Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 261 of 325
Found at i:81485397 original size:127 final size:129
Alignment explanation
Indices: 81485205--81485567 Score: 482
Period size: 127 Copynumber: 2.8 Consensus size: 129
81485195 GTAAAAAAAT
* * ** *
81485205 GCCGTTATAGAACATGACCTTTAGCGGCACTTTTTTTACAAACGCCATTATAGAACATGACCTTT
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTGCTACAAACGCCACTATAGAACATGACCTTT
* * * * *
81485270 AGCGGTTCTTTTTTTACAAACGCCGCTATAGAAAATGACCTTTAGCGGCACTTTTTCCACAAAC
66 AGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTTCCACAAAC
* * * *
81485334 GCCGCTATAGAACATGACCTTTAGCGG-GC-TTTGCCACAAACGCCGCTAAAGAACATGATCTTT
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTGCTACAAACGCCACTATAGAACATGACCTTT
** ** *
81485397 AGTTGTGCTTTTCCCACAAACGTCGCTAAAGAACATGACCTTTAGCGGCACTTTTTCCACAAAC
66 AGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTTCCACAAAC
* * *
81485461 GCCGCTATAGAACA-GACCTTTAGTGGCGCTTTTGCTACAAACACCACTATAGAGCA-GACCTTT
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTGCTACAAACGCCACTATAGAACATGACCTTT
* *
81485524 AACGGTGCTTTTATCACAAACGCCGCTAAAGAACCTGACCTTTA
66 AGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTA
81485568 AAAAAATATT
Statistics
Matches: 200, Mismatches: 32, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
126 11 0.05
127 141 0.70
128 22 0.11
129 26 0.13
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (129 bp):
GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTGCTACAAACGCCACTATAGAACATGACCTTT
AGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTTCCACAAAC
Found at i:81485416 original size:84 final size:86
Alignment explanation
Indices: 81485213--81485567 Score: 387
Period size: 84 Copynumber: 4.2 Consensus size: 86
81485203 ATGCCGTTAT
* * *** * *
81485213 AGAACATGACCTTTAGCGGCACTTTTTTTACAAACGCCATTATAGAACATGACCTTTAGCGGTTC
1 AGAACATGACCTTTAGTGGCGCTTTTCCCACAAACGCCACTATAGAACATGACCTTTAGCGGTGC
** *
81485278 TTTTTTTACAAACGCCGCTAT
66 TTTTTCCACAAACGCCGCTAA
* * * * *
81485299 AGAAAATGACCTTTAGCGGCACTTTTTCCACAAACGCCGCTATAGAACATGACCTTTAGCGG-GC
1 AGAACATGACCTTTAGTGGCGCTTTTCCCACAAACGCCACTATAGAACATGACCTTTAGCGGTGC
*
81485363 -TTTGCCACAAACGCCGCTAA
66 TTTTTCCACAAACGCCGCTAA
* * * * * * **
81485383 AGAACATGATCTTTAGTTGTGCTTTTCCCACAAACGTCGCTAAAGAACATGACCTTTAGCGGCAC
1 AGAACATGACCTTTAGTGGCGCTTTTCCCACAAACGCCACTATAGAACATGACCTTTAGCGGTGC
*
81485448 TTTTTCCACAAACGCCGCTAT
66 TTTTTCCACAAACGCCGCTAA
* * * * *
81485469 AGAACA-GACCTTTAGTGGCGCTTTTGCTACAAACACCACTATAGAGCA-GACCTTTAACGGTGC
1 AGAACATGACCTTTAGTGGCGCTTTTCCCACAAACGCCACTATAGAACATGACCTTTAGCGGTGC
81485532 TTTTAT-CACAAACGCCGCTAA
66 TTTT-TCCACAAACGCCGCTAA
*
81485553 AGAACCTGACCTTTA
1 AGAACATGACCTTTA
81485568 AAAAAATATT
Statistics
Matches: 228, Mismatches: 37, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
84 104 0.46
85 43 0.19
86 81 0.36
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (86 bp):
AGAACATGACCTTTAGTGGCGCTTTTCCCACAAACGCCACTATAGAACATGACCTTTAGCGGTGC
TTTTTCCACAAACGCCGCTAA
Found at i:81487533 original size:10 final size:10
Alignment explanation
Indices: 81487518--81487542 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
81487508 TATTCTAAAG
81487518 ATGAACAACC
1 ATGAACAACC
81487528 ATGAACAACC
1 ATGAACAACC
81487538 ATGAA
1 ATGAA
81487543 ATTATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (10 bp):
ATGAACAACC
Found at i:81488390 original size:40 final size:41
Alignment explanation
Indices: 81488338--81488423 Score: 165
Period size: 40 Copynumber: 2.1 Consensus size: 41
81488328 TTCGGGGGGA
81488338 AAAAAGAGTAAAGAGAAAAGGTTGGGGAAAAAAAGCAG-GG
1 AAAAAGAGTAAAGAGAAAAGGTTGGGGAAAAAAAGCAGAGG
81488378 AAAAAGAGTAAAGAGAAAAGGTTGGGGAAAAAAAGCAGAGG
1 AAAAAGAGTAAAGAGAAAAGGTTGGGGAAAAAAAGCAGAGG
81488419 AAAAA
1 AAAAA
81488424 AGGTTGGGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 38 0.84
41 7 0.16
ACGTcount: A:0.58, C:0.02, G:0.33, T:0.07
Consensus pattern (41 bp):
AAAAAGAGTAAAGAGAAAAGGTTGGGGAAAAAAAGCAGAGG
Found at i:81489713 original size:7 final size:7
Alignment explanation
Indices: 81489697--81489864 Score: 56
Period size: 7 Copynumber: 23.9 Consensus size: 7
81489687 ACTAATTTAT
81489697 CTAAACC
1 CTAAACC
*
81489704 CTAAATC
1 CTAAACC
81489711 CT-AACC
1 CTAAACC
*
81489717 CTTAATCC
1 C-TAAACC
*
81489725 TTAAACC
1 CTAAACC
**
81489732 CTAAATA
1 CTAAACC
* *
81489739 ATAAAAC
1 CTAAACC
* *
81489746 ATAACCC
1 CTAAACC
*
81489753 CTAACCC
1 CTAAACC
*
81489760 CTAACCC
1 CTAAACC
*
81489767 CTAACCC
1 CTAAACC
*
81489774 CTAACCC
1 CTAAACC
81489781 CT-AACC
1 CTAAACC
81489787 CTTAAACC
1 C-TAAACC
* *
81489795 ATAATCC
1 CTAAACC
* *
81489802 ATAATCC
1 CTAAACC
*
81489809 ATAAACC
1 CTAAACC
*
81489816 TTAAA--
1 CTAAACC
*
81489821 ATAATAACTC
1 CT-A-AAC-C
81489831 CTAAACC
1 CTAAACC
* *
81489838 TTAAACA
1 CTAAACC
81489845 CTAAACC
1 CTAAACC
*
81489852 ATAAACC
1 CTAAACC
81489859 CTAAAC
1 CTAAAC
81489865 TATAATGATA
Statistics
Matches: 125, Mismatches: 27, Indels: 18
0.74 0.16 0.11
Matches are distributed among these distances:
5 1 0.01
6 9 0.07
7 103 0.82
8 10 0.08
9 1 0.01
10 1 0.01
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:81489718 original size:13 final size:15
Alignment explanation
Indices: 81489698--81489737 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
81489688 CTAATTTATC
81489698 TAAACCCTAAATCC-
1 TAAACCCTAAATCCT
*
81489712 T-AACCCTTAATCCT
1 TAAACCCTAAATCCT
81489726 TAAACCCTAAAT
1 TAAACCCTAAAT
81489738 AATAAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 11 0.50
