAACA-AAAGCTCAAAAG
1 AGCTAAACAGAAA-CTCATAAG
*
11044121 AGCTGAACAGAAACTCATATA-
1 AGCTAAACAGAAACTCATA-AG
* * *
11044142 AGTTAAACAGAAGCTCAAAAG
1 AGCTAAACAGAAACTCATAAG
* * *
11044163 AGCTGAACGGAAACCCATAAG
1 AGCTAAACAGAAACTCATAAG
* * *
11044184 GGTTAAACAGAAGCTCA
1 AGCTAAACAGAAACTCA
11044201 AAAAAGCTGA
Statistics
Matches: 120, Mismatches: 38, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
20 5 0.04
21 111 0.93
22 4 0.03
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.17
Consensus pattern (21 bp):
AGCTAAACAGAAACTCATAAG
Found at i:11044081 original size:42 final size:42
Alignment explanation
Indices: 11044021--11044217 Score: 236
Period size: 42 Copynumber: 4.7 Consensus size: 42
11044011 TCGAAAGCTG
* ** * *
11044021 AACAGAAGTTCATGAGAGCTAAACAGAAACTCATAAGGGTTG
1 AACAGAAGCTCAAAAGAGCTGAACAGAAACTCATAAGGGTTA
* * *
11044063 AACAGAAGCTCATAAGAGCTTAAC-GAAAACTTATAAGGGTTA
1 AACAGAAGCTCAAAAGAGCTGAACAG-AAACTCATAAGGGTTA
* *
11044105 AACAAAAGCTCAAAAGAGCTGAACAGAAACTCATATA-AGTTA
1 AACAGAAGCTCAAAAGAGCTGAACAGAAACTCATA-AGGGTTA
* *
11044147 AACAGAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCAAAAGAGCTGAACAGAAACTCATAAGGGTTA
* *
11044189 AACAGAAGCTCAAAAAAGCTGAACGGAAA
1 AACAGAAGCTCAAAAGAGCTGAACAGAAA
11044218 GTAAACATGA
Statistics
Matches: 136, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.01
42 132 0.97
43 2 0.01
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCAAAAGAGCTGAACAGAAACTCATAAGGGTTA
Found at i:11044599 original size:17 final size:18
Alignment explanation
Indices: 11044559--11044600 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
11044549 GATATAAATT
* *
11044559 AATAATTTCATACAATAT
1 AATAATTTCAGACAATAA
*
11044577 ATTAATTT-AGACAATAA
1 AATAATTTCAGACAATAA
11044594 AATAATT
1 AATAATT
11044601 CATTTCATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (18 bp):
AATAATTTCAGACAATAA
Found at i:11048053 original size:13 final size:13
Alignment explanation
Indices: 11048035--11048060 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11048025 TTCTTCTTGC
11048035 AGAAGTTACAAGT
1 AGAAGTTACAAGT
11048048 AGAAGTTACAAGT
1 AGAAGTTACAAGT
11048061 TTTACCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
AGAAGTTACAAGT
Found at i:11058636 original size:11 final size:11
Alignment explanation
Indices: 11058608--11058645 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11058598 GTCTAAAAAT
11058608 AATTATTT-AA
1 AATTATTTAAA
*
11058618 GATATATTTAAA
1 AAT-TATTTAAA
11058630 AATTATTTAAA
1 AATTATTTAAA
11058641 AATTA
1 AATTA
11058646 CTAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 2 0.08
11 18 0.75
12 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (11 bp):
AATTATTTAAA
Found at i:11065951 original size:4 final size:4
Alignment explanation
Indices: 11065944--11065978 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
11065934 TCAATATATA
11065944 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
11065979 ATCTATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:11067013 original size:41 final size:41
Alignment explanation
Indices: 11066968--11067074 Score: 187
Period size: 41 Copynumber: 2.6 Consensus size: 41
11066958 CATAGCGCCC
11066968 AGCAGGCTAAGTGCCGATGATCTGAATCAGGCTATAAGCCT
1 AGCAGGCTAAGTGCCGATGATCTGAATCAGGCTATAAGCCT
* *
11067009 AGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAGCCT
1 AGCAGGCTAAGTGCCGATGATCTGAATCAGGCTATAAGCCT
11067050 AGCAGGCTAAGTGCCGATGAATCTG
1 AGCAGGCTAAGTGCCGATG-ATCTG
11067075 TTTAAATTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
41 57 0.92
42 5 0.08
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (41 bp):
AGCAGGCTAAGTGCCGATGATCTGAATCAGGCTATAAGCCT
Found at i:11067283 original size:34 final size:34
Alignment explanation
Indices: 11067245--11067316 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
11067235 GTTGGATATA
* * * *
11067245 TATATGTATGCATTCGGCATATGTGGATT-ATAAG
1 TATATATACGCATTCGGCACATGTAG-TTGATAAG
*
11067279 TATATATGCGCATTCGGCACATGTAGTTGATAAG
1 TATATATACGCATTCGGCACATGTAGTTGATAAG
11067313 TATA
1 TATA
11067317 AATATATGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (34 bp):
TATATATACGCATTCGGCACATGTAGTTGATAAG
Found at i:11071729 original size:41 final size:41
Alignment explanation
Indices: 11071672--11071794 Score: 219
Period size: 41 Copynumber: 3.0 Consensus size: 41
11071662 NNNNNNNNNN
11071672 CTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
1 CTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
*
11071713 CTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAT
1 CTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
* *
11071754 CTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGATGAA
1 CTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
11071795 TCTGTTTAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (41 bp):
CTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
Found at i:11072011 original size:34 final size:34
Alignment explanation
Indices: 11071973--11072086 Score: 95
