Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 68 of 167
Found at i:21579009 original size:45 final size:45
Alignment explanation
Indices: 21578801--21579106 Score: 260
Period size: 45 Copynumber: 7.0 Consensus size: 45
21578791 TTATCGAACA
* ** * *
21578801 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTC--ATGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
*
21578844 ATGCC-ACTGTCCCA-A-GCTGGGTCTTACACG-AATC-GA-ATA-CG
1 ATGCCAAC-GTCCCAGACG-T-GGTCTTACACGAAATCACATATATCG
* * * * * * * *
21578885 AAGTCGATGTCCCAGACATGGTCTTACATG-AATC-GA-ATA-CA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
* * * * * *
21578926 ATGTCAATGTTCCAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
21578971 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
* * *
21579016 ATGCTAACGTCCCAGACGTGGTCTTACACAAAATCACATATATAG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
* * *
21579061 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
21579106 A
1 A
21579107 AATACTATGG
Statistics
Matches: 220, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
41 58 0.26
42 15 0.07
43 22 0.10
44 3 0.01
45 122 0.55
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCG
Found at i:21579767 original size:24 final size:25
Alignment explanation
Indices: 21579709--21579767 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
21579699 AACTAACTTC
* *
21579709 ACAAAGATC-AAATATTCATCAATG
1 ACAAAAATCAAAATATTCATCAATA
* * *
21579733 GCATAACTCAAAATATTCATCAA-A
1 ACAAAAATCAAAATATTCATCAATA
21579757 ACAAAAATCAA
1 ACAAAAATCAA
21579768 GCATGGGCTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.54, C:0.19, G:0.05, T:0.22
Consensus pattern (25 bp):
ACAAAAATCAAAATATTCATCAATA
Found at i:21582344 original size:51 final size:50
Alignment explanation
Indices: 21582281--21582405 Score: 128
Period size: 51 Copynumber: 2.4 Consensus size: 50
21582271 TGAATGCCCG
* *
21582281 GTGGCTTACACATAGTACCACCCTTGT-AGTCAAAGCTACCTTATT-CACAAA
1 GTGGCTT-CACATAGTACCACACTTGTGA-CCAAAGCTACCTT-TTACACAAA
* * *
21582332 GTGGCCTTCACATTGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGG-CTTCACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
* *
21582383 GTGGTCTACACTTAGTACCACAC
1 GTGG-CTTCACATAGTACCACAC
21582406 ATGTTTTCGA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
50 2 0.03
51 56 0.90
52 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (50 bp):
GTGGCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
Found at i:21585860 original size:43 final size:43
Alignment explanation
Indices: 21585783--21585866 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
21585773 TACATAAATC
* * * * *
21585783 GCATCCATTATTAACTCGGACCTCTCGACGAGCTCGAATGCTT
1 GCATCCATAATGAACTCGGACATCCCAACGAGCTCGAATGCTT
* *
21585826 GCATCCATAATGAACTCGGACATCCCAACTAGCTCGGATGC
1 GCATCCATAATGAACTCGGACATCCCAACGAGCTCGAATGC
21585867 CACATATCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
GCATCCATAATGAACTCGGACATCCCAACGAGCTCGAATGCTT
Found at i:21595950 original size:45 final size:45
Alignment explanation
Indices: 21595886--21595976 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
21595876 CCAAAACATG
* ** *
21595886 TGCTACATACATCATGAACT-TAGACCATTACTCAATGAGTTCAGA
1 TGCTACATACATCATGAACTCAAG-CCACAACTCAATGAATTCAGA
*
21595931 TGCTACATATATCATGAACTCAAGCCACAACTCAATGAATTCAGA
1 TGCTACATACATCATGAACTCAAGCCACAACTCAATGAATTCAGA
21595976 T
1 T
21595977 CATATAGTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.27
Consensus pattern (45 bp):
TGCTACATACATCATGAACTCAAGCCACAACTCAATGAATTCAGA
Found at i:21600541 original size:47 final size:47
Alignment explanation
Indices: 21600470--21600726 Score: 374
Period size: 47 Copynumber: 5.5 Consensus size: 47
21600460 CCCTTCGGGA
* * * *
21600470 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
21600517 CCTATCACATATATACACTTTCACATTCATCACATTAGCCATGCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
21600564 CTTATCACATATATACACTTTCACATTCAT--CATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
21600609 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
21600658 CTTATCACATATATACACTTTCACATTCATCACATTAGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
21600705 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
21600727 CAATGAATAA
Statistics
Matches: 190, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
45 19 0.10
47 149 0.78
49 22 0.12
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:21600722 original size:141 final size:139
Alignment explanation
Indices: 21600470--21600726 Score: 433
Period size: 141 Copynumber: 1.8 Consensus size: 139
21600460 CCCTTCGGGA
* *
21600470 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACAC
21600535 TTTCACATTCATCACATTAGCCATGCGGCCTTATCACATATATACACTTTCACATTCATCATCGG
66 TTTCACATTCATCACATTAGCCATGCGGCCTTATCACATATATACACTTTCACATTCATCATCGG
21600600 CCATTAGGC
131 CCATTAGGC
* * * *
21600609 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATAC
*
21600674 ACTTTCACATTCATCACATTAGCCATTCGGCCTTATCACATATATACACTTTC
64 ACTTTCACATTCATCACATTAGCCATGCGGCCTTATCACATATATACACTTTC
21600727 CAATGAATAA
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
139 10 0.09
140 1 0.01
141 98 0.90
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (139 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATACAC
TTTCACATTCATCACATTAGCCATGCGGCCTTATCACATATATACACTTTCACATTCATCATCGG
CCATTAGGC
Found at i:21604319 original size:48 final size:48
Alignment explanation
Indices: 21604247--21604352 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
21604237 CAAGATAAAT
* * *
21604247 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
21604295 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
21604343 ATGTGTATAT
1 ATATGTATAT
21604353 ATTGTGGCCG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:21605719 original size:37 final size:37
Alignment explanation
Indices: 21605619--21605721 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
21605609 CGAATAGTCC
* *
21605619 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
21605656 CCACACGTAGTCATTGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
21605693 CCATACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
21605722 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:21605920 original size:48 final size:48
Alignment explanation
Indices: 21605862--21606151 Score: 517
Period size: 48 Copynumber: 6.0 Consensus size: 48
21605852 ATATACACAC
*
21605862 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
21605910 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21605958 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21606006 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
21606054 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
21606102 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21606150 AT
1 AT
21606152 ATATTTATCT
Statistics
Matches: 231, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 231 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:21628673 original size:46 final size:46
Alignment explanation
Indices: 21628621--21628796 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
21628611 TGGTTGAGCA
21628621 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
21628667 TGCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
21628712 CATCCGAACTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21628760 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21628797 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21628777 original size:93 final size:93
Alignment explanation
Indices: 21628618--21628789 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
21628608 GGATGGTTGA
* **
21628618 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTGCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21628683 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
21628711 GCATCCGAACTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21628776 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21628790 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21630230 original size:31 final size:31
Alignment explanation
Indices: 21630184--21630260 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
21630174 TTTGGTGAGT
* * *
21630184 CACACGCCCGCGTGGGTAGGCTGTGTGGTCA
1 CACACACCCGTGTGGGTAGGCCGTGTGGTCA
21630215 CACACACCCGTGTGGGTAGGCCGTGTGGTCA
1 CACACACCCGTGTGGGTAGGCCGTGTGGTCA
21630246 CACACACCCGTGTGG
1 CACACACCCGTGTGG
21630261 CTTGGGACAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (31 bp):
CACACACCCGTGTGGGTAGGCCGTGTGGTCA
Found at i:21634529 original size:79 final size:82
Alignment explanation
Indices: 21634418--21634602 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
21634408 GCTACTCGTT
* * *
21634418 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21634481 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21634498 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21634561 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21634578 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21634603 TATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21634602 original size:40 final size:40
Alignment explanation
Indices: 21634399--21634605 Score: 235
Period size: 40 Copynumber: 5.2 Consensus size: 40
21634389 CGGAATTTAA
** * *
21634399 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGTCATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21634439 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21634479 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21634518 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21634558 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21634598 CCGGATAT
1 CCGGATAT
21634606 CATTCGAATA
Statistics
Matches: 143, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 96 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21641167 original size:79 final size:82
Alignment explanation
Indices: 21641056--21641240 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
21641046 GCTACTCGTT
* * *
21641056 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21641119 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21641136 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21641199 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21641216 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21641241 TATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21641240 original size:40 final size:40
Alignment explanation
Indices: 21641037--21641243 Score: 235
Period size: 40 Copynumber: 5.2 Consensus size: 40
21641027 CGGAATTTAA
** * *
21641037 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGTCATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21641077 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21641117 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21641156 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21641196 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21641236 CCGGATAT
1 CCGGATAT
21641244 CATTCGAATA
Statistics
Matches: 143, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 96 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21642840 original size:39 final size:39
