Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 90 of 292
Found at i:27695077 original size:40 final size:40
Alignment explanation
Indices: 27695018--27695185 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
27695008 CATTTGAATG
* * *
27695018 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
27695058 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * **
27695098 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
27695138 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
27695178 ATATCCGG
1 ATATCCGG
27695186 TTAAATCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 99 0.93
41 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:27697330 original size:23 final size:24
Alignment explanation
Indices: 27697300--27697346 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
27697290 AGAGAAGTGG
*
27697300 AGCCAAATTG-GGAATTTGGGGAT
1 AGCCAAATTGCCGAATTTGGGGAT
*
27697323 AGCCAAATTGCCGATTTTGGGGAT
1 AGCCAAATTGCCGAATTTGGGGAT
27697347 TCTAAGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.28
Consensus pattern (24 bp):
AGCCAAATTGCCGAATTTGGGGAT
Found at i:27698351 original size:28 final size:28
Alignment explanation
Indices: 27698311--27698401 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 28
27698301 ATTGCATGAC
* * *
27698311 TATGATTGTGATTAGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTAACGGGCCA
*
27698339 TATGAATGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAACGGGCCA
* *
27698367 TATGAATGGGATTGGGCCTAAGGGGCCA
1 TATGAATGTGATTGGGCCTAACGGGCCA
*
27698395 AATGAAT
1 TATGAAT
27698402 AAGTGTGGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAACGGGCCA
Found at i:27699432 original size:17 final size:18
Alignment explanation
Indices: 27699399--27699432 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27699389 TCTTTTGATG
27699399 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
27699417 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
27699433 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:27700876 original size:23 final size:24
Alignment explanation
Indices: 27700845--27700889 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
27700835 TTTCCACCTG
*
27700845 TTAAGCTC-TATGAGCTTCCTGTT
1 TTAAACTCTTATGAGCTTCCTGTT
*
27700868 TTAAACTCTTATGAGTTTCCTG
1 TTAAACTCTTATGAGCTTCCTG
27700890 ATATAGCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (24 bp):
TTAAACTCTTATGAGCTTCCTGTT
Found at i:27701308 original size:17 final size:17
Alignment explanation
Indices: 27701265--27701309 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
27701255 AAATTCATGA
*
27701265 AAATG-ATGGTAT-ATG
1 AAATGAATGATATAATG
*
27701280 AAAT-ATTGATATAATG
1 AAATGAATGATATAATG
27701296 AAATGAATGATATA
1 AAATGAATGATATA
27701310 TGTTTATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 9 0.38
16 7 0.29
17 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
AAATGAATGATATAATG
Found at i:27707844 original size:29 final size:30
Alignment explanation
Indices: 27707773--27707884 Score: 117
Period size: 29 Copynumber: 3.9 Consensus size: 30
27707763 ACCCCTACAT
* *
27707773 ACATGCATATGGCCCA-CTAGGCCCAA-TC
1 ACATTCATATGGCCCATCTAGTCCCAATTC
* * *
27707801 TCATTCATATAGCCCATCTTG-CCCAATTC
1 ACATTCATATGGCCCATCTAGTCCCAATTC
* *
27707830 ATATTCTTATGGCCCA-CTAGTCCCAATTC
1 ACATTCATATGGCCCATCTAGTCCCAATTC
*
27707859 ACATTCATATGGCCCAT-TAGGCCCAA
1 ACATTCATATGGCCCATCTAGTCCCAA
27707885 ATCATAGTAT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
28 21 0.31
29 47 0.69
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (30 bp):
ACATTCATATGGCCCATCTAGTCCCAATTC
Found at i:27707883 original size:58 final size:57
Alignment explanation
Indices: 27707780--27707890 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 57
27707770 CATACATGCA
* * *
27707780 TATGGCCCACTAGGCCCAATCTCATTCATATAGCCCATCTTGCCCAATTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCATATAGCCCATCTGGCCCAAATCATATTCT
* *
27707837 TATGGCCCACTAGTCCCAATTCACATTCATATGGCCCAT-TAGGCCCAAATCATA
1 TATGGCCCACTAGGCCCAA-TCACATTCATATAGCCCATCT-GGCCCAAATCATA
27707891 GTATATTCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
57 19 0.40
58 28 0.60
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATATAGCCCATCTGGCCCAAATCATATTCT
Found at i:27707987 original size:18 final size:19
Alignment explanation
Indices: 27707964--27708001 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
27707954 ATGGGCTCGA
27707964 TAGCCCA-TCAGGCCCATT
1 TAGCCCATTCAGGCCCATT
*
27707982 TAGCCCATTCCGGCCCATT
1 TAGCCCATTCAGGCCCATT
27708001 T
1 T
27708002 GGCCAATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.18, C:0.39, G:0.16, T:0.26
Consensus pattern (19 bp):
TAGCCCATTCAGGCCCATT
Found at i:27708010 original size:19 final size:19
Alignment explanation
Indices: 27707974--27708010 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27707964 TAGCCCATCA
*
27707974 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
27707993 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
27708011 TCAACCTAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:27708132 original size:16 final size:16
Alignment explanation
Indices: 27708108--27708143 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
27708098 GTAGCCCAAC
* *
27708108 TTTCGGCTTTTCGGTA
1 TTTCAGCTTTTCGGCA
27708124 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
27708140 TTTC
1 TTTC
27708144 GACTTTTGCC
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:0.08, C:0.22, G:0.19, T:0.50
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:27708149 original size:16 final size:16
Alignment explanation
Indices: 27708108--27708150 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
27708098 GTAGCCCAAC
* *
27708108 TTTCGGCTTTTCGGTA
1 TTTCGACTTTTCGGCA
27708124 TTTC-AGCTTTTCGGCA
1 TTTCGA-CTTTTCGGCA
27708140 TTTCGACTTTT
1 TTTCGACTTTT
27708151 GCCGATTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 22 0.96
17 1 0.04
ACGTcount: A:0.09, C:0.21, G:0.19, T:0.51
Consensus pattern (16 bp):
TTTCGACTTTTCGGCA
Found at i:27710653 original size:40 final size:40
Alignment explanation
Indices: 27710608--27710737 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
27710598 CGGAATACAA
27710608 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
27710648 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
27710688 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
27710728 CCGGATATAA
1 CCGGATATAA
27710738 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:27710752 original size:40 final size:40
Alignment explanation
Indices: 27710608--27710771 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
27710598 CGGAATACAA
* **
27710608 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
27710648 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
27710688 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
27710728 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
27710768 CCGG
1 CCGG
27710772 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:27718707 original size:40 final size:40
Alignment explanation
Indices: 27718662--27718791 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
27718652 CGGAATACAA
27718662 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
27718702 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
27718742 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
27718782 CCGGATATAA
1 CCGGATATAA
27718792 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:27718806 original size:40 final size:40
Alignment explanation
Indices: 27718662--27718825 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
27718652 CGGAATACAA
* **
27718662 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
27718702 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
27718742 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
27718782 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
27718822 CCGG
1 CCGG
27718826 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:27724944 original size:22 final size:22
Alignment explanation
Indices: 27724916--27724967 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
27724906 GAATTCTAGA
27724916 GTTGAAAGAATTTTTCATTTTG
1 GTTGAAAGAATTTTTCATTTTG
27724938 GTTGAAAGAATTTTTCATTTTG
1 GTTGAAAGAATTTTTCATTTTG
27724960 GTTGAAAG
1 GTTGAAAG
27724968 GGCTTGTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (22 bp):
GTTGAAAGAATTTTTCATTTTG
Found at i:27729732 original size:9 final size:9
Alignment explanation
Indices: 27729718--27729743 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27729708 ATGAATTAGG
27729718 GATTAAATT
1 GATTAAATT
27729727 GATTAAATT
1 GATTAAATT
27729736 GATTAAAT
1 GATTAAAT
27729744 GTGAAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (9 bp):
GATTAAATT
Found at i:27731399 original size:49 final size:49
Alignment explanation
Indices: 27731342--27731514 Score: 240
Period size: 49 Copynumber: 3.5 Consensus size: 49
27731332 TGAGATCACG
*
27731342 TGTGTAGTACTAAGTGCAGGCTAATACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * ** * *
27731391 TGTGTAGTAATAAGCGCA-GCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
*
27731440 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
27731489 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
27731515 TGCGTACCAG
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
48 18 0.17
49 67 0.64
50 19 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:27734063 original size:40 final size:40
Alignment explanation
Indices: 27734018--27734147 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