Period size: 34 Copynumber: 3.3 Consensus size: 34
11071963 GTTGGATATA
* * *
11071973 TATATGTATGCATTCGGCATATGTGGATT-ATAAG
1 TATATATATGCATTCGGCACATGTAG-TTGATAAG
*
11072007 TATATATGTGCATTCGGCACATGTAGTTGATAAG
1 TATATATATGCATTCGGCACATGTAGTTGATAAG
* * * * * *
11072041 TATAAATATATGCTTTTGGCATATGTATTTGAAAAAT
1 TAT--ATATATGCATTCGGCACATGTAGTTG-ATAAG
11072078 TATATATAT
1 TATATATAT
11072087 AAATGCATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
33 2 0.03
34 30 0.46
35 6 0.09
36 21 0.32
37 6 0.09
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (34 bp):
TATATATATGCATTCGGCACATGTAGTTGATAAG
Found at i:11073315 original size:17 final size:19
Alignment explanation
Indices: 11073281--11073323 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
11073271 TTTTAATTGA
*
11073281 AAATAATAAAAATCTAATT
1 AAATTATAAAAATCTAATT
11073300 -AATTATAAAAAT-TAATT
1 AAATTATAAAAATCTAATT
11073317 AAATTAT
1 AAATTAT
11073324 TATTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTATAAAAATCTAATT
Found at i:11074975 original size:6 final size:7
Alignment explanation
Indices: 11074954--11074983 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11074944 ATGCCTTTTG
11074954 TTGATTT
1 TTGATTT
*
11074961 TTTATTT
1 TTGATTT
11074968 TTGATTT
1 TTGATTT
11074975 TTGATTT
1 TTGATTT
11074982 TT
1 TT
11074984 TTTTAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (7 bp):
TTGATTT
Found at i:11075584 original size:21 final size:22
Alignment explanation
Indices: 11075558--11075601 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11075548 TATGGTTAGG
11075558 TATCGATACC-AAATGTAAAAA
1 TATCGATACCTAAATGTAAAAA
*
11075579 TATCGATACCTAAATTTAAAAA
1 TATCGATACCTAAATGTAAAAA
11075601 T
1 T
11075602 GGTAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.30
Consensus pattern (22 bp):
TATCGATACCTAAATGTAAAAA
Found at i:11078633 original size:10 final size:11
Alignment explanation
Indices: 11078620--11078676 Score: 53
Period size: 12 Copynumber: 5.0 Consensus size: 11
11078610 GGGAAATAAG
11078620 ATGAA-AAGAA
1 ATGAAGAAGAA
11078630 ATGAAGAAGAA
1 ATGAAGAAGAA
*
11078641 GAAGAAGAAGAA
1 -ATGAAGAAGAA
*
11078653 GAAGAAGAAGAA
1 -ATGAAGAAGAA
*
11078665 GAAGAAGAAGAA
1 -ATGAAGAAGAA
11078677 GAGAGGAGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
10 5 0.11
11 5 0.11
12 34 0.77
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.04
Consensus pattern (11 bp):
ATGAAGAAGAA
Found at i:11078640 original size:3 final size:3
Alignment explanation
Indices: 11078632--11078678 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
11078622 GAAAAGAAAT
11078632 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
11078679 GAGGAGGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11079308 original size:21 final size:20
Alignment explanation
Indices: 11079275--11079321 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
11079265 AGAAGAGAAT
11079275 GAAAAATAAAGAAAAAAAAA
1 GAAAAATAAAGAAAAAAAAA
* * *
11079295 GAAAATTAGAAGAACATAAAA
1 GAAAAATA-AAGAAAAAAAAA
11079316 GAAAAA
1 GAAAAA
11079322 ATATGGGAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.09
Consensus pattern (20 bp):
GAAAAATAAAGAAAAAAAAA
Found at i:11082211 original size:31 final size:31
Alignment explanation
Indices: 11082175--11082234 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
11082165 GTATTGAATG
* *
11082175 AATGAAACTGTACTAAGTATTGAAAGAATAC
1 AATGAAAATGTACTAAGTAATGAAAGAATAC
*
11082206 AATGAAAATGTATTAAGTAATGAAAGAAT
1 AATGAAAATGTACTAAGTAATGAAAGAAT
11082235 TCTTTATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.27
Consensus pattern (31 bp):
AATGAAAATGTACTAAGTAATGAAAGAATAC
Found at i:11085778 original size:37 final size:37
Alignment explanation
Indices: 11085717--11085862 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
11085707 TACGTATGAT
* *
11085717 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11085752 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11085789 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11085826 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11085863 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:11085879 original size:46 final size:46
Alignment explanation
Indices: 11085826--11086094 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
11085816 TAAGTGTAGC
* **
11085826 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
11085872 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
11085918 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11085970 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
11086016 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
11086068 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11086095 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:11085945 original size:52 final size:52
Alignment explanation
Indices: 11085869--11086088 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
11085859 TAGCTAAAGC
* *
