Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 15 of 290
Found at i:4528008 original size:42 final size:42
Alignment explanation
Indices: 4527903--4528021 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
4527893 CAGAAAGCAT
* ***
4527903 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
* * * * *
4527945 ACATCGATGCCACTGTCCCAGATAGGGTCTTACACAAAATCAG
1 ATA-CGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
4527988 ATACGATGCCAATGTCCCAGACATGGTCTTACAC
1 ATACGATGCCAATGTCCCAGACATGGTCTTACAC
4528022 GCAAAACAGA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
Found at i:4533666 original size:48 final size:47
Alignment explanation
Indices: 4533515--4533740 Score: 217
Period size: 48 Copynumber: 4.7 Consensus size: 47
4533505 AAAGGTTAAG
* ** * **
4533515 ATGCCGATGTCATGTTCCAAACATGGTCTTACACTAGCCCCCATGTCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAG-CTTCATATAA
* * * *
4533563 AGGCCGATGTC-TG-TCTAAGACATGGTCTTACACTAGCTCTTATATAA
1 ATGCCGATGCCATGTTCCAA-ACATGGTCTTACACTAGCT-TCATATAA
* * *
4533610 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATATCGA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTT-CATAT-AA
* *
4533659 A-GCCGATGCCATG-TCCTAGACATAGTCTTACACTAGCTCTCATATAA
1 ATGCCGATGCCATGTTCC-AAACATGGTCTTACACTAGCT-TCATATAA
*
4533706 ATGTCGATGCCATGTTCCAAACATGGTCTTACACT
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACT
4533741 GGCTCACATA
Statistics
Matches: 145, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
46 5 0.03
47 36 0.25
48 94 0.65
49 10 0.07
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (47 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTTCATATAA
Found at i:4533713 original size:96 final size:95
Alignment explanation
Indices: 4533519--4533750 Score: 349
Period size: 96 Copynumber: 2.4 Consensus size: 95
4533509 GTTAAGATGC
* * * * * * *
4533519 CGATGTCATGTTCCAAACATGGTCTTACACTAGCCCCCATGTCGAGGCCGATGTCTGTCTAAGAC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAAGCCGATGCCTGTCTAAGAC
* *
4533584 ATGGTCTTACACTAGCTCTTATATAAATGT
66 ATAGTCTTACACTAGCTCTCATATAAATGT
*
4533614 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATATCGAAGCCGATGCCATGTCCT-AG
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAAGCCGATGCC-TGT-CTAAG
4533678 ACATAGTCTTACACTAGCTCTCATATAAATGT
64 ACATAGTCTTACACTAGCTCTCATATAAATGT
4533710 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
4533751 ACCCTAATAT
Statistics
Matches: 124, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
95 47 0.38
96 75 0.60
97 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (95 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAAGCCGATGCCTGTCTAAGAC
ATAGTCTTACACTAGCTCTCATATAAATGT
Found at i:4539721 original size:23 final size:23
Alignment explanation
Indices: 4539694--4539737 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4539684 TAACATTATT
*
4539694 AATCACTATC-ATATTTAAAATAA
1 AATCA-TATCTATATATAAAATAA
4539717 AATCATATCTATATATAAAAT
1 AATCATATCTATATATAAAAT
4539738 TCTATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (23 bp):
AATCATATCTATATATAAAATAA
Found at i:4551884 original size:50 final size:50
Alignment explanation
Indices: 4551828--4551987 Score: 148
Period size: 50 Copynumber: 3.2 Consensus size: 50
4551818 GTCGTTCAGA
*
4551828 ATTATGCAAAGTGATGAAAGGTGTCACCATTCACGAA-GAAGCCATTTGAG
1 ATTATGCAAAGTGATGAAAGGTGTCACCATTCAC-AACAAAGCCATTTGAG
* ** * *
4551878 ATTATGCAAA-TCAATGAGTGGTGCCACTATTCACAACAAAGCCATTTG-G
1 ATTATGCAAAGT-GATGAAAGGTGTCACCATTCACAACAAAGCCATTTGAG
* ** * * *
4551927 AGTTACGTGAAGTGATGAAATGTGTCACCAGTCACAACAAAGCCA-TTCAGG
1 A-TTATGCAAAGTGATGAAAGGTGTCACCATTCACAACAAAGCCATTTGA-G
4551978 ATTATGCAAA
1 ATTATGCAAA
4551988 TTCGAGAAGA
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
49 7 0.08
50 74 0.88
51 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (50 bp):
ATTATGCAAAGTGATGAAAGGTGTCACCATTCACAACAAAGCCATTTGAG
Found at i:4560952 original size:46 final size:45
Alignment explanation
Indices: 4560902--4561131 Score: 343
Period size: 46 Copynumber: 5.0 Consensus size: 45
4560892 TTTCTGCTAT
**
4560902 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
*
4560947 CGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAA
1 -GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC-A
* * *
4560994 GTTTCCATGGTATCTGTCAACCATGGTCTTACACATTTCGTATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
*
4561039 GATTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 G-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
* *
4561085 GGTTGCCATGATATCTTTCAACCATGGTCTTATACATTTCATATCA
1 -GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
4561131 G
1 G
4561132 AGAGCACACT
Statistics
Matches: 169, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
45 3 0.02
46 164 0.97
47 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (45 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
Found at i:4562953 original size:11 final size:11
Alignment explanation
Indices: 4562937--4562984 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
4562927 CTTTGTATAC
4562937 TAATAAAATAA
1 TAATAAAATAA
*
4562948 TAATAAAATATCT
1 TAATAAAATA--A
* *
4562961 TATTAAAATAT
1 TAATAAAATAA
4562972 TAATAAAATAA
1 TAATAAAATAA
4562983 TA
1 TA
4562985 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:4564277 original size:43 final size:42
Alignment explanation
Indices: 4564202--4564310 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 42
4564192 CATACCAATG
* ** *
4564202 CCATAT-CCAGATATAGTCTTACA-TTAGATCTCATATCGATA
1 CCATATCCCAGATATGGTCTTACACAAAG-TCTCACATCGATA
* *
4564243 CCAATAGT-CCAGCTATGGTCTTACACAAAGTCTCACATCGATG
1 CC-ATA-TCCCAGATATGGTCTTACACAAAGTCTCACATCGATA
*
4564286 CCATATCCCATATATGGTCTTACAC
1 CCATATCCCAGATATGGTCTTACAC
4564311 GTAACTCAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 3 0.05
42 22 0.39
43 29 0.52
44 2 0.04
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACAAAGTCTCACATCGATA
Found at i:4568211 original size:68 final size:68
Alignment explanation
Indices: 4568116--4568244 Score: 186
Period size: 68 Copynumber: 1.9 Consensus size: 68
4568106 AGTCCATGGT
* * * * *
4568116 TAAACATGACAATATATTGTGTGAGACCATAGTTGGGCTATGGCAACATATGTAGTCCGCCAAGA
1 TAAACATGACAATATATTGTGTAAGACCATAGCTGGGCTATGACAACAAATGAAGTCCGCCAAGA
4568181 CAG
66 CAG
* * *
4568184 TAAACATGGCATTGTATTGTGTAAGACCATAGCTGGGCTATGACAACAAATGAAGTCCGCC
1 TAAACATGACAATATATTGTGTAAGACCATAGCTGGGCTATGACAACAAATGAAGTCCGCC
4568245 GAGATGATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (68 bp):
TAAACATGACAATATATTGTGTAAGACCATAGCTGGGCTATGACAACAAATGAAGTCCGCCAAGA
CAG
Found at i:4570615 original size:25 final size:25
Alignment explanation
Indices: 4570587--4570636 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4570577 ATTTTTAGCA
4570587 AAAGCTTATATTTTGGTGAGTGTCT
1 AAAGCTTATATTTTGGTGAGTGTCT
4570612 AAAGCTTATATTTTGGTGAGTGTCT
1 AAAGCTTATATTTTGGTGAGTGTCT
4570637 TGGAATAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (25 bp):
AAAGCTTATATTTTGGTGAGTGTCT
Found at i:4583060 original size:215 final size:215
Alignment explanation
Indices: 4582689--4583117 Score: 831
Period size: 215 Copynumber: 2.0 Consensus size: 215
4582679 TAAAAACAAA
4582689 ATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTCTCCATAGCTAG
1 ATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTCTCCATAGCTAG
4582754 GGTTTGTTTCAAGCTTCCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTAC
66 GGTTTGTTTCAAGCTTCCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTAC
4582819 GTTTTTGGAATCCCGGAAGCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATT
131 GTTTTTGGAATCCCGGAAGCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATT
4582884 TGGAAAAATACCCATAGGTG
196 TGGAAAAATACCCATAGGTG
*
4582904 ATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTCTCCATAGCTAT
1 ATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTCTCCATAGCTAG
*
4582969 GGTTTGTTTCAAGCTTCCAAGCTCCATAGTAAGTGATTCCAGGCCCCGTTTTTAATGTTCTTTAC
66 GGTTTGTTTCAAGCTTCCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTAC
*
4583034 GTTTTTGGGATCCCGGAAGCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATT
131 GTTTTTGGAATCCCGGAAGCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATT
4583099 TGGAAAAATACCCATAGGT
196 TGGAAAAATACCCATAGGT
4583118 AAAATTTGTG
Statistics
Matches: 211, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
215 211 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (215 bp):
ATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTTCTCCATAGCTAG
GGTTTGTTTCAAGCTTCCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTAC
GTTTTTGGAATCCCGGAAGCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATT
TGGAAAAATACCCATAGGTG
Found at i:4584258 original size:185 final size:185
Alignment explanation
Indices: 4583946--4584314 Score: 702
Period size: 185 Copynumber: 2.0 Consensus size: 185
4583936 AAGGTAAGTT
4583946 CATGTGTAAATAATGTAGCATAAATGTTATTTTTAAGTTATTAATGTTAATTATATGATATGCTA
1 CATGTGTAAATAATGTAGCATAAATGTTATTTTTAAGTTATTAATGTTAATTATATGATATGCTA
4584011 ATTTTTAATCGTGAAATATTATGCTTTGTAGTTAATGTTGAGTAATATGCAAATTATGTTTACTA
66 ATTTTTAATCGTGAAATATTATGCTTTGTAGTTAATGTTGAGTAATATGCAAATTATGTTTACTA
4584076 CTTGATAAATATGAATTGCTACCGAGTATCAGTTCCGATATTCCATAGAAGACGG
131 CTTGATAAATATGAATTGCTACCGAGTATCAGTTCCGATATTCCATAGAAGACGG
*
4584131 CATGTGTAAATAATGTAGCATAAATGTTATTTTTAAGTTATTAATGTTAATTATATGATATGCTG
1 CATGTGTAAATAATGTAGCATAAATGTTATTTTTAAGTTATTAATGTTAATTATATGATATGCTA
*
4584196 ATTTTTAATCGTGAAATATTATGCTTTGTGGTTAATGTTGAGTAATATGCAAATTATGTTTACTA
66 ATTTTTAATCGTGAAATATTATGCTTTGTAGTTAATGTTGAGTAATATGCAAATTATGTTTACTA
* *
4584261 CTTGATAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCATGGAAGACG
131 CTTGATAAATATGAATTGCTACCGAGTATCAGTTCCGATATTCCATAGAAGACG
4584315 ACAAATGTGA
Statistics
Matches: 180, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
185 180 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (185 bp):
CATGTGTAAATAATGTAGCATAAATGTTATTTTTAAGTTATTAATGTTAATTATATGATATGCTA
ATTTTTAATCGTGAAATATTATGCTTTGTAGTTAATGTTGAGTAATATGCAAATTATGTTTACTA
CTTGATAAATATGAATTGCTACCGAGTATCAGTTCCGATATTCCATAGAAGACGG
Found at i:4584454 original size:46 final size:46
Alignment explanation