Alignment explanation
Indices: 21642797--21642920 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
21642787 GCTCTGATGA
* * * *
21642797 GCTTCAGTTAGCCTCCAGGTTTCTGTTTAGTACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
* *
21642836 GCTTCAATTAGCATCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
* *
21642875 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
21642914 GCTTCAG
1 GCTTCAG
21642921 CTAGATTTCG
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:21642918 original size:21 final size:21
Alignment explanation
Indices: 21642854--21642918 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
21642844 TAGCATCCGG
21642854 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
** * *
21642875 GCTTTAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
21642893 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
21642914 GCTTC
1 GCTTC
21642919 AGCTAGATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 8 0.24
21 11 0.33
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.42
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:21642936 original size:39 final size:38
Alignment explanation
Indices: 21642821--21642936 Score: 142
Period size: 39 Copynumber: 3.0 Consensus size: 38
21642811 CCAGGTTTCT
* * *
21642821 GTTTAGTACTTATGTGCTTCAATTAGCATCCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAG-ATTCGGGCTTCC
* *
21642860 GTTTAGCACTTATGTGCTTTAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAG-ATTCGGGCTTCC
* *
21642899 GTTTAGCACTTATGTGCTTCAGCTAGATTTCGAGCTTC
1 GTTTAGCACTTATGTGCTTCAGTTAGA-TTCGGGCTTC
21642937 AGATCACGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (38 bp):
GTTTAGCACTTATGTGCTTCAGTTAGATTCGGGCTTCC
Found at i:21646093 original size:47 final size:47
Alignment explanation
Indices: 21646041--21647386 Score: 2341
Period size: 47 Copynumber: 28.6 Consensus size: 47
21646031 GATAATTGTG
* * * *
21646041 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646088 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646135 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646182 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646229 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646276 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646323 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646370 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646417 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646464 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646511 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646558 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646605 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646652 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646699 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646746 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646793 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646840 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
21646887 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
21646934 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
21646981 GTGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
21647030 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
21647077 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
21647124 GTGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
21647173 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
21647220 ATGTGAAAGTGGATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
21647267 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * * * *
21647314 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTTATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
21647361 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
21647387 TCTCGAAGGG
Statistics
Matches: 1262, Mismatches: 33, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
47 1172 0.93
49 90 0.07
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:21653893 original size:43 final size:43
Alignment explanation
Indices: 21653833--21653927 Score: 165
Period size: 43 Copynumber: 2.2 Consensus size: 43
21653823 TACGGATAGT
21653833 TCGTGT-GGCTCACACGGCCAAGTGACATGCCCATGTATCAAG
1 TCGTGTAGGCTCACACGGCCAAGTGACATGCCCATGTATCAAG
* *
21653875 TCGTGTAGGCTCACACGGCCAAGTGACATGTCCATGTATTAAG
1 TCGTGTAGGCTCACACGGCCAAGTGACATGCCCATGTATCAAG
21653918 TCGTGTAGGC
1 TCGTGTAGGC
21653928 ATTCAATATA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 6 0.12
43 44 0.88
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.24
Consensus pattern (43 bp):
TCGTGTAGGCTCACACGGCCAAGTGACATGCCCATGTATCAAG
Found at i:21657588 original size:40 final size:40
Alignment explanation
Indices: 21657542--21657842 Score: 237
Period size: 39 Copynumber: 7.7 Consensus size: 40
21657532 CACCAACACA
* * * *
21657542 AAGCCTACGGGTCTTTAAGCCCGGATATAATTCCAGCA-T
1 AAGCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACG
* * *
21657581 ATAGCCTACGGGTCTTTAAGCCCGAATACAATTCCAGCACG
1 A-AGCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACG
* *
21657622 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACG
* * *
21657661 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACA
1 AAGCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACG
* **
21657700 AAGCCTGCGGGACTTT-AGCCCGGATATAACACCAGCACG
1 AAGCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACG
* * ** *
21657739 AATGCCTTCAGGG-CTTT--GCCCGGATATAACACAAGCACG
1 AA-GCCTGC-GGGACTTTAAGCCCGGATACAATTCCAGCACG
** * ** *
21657778 AATGCCTTTGGGAC-TT-AGCCCGGATATAACACTAGCACG
1 AA-GCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACG
*
21657817 AATGCCTTCGGGAC-TT-AGCCCGGATA
1 AA-GCCTGCGGGACTTTAAGCCCGGATA
21657843 TAACACCATT
Statistics
Matches: 235, Mismatches: 20, Indels: 14
0.87 0.07 0.05
Matches are distributed among these distances:
38 5 0.02
39 170 0.72
40 56 0.24
41 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
AAGCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACG
Found at i:21657956 original size:28 final size:28
Alignment explanation
Indices: 21657923--21658004 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
21657913 ATTTAATCAT
* *
21657923 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
21657951 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * * *
21657979 TCAAAATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
21658005 ATTTAATTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:21668781 original size:20 final size:20
Alignment explanation
Indices: 21668756--21668830 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
21668746 TTATAAATAC
*
21668756 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
21668776 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
21668796 GTCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
21668816 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
21668831 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21668904 original size:25 final size:25
Alignment explanation
Indices: 21668858--21668905 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
21668848 ATAAGTAAAC
* * *
21668858 CCTAGGGGTATAATAGTCATTTTAA
1 CCTAGGGGCAAAACAGTCATTTTAA
*
21668883 CCTAGGGGCAAAACAGTTATTTT
1 CCTAGGGGCAAAACAGTCATTTT
21668906 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTAA
Found at i:21676378 original size:26 final size:25
Alignment explanation
Indices: 21676307--21676416 Score: 134
Period size: 26 Copynumber: 4.4 Consensus size: 25
21676297 CTGGAGGCCT
*
21676307 AGCCTCTTTTAAT-AACTGGTGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATA
*
21676331 AGCCCTTTTGATAAACTGGGGCATA
1 AGCCCTTTTAATAAACTGGGGCATA
* *
21676356 AGCCTTTTTCAATGAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
*
21676382 AGCCCTTTTCAATAAACTGAGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
21676408 AGCCCTTTT
1 AGCCCTTTT
21676417 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.09
24 13 0.17
25 9 0.12
26 46 0.61
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:21676491 original size:20 final size:20
Alignment explanation
Indices: 21676466--21676540 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
21676456 TTATGAATAC
*
21676466 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
21676486 ATCATGTGCATATCATACCT
1 ATCATGTGCATATCATACAT
*
21676506 TTCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
21676526 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
21676541 TCCCACGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.16
20 40 0.82
21 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:21676610 original size:25 final size:24
Alignment explanation
Indices: 21676568--21676615 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
21676558 ATAATTAAAC
* * *
21676568 CCTAGGGGTATAATAGTCACTTTTA
1 CCTAGGGGCAAAACAGTCA-TTTTA
21676593 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
21676616 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACAGTCATTTTA
Found at i:21677762 original size:22 final size:22
Alignment explanation
Indices: 21677729--21677772 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21677719 GCTGGAAAAG
21677729 AAAAGAGAGAAAAAGACTACACC
1 AAAAGAGAGAAAAAGAC-ACACC
*
21677752 AAAA-AGAGAAAACGACACACC
1 AAAAGAGAGAAAAAGACACACC
21677773 CTAATTCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.61, C:0.20, G:0.16, T:0.02
Consensus pattern (22 bp):
AAAAGAGAGAAAAAGACACACC
Found at i:21683040 original size:37 final size:37
Alignment explanation
Indices: 21682981--21683119 Score: 242
Period size: 37 Copynumber: 3.8 Consensus size: 37
21682971 AGCTCAGACG
* *
21682981 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
21683018 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
21683055 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
21683092 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
21683120 TAGAGCTCGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:21683316 original size:25 final size:25
Alignment explanation
Indices: 21683288--21683366 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
21683278 ACTCGGCCCT
21683288 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
21683313 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
21683335 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
21683360 ATCACAT
1 ATCACAT
21683367 CGGCCACTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:21683406 original size:45 final size:45
Alignment explanation
Indices: 21683238--21683724 Score: 776
Period size: 45 Copynumber: 10.6 Consensus size: 45
21683228 CCCTTCGGGA
* * * *
21683238 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACA--TATACACTTTCACATTCATCACATCGGCCACTAGGC
* * * *
21683285 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCACTAGGC
21683332 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCACTAGGC
*
21683379 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
21683424 CTTATCACATATATACACTTTCACATATTCATCACATCGGCCACTAGGC
1 CTTATCAC--ATATACACTTTCAC--ATTCATCACATCGGCCACTAGGC