11085869 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11085922 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11085974 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
11086020 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11086072 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
11086089 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:11085991 original size:98 final size:98
Alignment explanation
Indices: 11085826--11086094 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
11085816 TAAGTGTAGC
* * *
11085826 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
11085891 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
11085925 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
11085990 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
11086023 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
11086088 GATCAGA
66 GATCAGA
11086095 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:11090765 original size:18 final size:18
Alignment explanation
Indices: 11090738--11090866 Score: 204
Period size: 18 Copynumber: 7.2 Consensus size: 18
11090728 TACAATCGTT
*
11090738 TACGGTACTATTCATGTA
1 TACGGTACTATTCACGTA
*
11090756 TACGGAACTATTCACGTA
1 TACGGTACTATTCACGTA
*
11090774 TACGATACTATTCACGTA
1 TACGGTACTATTCACGTA
*
11090792 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
11090810 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
11090828 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
11090846 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
11090864 TAC
1 TAC
11090867 AGTAGTTGGG
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 101 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:11105203 original size:8 final size:8
Alignment explanation
Indices: 11105172--11105202 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
11105162 ATTACCCCTT
11105172 TCTCTCTA
1 TCTCTCTA
11105180 TCTCTCTA
1 TCTCTCTA
*
11105188 TCTCTCTC
1 TCTCTCTA
11105196 TCTCTCT
1 TCTCTCT
11105203 CATGCAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.06, C:0.42, G:0.00, T:0.52
Consensus pattern (8 bp):
TCTCTCTA
Found at i:11105283 original size:4 final size:4
Alignment explanation
Indices: 11105274--11105298 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11105264 AATACTTACA
11105274 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
11105299 TACTAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:11119955 original size:58 final size:58
Alignment explanation
Indices: 11119885--11120132 Score: 220
Period size: 58 Copynumber: 4.3 Consensus size: 58
11119875 TATCTGCGAT
*
11119885 CATCGAATATGAAAAGGGATAGCTTCAGCTATCAATTATGAAAAAGGATGGTGACGAC
1 CATCGAATATGAAAAGGGATAGCTTCAGCTATCAATTATGAAAAGGGATGGTGACGAC
* ** ** *
11119943 CATCGAATATGAAAAGGGATAGCTTCAGTTATCTAA-TATGAAAAGGGATAACT-TTGGC
1 CATCGAATATGAAAAGGGATAGCTTCAGCTATC-AATTATGAAAAGGGAT-GGTGACGAC
* * * * *
11120001 TATCGAATATGAAAAAGGTTAGCTTC-GACTATCGATTATGAAAAGGGATGGTGACAAC
1 CATCGAATATGAAAAGGGATAGCTTCAG-CTATCAATTATGAAAAGGGATGGTGACGAC
* * * * **
11120059 CATC-AACTATGAAAAGGGAT-G-GTGACGACCATCGATTAATGAAAAGGGATGGTTTCGAC
1 CATCGAA-TATGAAAAGGGATAGCTTCA-G-CTATCAATT-ATGAAAAGGGATGGTGACGAC
*
11120118 CATCGAATATAAAAA
1 CATCGAATATGAAAA
11120133 TGGACGATTA
Statistics
Matches: 152, Mismatches: 28, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
56 1 0.01
57 6 0.04
58 111 0.73
59 32 0.21
60 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (58 bp):
CATCGAATATGAAAAGGGATAGCTTCAGCTATCAATTATGAAAAGGGATGGTGACGAC
Found at i:11119980 original size:29 final size:29
Alignment explanation
Indices: 11119886--11120049 Score: 156
Period size: 29 Copynumber: 5.7 Consensus size: 29
11119876 ATCTGCGATC
11119886 ATCGAATATGAAAAGGGATAGCTTCAGCT
1 ATCGAATATGAAAAGGGATAGCTTCAGCT
* * * *
11119915 ATC-AATTATGAAAAAGGAT-G-GTGACGACC
1 ATCGAA-TATGAAAAGGGATAGCTTCA-G-CT
*
11119944 ATCGAATATGAAAAGGGATAGCTTCAGTT
1 ATCGAATATGAAAAGGGATAGCTTCAGCT
* * **
11119973 ATCTAATATGAAAAGGGATAACTTTGGCT
1 ATCGAATATGAAAAGGGATAGCTTCAGCT
* *
11120002 ATCGAATATGAAAAAGGTTAGCTTC-GACT
1 ATCGAATATGAAAAGGGATAGCTTCAG-CT
*
11120031 ATCGATTATGAAAAGGGAT
1 ATCGAATATGAAAAGGGAT
11120050 GGTGACAACC
Statistics
Matches: 106, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
27 2 0.02
28 5 0.05
29 93 0.88
30 4 0.04
31 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATAGCTTCAGCT
Found at i:11120041 original size:87 final size:87
Alignment explanation
Indices: 11119890--11120049 Score: 216
Period size: 87 Copynumber: 1.8 Consensus size: 87
11119880 GCGATCATCG
* *
11119890 AATATGAAAAGGGATAGCTTCAGCTATCAATTATGAAAAAGGATGGTGACGACCATCGAATATGA
1 AATATGAAAAGGGATAACTTCAGCTATCAATTATGAAAAAGGATGCTGACGACCATCGAATATGA
11119955 AAAGGGATAGCTTCAGTTATCT
66 AAAGGGATAGCTTCAGTTATCT
** * * * *
11119977 AATATGAAAAGGGATAACTTTGGCTATCGAA-TATGAAAAAGGTTAGCT-TCGACTATCGATTAT
1 AATATGAAAAGGGATAACTTCAGCTATC-AATTATGAAAAAGGAT-GCTGACGACCATCGAATAT
11120040 GAAAAGGGAT
64 GAAAAGGGAT