27734008 CGGAATACAA
27734018 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACGAATGCCTTCGGGTCTTAGC
* ** *
27734058 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
27734098 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
27734138 CCGGATATAA
1 CCGGATATAA
27734148 TTTCCAGCAA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.03
40 73 0.97
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:27736543 original size:40 final size:39
Alignment explanation
Indices: 27736462--27736605 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
27736452 CCGCACCAAG
* * * * * * *
27736462 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
27736502 GCCTTCGGGTCTTAGCCCGGATTTAACAACTGGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
27736542 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAA-T
*
27736582 GCCTTCGGGTCTTAACCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
27736606 CATTTTCAGC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.02
40 87 0.98
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAT
Found at i:27736647 original size:39 final size:41
Alignment explanation
Indices: 27736494--27736648 Score: 158
Period size: 40 Copynumber: 3.9 Consensus size: 41
27736484 ATCACGATTT
* * *** *
27736494 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-TTAACAACTG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
**
27736534 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT-AGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
* *
27736574 GCACAATTGCCTTCGGGTCTTAACCCGGATATCATTTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
* *
27736614 GCATAATTGTCTTCGGG-CTTAGCCCGGATATCATT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATT
27736649 CAATTTCTCA
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
39 19 0.19
40 76 0.75
41 6 0.06
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (41 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
Found at i:27740292 original size:40 final size:40
Alignment explanation
Indices: 27740226--27740376 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
27740216 AAATTGAATG
* * *
27740226 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
27740265 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
27740305 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
27740345 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
27740377 ACGTGTTATA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:27746725 original size:40 final size:40
Alignment explanation
Indices: 27746587--27746768 Score: 181
Period size: 39 Copynumber: 4.6 Consensus size: 40
27746577 CCGCACCAAG
* * * * * * * *
27746587 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
27746627 GCCTTCGGGTCTTAGCCCGGATTTAACAACT-GCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
27746666 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
27746706 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
27746745 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
27746769 CATTCAATTT
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 64 0.53
40 57 0.47
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:27746751 original size:79 final size:79
Alignment explanation
Indices: 27746619--27746768 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 79
27746609 ATCACGATTT
* * * *
27746619 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTGCACGAATGCCTTCGGGTCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAACAACAGCACGAATGCCTTCGGGGCTTAGCCC
27746684 GGATATAGCTACTA
66 GGATATAGCTACTA
* *** * *
27746698 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCAGCA-TAATTGTCTTCGGGGCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAACAACAGCACGAA-TGCCTTCGGGGCTTAGCC
27746762 CGGATAT
65 CGGATAT
27746769 CATTCAATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
78 2 0.03
79 58 0.97
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAACAACAGCACGAATGCCTTCGGGGCTTAGCCC
GGATATAGCTACTA
Found at i:27751044 original size:15 final size:15
Alignment explanation
Indices: 27751022--27751059 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
27751012 GTAAATGGTA
27751022 TTCCTTATCATGGAT
1 TTCCTTATCATGGAT
* *
27751037 TTCTTTATCTTGGAT
1 TTCCTTATCATGGAT
27751052 TTCCTTAT
1 TTCCTTAT
27751060 TCTGGGCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.18, G:0.11, T:0.55
Consensus pattern (15 bp):
TTCCTTATCATGGAT
Found at i:27753779 original size:38 final size:35
Alignment explanation
Indices: 27753722--27753822 Score: 120
Period size: 31 Copynumber: 2.9 Consensus size: 35
27753712 TCAATCATGC
*
27753722 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
*
27753761 ACTGGGCTGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
27753792 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
27753823 ACTGGGCCGA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
31 26 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 10 0.18
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.41
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:27753783 original size:31 final size:31
Alignment explanation
Indices: 27753745--27753839 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
27753735 CCTTTTCATA
* *
27753745 TTTCATATTTCATAATACTGGGCTGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
27753776 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
27753807 TTTCATATTTCATATTACTGGGCCGAAG-CT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
27753837 TTT
1 TTT
27753840 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 5 0.08
31 57 0.92
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:27754082 original size:24 final size:24
Alignment explanation
Indices: 27754031--27754149 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
27754021 GCTTTATCAT
*
27754031 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
27754056 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
27754080 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
27754103 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
27754127 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27754150 TCACTTCCTT
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:27754110 original size:47 final size:48
Alignment explanation
Indices: 27754031--27754149 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
27754021 GCTTTATCAT
*
27754031 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
27754080 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
27754127 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27754150 TCACTTCCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:27754225 original size:20 final size:20
Alignment explanation
Indices: 27754200--27754259 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
27754190 TATGATTACC
27754200 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
27754220 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
27754240 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
27754260 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:27754230 original size:11 final size:11
Alignment explanation
Indices: 27754200--27754254 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
27754190 TATGATTACC
27754200 TCATGTGCATA
1 TCATGTGCATA
*
27754211 TCA--TACATA
1 TCATGTGCATA
27754220 TCATGTGCATA
1 TCATGTGCATA
* *
27754231 TCA--TACATT
1 TCATGTGCATA
27754240 TCATGTGCATA
1 TCATGTGCATA
27754251 TCAT
1 TCAT
27754255 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:27754334 original size:25 final size:25
Alignment explanation
Indices: 27754302--27754349 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27754292 ATACATAAAC
* * *
27754302 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
27754327 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
27754350 CATGGTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:27761905 original size:38 final size:35
Alignment explanation
Indices: 27761846--27761963 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
27761836 TCAATCATGC
*
27761846 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
27761885 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
27761916 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
27761947 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
27761964 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:27761907 original size:31 final size:31
Alignment explanation
Indices: 27761869--27761963 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
27761859 CCTTTTCATA
*
27761869 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
27761900 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
27761931 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
27761962 TT
1 TT
27761964 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:27762206 original size:24 final size:24
Alignment explanation
Indices: 27762155--27762250 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
27762145 GCTTTATCAT
*
27762155 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
27762180 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
27762204 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
27762228 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27762251 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
24 52 0.81
25 12 0.19
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:27762326 original size:20 final size:20
Alignment explanation