Indices: 4584404--4584561 Score: 160
Period size: 46 Copynumber: 3.4 Consensus size: 46
4584394 TTGAGCATCT
*
4584404 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * *
4584450 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * **
4584497 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACACCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* *
4584543 GAGCTCATTGAGTTGAGTC
1 GAACTCGTTGAGTTGAGTC
4584562 TAGCCCGTTT
Statistics
Matches: 93, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 47 0.51
47 29 0.31
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:4584682 original size:46 final size:46
Alignment explanation
Indices: 4584632--4584798 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
4584622 AGCATTCGAC
*
4584632 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAA
* * * * *
4584678 CTCGTTGAGTTGAGCCCGAGTTC-GTGA--GATGTAACTAGGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCGAA
* * * *
4584725 CTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAA
* *
4584771 CTCCTAGAGTTGAGTCCGAGTTCACTTA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTA
4584799 GGGGCGGGTT
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 52 0.54
47 28 0.29
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAA
Found at i:4584729 original size:225 final size:225
Alignment explanation
Indices: 4584338--4584786 Score: 837
Period size: 225 Copynumber: 2.0 Consensus size: 225
4584328 CGAGGGAAAA
4584338 AGCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGGTTGAGCATC
1 AGCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGGTTGAGCATC
*
4584403 TGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGT
66 TGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGC
4584468 CCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGAT
131 CCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGAT
*
4584533 GCGAACACCCGAGCTCATTGAGTTGAGTCT
196 GCGAACACCCGAGCTCATAGAGTTGAGTCT
4584563 AGCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGGTTGAGCAT-
1 AGCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGGTTGAGCATC
*
4584627 TCGACCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAG
66 T-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAG
4584692 CCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGA
130 CCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGA
* *
4584757 TGCGAACGCCCGAGCTCCTAGAGTTGAGTC
195 TGCGAACACCCGAGCTCATAGAGTTGAGTC
4584787 CGAGTTCACT
Statistics
Matches: 218, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
224 1 0.00
225 217 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (225 bp):
AGCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGGTTGAGCATC
TGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGC
CCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGAT
GCGAACACCCGAGCTCATAGAGTTGAGTCT
Found at i:4584791 original size:93 final size:93
Alignment explanation
Indices: 4584623--4584793 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
4584613 GGATGGTTGA
* * * * * *
4584623 GCATTCGACCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCCTAGAGT
4584688 TGAGCCCGAGTTCGTGAGATGTAACTAG
66 TGAGCCCGAGTTCGTGAGATGTAACTAG
* * *
4584716 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCCTAGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCCTAGAGT
*
4584781 TGAGTCCGAGTTC
66 TGAGCCCGAGTTC
4584794 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCCTAGAGT
TGAGCCCGAGTTCGTGAGATGTAACTAG
Found at i:4585060 original size:19 final size:20
Alignment explanation
Indices: 4585023--4585060 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
4585013 ATAAGGTGGT
4585023 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
4585043 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
4585061 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:4610914 original size:22 final size:22
Alignment explanation
Indices: 4610865--4610906 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4610855 GACTAAACCA
*
4610865 AAAACCTTAGAGATCTTTTTTAC
1 AAAA-CTTAGAAATCTTTTTTAC
4610888 AAAACTTAGAAAT-TTTTTT
1 AAAACTTAGAAATCTTTTTT
4610907 CACTAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (22 bp):
AAAACTTAGAAATCTTTTTTAC
Found at i:4621881 original size:16 final size:16
Alignment explanation
Indices: 4621862--4621895 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4621852 GAATTTTACT
4621862 ACTTGTTTATTTAACA
1 ACTTGTTTATTTAACA
4621878 ACTTGTTTATTTAACA
1 ACTTGTTTATTTAACA
4621894 AC
1 AC
4621896 AAGGATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (16 bp):
ACTTGTTTATTTAACA
Found at i:4621932 original size:45 final size:44
Alignment explanation
Indices: 4621869--4621957 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 44
4621859 ACTACTTGTT
*
4621869 TATTTAACAACTTGTTTATTTAACAACAAGGATTCATAATCTTC
1 TATTTAAAAACTTGTTTATTTAACAACAAGGATTCATAATCTTC
4621913 TATTTACAAAACTTGTTTATTTAACAACAAGGATTCATAATCTTC
1 TATTTA-AAAACTTGTTTATTTAACAACAAGGATTCATAATCTTC
4621958 CATCAAACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 6 0.14
45 37 0.86
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (44 bp):
TATTTAAAAACTTGTTTATTTAACAACAAGGATTCATAATCTTC
Found at i:4626941 original size:45 final size:45
Alignment explanation
Indices: 4626831--4626950 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 45
4626821 GGAATTTAGA
4626831 AAATCCGAGCTCGTTGAGTTGGTCCGAGTTCGTGATATATGTGAG
1 AAATCCGAGCTCGTTGAGTTGGTCCGAGTTCGTGATATATGTGAG
** * * * *
4626876 AAATATGAACTTGTTTAGTTGGTCCAAGTTCGTGATATATGTGA-
1 AAATCCGAGCTCGTTGAGTTGGTCCGAGTTCGTGATATATGTGAG
*
4626920 AGCATCCGAGCTCGTTGAGTTGGTCCGAGTT
1 A-AATCCGAGCTCGTTGAGTTGGTCCGAGTT
4626951 TATTATGGAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 1 0.02
45 60 0.98
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (45 bp):
AAATCCGAGCTCGTTGAGTTGGTCCGAGTTCGTGATATATGTGAG
Found at i:4633923 original size:22 final size:23
Alignment explanation
Indices: 4633876--4633935 Score: 79
Period size: 22 Copynumber: 2.6 Consensus size: 23
4633866 GATAACAGTG
4633876 AGCTCAATTGAGCTGGAATTGGGA
1 AGCTC-ATTGAGCTGGAATTGGGA
4633900 AGCTCTATTGAGCT-GAA-TGGGA
1 AGCTC-ATTGAGCTGGAATTGGGA
4633922 AGCTCATATGAGCT
1 AGCTCAT-TGAGCT
4633936 ATGGTGAGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.06
22 16 0.47
23 3 0.09
24 13 0.38
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (23 bp):
AGCTCATTGAGCTGGAATTGGGA
Found at i:4638578 original size:28 final size:28
Alignment explanation
Indices: 4638547--4638603 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
4638537 CAAGGAAGGT
4638547 AAGGACTGCAATCCAATCTTTATAACCC
1 AAGGACTGCAATCCAATCTTTATAACCC
4638575 AAGGACTGCAATCCAATCTTTATAACCC
1 AAGGACTGCAATCCAATCTTTATAACCC
4638603 A
1 A
4638604 TCATGGCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.25
Consensus pattern (28 bp):
AAGGACTGCAATCCAATCTTTATAACCC
Found at i:4650896 original size:72 final size:71
Alignment explanation
Indices: 4650710--4650896 Score: 248
Period size: 72 Copynumber: 2.6 Consensus size: 71
4650700 TGCCCGCATT
* * * * * *
4650710 TGAGCTACTCACGGGTCTGTACACAAAGTCAGCACCTGGACCCCAAAGCATTAACATGATATGCT
1 TGAGTTACTCAC-GGTTTATACACAAAGTCAGTACCCGGACCCCAAAACATTAACATGATATGCT
4650775 CGCTCAA
65 CGCTCAA
* * *
4650782 CGAGTTACTCACGAGTTTATACACAAAGTCAGTACTCAGACCCCAAAACATTAACATGATATGCT
1 TGAGTTACTCACG-GTTTATACACAAAGTCAGTACCCGGACCCCAAAACATTAACATGATATGCT
*
4650847 TGCTCAA
65 CGCTCAA
*
4650854 TGAGTTACTCACAGGTTTATACACAAAGTCAATACCCGGACCC
1 TGAGTTACTCAC-GGTTTATACACAAAGTCAGTACCCGGACCC
4650897 ACATATATAT
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
71 1 0.01
72 97 0.98
73 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (71 bp):
TGAGTTACTCACGGTTTATACACAAAGTCAGTACCCGGACCCCAAAACATTAACATGATATGCTC
GCTCAA
Found at i:4652990 original size:41 final size:42
Alignment explanation
Indices: 4652945--4653024 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
4652935 ATGCAGGGGA
**
4652945 CACATGGCCT-ATCAGCTTGCCCGTGTG-CAAGCCGTGTGTCT
1 CACATGGCCTGATCA-CACGCCCGTGTGCCAAGCCGTGTGTCT
* *
4652986 CACATGGTCTGATCACACGCCCGTGTGCCAGGCCGTGTG
1 CACATGGCCTGATCACACGCCCGTGTGCCAAGCCGTGTG
4653025 GACTCAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 19 0.58
42 14 0.42
ACGTcount: A:0.15, C:0.33, G:0.29, T:0.24
Consensus pattern (42 bp):
CACATGGCCTGATCACACGCCCGTGTGCCAAGCCGTGTGTCT
Found at i:4654727 original size:20 final size:20
Alignment explanation
Indices: 4654704--4654742 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4654694 TCTGTTCTGT
*
4654704 TTCTTACTTTTGTTTCTTTA
1 TTCTTACTTTTATTTCTTTA
**
4654724 TTCTTTTTTTTATTTCTTT
1 TTCTTACTTTTATTTCTTT
4654743 TATTTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.77
Consensus pattern (20 bp):
TTCTTACTTTTATTTCTTTA
Found at i:4662240 original size:79 final size:79
Alignment explanation
Indices: 4662151--4662308 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
4662141 TCGTTACTTC
4662151 TTTGTTTTGTTTCTTACTTTTGTTTCTTTATTCTTTTTATTATTTCTTTTATTTCTTTTACTTTA
1 TTTGTTTTGTTTCTTACTTTTGTTTCTTTATTCTTTTTATTATTTCTTTTATTTCTTTTACTTTA
4662216 TATTATTATATTAT
66 TATTATTATATTAT
4662230 TTTGTTTTGTTTCTTACTTTTGTTTCTTTATTCTTTTTATTATTTCTTTTATTTCTTTTACTTTA
1 TTTGTTTTGTTTCTTACTTTTGTTTCTTTATTCTTTTTATTATTTCTTTTATTTCTTTTACTTTA
4662295 TATTATTATATTAT
66 TATTATTATATTAT
4662309 ATTTTCTAAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.72
Consensus pattern (79 bp):
TTTGTTTTGTTTCTTACTTTTGTTTCTTTATTCTTTTTATTATTTCTTTTATTTCTTTTACTTTA
TATTATTATATTAT
Found at i:4664037 original size:42 final size:42
Alignment explanation
Indices: 4663978--4664058 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
4663968 CCTCTCAGTT
4663978 TCATAGGTTTTATCTCCAAGCTCTACCCCGAGAGGTTCCTGC
1 TCATAGGTTTTATCTCCAAGCTCTACCCCGAGAGGTTCCTGC
*
4664020 TCATAGGTTTTATCTCCAAGCTCTACCTCGAGAGGTTCC
1 TCATAGGTTTTATCTCCAAGCTCTACCCCGAGAGGTTCC
4664059 CGATGAAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.32
Consensus pattern (42 bp):
TCATAGGTTTTATCTCCAAGCTCTACCCCGAGAGGTTCCTGC
Found at i:4664526 original size:24 final size:26
Alignment explanation
Indices: 4664499--4664546 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
4664489 AAAATAGCGA
*
4664499 AAAGT-AAAAA-TCAAATGTAACTAT