11120050 GGTGACAACC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 59 0.94
88 4 0.06
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.26
Consensus pattern (87 bp):
AATATGAAAAGGGATAACTTCAGCTATCAATTATGAAAAAGGATGCTGACGACCATCGAATATGA
AAAGGGATAGCTTCAGTTATCT
Found at i:11120103 original size:30 final size:29
Alignment explanation
Indices: 11120026--11120132 Score: 133
Period size: 29 Copynumber: 3.7 Consensus size: 29
11120016 AGGTTAGCTT
*
11120026 CGACTATCGATTATGAAAAGGGATGGTGA
1 CGACCATCGATTATGAAAAGGGATGGTGA
* * *
11120055 CAACCATCAACTATGAAAAGGGATGGTGA
1 CGACCATCGATTATGAAAAGGGATGGTGA
**
11120084 CGACCATCGATTAATGAAAAGGGATGGTTT
1 CGACCATCGATT-ATGAAAAGGGATGGTGA
* *
11120114 CGACCATCGAATATAAAAA
1 CGACCATCGATTATGAAAA
11120133 TGGACGATTA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 40 0.61
30 26 0.39
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (29 bp):
CGACCATCGATTATGAAAAGGGATGGTGA
Found at i:11127921 original size:57 final size:57
Alignment explanation
Indices: 11127852--11127967 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
11127842 ATCGAATCTC
*
11127852 AATTGTAAGTATAACCAATCCATACACTACTTACTCAACTAACTTTAGTAATTTTCT
1 AATTGTAAGTATAACCAATCCATACACTACTTACTCAACTAACTTCAGTAATTTTCT
11127909 AATTGTAAGTATAACCAATCCATACACTACTTACTCAACTAACTTCAGTAATTTTCT
1 AATTGTAAGTATAACCAATCCATACACTACTTACTCAACTAACTTCAGTAATTTTCT
11127966 AA
1 AA
11127968 GTAAAATAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (57 bp):
AATTGTAAGTATAACCAATCCATACACTACTTACTCAACTAACTTCAGTAATTTTCT
Found at i:11129344 original size:44 final size:42
Alignment explanation
Indices: 11129236--11129346 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
11129226 CATACAATGT
* * * *
11129236 CATATCCCAGATATGATCTTACATGTTATCACATATCGATGC
1 CATATACCAGATATGGTCTTACACGTAATCACATATCGATGC
* *
11129278 CA-ATGTCCTAGACATGGTCTTACACGTAATCACATATATCGATGC
1 CATAT-ACC-AGATATGGTCTTACACGTAATCAC--ATATCGATGC
*
11129323 TATATACCAGATATGGTCTTACAC
1 CATATACCAGATATGGTCTTACAC
11129347 AAAGACTCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
41 2 0.04
42 4 0.07
43 20 0.36
44 15 0.27
45 13 0.23
46 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (42 bp):
CATATACCAGATATGGTCTTACACGTAATCACATATCGATGC
Found at i:11129421 original size:11 final size:11
Alignment explanation
Indices: 11129405--11129435 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
11129395 TCATGTAATG
11129405 CCATGGTCTAA
1 CCATGGTCTAA
11129416 CCATGGTCTAA
1 CCATGGTCTAA
11129427 CCATGGTCT
1 CCATGGTCT
11129436 TTTCCGCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (11 bp):
CCATGGTCTAA
Found at i:11132126 original size:46 final size:46
Alignment explanation
Indices: 11132059--11132154 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
11132049 AATGTTCATC
* *
11132059 CTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTACCACTTTGTCA
11132105 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTACCACTTTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTACCACTTTGTCA
11132151 CTTG
1 CTTG
11132155 TCACTGATCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTACCACTTTGTCA
Found at i:11136333 original size:21 final size:21
Alignment explanation
Indices: 11136288--11136363 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
11136278 ATCTTCAAGG
*
11136288 ATATGTAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
11136307 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
11136328 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
11136349 TTATGCAATCTTAGA
1 ATATGCAATCTTAGA
11136364 AGATATGATT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.34
21 35 0.66
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:11139245 original size:28 final size:30
Alignment explanation
Indices: 11139200--11139255 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
11139190 TAAAAGTAAT
*
11139200 TATTTTCTTTATAAAACAT-TCAAAAAAAA
1 TATTTCCTTTATAAAACATATCAAAAAAAA
*
11139229 TATTTCCTTTAT-AAACATATTAAAAAA
1 TATTTCCTTTATAAAACATATCAAAAAA
11139256 TATTAGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (30 bp):
TATTTCCTTTATAAAACATATCAAAAAAAA
Found at i:11148262 original size:22 final size:23
Alignment explanation
Indices: 11148210--11148268 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
11148200 AATATAAAAT
11148210 ATAAAATGTATTATAAAAATTATA
1 ATAAAAT-TATTATAAAAATTATA
* *
11148234 A-ATAATTGTTATAAAAATTA-A
1 ATAAAATTATTATAAAAATTATA
*
11148255 ATAAAATTTTTATA
1 ATAAAATTATTATA
11148269 TTAATATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 23 0.77
23 4 0.13
24 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (23 bp):
ATAAAATTATTATAAAAATTATA
Found at i:11148300 original size:47 final size:48
Alignment explanation
Indices: 11148249--11148341 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 48
11148239 TTGTTATAAA
*
11148249 AATTAAATAAAATTTTTATATTA-ATATTA-AATTAAAAAAACTTTAAC
1 AATTAAATAAAATTTTTATAATACATATTATAATTAAAAAAA-TTTAAC
** * * *
11148296 AATTATTTATAATTTTTATAATACATTTTATATTTAAAAAAATTTA