21683473 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
21683518 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
21683563 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
21683608 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
*
21683653 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
21683698 CTTATCACATATATACACTTTCACATT
1 CTTATCAC--ATATACACTTTCACATT
21683725 TATTCAAATA
Statistics
Matches: 421, Mismatches: 11, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
45 254 0.60
47 136 0.32
49 31 0.07
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (45 bp):
CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGC
Found at i:21683490 original size:139 final size:137
Alignment explanation
Indices: 21683238--21683724 Score: 816
Period size: 139 Copynumber: 3.5 Consensus size: 137
21683228 CCCTTCGGGA
* * * * *
21683238 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACA--TATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACAC
* * *
21683303 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
64 TTTCACATTCATCACATCGGCCACTAGGCCTTATCAC--ATATACACTTTCACATTCATCACATC
21683368 GGCCACTAGGC
127 GGCCACTAGGC
*
21683379 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTT
21683444 TCACATATTCATCACATCGGCCACTAGGCCTTATCACATATACACTTTCACATTCATCACATCGG
66 TCAC--ATTCATCACATCGGCCACTAGGCCTTATCACATATACACTTTCACATTCATCACATCGG
21683509 CCACTAGGC
129 CCACTAGGC
21683518 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCAC--ATATACACTT
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTT
21683581 TCACATTCATCACATCGGCCACTAGGCCTTATCACATATACACTTTCACATTCATCACATCGGCC
66 TCACATTCATCACATCGGCCACTAGGCCTTATCACATATACACTTTCACATTCATCACATCGGCC
21683646 ACTAGGC
131 ACTAGGC
*
21683653 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTT
21683718 TCACATT
66 TCACATT
21683725 TATTCAAATA
Statistics
Matches: 331, Mismatches: 11, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
135 120 0.36
137 31 0.09
139 143 0.43
141 37 0.11
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (137 bp):
CTTATCACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTT
TCACATTCATCACATCGGCCACTAGGCCTTATCACATATACACTTTCACATTCATCACATCGGCC
ACTAGGC
Found at i:21684170 original size:46 final size:46
Alignment explanation
Indices: 21684120--21684210 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
21684110 AAATACCAGA
21684120 TTTTTCTTAAAGTTTCCCCTATTTCACTATTTGACTAATCTGACCG
1 TTTTTCTTAAAGTTTCCCCTATTTCACTATTTGACTAATCTGACCG
* *
21684166 TTTTTCTTAAAGTTTCCCCTGTTTCACTGTTTGACTAATCTGACC
1 TTTTTCTTAAAGTTTCCCCTATTTCACTATTTGACTAATCTGACC
21684211 ACTCTTCACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (46 bp):
TTTTTCTTAAAGTTTCCCCTATTTCACTATTTGACTAATCTGACCG
Found at i:21697030 original size:20 final size:20
Alignment explanation
Indices: 21697001--21697038 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21696991 GTCACATATA
21697001 TCATGAGCTCAGATCACAAC
1 TCATGAGCTCAGATCACAAC
*
21697021 TCATGGGCTCAGATCACA
1 TCATGAGCTCAGATCACA
21697039 TAGTTCCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (20 bp):
TCATGAGCTCAGATCACAAC
Found at i:21700352 original size:27 final size:26
Alignment explanation
Indices: 21700312--21700426 Score: 162
Period size: 27 Copynumber: 4.3 Consensus size: 26
21700302 TGGAGGAAGC
21700312 ATTCTGGTGGCTCTGCCACAAATATCT
1 ATTCTGGTGGCTCTGCCAC-AATATCT
21700339 GA-TCTGGTGGCTCTGCCACAAATATCT
1 -ATTCTGGTGGCTCTGCCAC-AATATCT
21700366 ATTTCTAGG-GGCTCTGCCACAATATCT
1 A-TTCT-GGTGGCTCTGCCACAATATCT
21700393 ATTTCTGGTGGCTCTGCCACAATATCT
1 A-TTCTGGTGGCTCTGCCACAATATCT
21700420 ATTCTGG
1 ATTCTGG
21700427 CAACCATGCT
Statistics
Matches: 83, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
26 9 0.11
27 57 0.69
28 15 0.18
29 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (26 bp):
ATTCTGGTGGCTCTGCCACAATATCT
Found at i:21708224 original size:27 final size:28
Alignment explanation
Indices: 21708185--21708288 Score: 115
Period size: 27 Copynumber: 3.8 Consensus size: 28
21708175 AAGCGTTCTG
* *
21708185 GTGGCTCTACCACAAATATTTG-ATCTA
1 GTGGCTCTGCCACAAATATCTGTATCTA
* *
21708212 GTGGCTTTGCCACAAATATCTGTTTCTA
1 GTGGCTCTGCCACAAATATCTGTATCTA
*
21708240 GTGGCTCTGCCAC-AATATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTGTATCTA
** *
21708267 GTGATTCTGTCAC-AATATCTGT
1 GTGGCTCTGCCACAAATATCTGT
21708289 TCTGGTAGCC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
27 50 0.76
28 16 0.24
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (28 bp):
GTGGCTCTGCCACAAATATCTGTATCTA
Found at i:21718019 original size:25 final size:25
Alignment explanation
Indices: 21717991--21718038 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21717981 TTATAATATG
* * *
21717991 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
21718016 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
21718039 ATTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:21718081 original size:20 final size:19
Alignment explanation
Indices: 21718058--21718124 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
21718048 TATATTTGAT
21718058 ACATGATTGATATGATATGC
1 ACATGATTG-TATGATATGC
*
21718078 ACATGATAGGTATGATATGC
1 ACATGAT-TGTATGATATGC
* *
21718098 ACATGATATGTCTGAAATGC
1 ACATGAT-TGTATGATATGC
21718118 ACATGAT
1 ACATGAT
21718125 GAATTCATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 41 0.98
21 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (19 bp):
ACATGATTGTATGATATGC
Found at i:21718252 original size:52 final size:51
Alignment explanation
Indices: 21718174--21718271 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
21718164 GAGGAAGTGC
*
21718174 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
21718226 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCTCAGTT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTT
21718272 ATTAAAGAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 9 0.20
52 35 0.80
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:21718271 original size:25 final size:26
Alignment explanation
Indices: 21718174--21718271 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
21718164 GAGGAAGTGC
*
21718174 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
21718200 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21718226 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
21718252 AAAAGGGCTT-TGCCTCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21718272 ATTAAAGAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 9 0.14
26 57 0.86
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:21720376 original size:44 final size:44
Alignment explanation
Indices: 21720322--21720406 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
21720312 TATGTGTGAG
* *
21720322 GCATCTGAGCTCATTGAGTTCGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCATTGAGTTCGTCCGAGATCATTATGGATGCGA
* *
21720366 GCATCCGAGCTCGTTGAGTTGGTCCGAGATCATTATGGATG
1 GCATCCGAGCTCATTGAGTTCGTCCGAGATCATTATGGATG
21720407 TGATACATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (44 bp):
GCATCCGAGCTCATTGAGTTCGTCCGAGATCATTATGGATGCGA
Found at i:21724736 original size:46 final size:46
Alignment explanation
Indices: 21724574--21724740 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
21724564 TTTGTGTGCT
* *
21724574 AGTGTAAGAGATGTTTGGGACATGCATCGG-CTAC-ATTATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGA-GATGAGAGCC
* * * * * *
21724620 AGTGTAAGACCATGTTTAGGACATGACATTGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTTTGGGACATG-CATCGGCCTCGAGATGAGAGCC
** *
21724668 AGTGTAAGACATGTCCGAGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATG-AGAGCC
21724714 AGTGTAAGACATGTTTGGGACATGCAT
1 AGTGTAAGACATGTTTGGGACATGCAT
21724741 TAGCTACATG
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
46 48 0.50
47 25 0.26
48 21 0.22
49 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:21724865 original size:47 final size:47
Alignment explanation
Indices: 21724611--21724882 Score: 143
Period size: 47 Copynumber: 5.8 Consensus size: 47
21724601 CGGCTACATT
* * * * *
21724611 ATGAGAGCCAGTGTAAGACCATGT-TTAGGACATGACATTGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGA-GACATGGCATTGAC-TTAAC
* * * * * ** *
21724659 ACGAGAGCTAGTGTAAGA-CATGTCCGAGACAT-GCATCGGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGAGACATGGCAT-TGACTTAAC
* *
21724705 ATGTA-AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATT-AGC-T-AC
1 ATG-AGAGCCAGTGTAAGACCATGTCTGAGACATGGCATTGA-CTTAAC
* * * * * * * *
21724748 ATGATGTGTCAGTGTAAGACCATCTCTGGGATATGGCGTCGGTA-TGAAAC
1 ATGA-GAGCCAGTGTAAGACCATGTCTGAGACATGGCAT-TG-ACT-TAAC
* * *
21724798 GTGAGAGTCATTGTAAGACCATGTCTGAGACATGGCATTGACTTAAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGAGACATGGCATTGACTTAAC
21724845 ATGAGAGCCAGTGTAAGACCATGTCTTG-GACATGGCAT
1 ATGAGAGCCAGTGTAAGACCATGTC-TGAGACATGGCAT
21724883 CAGCATTATA
Statistics
Matches: 171, Mismatches: 37, Indels: 33
0.71 0.15 0.14
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 11 0.06
45 12 0.07
46 39 0.23
47 49 0.29
48 21 0.12
49 29 0.17
50 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGAGACATGGCATTGACTTAAC
Found at i:21726070 original size:20 final size:21
Alignment explanation
Indices: 21726032--21726070 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21726022 TTATAATGAA
21726032 CACACGGGCGTGTTGCCCTCT
1 CACACGGGCGTGTTGCCCTCT
21726053 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
21726071 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTCT
Found at i:21730032 original size:15 final size:15
Alignment explanation
Indices: 21730012--21730042 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21730002 TAGGCTTGGA
21730012 AACTAGGGCCAGTAT
1 AACTAGGGCCAGTAT
21730027 AACTAGGGCCAGTAT
1 AACTAGGGCCAGTAT
21730042 A
1 A
21730043 GGGTGTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (15 bp):
AACTAGGGCCAGTAT
Found at i:21732489 original size:51 final size:51
Alignment explanation
Indices: 21732434--21732600 Score: 144
Period size: 51 Copynumber: 3.3 Consensus size: 51
21732424 CTTCACATAG
* ** *
21732434 TACCACACTTGTGACCAAAGCTATCTTTG-ACACATAGTGGCCTGCACTTAA
1 TACCACACATGTGACCAAAGCTAT-TAGGTACACATAGTAGCCTGCACTTAA
* * *
21732485 TACCACACATGTGATCGAAGCTATTAGGTACACATAGTAGCCTGCACTTAG
1 TACCACACATGTGACCAAAGCTATTAGGTACACATAGTAGCCTGCACTTAA
* * * * * *
21732536 TACTACACATGCGA-CATAA-CCATCT-GGTACACGTAGTAGCCTGCGCTTAG
1 TACCACACATGTGACCA-AAGCTAT-TAGGTACACATAGTAGCCTGCACTTAA
* *
21732586 TACTACACACGTGAC
1 TACCACACATGTGAC
21732601 TTAAAACCAT
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
50 41 0.42
51 56 0.58
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
TACCACACATGTGACCAAAGCTATTAGGTACACATAGTAGCCTGCACTTAA
Found at i:21732579 original size:50 final size:51
Alignment explanation
Indices: 21732463--21732648 Score: 171
Period size: 50 Copynumber: 3.6 Consensus size: 51
21732453 GCTATCTTTG
* * * * * * *
21732463 ACACATAGTGGCCTGCACTTAATACCACACATGTGA-TCGAAGCTAT-TAGGT
1 ACACATAGTAGCCTGCACTTAGTACTACACATGCGACT-AAAACCATCT-GGT
*
21732514 ACACATAGTAGCCTGCACTTAGTACTACACATGCGAC-ATAACCATCTGGT
1 ACACATAGTAGCCTGCACTTAGTACTACACATGCGACTAAAACCATCTGGT