Indices: 27762301--27762360 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
27762291 TATGATTACC
27762301 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
27762321 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
27762341 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
27762361 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:27762331 original size:11 final size:11
Alignment explanation
Indices: 27762301--27762355 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
27762291 TATGATTACC
27762301 TCATGTGCATA
1 TCATGTGCATA
*
27762312 TCA--TACATA
1 TCATGTGCATA
27762321 TCATGTGCATA
1 TCATGTGCATA
* *
27762332 TCA--TACATT
1 TCATGTGCATA
27762341 TCATGTGCATA
1 TCATGTGCATA
27762352 TCAT
1 TCAT
27762356 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:27762435 original size:25 final size:25
Alignment explanation
Indices: 27762403--27762450 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27762393 ATACATAAAC
* * *
27762403 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
27762428 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
27762451 CATGGTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:27764207 original size:49 final size:50
Alignment explanation
Indices: 27764149--27764389 Score: 272
Period size: 49 Copynumber: 4.8 Consensus size: 50
27764139 GGATGTTACA
* *
27764149 ACATGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGATAATT-GGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTC
* * * * * *
27764198 GCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTAGGTC
* * * * **
27764249 ACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTATCAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTC
* * *
27764299 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTC
* *
27764348 GA-ATGTGTAGTACTAAGTGCAGGCTAGTATGCGTACCAGATA
1 -ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
27764390 GCTTTGGCTA
Statistics
Matches: 162, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 78 0.48
50 48 0.30
51 36 0.22
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTC
Found at i:27764341 original size:101 final size:98
Alignment explanation
Indices: 27764151--27764373 Score: 286
Period size: 101 Copynumber: 2.2 Consensus size: 98
27764141 ATGTTACAAC
* * *
27764151 ATGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGATAATTGGTCGCATGTGTAGTACTAAGT
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAAGT
* *
27764216 GTAGGCTACTATGCGTACCCGATAACTTCGATC-A
66 GCAGGCTACTACGCGTACCCGATAA-TT-GATCGA
* * ** *
27764250 CGTGTGTAGTACTAAGCGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAA
1 -ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACATGTGTAGTACTAA
* * *
27764315 GTGCAGGCTACTACGTGTACCGGATAATTGGTCGA
64 GTGCAGGCTACTACGCGTACCCGATAATTGATCGA
27764350 ATGTGTAGTACTAAGTGCAGGCTA
1 ATGTGTAGTACTAAGTGCAGGCTA
27764374 GTATGCGTAC
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 25 0.24
100 40 0.38
101 41 0.39
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (98 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACCCGATAATTGATCGA
Found at i:27770970 original size:154 final size:152
Alignment explanation
Indices: 27770635--27770979 Score: 331
Period size: 154 Copynumber: 2.2 Consensus size: 152
27770625 TGTTTGAATG
* * * * * *
27770635 AAAAACGCCGCTAAAGAACGAGCATTAGCGGCGCTTTTTAAAAAAACGCCGCAATACTTATGCTC
1 AAAAACGCCGCTAAAGATCGAGTATTAGCGGCGC-TTTTAAAAAAACGCAGCAAAACTTATACAC
* * * * * *
27770700 AACGCCGTCGTTTTAACTGAGCTTTAGCGTCTTTAGCGGCATTTTTTGGGAAGCGCCGCTAAAGA
65 AACGCCATCGTTTTAACTGAGCTTTAGCGGCTTTAGCGGCACTCTTTGAGAAACGCCGCTAAAGA
*
27770765 TCGAGTATTAGCGGTGACTTTGA
130 TCGAGTATTAGCAGTGACTTTGA
* * * * * *
27770788 AAAAACACCGCTAATGCTTGA-TCTTTAGCGGCGC-TTTACAAAAAACGCAGCAAAAAATT-TAA
1 AAAAACGCCGCTAAAGATCGAGT-ATTAGCGGCGCTTTTA-AAAAAACGCAGC-AAAACTTAT-A
* * * *
27770850 CACAACGCCATCGTTTTGTATTGAGCCTTTAGTGGCTTTAGCGGCGCTCTTT-AGAAACGCCGCT
62 CACAACGCCATCGTTTT-AACTGAG-CTTTAGCGGCTTTAGCGGCACTCTTTGAGAAACGCCGCT
*
27770914 AAAGATCGAGTATTAGCAGTG-CTTTTTA
125 AAAGATCGAGTATTAGCAGTGAC-TTTGA
* * * *
27770942 GAAAATGCCGCTAAAGATCGAGTATTAGCAGTGCTTTT
1 AAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTT
27770980 TATAAAATGC
Statistics
Matches: 150, Mismatches: 33, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
151 4 0.03
152 12 0.08
153 47 0.31
154 62 0.41
155 25 0.17
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (152 bp):
AAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTAAAAAAACGCAGCAAAACTTATACACA
ACGCCATCGTTTTAACTGAGCTTTAGCGGCTTTAGCGGCACTCTTTGAGAAACGCCGCTAAAGAT
CGAGTATTAGCAGTGACTTTGA
Found at i:27771004 original size:194 final size:194
Alignment explanation
Indices: 27770753--27771152 Score: 486
Period size: 195 Copynumber: 2.1 Consensus size: 194
27770743 TTTTGGGAAG
* *
27770753 CGCCGCTAAAGATCGAGTATTAGCGGTGACTTTGAAAAAACACCGCTAATGCTTGATCTTTAGCG
1 CGCCGCTAAAGATCGAGTATTAGCAGTGACTTTGAAAAAACACCGCTAATGCTTGATCTTTAGCA
*
27770818 GCG-CTTTACAAAAAACGCAGCAAAA-AATTTAACACAACGCCATCGTTTTGTATTGAGCCTTTA
66 GCGTCTTTACAAAAAA-GCAGCAAAAGAATTTAACAAAACGCCATCGTTTTGTATTGAGCCTTTA
* * * *
27770881 GTGGCTTTAGCGGCG-CTCTTTAGAAACGCCGCTAAAGATCGAGTATTAGC-AGTGCTTTTTAGA
130 GTGGCTTTAGCGGCGCCT-TTTAAAAACACCACTAAAGATCGAGTATTAGCGA-CGCTTTTT-GA
27770944 AAA
192 AAA
* * * **
27770947 TGCCGCTAAAGATCGAGTATTAGCAGTG-CTTTTTATAAAATGCCGCTAATGCTTGATCTTTAGC
1 CGCCGCTAAAGATCGAGTATTAGCAGTGAC-TTTGAAAAAACACCGCTAATGCTTGATCTTTAGC
* * ** * * ** * * * *
27771011 AGTGTTTTTTGAAAAAATCTGCAAAAGAATTTTGCAAAACTCCCTCGTTTTTTATTGAGCTTTTA
65 AGCGTCTTTACAAAAAAGCAGCAAAAGAATTTAACAAAACGCCATCGTTTTGTATTGAGCCTTTA
*
27771076 GTGGCTTTAGCGGCGCCTTTTAAAAACACCATTAAAGATCGAGTATTAGCGACGCTTTTTGAAAA
130 GTGGCTTTAGCGGCGCCTTTTAAAAACACCACTAAAGATCGAGTATTAGCGACGCTTTTTGAAAA
*
27771141 CACCGCTAAAGA
1 CGCCGCTAAAGA
27771153 ATTTTGCAAA
Statistics
Matches: 174, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
193 1 0.01
194 80 0.46
195 90 0.52
196 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (194 bp):
CGCCGCTAAAGATCGAGTATTAGCAGTGACTTTGAAAAAACACCGCTAATGCTTGATCTTTAGCA
GCGTCTTTACAAAAAAGCAGCAAAAGAATTTAACAAAACGCCATCGTTTTGTATTGAGCCTTTAG
TGGCTTTAGCGGCGCCTTTTAAAAACACCACTAAAGATCGAGTATTAGCGACGCTTTTTGAAAA
Found at i:27771020 original size:40 final size:40
Alignment explanation
Indices: 27770899--27770995 Score: 169
Period size: 40 Copynumber: 2.5 Consensus size: 40
27770889 AGCGGCGCTC
*
27770899 TTTAG-AAACGCCGCTAAAGATCGAGTATTAGCAGTGCTT
1 TTTAGAAAATGCCGCTAAAGATCGAGTATTAGCAGTGCTT
27770938 TTTAGAAAATGCCGCTAAAGATCGAGTATTAGCAGTGCTT
1 TTTAGAAAATGCCGCTAAAGATCGAGTATTAGCAGTGCTT
*
27770978 TTTATAAAATGCCGCTAA
1 TTTAGAAAATGCCGCTAA
27770996 TGCTTGATCT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
39 5 0.09
40 50 0.91
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (40 bp):
TTTAGAAAATGCCGCTAAAGATCGAGTATTAGCAGTGCTT
Found at i:27771454 original size:22 final size:22
Alignment explanation
Indices: 27771429--27771473 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27771419 GAGTTACTAT
* *
27771429 TTTAAGGTTTATGGCTTATGGG
1 TTTAAGGATTATGGCTTAAGGG
* *
27771451 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGCTTAAGGG
27771473 T
1 T
27771474 GGTTTAAGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGCTTAAGGG
Found at i:27771572 original size:7 final size:7
Alignment explanation
Indices: 27771474--27771594 Score: 95
Period size: 7 Copynumber: 17.0 Consensus size: 7
27771464 GTTTAAGGGT
27771474 GGTTTAAG
1 GGTTT-AG
*
27771482 GG-TTGG
1 GGTTTAG
*
27771488 GGTTTAA
1 GGTTTAG
27771495 GGTTTA-
1 GGTTTAG
27771501 GGTGTTAG
1 GGT-TTAG
27771509 GGTTTAAG
1 GGTTT-AG
27771517 GG-TTAG
1 GGTTTAG
27771523 GGTTTTAG
1 GG-TTTAG
*
27771531 GGTTTAT
1 GGTTTAG
*
27771538 GGTTTAT
1 GGTTTAG
*
27771545 GTTTTAG
1 GGTTTAG
* *
27771552 GATTTAT
1 GGTTTAG
27771559 GGTTTAG
1 GGTTTAG
27771566 GGTTTAG
1 GGTTTAG
*
27771573 GGATTAG
1 GGTTTAG
27771580 GAGTTTAG
1 G-GTTTAG
*
27771588 GGCTTAG
1 GGTTTAG
27771595 ATTAATTAGT
Statistics
Matches: 93, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
6 10 0.11
7 62 0.67
8 21 0.23
ACGTcount: A:0.18, C:0.01, G:0.38, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:27771710 original size:7 final size:7
Alignment explanation
Indices: 27771688--27771782 Score: 52
Period size: 7 Copynumber: 13.4 Consensus size: 7
27771678 TTAATTATCA
*
27771688 TTATAGT
1 TTATGGT
27771695 TTA-GGT
1 TTATGGT
27771701 TTATGGT
1 TTATGGT
*
27771708 TTAGGGT
1 TTATGGT
**
27771715 TTAAAGT
1 TTATGGT
*
27771722 CTATGAGT
1 TTATG-GT
27771730 TACTAT--T
1 T--TATGGT
*
27771737 TTAAGGT
1 TTATGGT
*
27771744 TTATGGA
1 TTATGGT
27771751 TTATGGGT
1 TTAT-GGT
* *
27771759 TTAGGGA
1 TTATGGT
27771766 TTATGGT
1 TTATGGT
27771773 TTATGGT
1 TTATGGT
27771780 TTA
1 TTA
27771783 AGGGTTGGGG
Statistics
Matches: 65, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
5 2 0.03
6 5 0.08
7 48 0.74
8 7 0.11
10 3 0.05
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:27771761 original size:15 final size:15
Alignment explanation
Indices: 27771741--27771788 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
27771731 ACTATTTTAA
27771741 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
27771756 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
27771770 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
27771785 GGTT
1 GGTT
27771789 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:27771761 original size:22 final size:21
Alignment explanation
Indices: 27771736--27771785 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
27771726 GAGTTACTAT
*
27771736 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