14 2 0.09
15 9 0.41
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAACCCTAAATCCT
Found at i:81489766 original size:14 final size:14
Alignment explanation
Indices: 81489747--81489787 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
81489737 TAATAAAACA
81489747 TAACCCCTAACCCC
1 TAACCCCTAACCCC
81489761 TAACCCCTAACCCC
1 TAACCCCTAACCCC
81489775 TAACCCCTAACCC
1 TAACCCCTAACCC
81489788 TTAAACCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.29, C:0.56, G:0.00, T:0.15
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:81489771 original size:21 final size:21
Alignment explanation
Indices: 81489747--81489787 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
81489737 TAATAAAACA
81489747 TAACCCCTAACCCCTAACCCC
1 TAACCCCTAACCCCTAACCCC
81489768 TAACCCCTAACCCCTAACCC
1 TAACCCCTAACCCCTAACCC
81489788 TTAAACCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.56, G:0.00, T:0.15
Consensus pattern (21 bp):
TAACCCCTAACCCCTAACCCC
Found at i:81489850 original size:14 final size:14
Alignment explanation
Indices: 81489831--81489869 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
81489821 ATAATAACTC
*
81489831 CTAAACCTTAAACA
1 CTAAACCATAAACA
*
81489845 CTAAACCATAAACC
1 CTAAACCATAAACA
*
81489859 CTAAACTATAA
1 CTAAACCATAA
81489870 TGATAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACA
Found at i:81490331 original size:40 final size:40
Alignment explanation
Indices: 81490276--81490425 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
81490266 TAAATTTTTT
81490276 GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
* *
81490316 GCGGCGTTTTTCAAAAAGTGCTGA-TAATGC-CTGATCTATA
1 GCGGCGTTTTTCAAAAAGCGC-CACTAATGCTC-GATCTATA
* * * * **
81490356 GCAGCGTTTTTCAAAACA-TGCCGCTAATGTTAAATCTATA
1 GCGGCGTTTTTCAAAA-AGCGCCACTAATGCTCGATCTATA
* * * *
81490396 GTGGCGATTTTCAAAAAGCACCGCTAATGC
1 GCGGCGTTTTTCAAAAAGCGCCACTAATGC
81490426 CACTAAAGCT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 2 0.02
40 86 0.96
41 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
Found at i:81490550 original size:40 final size:40
Alignment explanation
Indices: 81490506--81490625 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 40
81490496 GGTCGACCTT
* *
81490506 AAAAAACGCCGCTAATGCTAGATCTATAGCGTCGTTTTTC
1 AAAAAGCGCCGCTAATGCTCGATCTATAGCGTCGTTTTTC
* * * * *
81490546 AAAAAGCGCAGTTAATTCTCGATCTATAGTGACGTTTTTC
1 AAAAAGCGCCGCTAATGCTCGATCTATAGCGTCGTTTTTC
* * *
81490586 AAAAAGCGTCACTAATGCTCGATCTATAGCGGTCTTTTTT
1 AAAAAGCGCCGCTAATGCTCGATCTATAGC-GTCGTTTTT
81490626 ATCCAAATGC
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
40 57 0.89
41 7 0.11
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (40 bp):
AAAAAGCGCCGCTAATGCTCGATCTATAGCGTCGTTTTTC
Found at i:81496919 original size:21 final size:20
Alignment explanation
Indices: 81496886--81496929 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
81496876 GAGCAAAACC
81496886 ACTATCTGTCAACTCTTGCA
1 ACTATCTGTCAACTCTTGCA
* *
81496906 ACTATGCTTTCAACTCTTTCA
1 ACTAT-CTGTCAACTCTTGCA
81496927 ACT
1 ACT
81496930 CTGTAGGTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.25, C:0.30, G:0.07, T:0.39
Consensus pattern (20 bp):
ACTATCTGTCAACTCTTGCA
Found at i:81509823 original size:18 final size:18
Alignment explanation
Indices: 81509802--81509856 Score: 110
Period size: 18 Copynumber: 3.1 Consensus size: 18
81509792 GAGTTAACAA
81509802 GTAGTAATTTCTTAATTT
1 GTAGTAATTTCTTAATTT
81509820 GTAGTAATTTCTTAATTT
1 GTAGTAATTTCTTAATTT
81509838 GTAGTAATTTCTTAATTT
1 GTAGTAATTTCTTAATTT
81509856 G
1 G
81509857 AACTCCATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (18 bp):
GTAGTAATTTCTTAATTT
Found at i:81511613 original size:7 final size:7
Alignment explanation
Indices: 81511603--81511646 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
81511593 TTTATCCTTA
*
81511603 AAAGTAT
1 AAAGTTT
81511610 AAAGTTT
1 AAAGTTT
81511617 AAAGTTT
1 AAAGTTT
*
81511624 AAAGTTC
1 AAAGTTT
81511631 AAA-TTT
1 AAAGTTT
*
81511637 AAAATTT
1 AAAGTTT
81511644 AAA
1 AAA
81511647 AAATAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (7 bp):
AAAGTTT
Found at i:81511769 original size:43 final size:43
Alignment explanation
Indices: 81511708--81511902 Score: 239
Period size: 43 Copynumber: 4.5 Consensus size: 43
81511698 ATATATATTT
** * * * *
81511708 TAAAGGTTATATTCTTTAGCAGCGTTTGCGGGAAAAGTGCC-T
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* ** *
81511750 TAAAAGGTTATGGTTTTTAGCGGCGTTTGTGAAAAAAACGCCGC
1 T-AAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
81511794 TAAAGGTTGTGGTCTTTAGCGGCGTTTTTGGGAAAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
*
81511837 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
81511880 TAAAAGTCATGGTCTTTAGCGGC
1 TAAAGGTTATGGTCTTTAGCGGC
81511903 TATAATGGCG
Statistics
Matches: 131, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 1 0.01
43 129 0.98
44 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
TAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:81517495 original size:38 final size:37
Alignment explanation
Indices: 81517235--81517511 Score: 255
Period size: 37 Copynumber: 7.5 Consensus size: 37
81517225 TACCCTTAGA
*
81517235 AAGGCAACC-TTAAAAAGGTTGGGATAGACC--AGTCT
1 AAGGCAACCTTTAAAAAAGTTGGGATAGACCTTA-TCT
** *
81517270 AAGATAACCTTTTTAAAAATGTTGGGATAGACCTTATCT
1 AAGGCAACC--TTTAAAAAAGTTGGGATAGACCTTATCT
* * *
81517309 AAGGCAACATTTAAAAAAGTTGAGATAGACCTTGTCT
1 AAGGCAACCTTTAAAAAAGTTGGGATAGACCTTATCT
* * * * *