1 AATTAAATAAAATTTTTATAATACATATTATAATTAAAAAAATTTA
11148342 GAATAATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
47 19 0.50
48 9 0.24
49 10 0.26
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (48 bp):
AATTAAATAAAATTTTTATAATACATATTATAATTAAAAAAATTTAAC
Found at i:11151220 original size:18 final size:18
Alignment explanation
Indices: 11151194--11151228 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11151184 TATTATTGCC
* *
11151194 TATTTTTTGTTTTCTTTG
1 TATTATTTGCTTTCTTTG
11151212 TATTATTTGCTTTCTTT
1 TATTATTTGCTTTCTTT
11151229 TTATATACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (18 bp):
TATTATTTGCTTTCTTTG
Found at i:11157425 original size:50 final size:50
Alignment explanation
Indices: 11157362--11157465 Score: 172
Period size: 50 Copynumber: 2.1 Consensus size: 50
11157352 TAGTCCTTAA
*
11157362 CTTGCCTTCTTAGTTCCAACAGAAATAAGGCCTAATTCGGAAGCATGTAG
1 CTTGCCTTCTTAGTTCCAACAGAAATAAGGCCTAATTCCGAAGCATGTAG
* * *
11157412 CTTGCCTTTTTAGTTTCAACAGAAATAAGGCCTAATTCCGAAGCATGTTG
1 CTTGCCTTCTTAGTTCCAACAGAAATAAGGCCTAATTCCGAAGCATGTAG
11157462 CTTG
1 CTTG
11157466 GGTGCAGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (50 bp):
CTTGCCTTCTTAGTTCCAACAGAAATAAGGCCTAATTCCGAAGCATGTAG
Found at i:11184137 original size:24 final size:25
Alignment explanation
Indices: 11184086--11184146 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
11184076 TAACTGATTC
* *
11184086 AAATCATTTTTAATTTTACAAGTTAT
1 AAATCA-TTTTAATTTCACAAGTAAT
11184112 AAAT-ATTTTAATTTCA-AATGTAAT
1 AAATCATTTTAATTTCACAA-GTAAT
*
11184136 AATTCATTTTA
1 AAATCATTTTA
11184147 CATCTATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 2 0.07
24 17 0.57
25 7 0.23
26 4 0.13
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (25 bp):
AAATCATTTTAATTTCACAAGTAAT
Found at i:11190184 original size:22 final size:22
Alignment explanation
Indices: 11190142--11190184 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11190132 TTTTTTAGTT
*
11190142 AAATTTGACCTCAATCGTTTTC
1 AAATTTGACCTCAATCCTTTTC
11190164 AAATTTGACCATCAA-CCTTTT
1 AAATTTGACC-TCAATCCTTTT
11190185 GAAAAAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATTTGACCTCAATCCTTTTC
Found at i:11193556 original size:20 final size:16
Alignment explanation
Indices: 11193523--11193565 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 16
11193513 TTAAAAAAAA
11193523 ATATTTTTATGTTTTTAT
1 ATATTTTTATG--TTTAT
11193541 ATATTTTTAAATGTTTAT
1 ATATTTTT--ATGTTTAT
11193559 ATATTTT
1 ATATTTT
11193566 AATTTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 20 0.87
20 3 0.13
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
ATATTTTTATGTTTAT
Found at i:11199273 original size:15 final size:15
Alignment explanation
Indices: 11199253--11199283 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11199243 AGATTGGAAA
*
11199253 ATCTAAAGATGTTGG
1 ATCTAAAGAGGTTGG
11199268 ATCTAAAGAGGTTGG
1 ATCTAAAGAGGTTGG
11199283 A
1 A
11199284 CAATATGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (15 bp):
ATCTAAAGAGGTTGG
Found at i:11200432 original size:89 final size:89
Alignment explanation
Indices: 11200281--11200459 Score: 349
Period size: 89 Copynumber: 2.0 Consensus size: 89
11200271 AAATATTTTT
*
11200281 AGAAATATTTATAGAGTGTCATTGAGTTGGTATTAAAGTTTCGTTAGAAAATTTTTACGTTTGGA
1 AGAAATATTTATAGAGTGTCATTGAGTTGGTATTAAAGTTTCGTTAGAAAATTTTAACGTTTGGA
11200346 TAGTTAATTAACTAAAAAGGACTA
66 TAGTTAATTAACTAAAAAGGACTA
11200370 AGAAATATTTATAGAGTGTCATTGAGTTGGTATTAAAGTTTCGTTAGAAAATTTTAACGTTTGGA
1 AGAAATATTTATAGAGTGTCATTGAGTTGGTATTAAAGTTTCGTTAGAAAATTTTAACGTTTGGA
11200435 TAGTTAATTAACTAAAAAGGACTA
66 TAGTTAATTAACTAAAAAGGACTA
11200459 A
1 A
11200460 ATTGAAAATA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (89 bp):
AGAAATATTTATAGAGTGTCATTGAGTTGGTATTAAAGTTTCGTTAGAAAATTTTAACGTTTGGA
TAGTTAATTAACTAAAAAGGACTA
Found at i:11201498 original size:37 final size:37
Alignment explanation
Indices: 11201457--11201632 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
11201447 TTTGAGTACT
11201457 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11201494 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11201531 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11201568 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
11201605 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
11201633 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:11201704 original size:45 final size:46
Alignment explanation
Indices: 11201595--11201718 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
11201585 GTGATAAGTG
* *
11201595 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
11201641 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
11201686 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
11201719 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:11204723 original size:18 final size:18
Alignment explanation
Indices: 11204696--11204788 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