1 AAAGTAAAAAACTCAAATGAAACTAT
4664523 AAAGTAAAAAACTCAAATGAAACT
1 AAAGTAAAAAACTCAAATGAAACT
4664547 GTACCCAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 5 0.24
26 11 0.52
ACGTcount: A:0.60, C:0.10, G:0.08, T:0.21
Consensus pattern (26 bp):
AAAGTAAAAAACTCAAATGAAACTAT
Found at i:4668179 original size:41 final size:41
Alignment explanation
Indices: 4668122--4668203 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
4668112 TCAAAATTCA
4668122 TTTCAGTGATATATATTTCATTGGAGGGTTTAAAACTGTTG
1 TTTCAGTGATATATATTTCATTGGAGGGTTTAAAACTGTTG
**
4668163 TTTCAGTGATATATATTTCATTGGAGGGTTTGGAACTGTTG
1 TTTCAGTGATATATATTTCATTGGAGGGTTTAAAACTGTTG
4668204 CATGGATTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (41 bp):
TTTCAGTGATATATATTTCATTGGAGGGTTTAAAACTGTTG
Found at i:4668329 original size:1 final size:1
Alignment explanation
Indices: 4668323--4668350 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
4668313 TCCACTTCTG
4668323 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
4668351 GATTGCATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4671465 original size:68 final size:68
Alignment explanation
Indices: 4671356--4671486 Score: 199
Period size: 68 Copynumber: 1.9 Consensus size: 68
4671346 TTGGTTTATG
* * * * *
4671356 GATTTAATTACTTGTAATGTTCATTGTGTGGCATACATTAATCTTGAGTGGATGATGGACTATGT
1 GATTTAATTACTTGTAATGTTCATAGTATGGCATACATTAATCTTAAATGGAGGATGGACTATGT
4671421 ATT
66 ATT
* *
4671424 GATTTAATTACTTGTGATGTTCATAGTATGGCATACCTTAATCTTAAATGGAGGATGGACTAT
1 GATTTAATTACTTGTAATGTTCATAGTATGGCATACATTAATCTTAAATGGAGGATGGACTAT
4671487 ATATGCGTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (68 bp):
GATTTAATTACTTGTAATGTTCATAGTATGGCATACATTAATCTTAAATGGAGGATGGACTATGT
ATT
Found at i:4672948 original size:46 final size:44
Alignment explanation
Indices: 4672844--4672951 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
4672834 TGTCTTTGAC
** * * *
4672844 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
4672888 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
4672934 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
4672952 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:4681341 original size:28 final size:28
Alignment explanation
Indices: 4681287--4681341 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
4681277 GCATATATGT
*
4681287 GTGAAATTGAATTGTATAATGATTTGTG
1 GTGAAATTGAATTGTATAATGAATTGTG
* *
4681315 GTGAATTTGAAATTGTA-ATTGAATTGT
1 GTGAAATTG-AATTGTATAATGAATTGT
4681342 TATTGCGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.44
Consensus pattern (28 bp):
GTGAAATTGAATTGTATAATGAATTGTG
Found at i:4687850 original size:3 final size:3
Alignment explanation
Indices: 4687842--4687882 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
4687832 AGATATTTAC
4687842 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
4687883 ATTGAGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4692354 original size:24 final size:23
Alignment explanation
Indices: 4692304--4692355 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
4692294 AAAGATTAAG
* **
4692304 GATTTCACGATTTGGTTCTAAGG
1 GATTTCACGATTTCGTTCTAAAA
*
4692327 GATTTCATGATTTCGTTCCTAAAA
1 GATTTCACGATTTCGTT-CTAAAA
4692351 GATTT
1 GATTT
4692356 AGGGATTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.42
Consensus pattern (23 bp):
GATTTCACGATTTCGTTCTAAAA
Found at i:4692361 original size:32 final size:32
Alignment explanation
Indices: 4692324--4692397 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
4692314 TTTGGTTCTA
*
4692324 AGGGATTTCATGATTTCG-TTCCTAAAAGATTT
1 AGGGATTTCACGATTT-GATTCCTAAAAGATTT
* *
4692356 AGGGA-TTCAACGATTTGATTCGTAAAAGTTTT
1 AGGGATTTC-ACGATTTGATTCCTAAAAGATTT
*
4692388 AAGGATTTCA
1 AGGGATTTCA
4692398 AATTTAGAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
31 4 0.11
32 28 0.80
33 3 0.09
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (32 bp):
AGGGATTTCACGATTTGATTCCTAAAAGATTT
Found at i:4692896 original size:90 final size:88
Alignment explanation
Indices: 4692780--4692954 Score: 217
Period size: 90 Copynumber: 2.0 Consensus size: 88
4692770 AAGGTTGAGA
* *
4692780 CTTTTTTTGCATTCAATTGAGCACTTGAACTTTCAAAATGCA-CAAGAAAGGACTTCAAACTTCT
1 CTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATACATCAA-AAAGGACTTCAAACTTCT
4692844 TCAAAAAAAGCAATTAAGCCCTTGC
65 TC-AAAAAAGCAATTAAGCCCTTGC
* * * * ** * * *
4692869 CTTTTTTTGTCACTCAATTGGGTACTTGAACTTTTAAAATACATCGAAAAGTCCTTTAAATTTTT
1 CTTTTTTTG-CACTCAATTGAGCACTTGAACTTTCAAAATACATCAAAAAGGACTTCAAACTTCT
4692934 TCAAAAAAGCAATTAAGCCCT
65 TCAAAAAAGCAATTAAGCCCT
4692955 ACTCTTATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 28 0.38
90 43 0.59
91 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (88 bp):
CTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATACATCAAAAAGGACTTCAAACTTCTT
CAAAAAAGCAATTAAGCCCTTGC
Found at i:4693023 original size:36 final size:36
Alignment explanation
Indices: 4692966--4693040 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
4692956 CTCTTATTAA
*
4692966 AAATTAGGAAAAAGTAAAAAAAATAGAAAAATTATT
1 AAATTAGGAAAAAATAAAAAAAATAGAAAAATTATT
* ** *
4693002 AAATTA-GAATAAAATATAAAAAATTTAAAATTTATT
1 AAATTAGGAA-AAAATAAAAAAAATAGAAAAATTATT
4693038 AAA
1 AAA
4693041 AATAGAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
35 3 0.09
36 30 0.91
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (36 bp):
AAATTAGGAAAAAATAAAAAAAATAGAAAAATTATT
Found at i:4693055 original size:20 final size:20
Alignment explanation
Indices: 4693032--4693083 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
4693022 AAATTTAAAA
4693032 TTTATTAAAAATAG-AATTTT
1 TTTA-TAAAAATAGCAATTTT
*
4693052 TTTATAAAAATTGCAATTTT
1 TTTATAAAAATAGCAATTTT
4693072 TTTAATAAAAAT
1 TTT-ATAAAAAT
4693084 CATAAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 8 0.28
20 13 0.45
21 8 0.28
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTATAAAAATAGCAATTTT
Found at i:4693131 original size:19 final size:19
Alignment explanation
Indices: 4693107--4693143 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4693097 CGACCCTTAG
* *
4693107 TTTTTTCAGTTAAAGTCAA
1 TTTTTTCAATCAAAGTCAA
4693126 TTTTTTCAATCAAAGTCA
1 TTTTTTCAATCAAAGTCA
4693144 TCACATGTCC
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:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (19 bp):
TTTTTTCAATCAAAGTCAA
Found at i:4693322 original size:10 final size:9
Alignment explanation
Indices: 4693307--4693391 Score: 50
Period size: 9 Copynumber: 9.3 Consensus size: 9
4693297 TTATTACGAC
4693307 TTTATAAAAT
1 TTTAT-AAAT
4693317 TTTAT-AAT
1 TTTATAAAT
* *
4693325 TCTATATAT
1 TTTATAAAT
*
4693334 TTTATACAT
1 TTTATAAAT
*
4693343 TTTACT-ATT
1 TTTA-TAAAT
4693352 TTTATAAAAT
1 TTTAT-AAAT
*
4693362 TTTATAATT
1 TTTATAAAT
* *
4693371 TTTTTATAT
1 TTTATAAAT
4693380 TTT-TACAAT
1 TTTATA-AAT
4693389 TTT
1 TTT
4693392 TATATATATT
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
8 10 0.17
9 35 0.60
10 13 0.22
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTATAAAT
Found at i:4693373 original size:9 final size:9
Alignment explanation
Indices: 4693316--4693413 Score: 60
Period size: 9 Copynumber: 10.6 Consensus size: 9
4693306 CTTTATAAAA
4693316 TTTTATAA-
1 TTTTATAAT
*
4693324 TTCTAT-AT
1 TTTTATAAT
4693332 ATTTTATACA-
1 -TTTTATA-AT
4693342 TTTTACT-AT
1 TTTTA-TAAT
*
4693351 TTTTATAAAA
1 TTTTAT-AAT
4693361 TTTTATAAT
1 TTTTATAAT
*
4693370 TTTTTTATAT
1 TTTTATA-AT
*
4693380 TTTTACAAT
1 TTTTATAAT
4693389 TTTTATATAT
1 TTTTATA-AT
*
4693399 ATTTTTTAAT
1 -TTTTATAAT
4693409 TTTTA
1 TTTTA
4693414 ATATTTGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
7 1 0.01
8 7 0.10
9 35 0.51
10 19 0.28
11 7 0.10
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:4693384 original size:29 final size:30
Alignment explanation
Indices: 4693342--4693414 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
4693332 ATTTTATACA
4693342 TTTTACTATTTTTATAAAATTTTATA-AT-TT
1 TTTTA-TATTTTTA-AAAATTTTATATATATT
* *
4693372 TTTTATATTTTTACAATTTTTATATATATT
1 TTTTATATTTTTAAAAATTTTATATATATT
4693402 TTTTA-ATTTTTAA
1 TTTTATATTTTTAA
4693415 TATTTGAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 9 0.24
29 17 0.45
30 12 0.32
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTATATTTTTAAAAATTTTATATATATT
Found at i:4693397 original size:19 final size:19
Alignment explanation
Indices: 4693333--4693419 Score: 79
Period size: 19 Copynumber: 4.6 Consensus size: 19
4693323 ATTCTATATA
* *
4693333 TTTTATACA-TTTTACTAT
1 TTTTATATATTTTTACAAT
* * *
4693351 TTTTATAAAATTTTATAAT
1 TTTTATATATTTTTACAAT
*
4693370 TTTTTTATATTTTTACAAT
1 TTTTATATATTTTTACAAT
**
4693389 TTTTATATATATTTTTTAAT
1 TTTTATATAT-TTTTACAAT
4693409 TTTTA-ATATTT
1 TTTTATATATTT
4693420 GAATTTTTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
18 10 0.18
19 35 0.61
20 12 0.21
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATATATTTTTACAAT
Found at i:4693418 original size:38 final size:38
Alignment explanation
Indices: 4693342--4693443 Score: 104
Period size: 38 Copynumber: 2.7 Consensus size: 38
4693332 ATTTTATACA
* *
4693342 TTTTACTATTTTTATAAAATTTTATAATTTTTTTATAT
1 TTTTACAATTTTTATAAAATTTTATAATTTTTTAATAT
* *
4693380 TTTTACAATTTTTATATATATTTTTTAA-TTTTTAATA-
1 TTTTACAATTTTTATA-AAATTTTATAATTTTTTAATAT
* *
4693417 -TTT-GAATTTTTATTAAAATTTAATAAT
1 TTTTACAATTTTTA-TAAAATTTTATAAT
4693444 ATTTATAGCT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
35 16 0.30
36 5 0.09
38 23 0.43
39 9 0.17
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (38 bp):
TTTTACAATTTTTATAAAATTTTATAATTTTTTAATAT
Found at i:4700423 original size:46 final size:46
Alignment explanation
Indices: 4700356--4700449 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
4700346 ACTAGATTAG
4700356 TTTATTTTTTTTGAGATTAATTAATTTAATAATAATTTTCACTAAC
1 TTTATTTTTTTTGAGATTAATTAATTTAATAATAATTTTCACTAAC
4700402 TTTATTTTTTTTGAGATTAATTAATTTAATAATAATTTTCACTAAC
1 TTTATTTTTTTTGAGATTAATTAATTTAATAATAATTTTCACTAAC
4700448 TT
1 TT
4700450 AGCGATCCCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (46 bp):
TTTATTTTTTTTGAGATTAATTAATTTAATAATAATTTTCACTAAC
Found at i:4702421 original size:14 final size:14
Alignment explanation