81517346 AAGGAAACCTTTAAAAAAGATTGGGATATA-ATTGTTT
1 AAGGCAACCTTTAAAAAAG-TTGGGATAGACCTTATCT
* * * *
81517383 AAGGCAACC-TT-AAATAGATTGGTATAGACCTTGTTT
1 AAGGCAACCTTTAAAAAAG-TTGGGATAGACCTTATCT
81517419 AAGGCAACCTTTAAAAAAGGTTGGGATAGACC--AGTCT
1 AAGGCAACCTTTAAAAAA-GTTGGGATAGACCTTA-TCT
* *
81517456 AAGGTAACCTTTTAAAAAAGTTGGGATAGACTTTATCT
1 AAGGCAACC-TTTAAAAAAGTTGGGATAGACCTTATCT
*
81517494 AAGGCAACGTTTAAAAAA
1 AAGGCAACCTTTAAAAAA
81517512 TAAGGTAACC
Statistics
Matches: 200, Mismatches: 28, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
35 21 0.10
36 17 0.09
37 88 0.44
38 62 0.31
39 11 0.05
40 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (37 bp):
AAGGCAACCTTTAAAAAAGTTGGGATAGACCTTATCT
Found at i:81517524 original size:57 final size:57
Alignment explanation
Indices: 81517455--81517569 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
81517445 TAGACCAGTC
81517455 TAAGGTAACCTTTTAAAAAAGTTGGGATAGACTTTATCTAAGGCAACGTTTAAAAAA
1 TAAGGTAACCTTTTAAAAAAGTTGGGATAGACTTTATCTAAGGCAACGTTTAAAAAA
81517512 TAAGGTAACCTTTTAAAAAAGTTGGGATAGACTTTATCTAAGGCAACGTTTAAAAAA
1 TAAGGTAACCTTTTAAAAAAGTTGGGATAGACTTTATCTAAGGCAACGTTTAAAAAA
81517569 T
1 T
81517570 GTTAGGATAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (57 bp):
TAAGGTAACCTTTTAAAAAAGTTGGGATAGACTTTATCTAAGGCAACGTTTAAAAAA
Found at i:81517529 original size:19 final size:19
Alignment explanation
Indices: 81517493--81517531 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
81517483 AGACTTTATC
*
81517493 TAAGGCAACGTTTAAAAAA
1 TAAGGCAACCTTTAAAAAA
*
81517512 TAAGGTAACCTTTTAAAAAA
1 TAAGGCAACC-TTTAAAAAA
81517532 GTTGGGATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (19 bp):
TAAGGCAACCTTTAAAAAA
Found at i:81517568 original size:38 final size:37
Alignment explanation
Indices: 81517512--81517858 Score: 300
Period size: 37 Copynumber: 9.5 Consensus size: 37
81517502 GTTTAAAAAA
*
81517512 TAAGGTAACCTTTTAAAAAA-GTTGGGATAGACTTTATC
1 TAAGGCAACC-TTTAAAAAAGGTTGGGATAGAC-TTATC
* * * *
81517550 TAAGGCAACGTTTAAAAAATGTTAGGATAGGCTTATC
1 TAAGGCAACCTTTAAAAAAGGTTGGGATAGACTTATC
* * * *
81517587 TAAGGCAACCTTTTAAAAATGTTGGAATAGAC-CAGTC
1 TAAGGCAACCTTTAAAAAAGGTTGGGATAGACTTA-TC
* * *
81517624 TAAGGCAACCTTTTAAAAACGTTGGGATAGACTTTGTC
1 TAAGGCAACCTTTAAAAAAGGTTGGGATAGAC-TTATC
* *
81517662 TAAGGCAACCTTCAAAAAAGGTTGGGATAGACTTGTC
1 TAAGGCAACCTTTAAAAAAGGTTGGGATAGACTTATC
*
81517699 TAAAGCAACC-TT-AAAAAGGTTGGGATAGA-TTCATC
1 TAAGGCAACCTTTAAAAAAGGTTGGGATAGACTT-ATC
* * * *
81517734 TAAGGTAACC-TT-AAAAATGTTGGGATAAACCTTGTC
1 TAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CTTATC
* * * **
81517770 TAAGGCAACTTTTAAAAAAGGTTGGGATTGACCTGCC
1 TAAGGCAACCTTTAAAAAAGGTTGGGATAGACTTATC
* * * *
81517807 TAAGACAACC-TT-AAAAATGTTGTGATAGACTTATT
1 TAAGGCAACCTTTAAAAAAGGTTGGGATAGACTTATC
**
81517842 TAAAACAACC-TTAAAAA
1 TAAGGCAACCTTTAAAAA
81517859 CGTTGAGATA
Statistics
Matches: 257, Mismatches: 42, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
34 2 0.01
35 71 0.28
36 18 0.07
37 103 0.40
38 63 0.25
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (37 bp):
TAAGGCAACCTTTAAAAAAGGTTGGGATAGACTTATC
Found at i:81517586 original size:94 final size:94
Alignment explanation
Indices: 81517418--81517606 Score: 242
Period size: 94 Copynumber: 2.0 Consensus size: 94
81517408 AGACCTTGTT
* * *
81517418 TAAGGCAACCTTTAAAAAAGGTTGGGATAGACCAGTCTAAGGTAACCTTTTAAAAAAGTTGGGAT
1 TAAGGCAACCTTTAAAAAAGGTTGGGATAGACCAGTCTAAGGCAACCGTTTAAAAAAGTTAGGAT
*
81517483 AGACTTTATCTAAGGCAACGTTTAAAAAA
66 AGACTTTATCTAAGGCAACCTTTAAAAAA
* *
81517512 TAAGGTAACCTTTTAAAAAA-GTTGGGATAGACTTTA-TCTAAGGCAA-CGTTTAAAAAATGTTA
1 TAAGGCAACC-TTTAAAAAAGGTTGGGATAGAC--CAGTCTAAGGCAACCGTTTAAAAAA-GTTA
* *
81517574 GGATAGGC-TTATCTAAGGCAACCTTTTAAAAA
62 GGATAGACTTTATCTAAGGCAACCTTTAAAAAA
81517606 T
1 T
81517607 GTTGGAATAG
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
94 54 0.65
95 28 0.34
96 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (94 bp):
TAAGGCAACCTTTAAAAAAGGTTGGGATAGACCAGTCTAAGGCAACCGTTTAAAAAAGTTAGGAT
AGACTTTATCTAAGGCAACCTTTAAAAAA
Found at i:81517639 original size:75 final size:73
Alignment explanation
Indices: 81517512--81517836 Score: 277
Period size: 75 Copynumber: 4.4 Consensus size: 73
81517502 GTTTAAAAAA
* * * * * *
81517512 TAAGGTAACCTTTTAAAAAAGTTGGGATAGACTTTA-TCTAAGGCAACGTTTAAAAAATGTTAGG
1 TAAGGCAACCTTTTAAAAATGTTGGGATAGAC--CAGTCTAAGGCAAC-TTTTAAAAAGGTTGGG
81517576 ATAGGCTTATC
63 ATAGGCTTATC
* *
81517587 TAAGGCAACCTTTTAAAAATGTTGGAATAGACCAGTCTAAGGCAACCTTTTAAAAACGTTGGGAT
1 TAAGGCAACCTTTTAAAAATGTTGGGATAGACCAGTCTAAGGCAA-CTTTTAAAAAGGTTGGGAT
* *
81517652 AGACTTTGTC
65 AGGC-TTATC
** * ** * *
81517662 TAAGGCAACCTTCAAAAAAGGTTGGGATAGACTTGTCTAAAGCAAC-CTTAAAAAGGTTGGGATA
1 TAAGGCAACCTTTTAAAAATGTTGGGATAGACCAGTCTAAGGCAACTTTTAAAAAGGTTGGGATA
*
81517726 -GATTCATC
66 GGCTT-ATC
* * *
81517734 TAAGGTAACC--TTAAAAATGTTGGGATAAACCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGGA
1 TAAGGCAACCTTTTAAAAATGTTGGGATAGACC-AGTCTAAGGCAACTTTT-AAAAAGGTTGGGA
* * * **
81517797 TTGACCTGCC
64 TAGGCTTATC
* *
81517807 TAAGACAACC--TTAAAAATGTTGTGATAGAC
1 TAAGGCAACCTTTTAAAAATGTTGGGATAGAC
81517837 TTATTTAAAA
Statistics
Matches: 203, Mismatches: 39, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
70 16 0.08
71 14 0.07
72 13 0.06
73 58 0.29
74 30 0.15
75 72 0.35
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (73 bp):
TAAGGCAACCTTTTAAAAATGTTGGGATAGACCAGTCTAAGGCAACTTTTAAAAAGGTTGGGATA
GGCTTATC
Found at i:81517722 original size:35 final size:35