27771758 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
27771779 TTTAAGG
1 TTTAAGG
27771786 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:27772022 original size:14 final size:15
Alignment explanation
Indices: 27772005--27772067 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 15
27771995 TATATGATAG
27772005 GGTTT-TGAGTTTAA
1 GGTTTATGAGTTTAA
27772019 GGTTT-TGAGATTTAA
1 GGTTTATGAG-TTTAA
* *
27772034 AGTTTAT-AGTTTGA
1 GGTTTATGAGTTTAA
* *
27772048 GGTTTGTG-GTTTAG
1 GGTTTATGAGTTTAA
27772062 GGTTTA
1 GGTTTA
27772068 AGGAAGATCA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
14 27 0.69
15 11 0.28
16 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (15 bp):
GGTTTATGAGTTTAA
Found at i:27775223 original size:22 final size:22
Alignment explanation
Indices: 27775181--27775224 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27775171 AATTATTTAC
* *
27775181 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
27775203 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
27775225 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:27775533 original size:40 final size:40
Alignment explanation
Indices: 27775451--27775592 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 40
27775441 AACCCAAGTA
* * * *
27775451 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAAAG
* *
27775490 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCGCAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
* *
27775530 CCTTCGGGACATAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
*
27775570 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
27775593 CATTCGAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
39 11 0.12
40 75 0.84
41 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAAAG
Found at i:27783740 original size:22 final size:22
Alignment explanation
Indices: 27783698--27783741 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27783688 AATTATTTAC
* *
27783698 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
27783720 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
27783742 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:27784050 original size:40 final size:40
Alignment explanation
Indices: 27783968--27784190 Score: 351
Period size: 40 Copynumber: 5.6 Consensus size: 40
27783958 AACCCAAGTA
* *
27783968 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
27784007 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCGCAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
27784047 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
27784087 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
27784127 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCAC-AAATG
27784168 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
27784191 CATTCGAATA
Statistics
Matches: 170, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.07
40 127 0.75
41 31 0.18
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:27787581 original size:40 final size:40
Alignment explanation
Indices: 27787533--27787698 Score: 237
Period size: 40 Copynumber: 4.2 Consensus size: 40
27787523 GGACTAAGAT
* *
27787533 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
27787573 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
27787613 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
27787653 CCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
27787692 CCGAAGG
1 CCGAAGG
27787699 TACTTGGGTT
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 14 0.12
40 101 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:27789895 original size:100 final size:102
Alignment explanation
Indices: 27789691--27790136 Score: 595
Period size: 100 Copynumber: 4.4 Consensus size: 102
27789681 GCCGCTAAAG
*
27789691 TTTTATTTTA-TTTT-AATTACCTAATTAAATTAAATTGTATTTTAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
27789754 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTGTAC
66 TATTTTA---TATTTTAATCACGAAAAATATTTTGTCTAC
* *
27789794 TTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTCTTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
27789859 TATTTTA-A-TTTAATCACGAAAAATATTTTGTCTAC
66 TATTTTATATTTTAATCACGAAAAATATTTTGTCTAC
*
27789894 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGATTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
27789959 TATTTTATTTTCTTTTATTTTAATCGA-GAAAAATAATTTGTCTAC
66 TATTTTA--------TATTTTAATC-ACGAAAAATATTTTGTCTAC
*
27790004 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTATATTT-AA-----A--TT--ATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
27790059 TATTTTA-A-TTTAATCACGAAAAATATTTTGTCTAC
66 TATTTTATATTTTAATCACGAAAAATATTTTGTCTAC
27790094 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAA-TGTATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
27790137 TTAATTATTG
Statistics
Matches: 318, Mismatches: 11, Indels: 42
0.86 0.03 0.11
Matches are distributed among these distances:
89 7 0.02
90 60 0.19
91 1 0.00
100 108 0.34
101 1 0.00
102 2 0.01
103 10 0.03
104 5 0.02
105 53 0.17
109 3 0.01
110 67 0.21
111 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (102 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTATATTTTAATCACGAAAAATATTTTGTCTAC
Found at i:27790051 original size:16 final size:16
Alignment explanation
Indices: 27790030--27790068 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27790020 AATTACCTAA
27790030 TTAAATTAAATTATAT
1 TTAAATTAAATTATAT
* *
27790046 TTAAATTATATTTTAT
1 TTAAATTAAATTATAT
*
27790062 TTTAATT
1 TTAAATT
27790069 TAATCACGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAAATTAAATTATAT
Found at i:27790117 original size:90 final size:90
Alignment explanation
Indices: 27789964--27790144 Score: 294
Period size: 90 Copynumber: 2.0 Consensus size: 90
27789954 TATTTTATTT
* *
27789964 TATTTTCTTTTATTTTAATCGAGAAAAATAATTTGTCTACTTTTATTTTATTTTTAAATTACCTA
1 TATTTTATTTTAATTTAATCGAGAAAAATAATTTGTCTACTTTTATTTTATTTTTAAATTACCTA
27790029 ATTAAATTAAAT-TATATTTAAATTA
66 ATTAAATTAAATGTAT-TTTAAATTA
*
27790054 TATTTTATTTTAATTTAATC-ACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCT
1 TATTTTATTTTAATTTAATCGA-GAAAAATAATTTGTCTACTTTTATTTTATTTTTAAATTACCT
*
27790118 AATTAAATTAAATGTATTTTTAATTA
65 AATTAAATTAAATGTATTTTAAATTA
27790144 T
1 T
27790145 TGTTCAAAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
89 1 0.01
90 81 0.95
91 3 0.04
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (90 bp):
TATTTTATTTTAATTTAATCGAGAAAAATAATTTGTCTACTTTTATTTTATTTTTAAATTACCTA
ATTAAATTAAATGTATTTTAAATTA
Found at i:27790436 original size:9 final size:9
Alignment explanation
Indices: 27790411--27790520 Score: 91
Period size: 9 Copynumber: 12.0 Consensus size: 9
27790401 ATATCATATC
27790411 TTACATAAT
1 TTACATAAT
27790420 TTACATAAT
1 TTACATAAT
*
27790429 TTACATAAC
1 TTACATAAT
27790438 TTACATAA-
1 TTACATAAT
27790446 -TACATAAAT
1 TTACAT-AAT
27790455 ATATATCAT-AT
1 -T-TA-CATAAT
27790466 CTTACATAAT
1 -TTACATAAT
*
27790476 TTACATAAG
1 TTACATAAT
* * * *
27790485 ATAAACAAC
1 TTACATAAT
27790494 TTACATAAT
1 TTACATAAT
*
27790503 TTACATAAC
1 TTACATAAT
27790512 TTACATAAT
1 TTACATAAT
27790521 ACATAAATAT
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
7 5 0.06
8 2 0.02
9 62 0.77
10 4 0.05
11 3 0.04
12 2 0.02
13 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (9 bp):
TTACATAAT
Found at i:27790477 original size:56 final size:56
Alignment explanation
Indices: 27790391--27790502 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
27790381 AATCCCATCA
** * *
27790391 ACATAAATATATATCATATCTTACATAATTTACATAATTTACATAACTTACATAAT
1 ACATAAATATATATCATATCTTACATAATTTACATAAGATAAACAACTTACATAAT
27790447 ACATAAATATATATCATATCTTACATAATTTACATAAGATAAACAACTTACATAAT
1 ACATAAATATATATCATATCTTACATAATTTACATAAGATAAACAACTTACATAAT
27790503 TTACATAACT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (56 bp):
ACATAAATATATATCATATCTTACATAATTTACATAAGATAAACAACTTACATAAT
Found at i:27795585 original size:13 final size:14
Alignment explanation
Indices: 27795569--27795597 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27795559 TTATAAATAT
27795569 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
27795582 TTATAATGGTTTAA
1 TTATAATGGTTTAA
27795596 TT
1 TT
27795598 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:27798173 original size:28 final size:28
Alignment explanation
Indices: 27798099--27798176 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 28
27798089 ATGTAAAAGT
* *
27798099 GATTGGGCATAGTGGGCCATATAGATGT
1 GATTGGGCCTAGTGGGCCATATAGATGA
* *
27798127 GATTTGGGCCTAATAGGCCATAT-GAATGA
1 GA-TTGGGCCTAGTGGGCCATATAG-ATGA
27798156 GATTGGGCCTAGTGGGCCATA
1 GATTGGGCCTAGTGGGCCATA
27798177 AGCATGTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 20 0.48
29 22 0.52
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGCCATATAGATGA
Found at i:27804785 original size:46 final size:48
Alignment explanation
Indices: 27804607--27804865 Score: 161
Period size: 46 Copynumber: 5.5 Consensus size: 48
27804597 TTGGTGGGCT
* ** *
27804607 AGTGTAAGA-CATGTCTGGGACATGCATCA-GCCACA-TTATG-AGAGAC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGGCTA-AGAGATGTA-AGCC
* * * * * *
27804653 AATGTAAGACCATGTCTAGGACATGGCAAC-GGC-ATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGGCTA-AGAGATGTA-AGCC
* * *
27804701 AGTGTAAGA-CATGTCTGGAACATGCATCAGCCT-CGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGGCTAAGAGATGTAAGCC
* * *
27804747 AGTGTAAGA-TATGTCTGGGACATGCAT-AGGCTATGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGGCTAAGAGATGTAAGCC
* *
27804791 AGTGTAAGACCATGTCTAGGACAAGGCATCA-GC-ACAGAGATGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGAC-ATGCATCAGGCTA-AGAGATGT-A-AGCC
*
27804841 AATGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
27804866 GCGTGAGCCT
Statistics
Matches: 166, Mismatches: 31, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
44 11 0.07
45 15 0.09
46 66 0.40
47 30 0.18
48 20 0.12
49 2 0.01
50 22 0.13
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGGCTAAGAGATGTAAGCC
Found at i:27804953 original size:47 final size:49
Alignment explanation
Indices: 27804836--27804965 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 49
27804826 AGAGATGTGA
* * *
27804836 GAGCCAATGTAAGACCATGTCTGGGACATGGC-GTGAGCCTCGATTTCGAT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGA-CCTCGA-TTCGAT
* * *
27804886 -AGTCAGTGTAAGACCATGTTTGGGACATGGCATTGA-CTTG-TTGGAT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGACCTCGATTCGAT
27804932 GAGCCAGTGTAAGACCATGTTTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCAT
27804966 CGGTATTACA
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
46 5 0.07
47 32 0.45
48 3 0.04
49 28 0.39
50 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.27
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGACCTCGATTCGAT
Found at i:27810700 original size:34 final size:34
Alignment explanation
Indices: 27810657--27810723 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
27810647 GTGATTCGTG
* *
27810657 ATTGTCTAAAGGCTGCTTTAGATAGACAAAAATA
1 ATTGTCTAAAGGCCGCTTCAGATAGACAAAAATA
*
27810691 ATTGTCTAAAGGCCGCTTCAGATAGACAGAAAT
1 ATTGTCTAAAGGCCGCTTCAGATAGACAAAAAT
27810724 CCTATGCGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (34 bp):
ATTGTCTAAAGGCCGCTTCAGATAGACAAAAATA
Found at i:27812774 original size:47 final size:48
Alignment explanation
Indices: 27812605--27812781 Score: 155
Period size: 47 Copynumber: 3.6 Consensus size: 48
27812595 TGAGATGTAT
* *
27812605 CAGTGTAAGACCATGTCTGGGACATGGAATCGGCAC-GGAAATGTGA-GAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-ACTGG--TTG-GATGAGC
* ** * * * * *
27812655 CAGTGTAAGACCATGTCTGGGACACGGTGTCTGCCTCGATTTCGAT-AGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGACT-G-GTTGGATGAGC
* *
27812704 CAGTATAAGACCATGTCTAGGACATGGCATC-GACTGGTTGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGACTGGTTGGATGAGC
*
27812751 CGGTGTAAGACCATGTCTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
27812782 AGCATTACAC
Statistics
Matches: 101, Mismatches: 21, Indels: 13
0.75 0.16 0.10
Matches are distributed among these distances:
46 5 0.05
47 31 0.31
48 3 0.03
49 31 0.31
50 30 0.30
51 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGACTGGTTGGATGAGC
Found at i:27818357 original size:40 final size:40
Alignment explanation
Indices: 27818312--27818441 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
27818302 CGGAATACAA
27818312 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
27818352 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
27818392 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
27818432 CCGGATATAA
1 CCGGATATAA
27818442 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:27818456 original size:40 final size:40
Alignment explanation
Indices: 27818312--27818475 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
27818302 CGGAATACAA
* **
27818312 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
27818352 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
27818392 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
27818432 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
27818472 CCGG
1 CCGG
27818476 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:27822314 original size:34 final size:33
Alignment explanation
Indices: 27822247--27822319 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
27822237 AATAGTGCAT
* **
27822247 GCAGTAACGGTCTGGGCCTGAGCCCTATTCAGTA
1 GCAGT-ACAGTCTGGGCCTGAGCCCTAAACAGTA
* *
27822281 TCAGTACAGTCTGGGCCTTAGCCCTTAAACAGTA
1 GCAGTACAGTCTGGGCCTGAGCCC-TAAACAGTA
27822315 GCAGT
1 GCAGT
27822320 GTGGGCCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
33 17 0.53
34 15 0.47
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (33 bp):
GCAGTACAGTCTGGGCCTGAGCCCTAAACAGTA
Found at i:27822340 original size:28 final size:27
Alignment explanation
Indices: 27822282--27822341 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 27
27822272 TATTCAGTAT
*
27822282 CAGTACAGTCTGGGCCTTAGCCCTTAAA
1 CAGTACAGTCTGGGCCTAAGCCC-TAAA
*
27822310 CAGTAGCAGTGTGGGCCTAAGCCC-AATA
1 CAGTA-CAGTCTGGGCCTAAGCCCTAA-A
27822338 CAGT
1 CAGT
27822342 TTCAGTATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.07
28 10 0.36
29 16 0.57
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.22
Consensus pattern (27 bp):
CAGTACAGTCTGGGCCTAAGCCCTAAA
Found at i:27822898 original size:27 final size:27
Alignment explanation
Indices: 27822840--27823179 Score: 186
Period size: 27 Copynumber: 12.6 Consensus size: 27
27822830 GCAACCCGAT
27822840 GGTATTTCTGTAATTTT-TGAAAGTCAAG
1 GGTATTTCTGTAATTTTCT-AAA-TCAAG
* *
27822868 GGTATTTCTGTAATTTTGTAAATC-TG
1 GGTATTTCTGTAATTTTCTAAATCAAG
* *
27822894 TGGTATTTCTATAATTTTCCAAATCAAG
1 -GGTATTTCTGTAATTTTCTAAATCAAG
* * *
27822922 GGTATTTCAGTAATTTTCTAAATTAGG
1 GGTATTTCTGTAATTTTCTAAATCAAG
* *
27822949 GGTATTTCTGTAATTTTAC-AAGTCGAG
1 GGTATTTCTGTAATTTT-CTAAATCAAG
* * *
27822976 GGTATTTCAGTAATTTTAC-AAGTCGAG
1 GGTATTTCTGTAATTTT-CTAAATCAAG
* ** *
27823003 GGTATTTCAGTAATTTTAC-AGGTCGAG
1 GGTATTTCTGTAATTTT-CTAAATCAAG
** * *
27823030 GACATTTC-GATAA-TTTCAAAAATCAGG
1 GGTATTTCTG-TAATTTTC-TAAATCAAG
* *
27823057 GGTATTT-TGGTAA-TTTCACAAATCAGG
1 GGTATTTCT-GTAATTTTC-TAAATCAAG
** *
27823084 GGTATTT-TGGTAATTTTAC-AACCCAGG
1 GGTATTTCT-GTAATTTT-CTAAATCAAG
*
27823111 GGTATTT-TGGTAATTTTGCT-AATCGAG
1 GGTATTTCT-GTAATTTT-CTAAATCAAG
* *
27823138 GGTATTT-TGGTAATTTTGTAAACCAAG
1 GGTATTTCT-GTAATTTTCTAAATCAAG
*
27823165 GGTATTTCAGTAATT
1 GGTATTTCTGTAATT
27823180 CTACCCTACA
Statistics
Matches: 261, Mismatches: 37, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.00
26 6 0.02
27 226 0.87
28 26 0.10
29 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTCTAAATCAAG
Found at i:27822980 original size:81 final size:82
Alignment explanation
Indices: 27822840--27823179 Score: 234
Period size: 81 Copynumber: 4.2 Consensus size: 82
27822830 GCAACCCGAT
* ** *
27822840 GGTATTTCTGTAATTTTTGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCTGTGGTATTTCTA
1 GGTATTTCAGTAATTTTTGAAAGTCAAGGGTATTTCTGTAATTTTACAAATCTGGGGTATTTC-A
*
27822905 -TAATTTTCCAAATCAAG
65 GTAATTTTACAAATCAAG
* * *
27822922 GGTATTTCAGTAATTTTCT-AAA-TTAGGGGTATTTCTGTAATTTTACAAGTC-GAGGGTATTTC
1 GGTATTTCAGTAATTTT-TGAAAGTCAAGGGTATTTCTGTAATTTTACAAATCTG-GGGTATTTC
* *
27822984 AGTAATTTTACAAGTCGAG
64 AGTAATTTTACAAATCAAG
* * ** * * * *
27823003 GGTATTTCAGTAA-TTTT-ACAGGTCGAGGACATTTC-GATAATTTCAAAAATCAGGGGTATTTT
1 GGTATTTCAGTAATTTTTGA-AAGTCAAGGGTATTTCTG-TAATTTTACAAATCTGGGGTATTTC
* * *
27823065 GGTAATTTCACAAATCAGG
64 AGTAATTTTACAAATCAAG
** ** * * *
27823084 GGTATTTTGGTAA-TTTT-ACAACCCAGGGGTATTT-TGGTAATTTTGCTAATC-GAGGGTATTT
1 GGTATTTCAGTAATTTTTGA-AAGTCAAGGGTATTTCT-GTAATTTTACAAATCTG-GGGTATTT
** ** *
27823145 TGGTAATTTTGTAAACCAAG
63 CAGTAATTTTACAAATCAAG
27823165 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
27823180 CTACCCTACA
Statistics
Matches: 202, Mismatches: 45, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
79 2 0.01
80 8 0.04
81 169 0.84
82 22 0.11
83 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (82 bp):
GGTATTTCAGTAATTTTTGAAAGTCAAGGGTATTTCTGTAATTTTACAAATCTGGGGTATTTCAG
TAATTTTACAAATCAAG
Found at i:27823178 original size:54 final size:54
Alignment explanation
Indices: 27822840--27823179 Score: 263
Period size: 54 Copynumber: 6.3 Consensus size: 54
27822830 GCAACCCGAT
* ** * * * * *
27822840 GGTATTTCTGTAATTTTTGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCTGT
1 GGTATTTCAGTAATTTTACAAA-TCGAGGGTATTTCGGTAATTTTATAAATCAGG
* * * * *
27822895 GGTATTTCTA-TAATTTTCCAAATCAAGGGTATTTCAGTAATTTTCTAAATTAGG
1 GGTATTTC-AGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTATAAATCAGG
* * * * *
27822949 GGTATTTCTGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAGTC-GAG
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTATAAATCAG-G
** ** * * *
27823003 GGTATTTCAGTAATTTTACAGGTCGAGGACATTTCGATAATTTCAAAAATCAGG
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTATAAATCAGG
** * * * **
27823057 GGTATTTTGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAACCCAGG
1 GGTATTTCAGTAATTTTACAAATCGA-GGGTATTTCGGTAATTTTATAAATCAGG
** * * * * * *
27823111 GGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTATAAATCAGG
27823165 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
27823180 CTACCCTACA
Statistics
Matches: 232, Mismatches: 47, Indels: 13
0.79 0.16 0.04
Matches are distributed among these distances:
53 2 0.01
54 210 0.91
55 20 0.09
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTATAAATCAGG
Found at i:27823198 original size:27 final size:27
Alignment explanation
Indices: 27823168--27823268 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
27823158 AACCAAGGGT
*
27823168 ATTTCAGTAATTCTACCCTACAGGGGC
1 ATTTCAGTAATTCTATCCTACAGGGGC
*
27823195 ATTTCAGTAATTCTATCCTAGAGGGGC
1 ATTTCAGTAATTCTATCCTACAGGGGC
* * *
27823222 ATTTTAGTAATTCTATGCTACAGGGGT
1 ATTTCAGTAATTCTATCCTACAGGGGC
* *
27823249 ATTTCAGTAATACTAGCCTA
1 ATTTCAGTAATTCTATCCTA
27823269 TAGATATGAG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (27 bp):