Indices: 4702375--4702414 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
4702365 CTGGGTTTAG
*
4702375 AAAATTATTTAATT
1 AAAATTAATTAATT
4702389 AAGAAATTAATTAATT
1 -A-AAATTAATTAATT
4702405 AAAATTAATT
1 AAAATTAATT
4702415 TAATAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 2 0.09
16 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
AAAATTAATTAATT
Found at i:4704380 original size:14 final size:14
Alignment explanation
Indices: 4704363--4704396 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4704353 ATGCCATAAC
*
4704363 GTCTTCTAGCTATT
1 GTCTTATAGCTATT
4704377 GTCTTATAGCTATT
1 GTCTTATAGCTATT
4704391 GTCTTA
1 GTCTTA
4704397 CACCATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (14 bp):
GTCTTATAGCTATT
Found at i:4707113 original size:9 final size:9
Alignment explanation
Indices: 4707099--4707123 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4707089 CTTTATAAGG
4707099 AACTAGACA
1 AACTAGACA
4707108 AACTAGACA
1 AACTAGACA
4707117 AACTAGA
1 AACTAGA
4707124 GGTCATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.20, G:0.12, T:0.12
Consensus pattern (9 bp):
AACTAGACA
Found at i:4710262 original size:20 final size:20
Alignment explanation
Indices: 4710229--4710267 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4710219 AGCACATGTA
*
4710229 TTCATAAAAATTCAGAATTG
1 TTCATAAAAATTCACAATTG
* *
4710249 TTCATCAAATTTCACAATT
1 TTCATAAAAATTCACAATT
4710268 TTACATTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
TTCATAAAAATTCACAATTG
Found at i:4714076 original size:14 final size:13
Alignment explanation
Indices: 4714045--4714089 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 13
4714035 TGAAAATTAT
*
4714045 TTAATTGAG-AAA
1 TTAATTTAGTAAA
4714057 TTAATTTAGTAAA
1 TTAATTTAGTAAA
*
4714070 TTTAATTTATTAAA
1 -TTAATTTAGTAAA
4714084 TTAATT
1 TTAATT
4714090 GATTAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 8 0.28
13 9 0.31
14 12 0.41
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (13 bp):
TTAATTTAGTAAA
Found at i:4714087 original size:13 final size:13
Alignment explanation
Indices: 4714054--4714107 Score: 63
Period size: 14 Copynumber: 4.0 Consensus size: 13
4714044 TTTAATTGAG
*
4714054 AAATTAATTTAGT
1 AAATTAATTTATT
4714067 AAATTTAATTTATT
1 AAA-TTAATTTATT
*
4714081 AAATTAATTGATT
1 AAATTAATTTATT
*
4714094 AAATAATATTTATT
1 AAATTA-ATTTATT
4714108 TTGGGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
13 17 0.49
14 18 0.51
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (13 bp):
AAATTAATTTATT
Found at i:4716330 original size:23 final size:23
Alignment explanation
Indices: 4716304--4716349 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4716294 TAATTTCACT
4716304 TAGTTTTTTCTGTAACACCCTAC
1 TAGTTTTTTCTGTAACACCCTAC
4716327 TAGTTTTTTCTGTAACACCCTAC
1 TAGTTTTTTCTGTAACACCCTAC
4716350 ACCCATCCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.09, T:0.43
Consensus pattern (23 bp):
TAGTTTTTTCTGTAACACCCTAC
Found at i:4717564 original size:40 final size:40
Alignment explanation
Indices: 4717520--4717781 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
4717510 GCTCCTCGTT
* *
4717520 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
4717560 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
4717600 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
4717639 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
4717678 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
4717717 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
4717758 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4717782 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:4721545 original size:21 final size:21
Alignment explanation
Indices: 4721521--4721560 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4721511 TTTACCTAGT
*
4721521 ATATGAATTGAATTAAATTGA
1 ATATGAAATGAATTAAATTGA
*
4721542 ATATGAAATGGATTAAATT
1 ATATGAAATGAATTAAATT
4721561 AACGTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (21 bp):
ATATGAAATGAATTAAATTGA
Found at i:4721811 original size:25 final size:24
Alignment explanation
Indices: 4721768--4721819 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
4721758 ACAAGCATAT
*
4721768 CTCTTTATGAGAATTCTGATATAGG
1 CTCTTTATGAGAATTCTGACAT-GG
*
4721793 CTCTTTATGAG-CTTCCTGACATGG
1 CTCTTTATGAGAATT-CTGACATGG
4721817 CTC
1 CTC
4721820 GCTTGGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (24 bp):
CTCTTTATGAGAATTCTGACATGG
Found at i:4732259 original size:51 final size:47
Alignment explanation
Indices: 4732204--4732342 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 47
4732194 AACATGTATA
4732204 CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGTTACATGAATCG
1 CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATG-TACAT---TCG
* * *
4732255 CATCCATCATGAACTTAGACCACTCAACGAGCTCGGATG--C--TCG
1 CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGTACATTCG
* * *
4732298 CATCCATAATAAACTCGGACCTCTCAACGAGCTCAGATGCTACAT
1 CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATG-TACAT
4732343 ACCTCATGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
43 36 0.49
46 1 0.01
48 1 0.01
51 36 0.49
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (47 bp):
CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGTACATTCG
Found at i:4732324 original size:43 final size:43
Alignment explanation
Indices: 4732252--4732370 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
4732242 GTTACATGAA
* * * *
4732252 TCGCATCCATCATGAACTTAGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATAAACTCAGACCACTCAACGAGCTCAGATGC
* *
4732295 TCGCATCCATAATAAACTCGGACCTCTCAACGAGCTCAGATGC
1 TCGCATCCATAATAAACTCAGACCACTCAACGAGCTCAGATGC
* * * *
4732338 T-ACATACC-TCATGAACCCAGACCACTCAACGAG
1 TCGCAT-CCATAATAAACTCAGACCACTCAACGAG
4732371 TTTGGACTTC
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 23 0.37
43 40 0.63
ACGTcount: A:0.31, C:0.34, G:0.16, T:0.19
Consensus pattern (43 bp):
TCGCATCCATAATAAACTCAGACCACTCAACGAGCTCAGATGC
Found at i:4740241 original size:43 final size:43
Alignment explanation
Indices: 4740171--4740255 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
4740161 TACATGAATT
* *
4740171 GCATTCATCATGAACTCGAACCACTCAACGAGCTCGGATGCTC
1 GCATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGCTC
* *
4740214 GCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGCT
1 GCATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGCT
4740256 ACATACCTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (43 bp):
GCATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGCTC
Found at i:4742305 original size:39 final size:38
Alignment explanation
Indices: 4742246--4742324 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 38
4742236 CCCCACTCGT
** *
4742246 TTCAGAATTTGGTACGGCCTAATAAACAGAGGGCTCAAC
1 TTCAGAATCCGGTACAGCCTAAT-AACAGAGGGCTCAAC
*
4742285 TTCAGAATCCGGTACAGCCTAATAACCGAGGGCTCAAC
1 TTCAGAATCCGGTACAGCCTAATAACAGAGGGCTCAAC
4742323 TT
1 TT
4742325 GCCCTTGCGC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 16 0.44
39 20 0.56
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (38 bp):
TTCAGAATCCGGTACAGCCTAATAACAGAGGGCTCAAC
Found at i:4750589 original size:26 final size:26
Alignment explanation
Indices: 4750558--4750611 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
4750548 ATGAAAGGAG
* * *
4750558 ATAGAATTTCAGGTCGGAGACAAGGT
1 ATAGAATTTCAAGTCAGACACAAGGT
4750584 ATAGAATTTCAAGTCAGACACAAGGT
1 ATAGAATTTCAAGTCAGACACAAGGT
4750610 AT
1 AT
4750612 TTTTGAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (26 bp):
ATAGAATTTCAAGTCAGACACAAGGT
Found at i:4751939 original size:21 final size:21
Alignment explanation
Indices: 4751915--4751954 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4751905 TCCTAGGATG
*
4751915 TGAATTGAATTAAATTGAATA
1 TGAAATGAATTAAATTGAATA
*
4751936 TGAAATGGATTAAATTGAA
1 TGAAATGAATTAAATTGAA
4751955 GTTAAATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.35
Consensus pattern (21 bp):
TGAAATGAATTAAATTGAATA
Found at i:4752141 original size:30 final size:30
Alignment explanation
Indices: 4752106--4752173 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
4752096 TAAATTGAAT
4752106 AATATGTATGTGAATTATATCTTTTTCATG
1 AATATGTATGTGAATTATATCTTTTTCATG
4752136 AATATGTATGTGAATTATATCTTTTTCATG
1 AATATGTATGTGAATTATATCTTTTTCATG
4752166 AATATGTA
1 AATATGTA
4752174 ATAAATCTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (30 bp):
AATATGTATGTGAATTATATCTTTTTCATG
Found at i:4752188 original size:31 final size:30
Alignment explanation
Indices: 4752106--4752188 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 30
4752096 TAAATTGAAT
* *
4752106 AATATGTATGTGAATTATATCTTTTTCATG
1 AATATGTATATAAATTATATCTTTTTCATG
* *
4752136 AATATGTATGTGAATTATATCTTTTTCATG
1 AATATGTATATAAATTATATCTTTTTCATG
4752166 AATATGTA-ATAAATCTTATATCT
1 AATATGTATATAAA--TTATATCT
4752189 GAAAAATCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
29 3 0.06
30 38 0.78
31 8 0.16
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (30 bp):
AATATGTATATAAATTATATCTTTTTCATG
Found at i:4758310 original size:44 final size:43
Alignment explanation
Indices: 4758211--4758501 Score: 291
Period size: 44 Copynumber: 6.7 Consensus size: 43
4758201 AACATATACA
* *
4758211 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACAAACATTG
* * * * * *
4758254 ATGTCGACGTCCCAAACATGGTGTTACACGTAAAACAGA-ATTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AAACAAACATT-G
* *
4758298 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACAAACATTG
* * * * * *
4758341 ATGTCGACGTCCCAAACATGGTGTTACACGTAAAACAGA-ATTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AAACAAACATT-G
* *
4758385 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACAAACATTG
* * * * * *
4758428 ATGTCGACGTCCCAAACATGGTGTTACACGTAAAACAGA-ATTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AAACAAACATT-G
4758472 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
4758502 AAATCACATA
Statistics
Matches: 195, Mismatches: 45, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
43 96 0.49
44 99 0.51
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACAAACATTG
Found at i:4758507 original size:87 final size:87
Alignment explanation