11204686 TACGACCGTT
11204696 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
11204714 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
11204732 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* * *
11204750 TACGGCACCATTCACATA
1 TACGGTACTATTCACGTA
*
11204768 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
11204786 TAC
1 TAC
11204789 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:11204743 original size:36 final size:36
Alignment explanation
Indices: 11204696--11204788 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
11204686 TACGACCGTT
* *
11204696 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACCATTCACATA
11204732 TACGGTACTATTCACGTATACGGCACCATTCACATA
1 TACGGTACTATTCACGTATACGGCACCATTCACATA
*
11204768 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
11204789 AGTAGTTGGG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACCATTCACATA
Found at i:11217680 original size:20 final size:21
Alignment explanation
Indices: 11217652--11217690 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
11217642 TCTCTTTGGA
*
11217652 TCTCGGTTTCTTG-TTGTTTT
1 TCTCCGTTTCTTGCTTGTTTT
*
11217672 TCTCCGTTTGTTGCTTGTT
1 TCTCCGTTTCTTGCTTGTT
11217691 CTTTTTGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.00, C:0.18, G:0.21, T:0.62
Consensus pattern (21 bp):
TCTCCGTTTCTTGCTTGTTTT
Found at i:11225314 original size:21 final size:21
Alignment explanation
Indices: 11225288--11225327 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11225278 AATAAACACC
11225288 AAAAAA-AATTTTAGAAAATTA
1 AAAAAAGAATTTTA-AAAATTA
*
11225309 AAAAAAGTATTTTAAAAAT
1 AAAAAAGAATTTTAAAAAT
11225328 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAAAAGAATTTTAAAAATTA
Found at i:11225320 original size:22 final size:19
Alignment explanation
Indices: 11225288--11225327 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 19
11225278 AATAAACACC
11225288 AAAAAAAATTTTAGAAAATT
1 AAAAAAAATTTTA-AAAATT
11225308 AAAAAAAGTATTTTAAAAAT
1 AAAAAAA--ATTTTAAAAAT
11225328 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAAAAAATTTTAAAAATT
Found at i:11225330 original size:11 final size:11
Alignment explanation
Indices: 11225310--11225339 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11225300 AGAAAATTAA
11225310 AAAAAGTATTTT
1 AAAAA-TATTTT
11225322 AAAAATATTTT
1 AAAAATATTTT
11225333 AAAAATA
1 AAAAATA
11225340 AAAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:11226610 original size:11 final size:11
Alignment explanation
Indices: 11226594--11226618 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11226584 TTTGGGGAGA
11226594 CCGACCCGGCT
1 CCGACCCGGCT
11226605 CCGACCCGGCT
1 CCGACCCGGCT
11226616 CCG
1 CCG
11226619 CGTGTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.56, G:0.28, T:0.08
Consensus pattern (11 bp):
CCGACCCGGCT
Found at i:11231163 original size:41 final size:41
Alignment explanation
Indices: 11231116--11231195 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
11231106 TGACTGGAGG
11231116 AGTTGACAAAGGAAAGGGCTCGGTGCTCAACATTGAAGAGC
1 AGTTGACAAAGGAAAGGGCTCGGTGCTCAACATTGAAGAGC
*
11231157 AGTTGACAAAGGGAAGGGCTCGGTGCTCAACATTGAAGA
1 AGTTGACAAAGGAAAGGGCTCGGTGCTCAACATTGAAGA
11231196 AAGAAACAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.33, T:0.17
Consensus pattern (41 bp):
AGTTGACAAAGGAAAGGGCTCGGTGCTCAACATTGAAGAGC
Found at i:11239046 original size:44 final size:44
Alignment explanation
Indices: 11238998--11239314 Score: 138
Period size: 44 Copynumber: 7.2 Consensus size: 44
11238988 AAGATTGTAG
*
11238998 ATCTTATCTCCCTAAGTAGTAGTTGAGCAGATAGAAGACGACGA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATAGAAGACGACGA
* ** * *
11239042 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGTAGTAGT-GG-AGCAGATAGAAGACGACGA
* * * * * * * * *
11239085 AGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTA-G-
1 A-TCTTATCTCCCTAAGTAGTAGTGGAGCAGATAGAAGA-CG-ACGA
*
11239130 ATCTTATCTCCCTAAGTAGTAGTTGAGCAGATAGAAGACGACGA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATAGAAGACGACGA
* ** *
11239174 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CTAAC-A
1 ATCTTATC-TCCCTAAGTAGTAGT-GG-AGCAGATAGAAGAC-GACGA
* * * * * * * * *
11239217 AGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTA-G-
1 A-TCTTATCTCCCTAAGTAGTAGTGGAGCAGATAGAAGA-CG-ACGA
* * *
11239262 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATAGAAGACGACGA
11239306 ATCTTATCT
1 ATCTTATCT
11239315 TTCCAAGATA
Statistics
Matches: 196, Mismatches: 51, Indels: 52
0.66 0.17 0.17
Matches are distributed among these distances:
42 9 0.05
43 22 0.11
44 143 0.73
45 14 0.07
46 7 0.04
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATAGAAGACGACGA
Found at i:11239186 original size:132 final size:132
Alignment explanation
Indices: 11238949--11239613 Score: 1123
Period size: 132 Copynumber: 5.0 Consensus size: 132
11238939 CAGATCGGTA
* *
11238949 ACCAAGCCTTGTCTCCTTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * * *
11239014 TAGTAGTTGAGCAGATAGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
11239079 CC
131 CC
11239081 ACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * * *
11239146 TAGTAGTTGAGCAGATAGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
*
11239211 CT
131 CC
*
11239213 AACAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
11239278 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
11239343 CC
131 CC
* * *
11239345 ACCAAGCCTTGTCTCCCTAAACAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTGTCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
*
11239410 CAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
11239475 CC
131 CC
* * *
11239477 ACCAAGCCTTGTCTCCCTAAACAGTAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAG
1 ACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * * *
11239542 CAGTAGCGGAGCAGATCGAAGTCGGCGAATCTTATCTTTCCAAGACAGTGGGAAGTAGATTTAAG
66 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
11239607 CC
131 CC
11239609 ACCAA
1 ACCAA
11239614 ATCTTATCTC
Statistics
Matches: 512, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 512 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
ACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
CC
Found at i:11239574 original size:44 final size:44
Alignment explanation
Indices: 11239224--11239578 Score: 138
Period size: 44 Copynumber: 8.1 Consensus size: 44
11239214 ACAAGCCTTG
* * * * **
11239224 TCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAG-ATCTTA
1 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAG-TCGGCGAATCTTA
* * *
11239268 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTA
1 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAGTCGGCGAATCTTA
* * * ** * * *
11239312 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAG-CGG-AGCAGATTGAAGTCGGCGAA-TCTTA
* * * * ** *
11239356 TCTCCCTAAACAGTAGCGGAGAAGGTTGAAGATTGTAG-ATCTTG
1 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAG-TCGGCGAATCTTA
* * * *
11239400 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTA
1 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAGTCGGCGAATCTTA
* * * ** * * *
11239444 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAG-CGG-AGCAGATTGAAGTCGGCGAA-TCTTA
* * * ****
11239488 TCTCCCTAAACAGTAGCGGAGAAGGTTGAAGATTATAG-ATCTTA
1 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAG-TCGGCGAATCTTA
*
11239532 TCTCCCTAAGCAGTAGCGGAGCAGATCGAAGTCGGCGAATCTTA
1 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAGTCGGCGAATCTTA
11239576 TCT
1 TCT
11239579 TTCCAAGACA
Statistics
Matches: 219, Mismatches: 71, Indels: 42
0.66 0.21 0.13
Matches are distributed among these distances:
42 6 0.03
43 25 0.11
44 168 0.77
45 14 0.06
46 6 0.03
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGCGGAGCAGATTGAAGTCGGCGAATCTTA
Found at i:11243472 original size:16 final size:15
Alignment explanation
Indices: 11243438--11243475 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
11243428 TATAAGCTTG
*
11243438 AATTTTTTTAATCTC
1 AATTTTTTTAAACTC
11243453 -ATTTTTTTAAACTC
1 AATTTTTTTAAACTC
11243467 AAATTTTTT
1 -AATTTTTT
11243476 CGGTTCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 13 0.65
16 7 0.35
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (15 bp):
AATTTTTTTAAACTC
Found at i:11246603 original size:19 final size:20
Alignment explanation
Indices: 11246579--11246621 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11246569 AGCTTGAATG
11246579 ATATA-TATAAA-AATTATAA
1 ATATATTATAAATAATTA-AA
*
11246598 ATATATTTTAAATAATTAAA
1 ATATATTATAAATAATTAAA
11246618 ATAT
1 ATAT
11246622 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATATTATAAATAATTAAA
Found at i:11254062 original size:23 final size:24
Alignment explanation
Indices: 11254017--11254063 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
11254007 CAATTAGAAA
*
11254017 AGAAAATCATAATAAGAAATAACAGG
1 AGAAAAACATAATAAG--ATAACAGG
11254043 AGAAAAACATAATAAG-TAACA
1 AGAAAAACATAATAAGATAACA
11254064 ATATGATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
26 15 0.75
ACGTcount: A:0.64, C:0.09, G:0.13, T:0.15
Consensus pattern (24 bp):
AGAAAAACATAATAAGATAACAGG
Found at i:11260538 original size:30 final size:30
Alignment explanation
Indices: 11260502--11260572 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
11260492 GATTTATAAG
*
11260502 TAATTTTAT-TTA-AATCATAACATAATTATA
1 TAATTTTATATTACAA-CATAA-ATAATTAAA
* *
11260532 TAATTTTATATTACAACATAATTATTTAAA
1 TAATTTTATATTACAACATAAATAATTAAA
11260562 TAATTTTATAT
1 TAATTTTATAT
11260573 ATCTTAGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 26 0.72
31 8 0.22
32 2 0.06
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (30 bp):
TAATTTTATATTACAACATAAATAATTAAA
Found at i:11262545 original size:21 final size:22
Alignment explanation
Indices: 11262519--11262574 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
11262509 AGTTTCCCCC
11262519 GTTTGCAGTGGCTATACAA-TT