ATTTCAGTAATTCTATCCTACAGGGGC
Found at i:27824565 original size:43 final size:43
Alignment explanation
Indices: 27824513--27824599 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
27824503 TGAAGTATGT
* * * *
27824513 AGCATCCGAGCTTGTTGTGAGGTCTGAGTTCATTATAGATGCG
1 AGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATAGATGCG
* *
27824556 AGCATCCGAGCTCGTTGAGTGGTCCGAGTTCATGATGGATGCG
1 AGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATAGATGCG
27824599 A
1 A
27824600 TTCATGTAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
AGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATAGATGCG
Found at i:27833128 original size:20 final size:21
Alignment explanation
Indices: 27833095--27833134 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
27833085 GTTAAATTGT
27833095 TATATTTTTATTT-ATAAATA
1 TATATTTTTATTTAATAAATA
27833115 TATATTTTGT-TTTAATAAAT
1 TATATTTT-TATTTAATAAAT
27833135 GTTGAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
TATATTTTTATTTAATAAATA
Found at i:27834194 original size:2 final size:2
Alignment explanation
Indices: 27834150--27834176 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27834140 ATATGGCCAA
27834150 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27834177 ACATCGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27839231 original size:78 final size:80
Alignment explanation
Indices: 27839096--27839276 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 80
27839086 TCGAATGATG
* *
27839096 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
27839161 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
27839175 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
27839237 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
27839254 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
27839277 TTGAACGAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 26 0.29
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:27839286 original size:40 final size:39
Alignment explanation
Indices: 27839097--27839279 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
27839087 CGAATGATGT
* *
27839097 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
27839136 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
27839177 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27839214 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27839255 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27839280 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27847338 original size:40 final size:40
Alignment explanation
Indices: 27847263--27847443 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
27847253 AATGATCTCT
* *
27847263 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* *
27847303 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
27847343 GGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
27847381 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
27847421 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
27847444 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 24 0.20
39 19 0.16
40 69 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:27847395 original size:78 final size:80
Alignment explanation
Indices: 27847263--27847440 Score: 229
Period size: 78 Copynumber: 2.2 Consensus size: 80
27847253 AATGATCTCT
* *
27847263 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
*
27847328 CGAGTTACTA-ATTCC
66 CGAGTTACTATA-ACC
* * * **
27847343 GGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTGT
27847405 GCGAGTTACTATAACC
65 GCGAGTTACTATAACC
*
27847421 GGGCTATGTCCCGAAGGCAT
1 GGGCTAAGTCCCGAAGGCAT
27847441 TTGAACGAGT
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.59
79 26 0.30
80 8 0.09
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGTTACTATAACC
Found at i:27853374 original size:2 final size:2
Alignment explanation
Indices: 27853362--27853391 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
27853352 TGGACATTTC
27853362 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
27853392 AATAGACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27853899 original size:2 final size:2
Alignment explanation
Indices: 27853849--27853881 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27853839 ATATGGCCAA
27853849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27853882 ACATCGTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27856119 original size:40 final size:40
Alignment explanation
Indices: 27856056--27856203 Score: 161
Period size: 40 Copynumber: 3.7 Consensus size: 40
27856046 TGACGACAAA
* * * * * *
27856056 TCGGTTATATGTGGTACTCAGTGTGTGATACAACATAGCG
1 TCGGCTATATATGGCACTTAGTGTGTGATTCAACATAGCT
* * *
27856096 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGTT
1 TCGGCTATATATGGCACTTAGTGTGTGATTCAACATAGCT
* * *
27856136 TCGTCTATATATGGCACTTAGTGTGTGATTTAAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGTGATTCAACATAGCT
* * *
27856176 TCGGCTATGTACGACACTTAGTGTGTGA
1 TCGGCTATATATGGCACTTAGTGTGTGA
27856204 GATATTGAGT
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.35
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGTGATTCAACATAGCT
Found at i:27856527 original size:19 final size:19
Alignment explanation
Indices: 27856503--27856565 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
27856493 TATGGGTTGG
* *
27856503 CCGTGTGGGTTTCACACAC
1 CCGTGTGGCTTGCACACAC
*
27856522 CCGTGTGGCTTGGACACAC
1 CCGTGTGGCTTGCACACAC
*
27856541 CCGTGTGGCTTGGACACAC
1 CCGTGTGGCTTGCACACAC
*
27856560 CTGTGT
1 CCGTGT
27856566 CTTCAGCCCG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.25
Consensus pattern (19 bp):
CCGTGTGGCTTGCACACAC
Found at i:27858508 original size:48 final size:48
Alignment explanation
Indices: 27858272--27858576 Score: 221
Period size: 48 Copynumber: 6.4 Consensus size: 48
27858262 TGCTATGCCT
* * * *
27858272 AGACATGGTCTTACATTGGCTCATA-CATCAAGTC-GATGTCATGTCCC
1 AGACATGGTCTTACACTGGCTCACATC-TCAAGGCTGATGCCATGTCCC
* * * * * * * * **
27858319 AGACATGCTCTTACACTGACTATCGCA-ATCGAGACCT-ACGTCATGTCTT
1 AGACATGGTCTTACACTGGC--TCACATCTCAAG-GCTGATGCCATGTCCC
* * * *
27858368 AGACATGGTCTTACATTGGCTCTCACATATCTATG-TAGATGCCATGTCCC
1 AGACATGGTCTTACACTGG--CTCACATCTCAAGGCT-GATGCCATGTCCC
* **
27858418 AAACATGGTCTTACACT--AACACATCTCATA-GCTGATGCCATGTCCC
1 AGACATGGTCTTACACTGGCTCACATCTCA-AGGCTGATGCCATGTCCC
* *
27858464 AGACATGGTCTTACACTGGCTCACATCTCGAGGCTGATGCCATGTCCT
1 AGACATGGTCTTACACTGGCTCACATCTCAAGGCTGATGCCATGTCCC
* * * **
27858512 AGACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGCCATGTCCC
1 AGACATGGTCTTACACTGGCTCACATCTCAAGGCTGATGCCATGTCCC
*
27858560 AAACATGGTCTTACACT
1 AGACATGGTCTTACACT
27858577 AGTACACATG
Statistics
Matches: 203, Mismatches: 41, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
46 37 0.18
47 20 0.10
48 85 0.42
49 33 0.16
50 27 0.13
51 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
AGACATGGTCTTACACTGGCTCACATCTCAAGGCTGATGCCATGTCCC
Found at i:27858552 original size:96 final size:95
Alignment explanation
Indices: 27858368--27858576 Score: 253
Period size: 96 Copynumber: 2.2 Consensus size: 95
27858358 GTCATGTCTT
* * *
27858368 AGACATGGTCTTACATTGGCTCTCACATATCTATGTAGATGCCATGTCCCAAACATGGTCTTACA
1 AGACATGGTCTTACACTGGC-CTCACATATCGAGGTAGATGCCATGTCCCAAACATGGTCTTACA
**
27858433 CTAACACATCTCATAGCTGATGCCATGTCCC
65 CTAACACATCTCATAGCCAATGCCATGTCCC
* * *
27858464 AGACATGGTCTTACACTGG-CTCACATCTCGAGGCT-GATGCCATGTCCTAGACATGGTCTTACA
1 AGACATGGTCTTACACTGGCCTCACATATCGAGG-TAGATGCCATGTCCCAAACATGGTCTTACA
* *
27858527 CTAGCTCTCATCTCA-ATGCCAATGCCATGTCCC
65 CTA--ACACATCTCATA-GCCAATGCCATGTCCC
*
27858560 AAACATGGTCTTACACT
1 AGACATGGTCTTACACT
27858577 AGTACACATG
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
94 40 0.41
95 2 0.02
96 56 0.57
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (95 bp):
AGACATGGTCTTACACTGGCCTCACATATCGAGGTAGATGCCATGTCCCAAACATGGTCTTACAC
TAACACATCTCATAGCCAATGCCATGTCCC
Found at i:27858577 original size:48 final size:47
Alignment explanation
Indices: 27858370--27858578 Score: 226
Period size: 48 Copynumber: 4.4 Consensus size: 47
27858360 CATGTCTTAG
* * *
27858370 ACATGGTCTTACATTGGCTCTCACATATCTATG-TAGATGCCATGTCCCAA
1 ACATGGTCTTACACTAG--CTCACATCTC-ATGCT-GATGCCATGTCCCAA
* *
27858420 ACATGGTCTTACACTA--ACACATCTCATAGCTGATGCCATGTCCCAG
1 ACATGGTCTTACACTAGCTCACATCTCAT-GCTGATGCCATGTCCCAA
* * * *
27858466 ACATGGTCTTACACTGGCTCACATCTCGAGGCTGATGCCATGTCCTAG
1 ACATGGTCTTACACTAGCTCACATCTC-ATGCTGATGCCATGTCCCAA
* **
27858514 ACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGCCATGTCCCAA
1 ACATGGTCTTACACTAGCTCACATCTC-ATGCTGATGCCATGTCCCAA
27858562 ACATGGTCTTACACTAG
1 ACATGGTCTTACACTAG
27858579 TACACATGTC
Statistics
Matches: 137, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
45 2 0.01
46 37 0.27
47 1 0.01
48 82 0.60
49 1 0.01
50 14 0.10
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
ACATGGTCTTACACTAGCTCACATCTCATGCTGATGCCATGTCCCAA
Found at i:27866981 original size:40 final size:40
Alignment explanation
Indices: 27866916--27867132 Score: 217
Period size: 40 Copynumber: 5.4 Consensus size: 40
27866906 CGGTTATTTG
* * *
27866916 TGGCACTTAGTGTGTGA-TACAACATAGATTC-GACTATATA
1 TGGCACTTAGTGTGCGATTA-GACATAGCTTCAG-CTATATA
27866956 TGGCACTTAGTGTGCGATTAGACATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGCGATTAGACATAGCTTCAGCTATATA
* * * * * *
27866996 TGGCAATTAGTGTGTGATTTGAGATATCTTC-GCCTATGTA
1 TGGCACTTAGTGTGCGATTAGACATAGCTTCAG-CTATATA
* * *
27867036 CGGCACTTAGTATGCGATTCGACATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGCGATTAGACATAGCTTCAGCTATATA