Indices: 4758211--4758499 Score: 578
Period size: 87 Copynumber: 3.3 Consensus size: 87
4758201 AACATATACA
4758211 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTGATGTCGACGTCCCAAACATGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTGATGTCGACGTCCCAAACATGGT
4758276 GTTACACGTAAAACAGAATTCG
66 GTTACACGTAAAACAGAATTCG
4758298 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTGATGTCGACGTCCCAAACATGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTGATGTCGACGTCCCAAACATGGT
4758363 GTTACACGTAAAACAGAATTCG
66 GTTACACGTAAAACAGAATTCG
4758385 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTGATGTCGACGTCCCAAACATGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTGATGTCGACGTCCCAAACATGGT
4758450 GTTACACGTAAAACAGAATTCG
66 GTTACACGTAAAACAGAATTCG
4758472 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
4758500 CGAAATCACA
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 202 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (87 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTGATGTCGACGTCCCAAACATGGT
GTTACACGTAAAACAGAATTCG
Found at i:4765628 original size:318 final size:318
Alignment explanation
Indices: 4765051--4765687 Score: 1274
Period size: 318 Copynumber: 2.0 Consensus size: 318
4765041 TGTGGTCAAA
4765051 AATAGACCATTTGAATAGCCAACTTGCCACCCCAATTTGGGTCAACCTACAAACACCAAACCAAA
1 AATAGACCATTTGAATAGCCAACTTGCCACCCCAATTTGGGTCAACCTACAAACACCAAACCAAA
4765116 CATATTTGCACAATAATTTTAACCAATTTCTAAACCAAACCATACCACATTCATGCCATAACATT
66 CATATTTGCACAATAATTTTAACCAATTTCTAAACCAAACCATACCACATTCATGCCATAACATT
4765181 ATCAACCATTTACATGCTTATAAACTCAAATCAATTGTGCCAAAATATAAGATCAAATCTCATAC
131 ATCAACCATTTACATGCTTATAAACTCAAATCAATTGTGCCAAAATATAAGATCAAATCTCATAC
4765246 CAAAACTTGCAAAACTTACCATTTCTCATAGCCATTCATGAACACATCAAATAGATCATTTTGCA
196 CAAAACTTGCAAAACTTACCATTTCTCATAGCCATTCATGAACACATCAAATAGATCATTTTGCA
4765311 TCACATTTCATATACCAAAATAAAAACATAAACACGACCATATCAAGCCATATCACAT
261 TCACATTTCATATACCAAAATAAAAACATAAACACGACCATATCAAGCCATATCACAT
4765369 AATAGACCATTTGAATAGCCAACTTGCCACCCCAATTTGGGTCAACCTACAAACACCAAACCAAA
1 AATAGACCATTTGAATAGCCAACTTGCCACCCCAATTTGGGTCAACCTACAAACACCAAACCAAA
4765434 CATATTTGCACAATAATTTTAACCAATTTCTAAACCAAACCATACCACATTCATGCCATAACATT
66 CATATTTGCACAATAATTTTAACCAATTTCTAAACCAAACCATACCACATTCATGCCATAACATT
4765499 ATCAACCATTTACATGCTTATAAACTCAAATCAATTGTGCCAAAATATAAGATCAAATCTCATAC
131 ATCAACCATTTACATGCTTATAAACTCAAATCAATTGTGCCAAAATATAAGATCAAATCTCATAC
4765564 CAAAACTTGCAAAACTTACCATTTCTCATAGCCATTCATGAACACATCAAATAGATCATTTTGCA
196 CAAAACTTGCAAAACTTACCATTTCTCATAGCCATTCATGAACACATCAAATAGATCATTTTGCA
4765629 TCACATTTCATATACCAAAATAAAAACATAAACACGACCATATCAAGCCATATCACAT
261 TCACATTTCATATACCAAAATAAAAACATAAACACGACCATATCAAGCCATATCACAT
4765687 A
1 A
4765688 TCTAAATATA
Statistics
Matches: 319, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
318 319 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (318 bp):
AATAGACCATTTGAATAGCCAACTTGCCACCCCAATTTGGGTCAACCTACAAACACCAAACCAAA
CATATTTGCACAATAATTTTAACCAATTTCTAAACCAAACCATACCACATTCATGCCATAACATT
ATCAACCATTTACATGCTTATAAACTCAAATCAATTGTGCCAAAATATAAGATCAAATCTCATAC
CAAAACTTGCAAAACTTACCATTTCTCATAGCCATTCATGAACACATCAAATAGATCATTTTGCA
TCACATTTCATATACCAAAATAAAAACATAAACACGACCATATCAAGCCATATCACAT
Found at i:4765886 original size:23 final size:23
Alignment explanation
Indices: 4765860--4765904 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
4765850 CACAAAGTAA
4765860 GTTTCAAAAGCTTAGTAAGCCAG
1 GTTTCAAAAGCTTAGTAAGCCAG
4765883 GTTTCAAAAGCTTAGTAAGCCA
1 GTTTCAAAAGCTTAGTAAGCCA
4765905 TAAACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (23 bp):
GTTTCAAAAGCTTAGTAAGCCAG
Found at i:4772418 original size:40 final size:40
Alignment explanation
Indices: 4772374--4772635 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
4772364 GCTCCTCGTT
* *
4772374 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
4772414 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
4772454 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
4772493 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
4772532 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
4772571 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
4772612 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
4772636 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:4780482 original size:39 final size:40
Alignment explanation
Indices: 4780279--4780542 Score: 306
Period size: 40 Copynumber: 6.7 Consensus size: 40
4780269 GCTCCTCGTT
* * * *
4780279 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
4780319 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
4780359 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
4780399 CAAAGGCCTTCGGGACTTAACCCGGATTTGGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
4780439 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
4780478 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
4780519 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
4780543 CAGAATTCAA
Statistics
Matches: 199, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 48 0.24
40 140 0.70
41 9 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:4782000 original size:42 final size:42
Alignment explanation
Indices: 4781944--4782027 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
4781934 TACTTTCACG
4781944 GCAATGAGGAGGGGAAGAAACAATTACACACATCCTTTCCTT
1 GCAATGAGGAGGGGAAGAAACAATTACACACATCCTTTCCTT
* *
4781986 GCAATGGGGTGGGGAAGAAACAATTACACACATCCTTTCCTT
1 GCAATGAGGAGGGGAAGAAACAATTACACACATCCTTTCCTT
4782028 TTTCCATTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (42 bp):
GCAATGAGGAGGGGAAGAAACAATTACACACATCCTTTCCTT
Found at i:4782791 original size:46 final size:46
Alignment explanation
Indices: 4782741--4782916 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
4782731 TGGTTGAGCA
* *
4782741 TCCGAACTCGTTGATTTGAGTCCGATTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
4782787 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
4782832 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
4782880 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4782917 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:4782897 original size:93 final size:93
Alignment explanation
Indices: 4782738--4782908 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
4782728 GGATGGTTGA
* * * * *
4782738 GCATCCGAACTCGTTGATTTGAGTCCGATTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4782803 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
4782831 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
4782896 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
4782909 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:4789550 original size:241 final size:241
Alignment explanation
Indices: 4789127--4789609 Score: 948
Period size: 241 Copynumber: 2.0 Consensus size: 241
4789117 CGAAAAAGGC
4789127 ACATAGCAAAATCAACAAGTACATTTCACATAGCATATCATATTCGTAATTCACTCTTTTCTCAA
1 ACATAGCAAAATCAACAAGTACATTTCACATAGCATATCATATTCGTAATTCACTCTTTTCTCAA
4789192 TTTTGACACATCATAAGCATGTTCCAATCCTCTCAATACCATCTGCTACAGCTCGATCAGGATCA
66 TTTTGACACATCATAAGCATGTTCCAATCCTCTCAATACCATCTGCTACAGCTCGATCAGGATCA
*
4789257 AAATTTATTATTATACGAAAAACACATTTTAACTGTCAGAAATCATCACACTATCATTTTATCAC
131 AAATTTATTATTATACGAAAAACACATTTTAACTATCAGAAATCATCACACTATCATTTTATCAC
4789322 TTTATGGCATGTATAGCTAGACTCATACGTGCTACGTTAGTCCTAG
196 TTTATGGCATGTATAGCTAGACTCATACGTGCTACGTTAGTCCTAG
4789368 ACATAGCAAAATCAACAAGTACATTTCACATAGCATATCATATTCGTAATTCACTCTTTTCTCAA
1 ACATAGCAAAATCAACAAGTACATTTCACATAGCATATCATATTCGTAATTCACTCTTTTCTCAA
4789433 TTTTGACACATCATAAGCATGTTCCAATCCTCTCAATACCATCTGCTACAGCTCGATCAGGATCA
66 TTTTGACACATCATAAGCATGTTCCAATCCTCTCAATACCATCTGCTACAGCTCGATCAGGATCA
4789498 AAATTTATTATTATACGAAAAACACATTTTAACTATCAGAAATCATCACACTATCATTTTATCAC
131 AAATTTATTATTATACGAAAAACACATTTTAACTATCAGAAATCATCACACTATCATTTTATCAC
*
4789563 TTTATGGCATGTATAGCTAGACTCATATGTGCTACGTTAGTCCTAG
196 TTTATGGCATGTATAGCTAGACTCATACGTGCTACGTTAGTCCTAG
4789609 A
1 A
4789610 ATCGACTAAA
Statistics
Matches: 240, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 240 1.00
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (241 bp):
ACATAGCAAAATCAACAAGTACATTTCACATAGCATATCATATTCGTAATTCACTCTTTTCTCAA
TTTTGACACATCATAAGCATGTTCCAATCCTCTCAATACCATCTGCTACAGCTCGATCAGGATCA
AAATTTATTATTATACGAAAAACACATTTTAACTATCAGAAATCATCACACTATCATTTTATCAC
TTTATGGCATGTATAGCTAGACTCATACGTGCTACGTTAGTCCTAG
Found at i:4790258 original size:44 final size:44
Alignment explanation
Indices: 4790209--4790298 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
4790199 ATACCCACAT
4790209 ATTCATATAGCATTTTCATATTTGCTTTCCAATTTACAATCATG
1 ATTCATATAGCATTTTCATATTTGCTTTCCAATTTACAATCATG
* *
4790253 ATTCATATGGCATTTTCATATTTGCTTTCCACTTTACAATCATG
1 ATTCATATAGCATTTTCATATTTGCTTTCCAATTTACAATCATG
4790297 AT
1 AT
4790299 GTAATTCTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.46
Consensus pattern (44 bp):
ATTCATATAGCATTTTCATATTTGCTTTCCAATTTACAATCATG
Found at i:4791048 original size:48 final size:48
Alignment explanation
Indices: 4790907--4791054 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
4790897 ATCTATACAC
* * * **
4790907 ATCTCATACATATTTCACATTAGCCATTTGGGTTTACTACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
**
4790955 GGCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
4791003 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
4791051 ATCT
1 ATCT
4791055 TGTACGTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:4791331 original size:23 final size:23
Alignment explanation
Indices: 4791299--4791342 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4791289 AAAATTTCAC
* *
4791299 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
4791322 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
4791343 TATTTTTGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:4809086 original size:16 final size:16
Alignment explanation
Indices: 4809065--4809106 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
4809055 GGACAGACTC
4809065 CTCATGTAGAGGCTTA
1 CTCATGTAGAGGCTTA
4809081 CTCATGTAGA-GCTTA
1 CTCATGTAGAGGCTTA
* *
4809096 TTCATGCAGAG
1 CTCATGTAGAG
4809107 ACTCCATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (16 bp):