* * * * * ***
21732564 ACACGTAGTAGCCTGCGCTTAGTACTACACACGTGACTTAAAACCATTTTAA
1 ACACATAGTAGCCTGCACTTAGTACTACACATGCGAC-TAAAACCATCTGGT
*
21732616 ACACATAGTAGCCTGCACATAGTACTACACATG
1 ACACATAGTAGCCTGCACTTAGTACTACACATG
21732649 TTTTCTCACA
Statistics
Matches: 110, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
50 40 0.36
51 33 0.30
52 37 0.34
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
ACACATAGTAGCCTGCACTTAGTACTACACATGCGACTAAAACCATCTGGT
Found at i:21732629 original size:52 final size:50
Alignment explanation
Indices: 21732514--21732646 Score: 158
Period size: 52 Copynumber: 2.6 Consensus size: 50
21732504 GCTATTAGGT
* * **
21732514 ACACATAGTAGCCTGCACTTAGTACTACACATGCGACATAACCATCTGGT
1 ACACATAGTAGCCTGCACTTAGTACTACACACGCGACAAAACCATCTGAA
* * * * *
21732564 ACACGTAGTAGCCTGCGCTTAGTACTACACACGTGACTTAAAACCATTTTAA
1 ACACATAGTAGCCTGCACTTAGTACTACACACGCGAC--AAAACCATCTGAA
*
21732616 ACACATAGTAGCCTGCACATAGTACTACACA
1 ACACATAGTAGCCTGCACTTAGTACTACACA
21732647 TGTTTTCTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
50 33 0.48
52 36 0.52
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (50 bp):
ACACATAGTAGCCTGCACTTAGTACTACACACGCGACAAAACCATCTGAA
Found at i:21734204 original size:40 final size:40
Alignment explanation
Indices: 21734121--21734383 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
21734111 TTGAATGCTG
* * * * * *
21734121 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
21734161 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
21734201 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
21734241 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
21734281 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
21734321 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
21734360 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21734384 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:21734403 original size:79 final size:80
Alignment explanation
Indices: 21734160--21734418 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
21734150 AAGTGAATAT
* * * * * *
21734160 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
21734224 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
21734240 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
21734305 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
21734320 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
21734384 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
21734399 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
21734419 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:21742154 original size:40 final size:40
Alignment explanation
Indices: 21742110--21742333 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
21742100 AAGTGAATAT
* * * * **
21742110 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
21742150 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
21742190 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
21742230 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
21742270 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
21742309 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
21742334 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:21742208 original size:80 final size:80
Alignment explanation
Indices: 21742071--21742333 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
21742061 TTGAATGCTG
* * * * *
21742071 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
21742133 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
21742151 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
21742216 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
21742231 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
21742295 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
21742310 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21742334 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:21742285 original size:120 final size:120
Alignment explanation
Indices: 21742071--21742333 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
21742061 TTGAATGCTG
* * *
21742071 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
21742135 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
21742191 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
21742253 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
21742310 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21742334 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:21746085 original size:15 final size:14
Alignment explanation
Indices: 21746038--21746092 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
21746028 TCAAGCTAAG
* *
21746038 GAAATCCATAACAGA
1 GAAATCCA-AATAAA
*
21746053 GAAATCCAGAATATA
1 GAAATCCA-AATAAA
21746068 GAAATCCAACATAAA
1 GAAATCCAA-ATAAA
21746083 GAAATCCAAA
1 GAAATCCAAA
21746093 ACAAGAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 33 0.94
ACGTcount: A:0.56, C:0.18, G:0.11, T:0.15
Consensus pattern (14 bp):
GAAATCCAAATAAA
Found at i:21762223 original size:43 final size:42
Alignment explanation
Indices: 21762093--21762490 Score: 289
Period size: 43 Copynumber: 9.5 Consensus size: 42
21762083 CAATGCCGAC
** * * *
21762093 GTCCCAGATGTGGTCTTACATGT-AATTCAATATCGAAGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTC-A-ATCGAGGCCTAT
* * * * *
21762136 ATCCTAGACAGGGTCTTACACG-AAA-TCAGATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AT-CGAGGCCTAT
* * *
21762178 GTCCCAGATATGGTCTTAAATGTAAATCTCAATCGAGGCCTAT
1 GTCCCAGACATGGTCTTACACGTAAAT-TCAATCGAGGCCTAT
* * * * *
21762221 GTCCCAGATATGGTCTTACATG-AAA-TCAGATACGATGTC-GT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AT-CGAGGCCTAT
* *
21762262 GTCCCAGACATGGTCTTATACGTAAATTTCAATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAATCGAGGCCTAT
* * *
21762305 GTCCCAGACATGGTCTTACATG-AAA-TCAGATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AT-CGAGGCCTAT
* * * * *
21762347 GTCCCAGATATAGTCATATACATAAATTTCAATCGAGGCCTAT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAATCGAGGCCTAT
* * * *
21762390 GTCCCAGACATGGTCTTACACGCAGA-T--A-CGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAATCGAGGCCTAT
* *
21762428 GTCCCAGACATGGTCTTATACGTAAATTTCAATCGAGGTCTAT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAATCGAGGCCTAT
*
21762471 GTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
21762491 TGATGTCTCA
Statistics
Matches: 277, Mismatches: 57, Indels: 42
0.74 0.15 0.11
Matches are distributed among these distances:
38 31 0.11
39 1 0.00
40 7 0.03
41 28 0.10
42 68 0.25
43 129 0.47
44 7 0.03
45 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAATCGAGGCCTAT
Found at i:21762236 original size:85 final size:85
Alignment explanation
Indices: 21762085--21762490 Score: 529
Period size: 85 Copynumber: 4.8 Consensus size: 85
21762075 AACAAGTACA
* * * * * * * * *
21762085 ATGCCGACGTCCCAGATGTGGTCTTACATGT-AA-TTCAATATCGAAGCCTCTATCCTAGACAGG
1 ATGCCGATGTCCCAGATATGGTCTTATACGTAAATTTC-A-ATCGAGGCCTATGTCCCAGACATG
21762148 GTCTTACACGAAATCAGATACG
64 GTCTTACACGAAATCAGATACG
* * * *
21762170 ATGCCGATGTCCCAGATATGGTCTTAAATGTAAATCTCAATCGAGGCCTATGTCCCAGATATGGT
1 ATGCCGATGTCCCAGATATGGTCTTATACGTAAATTTCAATCGAGGCCTATGTCCCAGACATGGT
*
21762235 CTTACATGAAATCAGATACG
66 CTTACACGAAATCAGATACG
* * *
21762255 ATGTCG-TGTCCCAGACATGGTCTTATACGTAAATTTCAATCGAGGCCTGTGTCCCAGACATGGT
1 ATGCCGATGTCCCAGATATGGTCTTATACGTAAATTTCAATCGAGGCCTATGTCCCAGACATGGT
*
21762319 CTTACATGAAATCAGATACG
66 CTTACACGAAATCAGATACG
* * *
21762339 ATGCCGATGTCCCAGATATAGTCATATACATAAATTTCAATCGAGGCCTATGTCCCAGACATGGT
1 ATGCCGATGTCCCAGATATGGTCTTATACGTAAATTTCAATCGAGGCCTATGTCCCAGACATGGT
21762404 CTTACACG----CAGATACG
66 CTTACACGAAATCAGATACG
* * *
21762420 ATGCCGATGTCCCAGACATGGTCTTATACGTAAATTTCAATCGAGGTCTATGTCCCAGACACGGT
1 ATGCCGATGTCCCAGATATGGTCTTATACGTAAATTTCAATCGAGGCCTATGTCCCAGACATGGT
21762485 CTTACA
66 CTTACA
21762491 TGATGTCTCA
Statistics
Matches: 287, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
81 73 0.25
84 77 0.27
85 132 0.46
86 3 0.01
87 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (85 bp):
ATGCCGATGTCCCAGATATGGTCTTATACGTAAATTTCAATCGAGGCCTATGTCCCAGACATGGT
CTTACACGAAATCAGATACG
Found at i:21762381 original size:169 final size:166
Alignment explanation
Indices: 21762141--21762493 Score: 537
Period size: 169 Copynumber: 2.1 Consensus size: 166
21762131 CCTCTATCCT
* * * * **
21762141 AGACAGGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGATATGGTCTTAAATGTAAATC
1 AGACACGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGATATAGTCATAAACATAAATC
* * *
21762206 TCAATCGAGGCCTATGTCCCAGATATGGTCTTACATGAAATCAGATACGATGTCG-TGTCCCAGA
66 TCAATCGAGGCCTATGTCCCAGACATGGTCTTACACG----CAGATACGATGCCGATGTCCCAGA
*
21762270 CATGGTCTTATACGTAAATTTCAATCGAGGCCTGTGTCCC
127 CATGGTCTTATACGTAAATTTCAATCGAGGCCTATGTCCC
* * *
21762310 AGACATGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGATATAGTCATATACATAAATT
1 AGACACGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGATATAGTCATAAACATAAATC
21762375 TCAATCGAGGCCTATGTCCCAGACATGGTCTTACACGCAGATACGATGCCGATGTCCCAGACATG
66 TCAATCGAGGCCTATGTCCCAGACATGGTCTTACACGCAGATACGATGCCGATGTCCCAGACATG
*
21762440 GTCTTATACGTAAATTTCAATCGAGGTCTATGTCCC
131 GTCTTATACGTAAATTTCAATCGAGGCCTATGTCCC
21762476 AGACACGGTCTTACATGA
1 AGACACGGTCTTACATGA
21762494 TGTCTCAAAC
Statistics
Matches: 169, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
165 13 0.08
166 64 0.38
169 92 0.54
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (166 bp):
AGACACGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAGATATAGTCATAAACATAAATC
TCAATCGAGGCCTATGTCCCAGACATGGTCTTACACGCAGATACGATGCCGATGTCCCAGACATG
GTCTTATACGTAAATTTCAATCGAGGCCTATGTCCC
Found at i:21770913 original size:49 final size:49
Alignment explanation
Indices: 21770852--21771047 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 49
21770842 TAGCCAAAGC
* *
21770852 TATCTGGTACACATAGTAGCCTGCACTTAGTACTATACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
21770901 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * *
21770951 CATCTGATACACGTAGTAGCCTGCACTTAGTGCTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
21771002 TATCGGGTACGCATAATAGCTTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
21771048 TCACAATAGA
Statistics
Matches: 121, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
49 42 0.35
50 44 0.36
51 35 0.29
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:21771040 original size:101 final size:99
Alignment explanation
Indices: 21770853--21771040 Score: 259
Period size: 99 Copynumber: 1.9 Consensus size: 99
21770843 AGCCAAAGCT
* * * *
21770853 ATCTGGTACACATAGTAGCCTGCACTTAGTACTATACATGCGACCAATTATCCGGTACACATAGT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAAT
21770918 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * * * *
21770952 ATCTGATACACGTAGTAGCCTGCACTTAGTGCTACACACGTGATCGAAGTTATCGGGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATA
*
21771017 ATAGCTTGCACTTAGTACTACACA
64 ATAGCCTGCACTTAGTACTACACA
21771041 TGCGACCTCA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 37 0.49
100 3 0.04
101 36 0.47
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAAT
AGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:21771048 original size:101 final size:99
Alignment explanation
Indices: 21770853--21771048 Score: 257
Period size: 101 Copynumber: 2.0 Consensus size: 99
21770843 AGCCAAAGCT
* * * *
21770853 ATCTGGTACACATAGTAGCCTGCACTTAGTACTATACATGCGACCAATTATCCGGTACACATAGT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAAT
*
21770918 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACCTAACC
* * * * * *
21770952 ATCTGATACACGTAGTAGCCTGCACTTAGTGCTACACACGTGATCGAAGTTATCGGGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATA
* *
21771017 ATAGCTTGCACTTAGTACTACACATGCGACCT
64 ATAGCCTGCACTTAGTACTACACACGCGACCT
21771049 CACAATAGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 37 0.45
100 3 0.04
101 42 0.51
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAAT
AGCCTGCACTTAGTACTACACACGCGACCTAACC
Found at i:21773674 original size:2 final size:2
Alignment explanation
Indices: 21773669--21773705 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21773659 CATATATATA
21773669 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
21773706 ATAATCAGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:21776299 original size:51 final size:50
Alignment explanation
Indices: 21776233--21776383 Score: 187
Period size: 51 Copynumber: 3.0 Consensus size: 50
21776223 CAGTTGTAGC
* *
21776233 CAAAGCTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
1 CAAAGTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
* * * * * *
21776283 TCAAAGTTATCGGGTACGCATAGTAGCCTACGCTTAGTACTACACATGCGA
1 -CAAAGTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
* * *
21776334 CCAA-TAATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 CAAAGTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
21776383 C
1 C
21776384 CTCACAATAG
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
49 38 0.45
50 3 0.04
51 43 0.51
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (50 bp):
CAAAGTTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
Found at i:21776368 original size:49 final size:51
Alignment explanation
Indices: 21776244--21776379 Score: 177
Period size: 49 Copynumber: 2.7 Consensus size: 51
21776234 AAAGCTATCT
* * *
21776244 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTAATCC
* * * * *
21776295 GGTACGCATAGTAGCCTACGCTTAGTACTACACATGCGA-CCAA-TAATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTAATCC
*
21776344 GGTACACGTAGTAGCCTGCACTTAGTACTACACACG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACG
21776380 TGACCTCACA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 35 0.49
50 3 0.04
51 34 0.47
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (51 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTAATCC
Found at i:21779061 original size:39 final size:39
Alignment explanation
Indices: 21778978--21779070 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
21778968 TGAAACCAAT
*
21778978 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
21779016 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAA
* *
21779055 TTCCAGCACGTAGCCT
1 TACCAGCACGAAGCCT
21779071 ACAGACCTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
38 14 0.31
39 31 0.69
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:21779088 original size:39 final size:39
Alignment explanation
Indices: 21779045--21779170 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
21779035 GGACTTTAGC
* * * * * *
21779045 CCGGACATATTTCCAGCACGTAGCCTACAGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
21779084 CCGGATATAATTCCAGTACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
21779123 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
21779162 CCGGATATA
1 CCGGATATA
21779171 CATCGCTGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:21782663 original size:47 final size:47
Alignment explanation
Indices: 21782606--21782960 Score: 539
Period size: 47 Copynumber: 7.4 Consensus size: 47
21782596 ATTGATGTAC
* * * * *
21782606 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
21782653 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
21782702 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
21782751 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
21782800 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
21782847 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
21782894 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
21782941 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
21782961 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 150 0.52
49 141 0.48
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:21782664 original size:49 final size:49
Alignment explanation
Indices: 21782608--21782960 Score: 551
Period size: 49 Copynumber: 7.4 Consensus size: 49
21782598 TGATGTACAA
* * * *
21782608 GTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
21782657 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
21782706 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
21782755 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
21782804 G--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
21782851 G--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * * * * *
21782898 G--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
21782945 GTATA-A-ATGTGATAAG
1 GTATATATATGTGATAAG
21782961 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 142 0.49
48 1 0.00
49 146 0.51
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:21786481 original size:40 final size:40
Alignment explanation
Indices: 21785488--21786469 Score: 1777
Period size: 40 Copynumber: 24.6 Consensus size: 40
21785478 CGACGATGAT
21785488 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
*
21785528 CTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785568 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785608 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785648 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785688 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785728 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785768 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785808 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785848 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785888 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785928 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21785968 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21786008 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21786048 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21786088 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21786128 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21786168 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
21786208 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
*
21786248 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
* *
21786288 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
** * *
21786328 CCGAACTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
* * * *
21786368 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
* * * * * *
21786408 CCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGTGATGTAC
*
21786448 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
21786470 ATCATGCTGG
Statistics
Matches: 919, Mismatches: 21, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
39 1 0.00
40 916 1.00
41 2 0.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
Found at i:21792641 original size:29 final size:28
Alignment explanation
Indices: 21792605--21792682 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
21792595 TCATGAGATT
21792605 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
21792635 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
21792662 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
21792683 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:21792900 original size:174 final size:174
Alignment explanation
Indices: 21792635--21793136 Score: 986
Period size: 174 Copynumber: 2.9 Consensus size: 174
21792625 AAATTGTACA
*
21792635 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
21792700 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
21792765 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
21792809 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
21792874 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
21792939 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
21792983 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
21793048 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
21793113 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
21793137 ACCTTGAGTT
Statistics
Matches: 325, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 325 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:21799710 original size:75 final size:75
Alignment explanation
Indices: 21799587--21799736 Score: 273
Period size: 75 Copynumber: 2.0 Consensus size: 75
21799577 TTTCATAGAA
* *
21799587 TAGTTTTAATAGCCCAAATTTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATCTGAGAT
1 TAGTTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATCTGAGAT
21799652 ATAAATAATT
66 ATAAATAATT
*
21799662 TAGTTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCATAAAATCTGAGAT
1 TAGTTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATCTGAGAT
21799727 ATAAATAATT
66 ATAAATAATT
21799737 ATTTTATGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (75 bp):
TAGTTGTAATAGCCCAAAATTGGGTCTAGTTGGAACAGAGGTTTCGGGACCACAAAATCTGAGAT
ATAAATAATT
Found at i:21801264 original size:63 final size:63
Alignment explanation
Indices: 21801184--21801366 Score: 183
Period size: 63 Copynumber: 2.8 Consensus size: 63
21801174 AGACATTATG
* * *
21801184 ATGTAGCTAGGTCGCATGGGTGATATATGTGTACACCATGTAGACAAGAGAGCTAAGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTATATGTGTACACCATGTAGACAAGAGAGCTAAGAGATAA
* * * *
21801247 ATGTAGCTAGGTCGCATGCGTGGT-TCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGTGGTAT---A-TG-TGTACACCATGTAGACAAGAGAGCTAAGAGA
21801311 TAA
61 TAA
* * * *
21801314 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTA-TATGTGTACACCATGTAG-ACAAGAGAGC
21801367 CGAACTATAT
Statistics
Matches: 98, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
62 2 0.02
63 41 0.42
64 1 0.01
65 2 0.02
66 20 0.20
67 31 0.32
68 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTATATGTGTACACCATGTAGACAAGAGAGCTAAGAGATAA
Found at i:21803506 original size:85 final size:85
Alignment explanation
Indices: 21803400--21803847 Score: 653
Period size: 85 Copynumber: 5.3 Consensus size: 85
21803390 CAATATTGAT
* * * * *
21803400 GCCTCTGTCCCAGGCAGGGTCTTACACGAAATCAGATACAATGCCGATGTCCCAGACATTGTCTT
1 GCCTGTGTCCCAGACACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTT
*
21803465 ATACGTAAATCTCAATCGAG
66 ATACGTAAATTTCAATCGAG
* *
21803485 GCCTGTGTCCCAGATACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGCCTT
1 GCCTGTGTCCCAGACACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTT
21803550 ATACGTAAATTTCAATCGAG
66 ATACGTAAATTTCAATCGAG