Alignment explanation
Indices: 81517524--81517985 Score: 327
Period size: 35 Copynumber: 12.7 Consensus size: 35
81517514 AGGTAACCTT
* * *
81517524 TTAAAAAAGTTGGGATAGACTTTATCTAAGGCAACGT
1 TTAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAAC-C
* * * *
81517561 TTAAAAAATGTTAGGATAGGCTTATCTAAGGCAACC
1 TT-AAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
* * **
81517597 TTTTAAAAATGTTGGAATAGACCAGTCTAAGGCAACC
1 --TTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
*
81517634 TTTTAAAAACGTTGGGATAGACTTTGTCTAAGGCAACC
1 --TTAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACC
*
81517672 TTCAAAAAAGGTTGGGATAGACTTGTCTAAAGCAACC
1 TT--AAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
* *
81517709 TTAAAAAGGTTGGGATAGA-TTCATCTAAGGTAACC
1 TTAAAAAGGTTGGGATAGACTT-GTCTAAGGCAACC
* * *
81517744 TTAAAAATGTTGGGATAAACCTTGTCTAAGGCAACTT
1 TTAAAAAGGTTGGGATAGA-CTTGTCTAAGGCAAC-C
* * * *
81517781 TTAAAAAAGGTTGGGATTGACCTGCCTAAGACAACC
1 TT-AAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
* * * * **
81517817 TTAAAAATGTTGTGATAGACTTATTTAAAACAACC
1 TTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
* * * * * *
81517852 TTAAAAACGTTGAGATACACTTTTTCCAATGCAA-C
1 TTAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAACC
* * * ** *
81517887 TTAAAAAAAGCTGGGATAAACCCGTTTAAGGCAACC
1 TT-AAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
* ** * *
81517923 TTAAAAAGGTTAGGG-TAAACACGCCTAAGGCAAAC
1 TTAAAAAGGTT-GGGATAGACTTGTCTAAGGCAACC
81517958 TTAAAAAGGTTGGGATAGATCTTTGTCT
1 TTAAAAAGGTTGGGATAGA-C-TTGTCT
81517986 CATGTCCAAT
Statistics
Matches: 340, Mismatches: 67, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
34 5 0.01
35 133 0.39
36 43 0.13
37 98 0.29
38 61 0.18
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (35 bp):
TTAAAAAGGTTGGGATAGACTTGTCTAAGGCAACC
Found at i:81517787 original size:108 final size:108
Alignment explanation
Indices: 81517512--81517985 Score: 397
Period size: 108 Copynumber: 4.4 Consensus size: 108
81517502 GTTTAAAAAA
* * * * *
81517512 TAAGGTAACCTTTTAAAAAAGTTGGGATAGACTTTATCTAAGGCAACGTTTAAAAAATGTTAGGA
1 TAAGGCAACC-TTTAAAAACGTTGGGATAGACTTTGTCTAAGGCAAC-TTTAAAAAAGGTTGGGA
* * * * * * *
81517577 TAGGCTTATCTAAGGCAACCTTTTAAAAATGTTGGAATAGA-CCAGTC
64 TAGACCTGTCTAAAGCAACC--TTAAAAAGGTTGGGATAGATTCA-TC
*
81517624 TAAGGCAACCTTTTAAAAACGTTGGGATAGACTTTGTCTAAGGCAACCTTCAAAAAAGGTTGGGA
1 TAAGGCAACC-TTTAAAAACGTTGGGATAGACTTTGTCTAAGGCAA-CTTTAAAAAAGGTTGGGA
*
81517689 TAGACTTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGATTCATC
64 TAGACCTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGATTCATC
* * * *
81517734 TAAGGTAACC-TTAAAAATGTTGGGATAAACCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGGAT
1 TAAGGCAACCTTTAAAAACGTTGGGATAGACTTTGTCTAAGGCAAC-TTTAAAAAAGGTTGGGAT
* * * * *
81517798 TGACCTGCCT-AAGACAACCTTAAAAATGTTGTGATAGACTT-ATT
65 AGACCTGTCTAAAG-CAACCTTAAAAAGGTTGGGATAGA-TTCATC
** * * * * * * *
81517842 TAAAACAACC-TTAAAAACGTTGAGATACACTTTTTCCAATGCAAC-TTAAAAAAAGCTGGGATA
1 TAAGGCAACCTTTAAAAACGTTGGGATAGACTTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATA
* * * * * ** **
81517905 AACCCGTTTAAGGCAACCTTAAAAAGGTTAGGG-TAAACACGCC
66 GACCTGTCTAAAGCAACCTTAAAAAGGTT-GGGATAGATTCATC
* *
81517948 TAAGGCAAAC-TTAAAAAGGTTGGGATAGATCTTTGTCT
1 TAAGGCAACCTTTAAAAACGTTGGGATAGA-CTTTGTCT
81517986 CATGTCCAAT
Statistics
Matches: 296, Mismatches: 57, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
106 61 0.21
107 14 0.05
108 114 0.39
109 2 0.01
110 28 0.09
111 2 0.01
112 74 0.25
113 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (108 bp):
TAAGGCAACCTTTAAAAACGTTGGGATAGACTTTGTCTAAGGCAACTTTAAAAAAGGTTGGGATA
GACCTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGATTCATC
Found at i:81523868 original size:37 final size:36
Alignment explanation
Indices: 81523822--81523929 Score: 116
Period size: 37 Copynumber: 2.9 Consensus size: 36
81523812 TTCCAAAAAA
81523822 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATTTTAATAGTTT-ATATTAAATTTAATAT
*
81523858 TAATACTTATTTTAATAGTATTTTATT-AATTTAATAT
1 TAATA-TTATTTTAATAGT-TTATATTAAATTTAATAT
*
81523895 TAAAGTGATTATCTTAATA--TTATATTAAATTTAAT
1 T-AA-T-ATTATTTTAATAGTTTATATTAAATTTAAT
81523930 GTTTATCTTG
Statistics
Matches: 62, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
36 19 0.31
37 27 0.44
38 4 0.06
39 11 0.18
40 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (36 bp):
TAATATTATTTTAATAGTTTATATTAAATTTAATAT
Found at i:81523895 original size:11 final size:11
Alignment explanation
Indices: 81523822--81523897 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
81523812 TTCCAAAAAA
*
81523822 TAATATTATTT
1 TAATATTAATT
81523833 TAATAGTTTAATAT
1 TAATA--TTAAT-T
81523847 TAA-ATTTAATT
1 TAATA-TTAATT
*
81523858 TAATACTTATTT
1 TAATA-TTAATT
*
81523870 TAATAGT-ATT
1 TAATATTAATT
81523880 T--TATTAATT
1 TAATATTAATT
81523889 TAATATTAA
1 TAATATTAA
81523898 AGTGATTATC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 16 0.31
12 17 0.33
13 5 0.10
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:81526143 original size:31 final size:31
Alignment explanation
Indices: 81526102--81526165 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
81526092 CCTTTTCATA
*
81526102 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
81526133 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
81526164 TT
1 TT
81526166 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:81526422 original size:24 final size:24
Alignment explanation