CTCATGTAGAGGCTTA
Found at i:4816471 original size:40 final size:41
Alignment explanation
Indices: 4816416--4816538 Score: 108
Period size: 45 Copynumber: 2.9 Consensus size: 41
4816406 TAAGCCAATT
*
4816416 ATGAGTAAGGCCATAGCAGAAAGATGTTATGACATCAT-AA
1 ATGAGTAAGACCATAGCAGAAAGATGTTATGACATCATAAA
* *
4816456 ATGAGTAAGACCATAGCTA-AAATACT-TCATGACATCATGATAGAA
1 ATGAGTAAGACCATAGC-AGAAAGA-TGTTATGACATC---ATA-AA
* * * *
4816501 ATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCAT
1 ATGAGTAAGACCATAGCAGAAAGATGTTATGACATCAT
4816539 GTGAAAGCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
40 29 0.45
41 2 0.03
42 2 0.03
43 2 0.03
45 30 0.46
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.23
Consensus pattern (41 bp):
ATGAGTAAGACCATAGCAGAAAGATGTTATGACATCATAAA
Found at i:4816537 original size:45 final size:45
Alignment explanation
Indices: 4816454--4816539 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
4816444 ATGACATCAT
* *
4816454 AAATGAGTAAGACCATAGCTAAAATACTTCATGACATCATGATAG
1 AAATGAGTAAGACCATAGCTAAAAGACCTCATGACATCATGATAG
* *
4816499 AAATGAGTAAGACCATAGCTGAAAGACGCT-ATGGCATCATG
1 AAATGAGTAAGACCATAGCTAAAAGAC-CTCATGACATCATG
4816540 TGAAAGCACG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
45 35 0.97
46 1 0.03
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTAAAAGACCTCATGACATCATGATAG
Found at i:4816665 original size:27 final size:27
Alignment explanation
Indices: 4816617--4816681 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
4816607 AAGCCCATCG
* *
4816617 AGACACTAAACACAGGACAGTCCACCA
1 AGACACTAAACACAGAAAAGTCCACCA
*
4816644 AGACACTAAACAC-GAAAAAGTCCACCG
1 AGACACTAAACACAG-AAAAGTCCACCA
*
4816671 GGACACTAAAC
1 AGACACTAAAC
4816682 GCAGGGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (27 bp):
AGACACTAAACACAGAAAAGTCCACCA
Found at i:4816766 original size:27 final size:25
Alignment explanation
Indices: 4816736--4816795 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
4816726 GACACTCTAT
*
4816736 ATGGGGAACTCTGCTGGGACACTAAAC
1 ATGGGGAA-TCAGCTGGGACACT-AAC
**
4816763 ATGGGGTAATCAGCTGGGACTGTAAC
1 ATGGGG-AATCAGCTGGGACACTAAC
4816789 ATGGGGA
1 ATGGGGA
4816796 GTTTGCCAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 1 0.03
26 9 0.31
27 17 0.59
28 2 0.07
ACGTcount: A:0.28, C:0.17, G:0.35, T:0.20
Consensus pattern (25 bp):
ATGGGGAATCAGCTGGGACACTAAC
Found at i:4823045 original size:58 final size:58
Alignment explanation
Indices: 4822977--4823089 Score: 217
Period size: 58 Copynumber: 1.9 Consensus size: 58
4822967 CAAGTCCGAC
4822977 ATTATTCCTCTAACTAACTCTGTCTTCGCTAATCTCATACTATTCCATTATTGTAGAG
1 ATTATTCCTCTAACTAACTCTGTCTTCGCTAATCTCATACTATTCCATTATTGTAGAG
*
4823035 ATTATTCCTCTAACTAATTCTGTCTTCGCTAATCTCATACTATTCCATTATTGTA
1 ATTATTCCTCTAACTAACTCTGTCTTCGCTAATCTCATACTATTCCATTATTGTA
4823090 CTCTTCAGTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (58 bp):
ATTATTCCTCTAACTAACTCTGTCTTCGCTAATCTCATACTATTCCATTATTGTAGAG
Found at i:4823620 original size:46 final size:45
Alignment explanation
Indices: 4823534--4823939 Score: 212
Period size: 46 Copynumber: 8.9 Consensus size: 45
4823524 TCGTCTATCT
* * *
4823534 GTGCCGATGCCGTGTCCCAGACAGGTCTTACACTGACACATGTAACC
1 GTGCCGATG-CATGTCCCAGACATGTCTTACACTGGCACAT-TAACC
*
4823581 GTGCCGATGCATGTCCCAGACATGTCTTACACTAGCACA-T--CTC
1 GTGCCGATGCATGTCCCAGACATGTCTTACACTGGCACATTAAC-C
* * * *
4823624 GTACCCGACGCATGCCCCAGACATGTCTGACACTGGCTA-A--AATCTC
1 GT-GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACATTAA-C-C
* * * * *
4823670 GAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTC-TCATACT
1 G-TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACATTA-ACC
* * *
4823716 GTGGCTGATGCATGTCCTAGACATGTCTTACACTAGCACA-T--CTC
1 GT-GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATTAAC-C
* * * *
4823760 GTACCGGACGCATGCCCCAGACATGTCTGACACTGGCTA-A--AATCTC
1 GTGCC-GATGCATGTCCCAGACATGTCTTACACTGGC-ACATTAA-C-C
* * * * *
4823806 GAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTC-TCATACT
1 G-TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACATTA-ACC
* * * * ** *
4823852 GTGGCTGATGCATGTCCTAGACATGTCTTACACTAGC-CCTCGTCTCA
1 GT-GCCGATGCATGTCCCAGACATGTCTTACACTGGCACAT--TAACC
*
4823899 ATGCCGATGCAATGTCCCAGACATGGTCTTACACTGGCACA
1 GTGCCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCACA
4823940 CAAATCTCAT
Statistics
Matches: 274, Mismatches: 54, Indels: 60
0.71 0.14 0.15
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 60 0.22
45 3 0.01
46 161 0.59
47 29 0.11
48 14 0.05
49 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (45 bp):
GTGCCGATGCATGTCCCAGACATGTCTTACACTGGCACATTAACC
Found at i:4823759 original size:90 final size:90
Alignment explanation
Indices: 4823536--4823939 Score: 320
Period size: 90 Copynumber: 4.4 Consensus size: 90
4823526 GTCTATCTGT
* * * * *
4823536 GCCGATGCCGTGTCCCAGACAGGTCTTACACTGACACATGTAACCG-TGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCACATCT---CGAGGCCGATGCATGTCCCAG
* *
4823600 ACATGTCTTACACTAG--CACATCTCGTA
62 ACATGTCTTACACTGGCTCACATCTCGTG
* * * * * *
4823627 CCCGACGCATGCCCCAGACATGTCTGACACTGGCTAAAATCTCGAGGCCGATGCATGTCCCAAAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC--ACATCTCGAGGCCGATGCATGTCCCAGAC
*
4823692 ATGTCTTACACTGGCTCTCATACT-GTG
64 ATGTCTTACACTGGCTCACAT-CTCGTG
* * * * *
4823719 GCTGATGCATGTCCTAGACATGTCTTACACTAGCACATCTCGTA--CCGGACGCATGCCCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCG-AGGCC-GATGCATGTCCCAGAC
* * * *
4823782 ATGTCTGACACTGGCTAAAATCTCGAG
64 ATGTCTTACACTGGCTCACATCTCGTG
* * * * *
4823809 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTC-TCATACTGTGGCTGATGCATGTCCTAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATC-T-C-GAGGCCGATGCATGTCCCAGA
* * * * *
4823873 CATGTCTTACACTAGCCCTCGTCTCAAT-
63 CATGTCTTACACTGGCTCACATCTC-GTG
4823901 GCCGATGCAATGTCCCAGACATGGTCTTACACTGGCACA
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCACA
4823940 CAAATCTCAT
Statistics
Matches: 244, Mismatches: 51, Indels: 32
0.75 0.16 0.10
Matches are distributed among these distances:
89 8 0.03
90 124 0.51
91 7 0.03
92 76 0.31
93 15 0.06
94 14 0.06
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (90 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTGGCTCACATCTCGTG
Found at i:4823790 original size:136 final size:136
Alignment explanation
Indices: 4823586--4823888 Score: 588
Period size: 136 Copynumber: 2.2 Consensus size: 136
4823576 TAACCGTGCC
*
4823586 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTACCCGACGCATGCCCCAGACATGTC
1 GATGCATGTCCTAGACATGTCTTACACTAGCACATCTCGTACCCGACGCATGCCCCAGACATGTC
4823651 TGACACTGGCTAAAATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATACT
66 TGACACTGGCTAAAATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATACT
4823716 GTGGCT
131 GTGGCT
*
4823722 GATGCATGTCCTAGACATGTCTTACACTAGCACATCTCGTACCGGACGCATGCCCCAGACATGTC
1 GATGCATGTCCTAGACATGTCTTACACTAGCACATCTCGTACCCGACGCATGCCCCAGACATGTC
4823787 TGACACTGGCTAAAATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATACT
66 TGACACTGGCTAAAATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATACT
4823852 GTGGCT
131 GTGGCT
4823858 GATGCATGTCCTAGACATGTCTTACACTAGC
1 GATGCATGTCCTAGACATGTCTTACACTAGC
4823889 CCTCGTCTCA
Statistics
Matches: 165, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 165 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (136 bp):
GATGCATGTCCTAGACATGTCTTACACTAGCACATCTCGTACCCGACGCATGCCCCAGACATGTC
TGACACTGGCTAAAATCTCGAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATACT
GTGGCT
Found at i:4829854 original size:46 final size:45
Alignment explanation
Indices: 4829713--4830068 Score: 274
Period size: 46 Copynumber: 7.8 Consensus size: 45
4829703 TAACCGTGCT
* **
4829713 GATGCATGTCCCAGACATGTCTTACACTAG--CACATCTTGTACCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCACATC-TGTGGCC
* * * * * *
4829757 GACGCATGTCCCAGACATGTCTGACACCGGCTAAAATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCACATCT-GTGGCC
* * * *
4829803 AATGCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCACAT-CTGTGGCC
* * **
4829849 GATGCATGTCCTAGACATGTCTTACACTAG--CACATCTTGTACCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCACATC-TGTGGCC
* * * * *
4829893 G-TCGCATGTCCCAGACATGTCTGACACCGGCTAAAATCTCGAGGCC
1 GAT-GCATGTCCCAGACATGTCTTACACTGGCTCACATCT-GTGGCC
* * * *
4829939 AATGCATGTCCCAAACATGTCTTACACTGGCTCTCATACTGTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCACAT-CTGTGGCC
* * * * * *
4829985 GATGCATGTCCTAGACATGTCTTACACTAGCCCTCGTCTCAAT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCACATCT--GTGGCC
*
4830031 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCACA
4830069 AATCTCATGT
Statistics
Matches: 239, Mismatches: 58, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
43 2 0.01
44 58 0.24
45 4 0.02
46 142 0.59
47 19 0.08
48 14 0.06
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCACATCTGTGGCC
Found at i:4829917 original size:136 final size:136
Alignment explanation
Indices: 4829710--4830015 Score: 594
Period size: 136 Copynumber: 2.2 Consensus size: 136
4829700 ATGTAACCGT
*
4829710 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACATCTTGTACCCGACGCATGTCCCAGACAT
1 GCTGATGCATGTCCTAGACATGTCTTACACTAGCACATCTTGTACCCGACGCATGTCCCAGACAT
4829775 GTCTGACACCGGCTAAAATCTCGAGGCCAATGCATGTCCCAAACATGTCTTACACTGGCTCTCAT
66 GTCTGACACCGGCTAAAATCTCGAGGCCAATGCATGTCCCAAACATGTCTTACACTGGCTCTCAT
4829840 ACTGTG
131 ACTGTG
*
4829846 GCTGATGCATGTCCTAGACATGTCTTACACTAGCACATCTTGTACCCGTCGCATGTCCCAGACAT
1 GCTGATGCATGTCCTAGACATGTCTTACACTAGCACATCTTGTACCCGACGCATGTCCCAGACAT
4829911 GTCTGACACCGGCTAAAATCTCGAGGCCAATGCATGTCCCAAACATGTCTTACACTGGCTCTCAT
66 GTCTGACACCGGCTAAAATCTCGAGGCCAATGCATGTCCCAAACATGTCTTACACTGGCTCTCAT
4829976 ACTGTG
131 ACTGTG
4829982 GCTGATGCATGTCCTAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCTAGACATGTCTTACACTAGC
4830016 CCTCGTCTCA
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 168 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (136 bp):
GCTGATGCATGTCCTAGACATGTCTTACACTAGCACATCTTGTACCCGACGCATGTCCCAGACAT
GTCTGACACCGGCTAAAATCTCGAGGCCAATGCATGTCCCAAACATGTCTTACACTGGCTCTCAT
ACTGTG
Found at i:4831271 original size:11 final size:11