* * * * *
21803570 GCCTGTGTCCCAGACATGGTCTTACATGAAATCAGATATGATGTCGATGTCCCAGACATGGTTTT
1 GCCTGTGTCCCAGACACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTT
* *
21803635 ATATGTAAATTTGAATCGAG
66 ATACGTAAATTTCAATCGAG
* * * *
21803655 GCTTGTGTCCCAGACACGGTCTTACATGAAATCAGATACGATGCCGATGTCCCAAACATGGTTTT
1 GCCTGTGTCCCAGACACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTT
* * *
21803720 ATATGAAAATTTCAATCGAT
66 ATACGTAAATTTCAATCGAG
* * *
21803740 GCCTGTGTCCCAGACACAGTCTTACACGAAATCAGATACGATGCCGATGTCCTAGATATGGTCTT
1 GCCTGTGTCCCAGACACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTT
21803805 ATACGTAAATTTCAATCGAG
66 ATACGTAAATTTCAATCGAG
* *
21803825 GCATGTGTCCCAAACACGGTCTT
1 GCCTGTGTCCCAGACACGGTCTT
21803848 GCAAATGTCT
Statistics
Matches: 325, Mismatches: 38, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 325 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (85 bp):
GCCTGTGTCCCAGACACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTT
ATACGTAAATTTCAATCGAG
Found at i:21807018 original size:3 final size:3
Alignment explanation
Indices: 21807010--21807034 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21807000 CTTTTCCTTC
21807010 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
21807035 CAAAAGGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:21820845 original size:85 final size:85
Alignment explanation
Indices: 21820685--21820855 Score: 227
Period size: 85 Copynumber: 2.0 Consensus size: 85
21820675 TAGGATTCTC
* * * ** *
21820685 TTTCACCATAGGTAAGACAGTGTTAGAGATAAGGTCAGAATCCAATTTCGGGTGACCCTATGACA
1 TTTCACCATAGGTAAGACAATGTTAAAGATAAGGTCAGAACCCAATTTCGGACGACCCTATAACA
21820750 CACCTTCAACAACACAAGTA
66 CACCTTCAACAACACAAGTA
* * * *
21820770 TTTCACCATAGGTAAGATAATGTTAAAGATAAGGTTAGAACCCAATTTCGGACGATCCTGTAACA
1 TTTCACCATAGGTAAGACAATGTTAAAGATAAGGTCAGAACCCAATTTCGGACGACCCTATAACA
*
21820835 TA-CTTGCAACAACACAAGTA
66 CACCTT-CAACAACACAAGTA
21820855 T
1 T
21820856 GTGGAGCATC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 3 0.04
85 71 0.96
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (85 bp):
TTTCACCATAGGTAAGACAATGTTAAAGATAAGGTCAGAACCCAATTTCGGACGACCCTATAACA
CACCTTCAACAACACAAGTA
Found at i:21824921 original size:15 final size:16
Alignment explanation
Indices: 21824901--21824930 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21824891 TGCATATATA
21824901 TGAGTG-AATTTTATT
1 TGAGTGAAATTTTATT
21824916 TGAGTGAAATTTTAT
1 TGAGTGAAATTTTAT
21824931 GGTTCAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TGAGTGAAATTTTATT
Found at i:21825207 original size:5 final size:5
Alignment explanation
Indices: 21825197--21825226 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
21825187 ATAATTGTGA
21825197 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
21825227 GAAGAACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:21827075 original size:28 final size:27
Alignment explanation
Indices: 21827009--21827105 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
21826999 ATATTAAGTC
* *
21827009 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTACATAATCAACT
*
21827036 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
21827064 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
21827091 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21827106 GCACAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 39 0.62
28 24 0.38
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21831423 original size:26 final size:26
Alignment explanation
Indices: 21831387--21831446 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
21831377 ATTAGTCAAA
21831387 CATGAAAAGTTATTACCATAGGCTTG
1 CATGAAAAGTTATTACCATAGGCTTG
21831413 CATGAAAAGTTATTACCATAGGCTTG
1 CATGAAAAGTTATTACCATAGGCTTG
21831439 CATGAAAA
1 CATGAAAA
21831447 TCAAATCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (26 bp):
CATGAAAAGTTATTACCATAGGCTTG
Found at i:21834255 original size:3 final size:3
Alignment explanation
Indices: 21834247--21834283 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
21834237 AAAATAAGCC
* *
21834247 TAA TAA TAA TAC TAG TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
21834284 TGTAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:21835054 original size:102 final size:103
Alignment explanation
Indices: 21834878--21835092 Score: 335
Period size: 102 Copynumber: 2.1 Consensus size: 103
21834868 TACTTCACAT
* * * *
21834878 GCCCGTGTGT-TCGAACACACGGCTGTGTACCTTGCCTGTGTGGCTTCCTGACTTAATTAAAATT
1 GCCCGTGTGTCTCGAACACACAGCCGTGTACCTTGCCCGTGTGGCTTCCTGACTTAATTAAAAAT
* *
21834942 TGAAATTTAAGCTCTACTTTTCACGCGGCCTTGGACAC
66 TAAAATTTAAGCTCTACTTTTCACACGGCCTTGGACAC
* *
21834980 GCCCGTGTGTCT-GAACACACAGCCGTGTGCCTTGCCCGTGTGGCTTTCTGACTTAATTAAAAAT
1 GCCCGTGTGTCTCGAACACACAGCCGTGTACCTTGCCCGTGTGGCTTCCTGACTTAATTAAAAAT
*
21835044 TAAAATTTAAGCTCTAGTTTTCACACGGCCTTGGACAC
66 TAAAATTTAAGCTCTACTTTTCACACGGCCTTGGACAC
21835082 GCCCGTGTGTC
1 GCCCGTGTGTC
21835093 CAGGCAGTAT
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 102 0.99
103 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (103 bp):
GCCCGTGTGTCTCGAACACACAGCCGTGTACCTTGCCCGTGTGGCTTCCTGACTTAATTAAAAAT
TAAAATTTAAGCTCTACTTTTCACACGGCCTTGGACAC
Found at i:21838106 original size:46 final size:46
Alignment explanation
Indices: 21838056--21838417 Score: 295
Period size: 46 Copynumber: 7.8 Consensus size: 46
21838046 TGGTTGAGCA
21838056 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
* * *
21838102 TCCGAACTCGTTGAGTTGAGT-CAGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCA-AGTTCACTTATGGATGCGAA-T--G
*
21838147 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
* * *
21838195 TCCGAACTCGTTGAGTTGAGT-CAGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCA-AGTTCACTTATGGATGCGAA-T--G
*
21838240 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
* * *
21838288 TCCGAACTCGTTGAGTTGAGT-CAGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCA-AGTTCACTTATGGATGCGAA-T--G
* * *
21838333 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
* * * *
21838381 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGG
21838418 GCGGGTTACA
Statistics
Matches: 256, Mismatches: 27, Indels: 66
0.73 0.08 0.19
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
45 13 0.05
46 112 0.44
47 78 0.30
48 12 0.05
50 14 0.05
51 6 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
Found at i:21838169 original size:47 final size:47
Alignment explanation
Indices: 21838102--21838363 Score: 301
Period size: 47 Copynumber: 5.6 Consensus size: 47
21838092 GATGCGAATG
21838102 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
* * * *
21838149 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTC-GTGA--GATG-TAACTAGGCA
21838195 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
* * * *
21838242 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTC-GTGA--GATG-TAACTAGGCA
21838288 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
*
21838335 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTC
21838364 ACTTATGGAT
Statistics
Matches: 180, Mismatches: 17, Indels: 36
0.77 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.06
45 6 0.03
46 56 0.31
47 84 0.47
48 6 0.03
50 10 0.06
51 4 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
Found at i:21838212 original size:93 final size:93
Alignment explanation
Indices: 21838053--21838410 Score: 662
Period size: 93 Copynumber: 3.8 Consensus size: 93
21838043 GGATGGTTGA
*
21838053 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
21838118 TGAGTCAGAGTTCGTGAGATGTAACTAG
66 TGAGTCAGAGTTCGTGAGATGTAACTAG
21838146 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
21838211 TGAGTCAGAGTTCGTGAGATGTAACTAG
66 TGAGTCAGAGTTCGTGAGATGTAACTAG
21838239 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
21838304 TGAGTCAGAGTTCGTGAGATGTAACTAG
66 TGAGTCAGAGTTCGTGAGATGTAACTAG
* * * *
21838332 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
21838397 TGAGTCCGAGTTCG
66 TGAGTCAGAGTTCG
21838411 CTTATGGGCG
Statistics
Matches: 259, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 259 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCAGAGTTCGTGAGATGTAACTAG
Found at i:21844592 original size:48 final size:48
Alignment explanation
Indices: 21844521--21844617 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
21844511 TAAAGGGGGG
21844521 AGAGTTGTAATATCCCGAATTAGGGCCTAATCAGAATAGTGGTTTCGT
1 AGAGTTGTAATATCCCGAATTAGGGCCTAATCAGAATAGTGGTTTCGT
*
21844569 AGAGTTGTAATATCCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGT
1 AGAGTTGTAATATCCCGAATTAGGGCCTAATCAGAATAGTGGTTTCGT
21844617 A
1 A
21844618 ACCACAAATC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (48 bp):
AGAGTTGTAATATCCCGAATTAGGGCCTAATCAGAATAGTGGTTTCGT
Found at i:21845911 original size:46 final size:46
Alignment explanation
Indices: 21845861--21846222 Score: 352
Period size: 46 Copynumber: 7.8 Consensus size: 46
21845851 TGGTTGAGCA
21845861 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
21845907 TCCGAACTCGTTGAGTTGAGTCAGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
21845952 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
21846000 TCCGAACTCGTTGAGTTGAGTCAGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
21846045 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
21846093 TCCGAACTCGTTGAGTTGAGTCAGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
21846138 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21846186 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21846223 GCGGGTTACA
Statistics
Matches: 261, Mismatches: 28, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
45 9 0.03
46 118 0.45
47 84 0.32
48 9 0.03
50 14 0.05
51 6 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21845974 original size:47 final size:47
Alignment explanation
Indices: 21845907--21846168 Score: 301
Period size: 47 Copynumber: 5.6 Consensus size: 47
21845897 GATGCGAATG
21845907 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
* * * *
21845954 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTC-GTGA--GATG-TAACTAGGCA
21846000 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
* * * *
21846047 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTC-GTGA--GATG-TAACTAGGCA
21846093 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
*
21846140 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCAGAGTTC
21846169 ACTTATGGAT
Statistics
Matches: 180, Mismatches: 17, Indels: 36
0.77 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.06
45 6 0.03
46 56 0.31
47 84 0.47
48 6 0.03
50 10 0.06
51 4 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCAGAGTTCGTGAGATGTAACTAGGCA
Found at i:21846017 original size:93 final size:93
Alignment explanation
Indices: 21845858--21846215 Score: 671
Period size: 93 Copynumber: 3.8 Consensus size: 93
21845848 GGATGGTTGA
21845858 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
21845923 TGAGTCAGAGTTCGTGAGATGTAACTAG
66 TGAGTCAGAGTTCGTGAGATGTAACTAG
21845951 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
21846016 TGAGTCAGAGTTCGTGAGATGTAACTAG
66 TGAGTCAGAGTTCGTGAGATGTAACTAG