* * *
27867076 TGGCACTTAGTGTGTGATCT-GAGATAGCTTCAGCTATGTA
1 TGGCACTTAGTGTGCGAT-TAGACATAGCTTCAGCTATATA
* *
27867116 CGGTACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
27867133 GATATCGAGT
Statistics
Matches: 147, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 141 0.96
41 5 0.03
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTAGACATAGCTTCAGCTATATA
Found at i:27867099 original size:80 final size:79
Alignment explanation
Indices: 27866916--27867132 Score: 292
Period size: 80 Copynumber: 2.7 Consensus size: 79
27866906 CGGTTATTTG
* * * * *
27866916 TGGCACTTAGTGTGTGATAC-AACATAGATTCGACTATATATGGCACTTAGTGTGCGATTAGACA
1 TGGCACTTAGTGTGTGAT-CTGAGATAGCTTCG-CTATGTACGGCACTTAGTGTGCGATTAGACA
27866980 TAGCTTCAGCTATATA
64 TAGCTTCAGCTATATA
* * * * *
27866996 TGGCAATTAGTGTGTGATTTGAGATATCTTCGCCTATGTACGGCACTTAGTATGCGATTCGACAT
1 TGGCACTTAGTGTGTGATCTGAGATAGCTTCG-CTATGTACGGCACTTAGTGTGCGATTAGACAT
27867061 AGCTTCAGCTATATA
65 AGCTTCAGCTATATA
*
27867076 TGGCACTTAGTGTGTGATCTGAGATAGCTTCAGCTATGTACGGTACTTAGTGTGCGA
1 TGGCACTTAGTGTGTGATCTGAGATAGCTTC-GCTATGTACGGCACTTAGTGTGCGA
27867133 GATATCGAGT
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
80 118 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (79 bp):
TGGCACTTAGTGTGTGATCTGAGATAGCTTCGCTATGTACGGCACTTAGTGTGCGATTAGACATA
GCTTCAGCTATATA
Found at i:27869717 original size:22 final size:24
Alignment explanation
Indices: 27869692--27869747 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 24
27869682 ATAATATTAA
27869692 TTATAA-CATATAAAACTTATATT
1 TTATAATCATATAAAACTTATATT
27869715 TATAAATAATTCATATAAAACTTATA-T
1 T-T--ATAA-TCATATAAAACTTATATT
27869742 TTATAA
1 TTATAA
27869748 ATAATTTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 1 0.04
24 5 0.18
26 5 0.18
27 2 0.07
28 15 0.54
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATAATCATATAAAACTTATATT
Found at i:27869720 original size:15 final size:15
Alignment explanation
Indices: 27869700--27869748 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
27869690 AATTATAACA
27869700 TATAAAACTTATATT
1 TATAAAACTTATATT
27869715 TAT-AAA--TA-ATT
1 TATAAAACTTATATT
27869726 CATATAAAACTTATATT
1 --TATAAAACTTATATT
27869743 TATAAA
1 TATAAA
27869749 TAATTTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
11 3 0.11
12 2 0.07
13 3 0.11
14 6 0.21
15 9 0.32
16 2 0.07
17 3 0.11
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAAAACTTATATT
Found at i:27869730 original size:28 final size:28
Alignment explanation
Indices: 27869698--27869753 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
27869688 TTAATTATAA
27869698 CATATAAAACTTATATTTATAAATAATT
1 CATATAAAACTTATATTTATAAATAATT
27869726 CATATAAAACTTATATTTATAAATAATT
1 CATATAAAACTTATATTTATAAATAATT
27869754 TATCTCTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (28 bp):
CATATAAAACTTATATTTATAAATAATT
Found at i:27870987 original size:2 final size:2
Alignment explanation
Indices: 27870980--27871015 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
27870970 CTGAGGGTTT
27870980 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27871016 AAAATGTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27874875 original size:21 final size:22
Alignment explanation
Indices: 27874851--27874894 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
27874841 AAAATCTTTC
27874851 AAACCCTTT-TACTTTCTAAAA
1 AAACCCTTTCTACTTTCTAAAA
* *
27874872 AAACCCTTTCTCCTTTTTAAAA
1 AAACCCTTTCTACTTTCTAAAA
27874894 A
1 A
27874895 TTTCATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
AAACCCTTTCTACTTTCTAAAA
Found at i:27874991 original size:22 final size:22
Alignment explanation
Indices: 27874963--27875007 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
27874953 GACTTGTTTA
* *
27874963 TTGTTTGATTGATGAGATAATT
1 TTGTTTGATTCATGAGAAAATT
*
27874985 TTGTTTGGTTCATGAGAAAATT
1 TTGTTTGATTCATGAGAAAATT
27875007 T
1 T
27875008 GGGATAGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTGTTTGATTCATGAGAAAATT
Found at i:27875116 original size:19 final size:18
Alignment explanation
Indices: 27875082--27875129 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
27875072 TACTTTTTAT
*
27875082 TTTTATGATTCTT-ATATA
1 TTTTAT-ATTTTTAATATA
27875100 -TTTATATTTTTAATATA
1 TTTTATATTTTTAATATA
*
27875117 TTTTTTATTTTTA
1 TTTTATATTTTTA
27875130 TAAAATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 10 0.38
18 11 0.42
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTATATTTTTAATATA
Found at i:27875452 original size:29 final size:29
Alignment explanation
Indices: 27875409--27875470 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
27875399 AAACTTGATT
* *
27875409 AGTTGGGTGGCCATTTTGAAAATTTTAAA
1 AGTTGGGTGACCATTTTAAAAATTTTAAA
*
27875438 AGTTGGGTGATCATTTTAAAAATTTTAAA
1 AGTTGGGTGACCATTTTAAAAATTTTAAA
27875467 AGTT
1 AGTT
27875471 TAGTGGCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (29 bp):
AGTTGGGTGACCATTTTAAAAATTTTAAA
Found at i:27878350 original size:55 final size:52
Alignment explanation
Indices: 27878223--27878355 Score: 140
Period size: 53 Copynumber: 2.5 Consensus size: 52
27878213 CATACCATTT
* * *
27878223 CCATGTCTTGACATGGTCTTACGTGGTATCGTTGCCTTATGAACTCACCATTG
1 CCATGTCTTG-CATGGTCTTACATGGGATCGTTGCCTTATGAACTCACCAATG
* * ** * *
27878276 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGTCTT-GCATGGTCTTACATGGGATCGTTGCCTTAT-G-AACTCACCAATG
27878331 CCATGTCTTAGCATGGTCTTACATG
1 CCATGTCTT-GCATGGTCTTACATG
27878356 ATTTCCTTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 34 0.52
54 2 0.03
55 30 0.45
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (52 bp):
CCATGTCTTGCATGGTCTTACATGGGATCGTTGCCTTATGAACTCACCAATG
Found at i:27879801 original size:13 final size:13
Alignment explanation
Indices: 27879780--27879813 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
27879770 ACCGACTTGG
27879780 GCCACACGGCCAA
1 GCCACACGGCCAA
*
27879793 GCCATACGGCCAA
1 GCCACACGGCCAA
27879806 GCCACACG
1 GCCACACG
27879814 CCCATATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.44, G:0.24, T:0.03
Consensus pattern (13 bp):
GCCACACGGCCAA
Found at i:27880102 original size:2 final size:2
Alignment explanation
Indices: 27880095--27880134 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
27880085 AGCATAAACA
* *
27880095 AT AT AT AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27880135 GGTAAAGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:27881672 original size:43 final size:43
Alignment explanation
Indices: 27881606--27881693 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
27881596 TGTGACATAG
* *
27881606 CCCAGACCGTGTGGCCATTCAAAGTTGGGACACATGGCTGTGT
1 CCCAAACCGTGTGGCCATTCAAAGTTGGGACACATGGCCGTGT
*
27881649 CCCAAACCGTGTGGGCATTCAAAGTTGGGACACATGGCCGTGT
1 CCCAAACCGTGTGGCCATTCAAAGTTGGGACACATGGCCGTGT
27881692 CC
1 CC
27881694 TAGACTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.22, C:0.27, G:0.30, T:0.22
Consensus pattern (43 bp):
CCCAAACCGTGTGGCCATTCAAAGTTGGGACACATGGCCGTGT
Found at i:27881780 original size:54 final size:54
Alignment explanation
Indices: 27881713--27881854 Score: 140
Period size: 54 Copynumber: 2.6 Consensus size: 54
27881703 TCTCTAGCTG
** * *
27881713 TGTAACTTTCTGACTAAATACACACAGTCGTGTCCTAAACCGTGTGCCAAGCCA
1 TGTAACTCACTGACTTAATACACACAGTCGTGTCCTAAACCGTGTACCAAGCCA
* ** * * ** * *
27881767 TGTAACTCACTGACTTGATACACATGGCCGTGTCGTAGCCCGTGTACCAGGCCG
1 TGTAACTCACTGACTTAATACACACAGTCGTGTCCTAAACCGTGTACCAAGCCA
* * *
27881821 TGTGACTCACTAACTTAATACACACAGTAGTGTC
1 TGTAACTCACTGACTTAATACACACAGTCGTGTC
27881855 ACAGCCCATG
Statistics
Matches: 68, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (54 bp):
TGTAACTCACTGACTTAATACACACAGTCGTGTCCTAAACCGTGTACCAAGCCA
Found at i:27882837 original size:40 final size:40
Alignment explanation
Indices: 27882762--27882949 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
27882752 GTTATAATGT
* * * * * *
27882762 ATTCAGGGTTACCGAAGTATAAACAAGAG-ATGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
*
27882801 ATTTAGGGGTACCAAAGTACAAAC-GAGGGCACGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAACAG-GGGCACGTATGTGC
*
27882841 ATTCAGGGGTACCAAAGTACAAACAGGGGCATGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
** ** *
27882881 ATTCAAAGGTACTGAAGTACAAATAGGGGCACGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
**
27882921 ATTCTA-GGGTACTGAAGTACAAACAGGGG
1 ATTC-AGGGGTACCAAAGTACAAACAGGGG
27882950 AACACATATG
Statistics
Matches: 128, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 22 0.17
40 104 0.81
41 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (40 bp):
ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGC
Found at i:27882899 original size:80 final size:79
Alignment explanation
Indices: 27882762--27882950 Score: 229
Period size: 80 Copynumber: 2.4 Consensus size: 79
27882752 GTTATAATGT
* * * * * **
27882762 ATTCAGGGTTACCGAAGTATAAACAAGAGATGTATGTGCATTTAGGGGTACCAAAGTACAAACGA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGATGTATGTGCATTCAAAGGTACCAAAGTACAAA-GA
27882827 -GGGCACGTATGTGC
65 GGGGCACGTATGTGC
* ** *
27882841 ATTCAGGGGTACCAAAGTACAAACAGGGGCATGTATGTGCATTCAAAGGTACTGAAGTACAAATA
1 ATTCAGGGGTACCGAAGTACAAACAGGGG-ATGTATGTGCATTCAAAGGTACCAAAGTACAAAGA
27882906 GGGGCACGTATGTGC
65 GGGGCACGTATGTGC
*
27882921 ATTCTA-GGGTACTGAAGTACAAACAGGGGA
1 ATTC-AGGGGTACCGAAGTACAAACAGGGGA
27882951 ACACATATGC
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 26 0.28
80 67 0.71
81 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (79 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGATGTATGTGCATTCAAAGGTACCAAAGTACAAAGAG