Alignment explanation
Indices: 4831255--4831279 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4831245 GTATAATTAA
4831255 AATGAATTTAC
1 AATGAATTTAC
4831266 AATGAATTTAC
1 AATGAATTTAC
4831277 AAT
1 AAT
4831280 CCTATAGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (11 bp):
AATGAATTTAC
Found at i:4833518 original size:39 final size:39
Alignment explanation
Indices: 4833475--4833549 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
4833465 CAGGCTACGT
*
4833475 GCTGGAAATATGTCCGGG-CTAAAGTCCCGCAGGCTTCAA
1 GCTGGAAATAT-ACCGGGTCTAAAGTCCCGCAGGCTTCAA
* * * *
4833514 GCTGGTATTATACCGGGTTTAAATTCCCGCAGGCTT
1 GCTGGAAATATACCGGGTCTAAAGTCCCGCAGGCTT
4833550 GTGCTGGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 5 0.17
39 25 0.83
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
GCTGGAAATATACCGGGTCTAAAGTCCCGCAGGCTTCAA
Found at i:4841434 original size:39 final size:40
Alignment explanation
Indices: 4841256--4841490 Score: 248
Period size: 39 Copynumber: 6.0 Consensus size: 40
4841246 ATTTGATGTG
* *
4841256 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTTAAAGTCCCGCAGGCTATGTGCTGGAATTA
* *
4841296 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTTAAAGTCCCGCAGGCTATGTGCTGGAATTA
* * *
4841336 TACCCGGACTTAAGGT-CCGCAGGCTATGTGCTGGAATTA
1 TATCCGGGCTTAAAGTCCCGCAGGCTATGTGCTGGAATTA
* * * * *
4841375 TAACCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAATA
1 TATCCGGGCTTAAAGTCCCGCAGGCTATGTGCTGGAATTA
* * * *
4841414 TGTCCGGGC-AAAAGTCCCGCAGGCT-TCGAGCTGGTATTA
1 TATCCGGGCTTAAAGTCCCGCAGGCTAT-GTGCTGGAATTA
* *
4841453 TA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAATT
1 TATCCGGGCTTAAAGTCCCGCAGGCTATGTGCTGG-AATT
4841491 GGTTTCAAGT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
38 15 0.09
39 101 0.60
40 52 0.31
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTTAAAGTCCCGCAGGCTATGTGCTGGAATTA
Found at i:4852183 original size:43 final size:42
Alignment explanation
Indices: 4852136--4852234 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
4852126 TCCAAGACGT
* *
4852136 GGTCTTACATGTAATCAAATATCAATGCTACTATCCCAGAAAA
1 GGTCTTACATGTAATCAAATA-CAATGCCAATATCCCAGAAAA
* * * * * *
4852179 GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACAATGCCAATATCCCAGAAAA
4852221 GGTCTTACATGTAA
1 GGTCTTACATGTAA
4852235 ATCATAAGTC
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACAATGCCAATATCCCAGAAAA
Found at i:4852237 original size:43 final size:43
Alignment explanation
Indices: 4852117--4852273 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
4852107 AGCTCGTACA
* * * *
4852117 ATGCCAACGTCCAAGACGTGGTCTTACATGT-AATCAAATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATA-CG
* * * * * *
4852160 ATGCTACTATCCCAGAAAAGGTCTTACACG-AAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATACG
4852202 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCA-AA-TACG
* *
4852246 ATGCCAATGTCCTAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
4852274 CGAAAACACA
Statistics
Matches: 92, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 25 0.27
43 36 0.39
44 30 0.33
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATACG
Found at i:4853968 original size:42 final size:42
Alignment explanation
Indices: 4853844--4854003 Score: 187
Period size: 42 Copynumber: 3.8 Consensus size: 42
4853834 ACACAGTACT
* * * *
4853844 ATATCAATTCCATATCCCAGATATGGTCTTACATGAAATCTC
1 ATATCAATGCCAAATCCCAGATATGGTCTTACAAGAAGTCTC
* * * *
4853886 GTATCGATGCCAATAGCCCAGCTATGGTCTTACACA-AAGTCTC
1 ATATCAATGCCAA-ATCCCAGATATGGTCTTACA-AGAAGTCTC
*
4853929 ATATCAATGCCAAATCTCAGATATGGTCTTACAAGAAGTCTC
1 ATATCAATGCCAAATCCCAGATATGGTCTTACAAGAAGTCTC
* * *
4853971 GTATCGATGCCATATCCCAGATATGGTCTTACA
1 ATATCAATGCCAAATCCCAGATATGGTCTTACA
4854004 CGTAATCCTA
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 62 0.63
43 35 0.36
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATATCAATGCCAAATCCCAGATATGGTCTTACAAGAAGTCTC
Found at i:4853974 original size:85 final size:84
Alignment explanation
Indices: 4853831--4854004 Score: 251
Period size: 85 Copynumber: 2.1 Consensus size: 84
4853821 GAGATTCTGG
* * * *
4853831 TACACACAGTACTATATCAATTCCATATCCCAGATATGGTCTTACATGAAATCTCGTATCGATGC
1 TACACAAAGTACTATATCAATGCCAAATCCCAGATATGGTCTTACAAGAAATCTCGTATCGATGC
*
4853896 CAATAGCCCAGCTATGGTCT
66 C-ATAGCCCAGATATGGTCT
* *
4853916 TACACAAAGT-CTCATATCAATGCCAAATCTCAGATATGGTCTTACAAGAAGTCTCGTATCGATG
1 TACACAAAGTACT-ATATCAATGCCAAATCCCAGATATGGTCTTACAAGAAATCTCGTATCGATG
*
4853980 CCATATCCCAGATATGGTCT
65 CCATAGCCCAGATATGGTCT
4854000 TACAC
1 TACAC
4854005 GTAATCCTAG
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
84 23 0.29
85 57 0.71
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (84 bp):
TACACAAAGTACTATATCAATGCCAAATCCCAGATATGGTCTTACAAGAAATCTCGTATCGATGC
CATAGCCCAGATATGGTCT
Found at i:4858033 original size:40 final size:42
Alignment explanation
Indices: 4857900--4858049 Score: 207
Period size: 43 Copynumber: 3.6 Consensus size: 42
4857890 TGTACCAATT
* *
4857900 CCATATCCCAGATATGGTCTTACATGAAATCTCGTATCGATG
1 CCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCGATG
* * *
4857942 CCAATAGCCCA-ATTATGGTCTTACAGGAAGTCTCGTATTGATG
1 CC-ATATCCCAGA-TATGGTCTTACACGAAGTCTCGTATCGATG
*
4857985 CCATATCCCAGATATAGTCTTACACGAAGT-T-GTATCGATG
1 CCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCGATG
4858025 CCATATCCCAGATATGGTCTTACAC
1 CCATATCCCAGATATGGTCTTACAC
4858050 ATAATATTAG
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 32 0.33
41 1 0.01
42 26 0.27
43 37 0.39
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCGATG
Found at i:4867829 original size:50 final size:50
Alignment explanation
Indices: 4867711--4867894 Score: 262
Period size: 50 Copynumber: 3.7 Consensus size: 50
4867701 CTGGTACGCA
*
4867711 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAATTATCAGGTACACG
** * *
4867760 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAATTATCAGGTACACG
* * * *
4867810 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-TTATCAGGTACACG
*
4867861 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT
4867895 CATAATAGAT
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
49 33 0.28
50 46 0.39
51 39 0.33
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAATTATCAGGTACACG
Found at i:4867886 original size:101 final size:99
Alignment explanation
Indices: 4867711--4867894 Score: 305
Period size: 101 Copynumber: 1.8 Consensus size: 99
4867701 CTGGTACGCA
* *
4867711 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
*
4867776 GTACTACACATGTGACCTAACCATCTGATACACG
66 GTACTACACATGCGACCTAACCATCTGATACACG
* *
4867810 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
4867875 TAGTACTACACATGCGACCT
64 TAGTACTACACATGCGACCT
4867895 CATAATAGAT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 31 0.40
100 3 0.04
101 44 0.56
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCTAACCATCTGATACACG
Found at i:4876390 original size:31 final size:31
Alignment explanation
Indices: 4876355--4876418 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
4876345 ACGGTCATAC
4876355 CTTAGCTTAATTTCATTTTTACAATAATTCT
1 CTTAGCTTAATTTCATTTTTACAATAATTCT
4876386 CTTAGCTTAATTTCATTTTTACAATAATTCT
1 CTTAGCTTAATTTCATTTTTACAATAATTCT
4876417 CT
1 CT
4876419 AAGTTTTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.17, G:0.03, T:0.52
Consensus pattern (31 bp):
CTTAGCTTAATTTCATTTTTACAATAATTCT
Found at i:4881587 original size:25 final size:24
Alignment explanation
Indices: 4881553--4881601 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
4881543 TGCACTTTGG
4881553 TTTTGGCTAATACACA-TCGGAAGA
1 TTTTGGCTAATACA-ATTCGGAAGA
*
4881577 NTTTTGGCTAATGCAATTCGGAAGA
1 -TTTTGGCTAATACAATTCGGAAGA
4881602 GTATCTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.31
Consensus pattern (24 bp):
TTTTGGCTAATACAATTCGGAAGA
Found at i:4886456 original size:35 final size:35
Alignment explanation
Indices: 4886408--4886480 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
4886398 GTTAAATGGC
* *
4886408 GTGCTGGATGGTACTGGCTCTTACGAGCAACTGGT
1 GTGCTAGACGGTACTGGCTCTTACGAGCAACTGGT
* *
4886443 GTGCTAGACGGTACTGGCTCTTATGAGCATCTGGT
1 GTGCTAGACGGTACTGGCTCTTACGAGCAACTGGT
4886478 GTG
1 GTG
4886481 TTGATTGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.30
Consensus pattern (35 bp):
GTGCTAGACGGTACTGGCTCTTACGAGCAACTGGT
Found at i:4900176 original size:27 final size:27
Alignment explanation
Indices: 4900120--4900172 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
4900110 AATTTAAACC
* *
4900120 CTAGGGGTATTTCGGTAATTATACTCA
1 CTAGGGGTATTTCGGTAACTATACGCA
4900147 CTAGGGGTAATTTC-GTAACT-TACGCA
1 CTAGGGGT-ATTTCGGTAACTATACGCA
4900173 ACTACACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.22
27 13 0.57
28 5 0.22
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (27 bp):
CTAGGGGTATTTCGGTAACTATACGCA
Found at i:4900301 original size:20 final size:20
Alignment explanation
Indices: 4900276--4900321 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
4900266 TGTTCCGTAA
4900276 GCCCATTGGGCTCAGTTTTG
1 GCCCATTGGGCTCAGTTTTG
4900296 GCCCATTGGGCTCAGTTTTG
1 GCCCATTGGGCTCAGTTTTG
4900316 GCCCAT
1 GCCCAT
4900322 CTGGCCCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.28, G:0.28, T:0.33
Consensus pattern (20 bp):
GCCCATTGGGCTCAGTTTTG
Found at i:4904687 original size:28 final size:29
Alignment explanation
Indices: 4904635--4904689 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
4904625 ACAGCGGTTT
*
4904635 TCACACGGCCAAGCACACGCCCGTGTCCC
1 TCACACGGCCAAGCACACCCCCGTGTCCC
*
4904664 TCACACGGCCTAG-ACACCCCCGTGTC
1 TCACACGGCCAAGCACACCCCCGTGTC
4904690 GTCGTCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.20, C:0.47, G:0.20, T:0.13
Consensus pattern (29 bp):
TCACACGGCCAAGCACACCCCCGTGTCCC
Found at i:4920975 original size:22 final size:22
Alignment explanation
Indices: 4920950--4920994 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4920940 GGAAGTGGGA
4920950 AAGAGGAACTATAGACTTTGTG
1 AAGAGGAACTATAGACTTTGTG
* *
4920972 AAGAGTAACTATGGACTTTGTG
1 AAGAGGAACTATAGACTTTGTG
4920994 A
1 A
4920995 GTGGGCTACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.29
Consensus pattern (22 bp):