Indices: 81526358--81526522 Score: 223
Period size: 23 Copynumber: 7.0 Consensus size: 24
81526348 GCTTTATCAT
*
81526358 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
81526383 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
81526406 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
81526429 ATATA-TGGGGCATAAGCCCTTTTG
1 ATA-ACTGGGGCATAAGCCCTTTTA
*
81526453 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
81526477 ATAACTGGGGCATAAG-CCATTTA
1 ATAACTGGGGCATAAGCCCTTTTA
81526500 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
81526523 TCACTTCCTC
Statistics
Matches: 127, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
23 60 0.47
24 60 0.47
25 7 0.06
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:81526522 original size:47 final size:48
Alignment explanation
Indices: 81526358--81526522 Score: 223
Period size: 47 Copynumber: 3.5 Consensus size: 48
81526348 GCTTTATCAT
* *
81526358 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
81526406 ATAACTGGGGCATAAGCCC-TTTAATATA-TGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATA-ACTGGGGCATAAGCCCTTTTA
* *
81526453 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG-CCATTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
81526500 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
81526523 TCACTTCCTC
Statistics
Matches: 106, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
46 13 0.12
47 64 0.60
48 29 0.27
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:81526596 original size:20 final size:20
Alignment explanation
Indices: 81526571--81526637 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
81526561 TTATGATTAC
81526571 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
81526591 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
81526611 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
81526631 ACCATGT
1 ATCATGT
81526638 TTATCAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:81526602 original size:11 final size:11
Alignment explanation
Indices: 81526571--81526626 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
81526561 TTATGATTAC
81526571 ATCATGTGCAT
1 ATCATGTGCAT
*
81526582 ATCA--TACAT
1 ATCATGTGCAT
81526591 ATCATGTGCAT
1 ATCATGTGCAT
*
81526602 ATCA--TACAT
1 ATCATGTGCAT
*
81526611 GTCATGTGCAT
1 ATCATGTGCAT
81526622 ATCAT
1 ATCAT
81526627 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:81527896 original size:27 final size:28
Alignment explanation
Indices: 81527865--81527960 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 28
81527855 TACGAAACAT
*
81527865 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCACTTTACCATAC
81527892 AAGGG-TATTACGGTCACTTTACCATAC
1 AAGGGCTATTACGGTCACTTTACCATAC
* * *
81527919 AGGGGCT-TTACAGTCACTTTACCCTAC
1 AAGGGCTATTACGGTCACTTTACCATAC
*
81527946 AGGGGCT-TTACGGTC
1 AAGGGCTATTACGGTC
81527961 TTTTTACCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
25 4 0.07
26 1 0.02
27 55 0.90
28 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACGGTCACTTTACCATAC
Found at i:81527968 original size:27 final size:27
Alignment explanation
Indices: 81527877--81527960 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
81527867 GGGCATATTC
* *
81527877 GTCATTTTACCATACAAGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
81527904 GTCACTTTACCATACAGGGGCTTTACA
1 GTCACTTTACCATACAGGGGCTTTACG
*
81527931 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
81527958 GTC
1 GTC
81527961 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:81528093 original size:29 final size:27
Alignment explanation
Indices: 81528022--81528224 Score: 99
Period size: 27 Copynumber: 7.4 Consensus size: 27
81528012 GTAAATCTAC
*
81528022 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
*
81528049 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* * *
81528075 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* * * **
81528105 AAATCAGGGGTATTT-TGGTAATTTTAA
1 AAACCAAGGGTATTTCT-ATAATTTTGT
*** ** ***
81528132 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCTATAATTTTGT
* **
81528159 AAACTAAGGGTATTT-TGATAATTTTAC
1 AAACCAAGGGTATTTCT-ATAATTTTGT
* *
81528186 AAACTAGGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
* *
81528213 AAATCGAGGGTA
1 AAACCAAGGGTA
81528225 AAATAGTAAT
Statistics
Matches: 140, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
26 3 0.02
27 112 0.80
28 6 0.04
29 18 0.13
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:81528223 original size:54 final size:54
Alignment explanation
Indices: 81527999--81528224 Score: 186
Period size: 54 Copynumber: 4.1 Consensus size: 54
81527989 TTTCATCCTA
* * * * * * *
81527999 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAATAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
* * * * *
81528053 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGATAA-TTTTACAAACT-AAGGGTATTTCAGTAATTTTGTAAAT
* * * * * * ***
81528109 CAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
* *
81528162 CTAAGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
*
81528217 CGAGGGTA
1 CAAGGGTA
81528225 AAATAGTAAT
Statistics
Matches: 131, Mismatches: 35, Indels: 12
0.74 0.20 0.07
Matches are distributed among these distances:
53 1 0.01
54 78 0.60
55 18 0.14
56 34 0.26
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:81528231 original size:27 final size:27
Alignment explanation
Indices: 81528201--81528413 Score: 218
Period size: 27 Copynumber: 7.9 Consensus size: 27
81528191 AGGGGTATTT
*