21846044 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
21846109 TGAGTCAGAGTTCGTGAGATGTAACTAG
66 TGAGTCAGAGTTCGTGAGATGTAACTAG
* * * *
21846137 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
21846202 TGAGTCCGAGTTCG
66 TGAGTCAGAGTTCG
21846216 CTTATGGGCG
Statistics
Matches: 260, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 260 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCAGAGTTCGTGAGATGTAACTAG
Found at i:21849865 original size:37 final size:37
Alignment explanation
Indices: 21849806--21849911 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
21849796 AGCTCAGACG
* * *
21849806 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
21849843 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
21849880 TAATCTCCACACGTAGTCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
21849912 AGAATATATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:21850199 original size:50 final size:50
Alignment explanation
Indices: 21850064--21850210 Score: 244
Period size: 50 Copynumber: 3.0 Consensus size: 50
21850054 CATCGCCTAC
* *
21850064 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
21850114 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
*
21850164 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
21850211 TCACCACATT
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 6 0.06
50 86 0.92
51 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:21850260 original size:47 final size:47
Alignment explanation
Indices: 21850169--21850360 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
21850159 TATATATATT
* * * *
21850169 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
21850214 CCACATTGGTCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
21850261 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
21850308 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
21850355 TCACAT
1 TCACAT
21850361 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
45 18 0.14
46 1 0.01
47 114 0.86
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:21850287 original size:22 final size:22
Alignment explanation
Indices: 21850260--21850335 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
21850250 GCTCACATTC
21850260 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
21850282 ATCACATATATG-CATGCTC-ACATTT
1 ATCACAT-T-GGCCAT--TCGGC-CTT
21850307 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
21850329 ATCACAT
1 ATCACAT
21850336 ATATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 18 0.44
23 6 0.15
24 6 0.15
25 11 0.27
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:21858686 original size:32 final size:32
Alignment explanation
Indices: 21858649--21858713 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
21858639 GACGGGATGT
*
21858649 AAATTTTATCCT-GAGATTCTCAAATTTTTAAA
1 AAATTTTAT-CTAGAAATTCTCAAATTTTTAAA
* *
21858681 AAATTTTATCTATAAATTCTCAACTTTTTAAA
1 AAATTTTATCTAGAAATTCTCAAATTTTTAAA
21858713 A
1 A
21858714 TTCAATCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 27 0.93
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (32 bp):
AAATTTTATCTAGAAATTCTCAAATTTTTAAA
Found at i:21858722 original size:30 final size:31
Alignment explanation
Indices: 21858664--21858722 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
21858654 TTATCCTGAG
**
21858664 ATTCTCAAATTTTTAAAAAATTTTATCTATAA
1 ATTCTCAAATTTTT-AAAAATTCAATCTATAA
*
21858696 ATTCTCAACTTTTT-AAAATTCAATCTA
1 ATTCTCAAATTTTTAAAAATTCAATCTA
21858723 ACCGTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.46
32 13 0.54
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (31 bp):
ATTCTCAAATTTTTAAAAATTCAATCTATAA
Found at i:21859639 original size:12 final size:12
Alignment explanation
Indices: 21859617--21859655 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
21859607 TATTAAAAAG
21859617 TGATAAAAATTAA
1 TGAT-AAAATTAA
*
21859630 TTATAAAATTAAA
1 TGATAAAATT-AA
21859643 TGATAAAATTAA
1 TGATAAAATTAA
21859655 T
1 T
21859656 ATGGTAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (12 bp):
TGATAAAATTAA
Found at i:21860224 original size:38 final size:33
Alignment explanation
Indices: 21860151--21860216 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
21860141 GTCAAGTGTG
21860151 ATTGTCTAGTTATTTCATTAATTACATTAAATT
1 ATTGTCTAGTTATTTCATTAATTACATTAAATT
* *
21860184 ATTGTCTAGTTATTTCGTTAGTTACATTAAATT
1 ATTGTCTAGTTATTTCATTAATTACATTAAATT
21860217 TTATTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (33 bp):
ATTGTCTAGTTATTTCATTAATTACATTAAATT
Found at i:21862321 original size:5 final size:5
Alignment explanation
Indices: 21862311--21862338 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
21862301 GAGACAAAAG
21862311 AGAGA AGAGA AGAGA AGAGA AGAGA AGA
1 AGAGA AGAGA AGAGA AGAGA AGAGA AGA
21862339 TTTTGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
AGAGA
Found at i:21866395 original size:45 final size:45
Alignment explanation
Indices: 21866307--21866495 Score: 233
Period size: 45 Copynumber: 4.2 Consensus size: 45
21866297 CCAGCATTTC
* * * *
21866307 GCCTGCTAGGCTC-GAGGCCCG-ATA-TCATTTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATCATA
* * *
21866350 GCCTACTAGGCTCGAAA-GCCAGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCGGCATCATA
* *
21866395 GCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCAGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
* *
21866440 GCTTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
21866485 GCCTGCTAGGC
1 GCCTGCTAGGC
21866496 CTGAAGCCTG
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
43 12 0.10
44 7 0.06
45 106 0.84
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
Found at i:21866452 original size:90 final size:88
Alignment explanation
Indices: 21866294--21866512 Score: 239
Period size: 90 Copynumber: 2.5 Consensus size: 88
21866284 TTTTCTCTAA
* * * * ** *
21866294 TCACCAGCATT-TCGCCTGCTAGGCTCGAGGCCCGATATCATTTCACTGGCATTATAGCCTACTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGATATCATCTCACCAGCATCATAGCCTACTA
21866358 GGCTCGAAA-GCCAGAATAGTATC
66 GGCTC-AAAGGCCAGAATAGTATC
* *
21866381 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATCTCACCAGCATCATAGCTTG
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCG-AT-ATCATCTCACCAGCATCATAGCCTA
* *
21866445 CTAGGCTCAAAGGCCCGAATAGTATT
63 CTAGGCTCAAAGGCCAGAATAGTATC
* * *
21866471 TCACCGGCATCATAGCCTGCTAGGCCTGAA-GCCTGATATCAT
1 TCACCGGCATTATAGCCTGCTAGG-CTCAAGGCCCGATATCAT
21866513 TTTTCGATAA
Statistics
Matches: 111, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
87 12 0.11
88 18 0.16
89 14 0.13
90 63 0.57
91 4 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (88 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGATATCATCTCACCAGCATCATAGCCTACTA
GGCTCAAAGGCCAGAATAGTATC
Found at i:21870491 original size:93 final size:93
Alignment explanation
Indices: 21870332--21870502 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
21870322 GGATGGTTGA
* * *
21870332 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGGATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
21870397 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
21870425 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGTCC-GAACTCGTTGAG
21870489 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
21870503 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21870505 original size:46 final size:45
Alignment explanation
Indices: 21870336--21870507 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 45
21870326 GGTTGAGCAT
* * *
21870336 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGGATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
21870381 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
21870426 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
21870474 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
21870508 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
45 4 0.04
46 57 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:21880383 original size:52 final size:51
Alignment explanation
Indices: 21880263--21880441 Score: 222
Period size: 51 Copynumber: 3.5 Consensus size: 51
21880253 ACTAGTGACT
* *
21880263 CAAGTGTGGTACTATGTGAAGGCCGCTTTGAGAAG-AGATAGC-TTGATCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGATCA
*
21880312 CAAATGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGATCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGATCA
* * * * *
21880364 CAAGTGTTGTACTATGTGAAGGCCAATTTATGAAGAAGGTAGATTTGA-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGATC-A
*
21880415 CAAG-GCTGGTACTATGTGCAGGCCACT
1 CAAGTG-TGGTACTATGTGAAGGCCACT
21880442 GGGTATCCGT
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
49 32 0.28
50 2 0.02
51 41 0.36
52 38 0.34
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGATCA
Found at i:21880432 original size:51 final size:52
Alignment explanation
Indices: 21880263--21880439 Score: 188
Period size: 52 Copynumber: 3.5 Consensus size: 52
21880253 ACTAGTGACT
** *
21880263 CAAGTGTGGTACTATGTGAAGGCC-GCTT-TG-AGAAGAGATAG-CTTGATCA
1 CAAGTGTGGTACTATGTGAAGGCCAATTTATGAAGAA-AGATAGATTTGATCA
* * * *
21880312 CAAATGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGATCA
1 CAAGTGTGGTACTATGTGAAGGCCAATTTATGAAGAAAGATAGATTTGATCA
* *
21880364 CAAGTGTTGTACTATGTGAAGGCCAATTTATGAAG-AAGGTAGATTTGA-CTA
1 CAAGTGTGGTACTATGTGAAGGCCAATTTATGAAGAAAGATAGATTTGATC-A
*
21880415 CAAG-GCTGGTACTATGTGCAGGCCA
1 CAAGTG-TGGTACTATGTGAAGGCCA
21880440 CTGGGTATCC
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
49 23 0.21
50 4 0.04
51 41 0.37
52 42 0.38
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCAATTTATGAAGAAAGATAGATTTGATCA
Found at i:21883931 original size:51 final size:50
Alignment explanation
Indices: 21883876--21883974 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
21883866 CTACCACATA
* *
21883876 ACATGTAA-CACATCCATAATGAACTCGGACCTCTCAACGAGCTTGGATGTT
1 ACATG-AATCACATCC-TAATGAACTCAGACCTCTCAACAAGCTTGGATGTT
* * *
21883927 ACATGAATCGCATCCTTATGAACTCAGACCTGTCAACAAGCTTGGATG
1 ACATGAATCACATCCTAATGAACTCAGACCTCTCAACAAGCTTGGATG
21883975 CTGGCATCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 31 0.74
51 11 0.26
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (50 bp):
ACATGAATCACATCCTAATGAACTCAGACCTCTCAACAAGCTTGGATGTT
Found at i:21885583 original size:44 final size:43
Alignment explanation
Indices: 21885503--21885605 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 43
21885493 ATGACTGAAT
* *
21885503 AAATGACACTAAGTGTGCGATATAGATATAAATTCGGTTTAATG
1 AAATGGCACTAAGTGTGCGATATAGATATAAATTCGG-CTAATG
* ** *
21885547 AAATGGCACTAAGTGTGCGATATTA-TTATAGCTTCGGCTAATT
1 AAATGGCACTAAGTGTGCGATA-TAGATATAAATTCGGCTAATG
*
21885590 AATTGGCACTAAGTGT
1 AAATGGCACTAAGTGT
21885606 ACGAGTTCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 19 0.37
44 30 0.59
45 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (43 bp):
AAATGGCACTAAGTGTGCGATATAGATATAAATTCGGCTAATG
Found at i:21891521 original size:20 final size:21
Alignment explanation
Indices: 21891496--21891535 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21891486 CACTTGAAGC
21891496 AAGGC-ACACGCCCGTGTGGA