AAGAGGAACTATAGACTTTGTG
Found at i:4925580 original size:27 final size:27
Alignment explanation
Indices: 4925550--4925727 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4925540 ATATTGAGTC
* * * *
4925550 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
4925577 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4925604 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
4925632 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
4925659 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
4925686 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
4925713 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
4925728 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:4925689 original size:82 final size:81
Alignment explanation
Indices: 4925571--4925726 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4925561 TGCTATATAA
* *
4925571 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
4925636 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
4925653 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
4925717 CACTTAGTGC
65 CACTTAGTGC
4925727 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:4929383 original size:21 final size:20
Alignment explanation
Indices: 4929342--4929385 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4929332 TAGGGATTTG
* **
4929342 GTATCGATACCTTATTTCAA
1 GTATCAATACCTTATAACAA
4929362 GTATCAATACTCTTATAACAA
1 GTATCAATAC-CTTATAACAA
4929383 GTA
1 GTA
4929386 CTGATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (20 bp):
GTATCAATACCTTATAACAA
Found at i:4932106 original size:33 final size:33
Alignment explanation
Indices: 4932082--4932235 Score: 96
Period size: 33 Copynumber: 4.6 Consensus size: 33
4932072 ATGTACATAC
*
4932082 TGCCATAACCCAGGTATGGTCTTATCATCAGAA
1 TGCCATAACCCAGCTATGGTCTTATCATCAGAA
* * *
4932115 TGCCATAGCCCAGCTATGGTCTTA-CATATAAACA
1 TGCCATAACCCAGCTATGGTCTTATCAT-CAGA-A
*** * * * * *
4932149 CTGCCATGGTCCAACCATGGTCTTA-CGACCATAG
1 -TGCCATAACCCAGCTATGGTCTTATC-ATCAGAA
* **
4932183 TGTCATAACCCAATTATGGTCTTATCATCAGAA
1 TGCCATAACCCAGCTATGGTCTTATCATCAGAA
* * *
4932216 TGTCATAGCCTAGCTATGGT
1 TGCCATAACCCAGCTATGGT
4932236 TTTACATACG
Statistics
Matches: 91, Mismatches: 25, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
32 3 0.03
33 62 0.68
34 2 0.02
35 23 0.25
36 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (33 bp):
TGCCATAACCCAGCTATGGTCTTATCATCAGAA
Found at i:4932107 original size:101 final size:101
Alignment explanation
Indices: 4931981--4932243 Score: 384
Period size: 101 Copynumber: 2.6 Consensus size: 101
4931971 ACATTTGTAG
* * * *
4931981 TGCCACAACCCAATTATAGTATTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAA
1 TGCCATAACCCAAGTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAA
*
4932046 CACTGCCATAGTCCAACCATGGGCTTATGTA-CATAC
66 CACTGCCATAGTCCAACCATGGGCTTACG-ACCATAC
*
4932082 TGCCATAACCCAGGTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAA
1 TGCCATAACCCAAGTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAA
* * *
4932147 CACTGCCATGGTCCAACCATGGTCTTACGACCATAG
66 CACTGCCATAGTCCAACCATGGGCTTACGACCATAC
* * * * *
4932183 TGTCATAACCCAATTATGGTCTTATCATCAGAATGTCATAGCCTAGCTATGGTTTTACATA
1 TGCCATAACCCAAGTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATA
4932244 CGAATGCAAC
Statistics
Matches: 146, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
100 1 0.01
101 145 0.99
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (101 bp):
TGCCATAACCCAAGTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAA
CACTGCCATAGTCCAACCATGGGCTTACGACCATAC
Found at i:4947725 original size:47 final size:47
Alignment explanation
Indices: 4947674--4947806 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 47
4947664 GAATTATAAG
* * *
4947674 GCATCCGAACTCGTTGAGTTGCATTCTGAGTTCACCTATGGATGC-AA
1 GCATCCGAACTCATTGAGTTGCATTCCGAGTTCA-CTATGGATACTAA
* ** *
4947721 GCATCCAAACTCATTGAGTTGTGTTCCGAGTTCATTATGGATACTAA
1 GCATCCGAACTCATTGAGTTGCATTCCGAGTTCACTATGGATACTAA
* * *
4947768 -CACCCGAGCTCATTGAGTTGCATTCCGAGTTCATTATGG
1 GCATCCGAACTCATTGAGTTGCATTCCGAGTTCACTATGG
4947807 GTGAGATTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
46 42 0.58
47 31 0.42
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (47 bp):
GCATCCGAACTCATTGAGTTGCATTCCGAGTTCACTATGGATACTAA
Found at i:4951383 original size:16 final size:16
Alignment explanation
Indices: 4951358--4951392 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4951348 ATGTATCGGC
*
4951358 AAAAGCCGAAATGCTG
1 AAAAGCCGAAAAGCTG
*
4951374 AAAAGTCGAAAAGCTG
1 AAAAGCCGAAAAGCTG
4951390 AAA
1 AAA
4951393 GTTTAGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.11
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:4951651 original size:29 final size:28
Alignment explanation
Indices: 4951608--4951717 Score: 130
Period size: 29 Copynumber: 3.9 Consensus size: 28
4951598 CATGATTATG
* *
4951608 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
4951636 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * * *
4951665 CAGGTGATTTAGGCCTAATGGGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* *
4951694 AATATGATTGGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
4951718 GATACAAGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
28 22 0.31
29 48 0.69
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:4954909 original size:55 final size:54
Alignment explanation
Indices: 4954822--4955076 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
4954812 ATTAGGGTTT
*
4954822 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * * *
4954877 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAA-GGC
* * * *
4954933 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
4954985 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
4955034 AACGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
4955077 GTACCTGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 9 0.05
53 37 0.22
54 12 0.07
55 64 0.38
56 6 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:4955028 original size:108 final size:110
Alignment explanation
Indices: 4954829--4955029 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
4954819 TTTAAGGATA
* *
4954829 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
4954894 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGGAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGGAAAGGTC
* **
4954939 CCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGA-G-TTCATAAGGCAAGGCTACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
4955001 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
4955030 TCAAAACGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 6 0.07
110 27 0.33
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGGAAAGGTC
Found at i:4955289 original size:16 final size:16
Alignment explanation
Indices: 4955268--4955298 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4955258 ATAAATTTGA
4955268 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
4955284 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
4955299 AGTGAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:4956507 original size:136 final size:136
Alignment explanation
Indices: 4956263--4956527 Score: 458
Period size: 136 Copynumber: 1.9 Consensus size: 136
4956253 TAAGCGACTG
* *
4956263 TGACGCAGATTGCCAGCTTCTCTGGAAGTTTTAAAAATATATTGTTTGAGTTGTTTAAGTAATAA
1 TGACGCAGATTGCCAGCTTCTCTGGAAGTTTTAAAAATAAATTGTTTGAGCTGTTTAAGTAATAA
* *
4956328 ATTAAGTCCGTTAACACCTCGTGTTCGACTTCGGCGACCGTCTCGGGTACAGGGCGTTACATTTA
66 ATTAAGTCCGTTAACACCTCGTGTTCGACTCCGGCGACCGTCTCAGGTACAGGGCGTTACATTTA
4956393 TATTTT
131 TATTTT
*
4956399 TGACGCAGATTGCCAGCTTCTCTGGAAGTTTTAAAAATAAATTGTTTGAGCTGTTTAAGTAATGA
1 TGACGCAGATTGCCAGCTTCTCTGGAAGTTTTAAAAATAAATTGTTTGAGCTGTTTAAGTAATAA
* * *
4956464 ATTAAGTCCGTTAACACCTTGTGTTCGACTCCGGCGACGGTCTCAGGTACGGGGCGTTACATTT
66 ATTAAGTCCGTTAACACCTCGTGTTCGACTCCGGCGACCGTCTCAGGTACAGGGCGTTACATTT
4956528 GTTGGTATCA
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 121 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (136 bp):
TGACGCAGATTGCCAGCTTCTCTGGAAGTTTTAAAAATAAATTGTTTGAGCTGTTTAAGTAATAA
ATTAAGTCCGTTAACACCTCGTGTTCGACTCCGGCGACCGTCTCAGGTACAGGGCGTTACATTTA
TATTTT
Found at i:4962738 original size:52 final size:51
Alignment explanation
Indices: 4962544--4962797 Score: 210
Period size: 55 Copynumber: 4.8 Consensus size: 51
4962534 ATTAGGGTTT
* * *
4962544 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGG
1 AAGG-TACCATGTAAGACCATGTCAAGACATGG-CATTGGTAA-G-TTCATAAGG
* * * *
4962598 CAAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAGTTACTATAAGG
1 -AAGG-TACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGG
* * * *
4962653 CAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGG
1 --AAGGTACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGG
* * * *
4962706 AAGGCTAGCATGTATGACCATGTCAAGACATGGCAATGGTAAGTTTCAAAAGG
1 AAGG-TACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG-TTCATAAGG
* * *
4962759 -A--TACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGTACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
4962798 GTACCCGTGT
Statistics
Matches: 165, Mismatches: 28, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 34 0.21
51 4 0.02
52 34 0.21
53 16 0.10
54 8 0.05
55 65 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (51 bp):
AAGGTACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGG
Found at i:4962749 original size:107 final size:110
Alignment explanation
Indices: 4962551--4962750 Score: 282
Period size: 107 Copynumber: 1.8 Consensus size: 110
4962541 TTTAAGGATA
*
4962551 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAAGCATGTAAGA
* *
4962616 CCATGTTAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * ** *
4962661 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGG-AAGGCTAGCATGTATG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAAGCATGTAAG
*
4962722 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
4962751 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
107 41 0.51
108 6 0.08
109 7 0.09
110 26 0.32
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAAGCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Done.