81528201 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
81528228 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
81528255 TAATAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
81528282 CT-GTAATTCTGTAAATCGAGGGTAAAA
1 -TAGTAATTCTGTAAATCGAGGGTAAAA
** * *
81528309 CGGTAATTCTATAAGTCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
81528336 -CGATAATTATGTAAATC-AGGGGTAAAA
1 TAG-TAATTCTGTAAATCGA-GGGTAAAA
** * *
81528363 CGGTAATTATGTAAATCGGGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
81528390 -CGATAATTCTGTAAATCGGGGGTA
1 TAG-TAATTCTGTAAATCGAGGGTA
81528414 CTTTGGTAAT
Statistics
Matches: 161, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
26 3 0.02
27 156 0.97
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:81528413 original size:54 final size:54
Alignment explanation
Indices: 81528203--81528406 Score: 259
Period size: 54 Copynumber: 3.8 Consensus size: 54
81528193 GGGTATTTTA
* * * **
81528203 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACGA-TAATTCTGTAAATCAAGGGTAAAACG
* *
81528257 ATAATTCTATAAATCGAGGGTAAAACTG-TAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAAC-GATAATTCTGTAAATCAAGGGTAAAACG
* * *
81528311 GTAATTCTATAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
* * *
81528365 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATC
1 GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
81528407 GGGGGTACTT
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 129 0.99
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
Found at i:81528424 original size:81 final size:81
Alignment explanation
Indices: 81528203--81528413 Score: 264
Period size: 81 Copynumber: 2.6 Consensus size: 81
81528193 GGGTATTTTA
* * * * *
81528203 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAATAATAATTCTAT
1 GTAATTATGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAATGATAATTATAT
*
81528267 AAATCGAGGGTAAAACT
65 AAATCGAGGGTAAAACG
* * * * * *
81528284 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGATAATTATATA
81528349 AATC-AGGGGTAAAACG
66 AATCGA-GGGTAAAACG
* *
81528365 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
81528414 CTTTGGTAAT
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 110 0.99
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
GTAATTATGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGATAATTATATA
AATCGAGGGTAAAACG
Found at i:81528440 original size:27 final size:27
Alignment explanation
Indices: 81528419--81528508 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
81528409 GGGTACTTTG
*
81528419 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
81528446 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
81528473 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
81528500 GTAATTTTA
1 GTAATTTTA
81528509 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:81528460 original size:54 final size:54
Alignment explanation
Indices: 81528402--81528508 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
81528392 ATAATTCTGT
* * *
81528402 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
81528456 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
81528509 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:81528522 original size:27 final size:27
Alignment explanation
Indices: 81528419--81528523 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
81528409 GGGTACTTTG
* *
81528419 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
81528446 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
81528473 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
81528500 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
81528524 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:81531121 original size:31 final size:31
Alignment explanation
Indices: 81531080--81531143 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
81531070 CCTTTTCATA
*
81531080 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
81531111 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
81531142 TT
1 TT
81531144 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:81531400 original size:24 final size:24
Alignment explanation
Indices: 81531336--81531500 Score: 223
Period size: 23 Copynumber: 7.0 Consensus size: 24
81531326 GCTTTATCAT
*
81531336 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
81531361 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
81531384 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
81531407 ATATA-TGGGGCATAAGCCCTTTTG
1 ATA-ACTGGGGCATAAGCCCTTTTA
*
81531431 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
81531455 ATAACTGGGGCATAAG-CCATTTA
1 ATAACTGGGGCATAAGCCCTTTTA
81531478 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
81531501 TCACTTCCTC
Statistics
Matches: 127, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
23 60 0.47
24 60 0.47
25 7 0.06
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:81531500 original size:47 final size:48
Alignment explanation
Indices: 81531336--81531500 Score: 223
Period size: 47 Copynumber: 3.5 Consensus size: 48
81531326 GCTTTATCAT
* *
81531336 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
81531384 ATAACTGGGGCATAAGCCC-TTTAATATA-TGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATA-ACTGGGGCATAAGCCCTTTTA
* *
81531431 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG-CCATTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
81531478 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
81531501 TCACTTCCTC