1 AAGGCAACACGCCCGTGTGGA
*
21891516 AAGGCAACACGCTCGTGTGG
1 AAGGCAACACGCCCGTGTGG
21891536 CCACTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AAGGCAACACGCCCGTGTGGA
Found at i:21895602 original size:47 final size:47
Alignment explanation
Indices: 21895548--21896615 Score: 1839
Period size: 47 Copynumber: 22.6 Consensus size: 47
21895538 GTATATTTGA
*
21895548 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
* * * *
21895595 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
* * * * *
21895642 ATGAATGTGAAAGTGTATATATATGTGATAAAGCCAAATGGCCAATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATATG
* * *
21895691 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATATG
21895740 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
* * * *
21895787 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21895834 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21895881 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21895928 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21895975 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21896022 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21896069 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21896116 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21896163 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21896210 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21896257 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21896304 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21896351 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21896398 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
21896445 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
* *
21896492 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
* * * * * * **
21896539 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
* *
21896586 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
21896616 TCCCGAAGGG
Statistics
Matches: 989, Mismatches: 30, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
47 897 0.91
49 92 0.09
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
Found at i:21895716 original size:27 final size:27
Alignment explanation
Indices: 21895637--21895719 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 27
21895627 CGAATGGCCA
21895637 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
* ** ***
21895664 ATGTGAT-AAAGCCAAA-TG--GCCA-
1 ATGTGATGAATGTGAAAGTGTATATAT
21895686 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
21895713 ATGTGAT
1 ATGTGAT
21895720 AAGGCCTAAT
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
22 7 0.18
23 7 0.18
24 2 0.05
25 2 0.05
26 7 0.18
27 14 0.36
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:21897687 original size:48 final size:46
Alignment explanation
Indices: 21897616--21897830 Score: 207
Period size: 46 Copynumber: 4.6 Consensus size: 46
21897606 TTACAGACGC
* * * *
21897616 CATGTCCTAGATAGGTCTTACACTAGCTTGTCTATCGCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGC-T-TCTATCTCGAGGCTGATG
* * * * * **
21897664 CATGTCCCAGACATGTCTTACACTAGCTCCTGTCTCAATGTTTTTG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTATCTCGAGGCTGATG
* * **
21897710 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT--CTATCTCGAGGCTGATG
* * *
21897758 CATGTCCCAGACATGTCTTACACTAGC-TCTCATCTTGTGGGTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCT-ATCTCGAGGCTGATG
*
21897804 CATGTCCGAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
21897831 ACACAATCAC
Statistics
Matches: 135, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
45 1 0.01
46 73 0.54
47 2 0.01
48 59 0.44
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCTATCTCGAGGCTGATG
Found at i:21897777 original size:94 final size:94
Alignment explanation
Indices: 21897616--21897786 Score: 270
Period size: 94 Copynumber: 1.8 Consensus size: 94
21897606 TTACAGACGC
* *** **
21897616 CATGTCCTAGATAGGTCTTACACTAGCTTGTCTATCGCGAGGCTGATGCATGTCCCAGACATGTC
1 CATGTCCTAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
21897681 TTACACTAGCTCCTGTCTCAATGTTTTTG
66 TTACACTAGCTCCTGTCTCAATGTTTTTG
* *
21897710 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCAATGCATGTCCCAGACATGTC
1 CATGTCCTAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
21897775 TTACACTAGCTC
66 TTACACTAGCTC
21897787 TCATCTTGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (94 bp):
CATGTCCTAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTCCTGTCTCAATGTTTTTG
Found at i:21897806 original size:94 final size:94
Alignment explanation
Indices: 21897616--21897830 Score: 263
Period size: 94 Copynumber: 2.3 Consensus size: 94
21897606 TTACAGACGC
* * *** **
21897616 CATGTCCTAGATAGGTCTTACACTAGCTTGTCTATCGCGAGGCTGATGCATGTCCCAGACATGTC
1 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
* * **
21897681 TTACACTAGCTCCTGTCTCAATGTTTTTG
66 TTACACTAGCTCCTATCTCAATGGTGATG
*
21897710 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCAATGCATGTCCCAGACATGTC
1 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
**
21897775 TTACACTAGCT-CTCATCT-TGTGGGTGATG
66 TTACACTAGCTCCT-ATCTCAAT-GGTGATG
*
21897804 CATGTCCGAGACATGTCTTACACTAGC
1 CATGTCCTAGACATGTCTTACACTAGC
21897831 ACACAATCAC
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
93 3 0.03
94 101 0.97
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (94 bp):
CATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTCCTATCTCAATGGTGATG
Found at i:21898880 original size:25 final size:25
Alignment explanation
Indices: 21898846--21898903 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
21898836 AAAATAGGAC
*
21898846 TTTTTCACTTTATTCGATTTAGTCA
1 TTTTTCACTTTATGCGATTTAGTCA
*
21898871 TTTTTCACTTTATGCGATTTAGTCC
1 TTTTTCACTTTATGCGATTTAGTCA
21898896 TTTTTCAC
1 TTTTTCAC
21898904 AATTAAGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (25 bp):
TTTTTCACTTTATGCGATTTAGTCA
Found at i:21905987 original size:37 final size:37
Alignment explanation
Indices: 21905937--21906009 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
21905927 GAAATGGGAA
* *
21905937 AGAGTTACCATGGACTTTGTAACGGGATTACCTTTAT
1 AGAGTTACCATGGACATTGTAAAGGGATTACCTTTAT
21905974 AGAGTTACCATGGACATTGTAAAGGGATTACCTTTA
1 AGAGTTACCATGGACATTGTAAAGGGATTACCTTTA
21906010 CCATTGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (37 bp):
AGAGTTACCATGGACATTGTAAAGGGATTACCTTTAT
Found at i:21907830 original size:46 final size:46
Alignment explanation
Indices: 21907763--21907975 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 46
21907753 TGATATGTGT
21907763 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
* *
21907809 GCCAGTGTAAGACATATCTGGGACATGCATCGGTCACATTATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
* * *
21907855 GCCACTGTAAGACATGTTTGGGACATGCATCAG---CATTA-AGACGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATA-A-GA
** * *
21907899 GGGTTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGA-TATACA-A
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC---ACATTATA-AGA
* *
21907949 GCTAGTGTAAGACTTGTCTGGGACATG
1 GCCAGTGTAAGACATGTCTGGGACATG
21907976 GCGTCAGCTT
Statistics
Matches: 140, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 2 0.01
46 100 0.71
48 25 0.18
50 1 0.01
51 2 0.01
52 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
Found at i:21908064 original size:49 final size:49
Alignment explanation
Indices: 21907998--21908166 Score: 155
Period size: 49 Copynumber: 3.5 Consensus size: 49
21907988 TGTGTGTCAG
*
21907998 TGTAAGACCTATT-TGGGACATGGCATCGACATCGATAGATGAGAGCCAA
1 TGTAAGACCT-TTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAA
* * * * * ** *
21908047 TGTAAGACCTTTCTGGGACACGACATCGGCCTCGATATATGAAAGTTAG
1 TGTAAGACCTTTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAA
* * * * **
21908096 TGTAAGACCTATCTAGGACATGGCATCGACTTTGAT-G-TGCTAGCCAA
1 TGTAAGACCTTTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAA
*
21908143 TGTAAGACCATGTCTGGGACATGG
1 TGTAAGACC-TTTCTGGGACATGG
21908167 TGTCGGCATC
Statistics
Matches: 94, Mismatches: 24, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
47 14 0.15
48 14 0.15
49 66 0.70
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (49 bp):
TGTAAGACCTTTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAA
Found at i:21916203 original size:27 final size:27
Alignment explanation
Indices: 21916155--21916313 Score: 168
Period size: 27 Copynumber: 5.9 Consensus size: 27
21916145 GCGAGGCTGC
* *
21916155 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
21916182 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
21916208 CAGATATATGTGGCAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
21916235 CAGATAATTGTGGCATAGCCACC--ATGA
1 CAGAT-ATTGTGGCAGAGCCACCAGAT-A
*
21916262 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
21916289 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
21916314 GATGCTTCCT
Statistics
Matches: 115, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
25 2 0.02
26 10 0.09
27 96 0.83
28 5 0.04
29 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:21916248 original size:54 final size:53
Alignment explanation
Indices: 21916155--21916313 Score: 223
Period size: 54 Copynumber: 3.0 Consensus size: 53
21916145 GCGAGGCTGC
* * * *
21916155 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAG-A
* *
21916208 CAGATATATGTGGCAGAGCCATCAGATCAGATAATTGTGGCATAGCCACCATGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCA-GA
21916262 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
21916314 GATGCTTCCT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
53 13 0.14
54 81 0.85
55 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (53 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGA
Found at i:21918822 original size:45 final size:46
Alignment explanation
Indices: 21918742--21919096 Score: 235
Period size: 49 Copynumber: 7.5 Consensus size: 46
21918732 TATGTGTGCT
*
21918742 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCC
21918788 AGTGTAAGACATGTCT-GGACATGCATCGGCCACATTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCC
* * * **
21918833 AGTGTAAAACATGTTTGGGACATACATCGG---CATTAATACGAGAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATA--AGAGCC
* *
21918879 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGA-TATACA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC---ACATTATA-AGAGCC
* * * * * *
21918927 AGTGTAATACCTATCTGGGACATGGCATC-GACACCGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-C-AT-TATAAGAGCC
* * * * * *
21918976 AGTGTAAGACCTTTCTGGGACACGACATCGGCCTCGATATATAAAAGTC
1 AGTGTAAGACATGTCTGGGACATG-CATCGGCCAC-AT-TATAAGAGCC
* * * * **
21919025 AGTGTAAGACCTATCTTGGACATGGCATC-G--ACTTTGATGTGCTAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATT-ATAAG--AGCC
21919072 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
21919097 GCGTCGGCAT
Statistics
Matches: 245, Mismatches: 41, Indels: 45
0.74 0.12 0.14
Matches are distributed among these distances:
43 4 0.02
44 4 0.02
45 46 0.19
46 60 0.24
47 14 0.06
48 39 0.16
49 70 0.29
50 6 0.02
51 1 0.00
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCC
Done.