GGGCACGTATGTGC
Found at i:27882962 original size:80 final size:79
Alignment explanation
Indices: 27882808--27882976 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 79
27882798 TGCATTTAGG
* * *
27882808 GGTACCAAAGTACAAA-CGAGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCA
1 GGTACCGAAGTACAAATAG-GGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGAA
*** *
27882872 TGTATGTGCATTCAAA
65 CACATATGCA-TCAAA
* **
27882888 GGTACTGAAGTACAAATAGGGGCACGTATGTGCATTCTA-GGGTACTGAAGTACAAACAGGGGAA
1 GGTACCGAAGTACAAATAGGGGCACGTATGTGCATTC-AGGGGTACCAAAGTACAAACAGGGGAA
*
27882952 CACATATGCATCAGA
65 CACATATGCATCAAA
27882967 GGTACCGAAG
1 GGTACCGAAG
27882977 CAAATTCACA
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 13 0.17
80 60 0.80
81 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (79 bp):
GGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGAAC
ACATATGCATCAAA
Found at i:27889163 original size:29 final size:29
Alignment explanation
Indices: 27889121--27889202 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
27889111 GTATTTTTTT
27889121 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
27889150 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
27889179 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
27889203 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:27897058 original size:29 final size:29
Alignment explanation
Indices: 27897016--27897097 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
27897006 TATTTTTTTT
27897016 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
27897045 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
27897074 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
27897098 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:27907238 original size:40 final size:40
Alignment explanation
Indices: 27907193--27907400 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
27907183 CGGAATACGA
*
27907193 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACAAATGCCTTCGGGTCTTAGC
* * * *
27907233 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
27907273 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
27907313 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
27907353 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
27907393 CCGGATAT
1 CCGGATAT
27907401 CATTCAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:27909429 original size:55 final size:55
Alignment explanation
Indices: 27909331--27909436 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
27909321 ACCAAAACAA
* * *
27909331 CACGGGCGTGCGACACGCCCGTGTGGAAGAACCGTGGATGAACCTGTTAAAATAG
1 CACGGGCGTGCGACACGCCCGTGTCGAACAACCATGGATGAACCTGTTAAAATAG
* *
27909386 CACGGGCGTGCGACACGCCCGTGTCTAACACCCATGG-TCGAACCTGTTAAA
1 CACGGGCGTGCGACACGCCCGTGTCGAACAACCATGGAT-GAACCTGTTAAA
27909437 TTGACACGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.17
Consensus pattern (55 bp):
CACGGGCGTGCGACACGCCCGTGTCGAACAACCATGGATGAACCTGTTAAAATAG
Found at i:27909464 original size:21 final size:21
Alignment explanation
Indices: 27909448--27909494 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
27909438 TGACACGGGT
27909448 GTGGGGCTTGCACACACAGGA
1 GTGGGGCTTGCACACACAGGA
*
27909469 GTGGGGCTTGCACACACAGGC
1 GTGGGGCTTGCACACACAGGA
27909490 GTGGG
1 GTGGG
27909495 AGAAGCGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.23, G:0.43, T:0.15
Consensus pattern (21 bp):
GTGGGGCTTGCACACACAGGA
Found at i:27919245 original size:16 final size:17
Alignment explanation
Indices: 27919213--27919247 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27919203 GCTTATACAA
27919213 AATTTTTCAAAATTTAC
1 AATTTTTCAAAATTTAC
*
27919230 AATTTTTCTAAA-TTAC
1 AATTTTTCAAAATTTAC
27919246 AA
1 AA
27919248 AGGTCACCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTTTCAAAATTTAC
Found at i:27922716 original size:40 final size:40
Alignment explanation
Indices: 27922659--27922844 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
27922649 TCGAATGATG
* * * *
27922659 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
27922699 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
27922739 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
27922779 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
27922820 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
27922845 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27922851 original size:80 final size:79
Alignment explanation
Indices: 27922712--27922867 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
27922702 GGACTAAGAT
* **
27922712 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
27922776 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
27922792 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
27922855 TATATCCGGTTAA
64 TAAATCCGGTTAA
27922868 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:27925044 original size:44 final size:42
Alignment explanation
Indices: 27924896--27925052 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 42
27924886 AGCTCGTACA
* * * *
27924896 ATGCCAACGTCCCAGACGTGGTCTTACATGTAGTCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAA-ATCG
* * * *
27924939 ATG-CATGTGTCCCAGACAGGGTCTTATACGAAATC-AAATGCG
1 ATGCCA-ATGTCCCAGACATGGTCTTACATGAAATCAAAAT-CG
* *
27924981 ATGTCGATGTCCCAGACATGGTCTTACATGCAAATCTAAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AAATC-AAAATCG
*
27925025 ATGCCAATGTCCCAAACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
27925053 CAAAATCACA
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 30 0.33
44 27 0.29
45 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAAATCG
Found at i:27925049 original size:86 final size:85
Alignment explanation
Indices: 27924904--27925060 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
27924894 CAATGCCAAC
* * * * * * *
27924904 GTCCCAGACGTGGTCTTACATGTAGTCAAATATCGATGCATGTGTCCCAGACAGGGTCTTATACG
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGCATATGTCCCAAACAGGGTCTTACACA
27924969 AAATCAAATGCGATGTCGAT
66 AAATCAAATGCGATGTCGAT
*
27924989 GTCCCAGACATGGTCTTACATGCAAATCTAAA-ATCGATGCCA-ATGTCCCAAACATGGTCTTAC
1 GTCCCAGACATGGTCTTACATG-AAATC-AAATATCGATG-CATATGTCCCAAACAGGGTCTTAC
27925052 ACAAAATCA
63 ACAAAATCA
27925061 CATACCGAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 21 0.34
86 35 0.57
87 5 0.08
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGCATATGTCCCAAACAGGGTCTTACACA
AAATCAAATGCGATGTCGAT
Found at i:27940408 original size:40 final size:39
Alignment explanation
Indices: 27940351--27940489 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 39
27940341 TCGAATGATG
* * *
27940351 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGACTAA-TCCCGAAGGCTTTGTGCTAAGTTACTAAA
* * *
27940391 TCCGGACTAGGAT-CCGAAGGCATTCGTG-TGAGTTAATAAA
1 TCCGGACTA--ATCCCGAAGGC-TTTGTGCTAAGTTACTAAA
*
27940431 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAA
1 TCCGGACTAATCCCGAAGGCTTTGTGCTAAGTTACTAAA
* **
27940469 CCCGGGTTAAGTCCCGAAGGC
1 TCCGGACTAA-TCCCGAAGGC
27940490 ATTCGTGCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 13
0.76 0.11 0.12
Matches are distributed among these distances:
38 24 0.30
39 18 0.22
40 32 0.40
41 6 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGACTAATCCCGAAGGCTTTGTGCTAAGTTACTAAA
Found at i:27940514 original size:40 final size:39
Alignment explanation
Indices: 27940352--27940528 Score: 110
Period size: 40 Copynumber: 4.5 Consensus size: 39
27940342 CGAATGATGT
* * * * *
27940352 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCTTCGTGC-AAGTCACTAAAC
** * ** * * *
27940392 CCGGACTAGGAT-CCGAAGGCATTCGTGTGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGC-TTCGTGCAAGTCACTAAAC
* * *
27940432 CCGGGCTAA-TCCCGAAGGCTTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCTTCGTGCAAGTCACTAAAC
*
27940470 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA-
1 CCGGGTTAAGTCCCGAAGGC-TTCGTGCAAGTCACTA-AAC
*
27940510 CCGGGCTT-CGTCCCGAAGG
1 CCGGG-TTAAGTCCCGAAGG
27940529 ACGTGATTCT
Statistics
Matches: 110, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
38 23 0.21
39 18 0.16
40 59 0.54
41 10 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGTTAAGTCCCGAAGGCTTCGTGCAAGTCACTAAAC
Found at i:27940514 original size:78 final size:80
Alignment explanation
Indices: 27940351--27940528 Score: 193
Period size: 78 Copynumber: 2.2 Consensus size: 80
27940341 TCGAATGATG
* * *
27940351 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
** *
27940416 GTGTGAGTTAATAAA
66 GTGCAAGTCAATAAA
* **
27940431 TCCGGGCTAA-TCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
**
27940493 CGTGCAAGTCGCTATAA
65 CGTGCAAGTCAATA-AA
**
27940510 -CCGGGCTTCGTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
27940529 ACGTGATTCT
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
77 1 0.01
78 43 0.52
79 28 0.34
80 10 0.12
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCAAGTCAATAAA
Found at i:27947926 original size:40 final size:40
Alignment explanation
Indices: 27947764--27947965 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
27947754 CGAATGATGT
*
27947764 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
27947804 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
27947843 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
27947881 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
27947922 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
27947962 CCGG
1 CCGG
27947966 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Done.