Statistics
Matches: 106, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
46 13 0.12
47 64 0.60
48 29 0.27
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:81531574 original size:20 final size:20
Alignment explanation
Indices: 81531549--81531615 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
81531539 TTATGATTAC
81531549 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
81531569 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
81531589 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
81531609 ACCATGT
1 ATCATGT
81531616 TTATCAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:81531580 original size:11 final size:11
Alignment explanation
Indices: 81531549--81531604 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
81531539 TTATGATTAC
81531549 ATCATGTGCAT
1 ATCATGTGCAT
*
81531560 ATCA--TACAT
1 ATCATGTGCAT
81531569 ATCATGTGCAT
1 ATCATGTGCAT
*
81531580 ATCA--TACAT
1 ATCATGTGCAT
*
81531589 GTCATGTGCAT
1 ATCATGTGCAT
81531600 ATCAT
1 ATCAT
81531605 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:81531684 original size:25 final size:25
Alignment explanation
Indices: 81531652--81531699 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
81531642 ATACATAAAC
* * *
81531652 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
81531677 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
81531700 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:81532872 original size:27 final size:27
Alignment explanation
Indices: 81532837--81532920 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
81532827 GGGCATATTC
*
81532837 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
81532864 GTCACTTTACCATACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
81532891 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
81532918 GTC
1 GTC
81532921 TTTTTGCCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:81533012 original size:27 final size:27
Alignment explanation
Indices: 81532986--81533211 Score: 129
Period size: 27 Copynumber: 8.3 Consensus size: 27
81532976 ATCTACAAAC
*
81532986 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
81533013 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
81533042 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** **
81533069 CAAGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** * ***
81533096 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* **
81533122 CTAAGGGTATTT-TGATAATTTTACAAA-
1 C-AAGGGTATTTCAG-TAATTTTGTAAAT
* *
81533149 CTAGGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTCAGTAATTTTGTAAAT
* *** *
81533177 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
81533204 CAATGGTA
1 CAAGGGTA
81533212 AAATAGTAAT
Statistics
Matches: 157, Mismatches: 32, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
26 2 0.01
27 128 0.82
28 9 0.06
29 17 0.11
30 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:81533183 original size:54 final size:54
Alignment explanation
Indices: 81532959--81533184 Score: 204
Period size: 54 Copynumber: 4.1 Consensus size: 54
81532949 TTTCATCCTA
* * * * * *
81532959 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
* * * * *
81533013 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGATAA-TTTTACAAACT-AAGGGTATTTCAGTAATTTTGTAAAT
* * * * * ***
81533069 CAAGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
* *
81533122 CTAAGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
*
81533177 CGAGGGTA
1 CAAGGGTA
81533185 AAACAGTAAT
Statistics
Matches: 134, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
53 1 0.01
54 79 0.59
55 18 0.13
56 36 0.27
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:81533212 original size:27 final size:27
Alignment explanation
Indices: 81533162--81533365 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
81533152 GGGGTATTTT
*
81533162 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
81533189 AGTAATTCTGTAAATCAATGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
81533216 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
81533243 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
81533270 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
81533297 AATAATTATGTAAATC-AGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
81533324 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
81533351 -GATAATTCTGTAAAT
1 AG-TAATTCTGTAAAT
81533366 TGGAGGTACT
Statistics
Matches: 154, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 152 0.99
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:81533222 original size:81 final size:78
Alignment explanation
Indices: 81533136--81533365 Score: 212
Period size: 81 Copynumber: 2.8 Consensus size: 78
81533126 GGGTATTTTG
*** *
81533136 ATAATTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 ATAATTTTA-AAACTAGGGGTAAAAT-GTAATTATGTAAATCGAGGGTAAAAC-GTAATTCTGTA
* *
81533201 AATCAATGGTAAAATA
63 AATCAAGGGTAAAACA
* * * *
81533217 GTAATTCTATAAA-TCGAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
1 ATAATTTTA-AAACTAG-GGGTAAAA-TGTAATTATGTAAATCGAGGGTAAAAC-GTAATTCTGT
* *
81533281 AAGTCGAGGGTAAAACA
62 AAATCAAGGGTAAAACA
* * *
81533298 ATAATTATGTAAATC-AGGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAACGATAATTCTGT
1 ATAATT-T-TAAAACTAGGGGTAAAA-TGTAATTATGTAAATCGAGGGTAAAACG-TAATTCTGT
81533362 AAAT
62 AAAT
81533366 TGGAGGTACT
Statistics
Matches: 122, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
80 3 0.02
81 113 0.93
82 4 0.03
83 2 0.02