1 GTTTGCAGTGGCTATACAATTT
*
11262540 GTTTGCAGTGGCTATATAATTT
1 GTTTGCAGTGGCTATACAATTT
*
11262562 ATTTGCAGTGGCT
1 GTTTGCAGTGGCT
11262575 CCATCTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.41
Consensus pattern (22 bp):
GTTTGCAGTGGCTATACAATTT
Found at i:11267321 original size:15 final size:15
Alignment explanation
Indices: 11267286--11267337 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
11267276 TTAAGAATTT
*
11267286 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11267300 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11267314 TATTTAATAATAAT-
1 TATTTAATTATAATA
11267328 TATGTTAATT
1 TAT-TTAATT
11267338 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11267395 original size:66 final size:62
Alignment explanation
Indices: 11267338--11267528 Score: 177
Period size: 61 Copynumber: 3.2 Consensus size: 62
11267328 TATGTTAATT
11267338 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA
* * * * * * * *
11267400 GA-ATTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATT-A-TGTTAA
1 TATATTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTAATTATTAA
*
11267456 TTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA
1 --TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA
*
11267520 GA-ATTTTAT
1 TATATTTTAT
11267529 TAAATTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 29
0.67 0.13 0.20
Matches are distributed among these distances:
56 5 0.05
57 12 0.12
58 7 0.07
59 16 0.17
60 8 0.08
61 22 0.23
62 9 0.09
63 12 0.12
64 5 0.05
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (62 bp):
TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA
Found at i:11267435 original size:120 final size:120
Alignment explanation
Indices: 11267217--11267573 Score: 687
Period size: 120 Copynumber: 3.0 Consensus size: 120
11267207 NNNNNNNNNN
*
11267217 TTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
1 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
11267282 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAT
66 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAT
11267337 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
1 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
11267402 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAT
66 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAT
*
11267457 TTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
1 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
*
11267522 ATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
11267574 TAAATATGAT
Statistics
Matches: 234, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 234 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAT
Found at i:11267441 original size:15 final size:15
Alignment explanation
Indices: 11267406--11267457 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
11267396 TTAAGAATTT
*
11267406 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11267420 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11267434 TATTTAATAATAAT-
1 TATTTAATTATAATA
11267448 TATGTTAATT
1 TAT-TTAATT
11267458 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11267550 original size:18 final size:17
Alignment explanation
Indices: 11267522--11267556 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11267512 ATTATTAAGA
*
11267522 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11267539 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11267557 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11267689 original size:156 final size:157
Alignment explanation
Indices: 11267510--11267825 Score: 580
Period size: 156 Copynumber: 2.0 Consensus size: 157
11267500 ATAAGAATAT
11267510 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
11267575 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
11267640 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
11267667 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
11267731 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
11267796 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
11267823 TAA
1 TAA
11267826 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
156 148 0.96
157 6 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:11267706 original size:18 final size:17
Alignment explanation
Indices: 11267678--11267712 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11267668 AATTATAAGA
*
11267678 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11267695 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11267713 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11267969 original size:16 final size:16
Alignment explanation
Indices: 11267948--11267983 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
11267938 GATTTGCTAT
11267948 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
11267964 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
11267980 TACA
1 TACA
11267984 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Done.