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (78 bp):
ATAATTTTAAAACTAGGGGTAAAATGTAATTATGTAAATCGAGGGTAAAACGTAATTCTGTAAAT
CAAGGGTAAAACA
Found at i:81533399 original size:27 final size:27
Alignment explanation
Indices: 81533379--81533468 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
81533369 AGGTACTTTG
*
81533379 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
81533406 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
81533433 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
81533460 GTAATTTTA
1 GTAATTTTA
81533469 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:81533482 original size:27 final size:27
Alignment explanation
Indices: 81533379--81533483 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
81533369 AGGTACTTTG
* *
81533379 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
81533406 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
81533433 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
81533460 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
81533484 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:81534609 original size:139 final size:140
Alignment explanation
Indices: 81534346--81534619 Score: 372
Period size: 139 Copynumber: 2.0 Consensus size: 140
81534336 GTCCTAAGAT
* * * * * *
81534346 GACATTTTCCAAAGTGTTGGGATAGACTTGTCGACATACGCTTTGGTCAACTCTTTCTATAAGGG
1 GACATTTTCCAAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACACTTTCTATAAGAG
** * * *
81534411 TTGGGATATGCATGCTTCAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAACACTATGCCTACA
66 TTGGGATACCCATGCTTAAGGCAACGCTTAAATAAGAGTCAGCATTGTCCAACACTATGCCAACA
81534476 CTTTTGGGGC
131 CTTTTGGGGC
* *
81534486 GACATTTTCCTAAA-TGTTGGGATAGATTTGCCAACATACACTTTGGCCAACACTTTGTATAA-A
1 GACATTTTCC-AAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACACTTTCTATAAGA
* * * *
81534549 GTTGTGATACCCATGCTTAAGGCAATGCTTAAATAAGAGTCGGCATTGTCCAACATTATGCCAAC
65 GTTGGGATACCCATGCTTAAGGCAACGCTTAAATAAGAGTCAGCATTGTCCAACACTATGCCAAC
81534614 ACTTTT
130 ACTTTT
81534620 CTAAGTATTA
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
139 62 0.53
140 51 0.44
141 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (140 bp):
GACATTTTCCAAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACACTTTCTATAAGAG
TTGGGATACCCATGCTTAAGGCAACGCTTAAATAAGAGTCAGCATTGTCCAACACTATGCCAACA
CTTTTGGGGC
Found at i:81536728 original size:24 final size:24
Alignment explanation
Indices: 81536700--81536748 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
81536690 TGATGAAATC
*
81536700 ATGCATTAAAAGTACTAAATCCTA
1 ATGCACTAAAAGTACTAAATCCTA
81536724 ATGCACTAAAAGTACTAAATCCTA
1 ATGCACTAAAAGTACTAAATCCTA
81536748 A
1 A
81536749 CAATTCCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (24 bp):
ATGCACTAAAAGTACTAAATCCTA
Found at i:81540973 original size:96 final size:96
Alignment explanation
Indices: 81540809--81541070 Score: 355
Period size: 96 Copynumber: 2.7 Consensus size: 96
81540799 TAATATGTGT
* * * *
81540809 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGACC-ACATTATGAGAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCTAGA-CATGTGAGCCAGTGTAAGACCAT
*
81540873 GTCTGGGACATGGCATTGGCATTGAGACGAGA
65 GTCTGGGACATGGCATCGGCATTGAGACGAGA
* ** * * *
81540905 GCTAGTGTAAAACCATGTCCGGGACATGGCATCGGCCTTGACATGTGAGCCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCTAGACATGTGAGCCAGTGTAAGACCATG
*
81540970 TCTGGGACATGGCATCGGTATTGAGACGAGA
66 TCTGGGACATGGCATCGGCATTGAGACGAGA
* * * * *
81541001 GCTAGTTTAAGACCATGTTTGGGACATGGCATTGACCTCGACATGTGGGCCAGTGTAAGACCATA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCTAGACATGTGAGCCAGTGTAAGACCATG
81541066 TCTGG
66 TCTGG
81541071 ATATGGTGTC
Statistics
Matches: 143, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
96 142 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTTTGGGACATGGCATCGACCTAGACATGTGAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCATTGAGACGAGA
Found at i:81541060 original size:48 final size:48
Alignment explanation
Indices: 81540809--81541070 Score: 265
Period size: 48 Copynumber: 5.5 Consensus size: 48
81540799 TAATATGTGT
* * ** *
81540809 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGACC-ACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGA-CATGAGA
* * * *
81540857 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGACATGAGA
* * *
81540905 GCTAGTGTAAAACCATGTCCGGGACATGGCATCGGCCTTGACATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGACATGAGA
* * ** * *
81540953 GCCAATGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGACATGAGA
* * * * * * *
81541001 GCTAGTTTAAGACCATGTTTGGGACATGGCATTGACCTCGACATGTGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGACATGAGA
* *
81541049 GCCAGTGTAAGACCATATCTGG
1 GCTAGTGTAAGACCATGTCTGG
81541071 ATATGGTGTC
Statistics
Matches: 172, Mismatches: 41, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
48 171 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGACATGAGA
Found at i:81543332 original size:16 final size:17
Alignment explanation
Indices: 81543294--81543333 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
81543284 ATATTAAATA
81543294 TTAAA-TTTTTATGTTT
1 TTAAATTTTTTATGTTT
*
81543310 TT-TATTTTTTAT-TTT
1 TTAAATTTTTTATGTTT
81543325 TTAAATTTT
1 TTAAATTTT
81543334 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
TTAAATTTTTTATGTTT
Found at i:81543632 original size:15 final size:15
Alignment explanation
Indices: 81543599--81543641 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
81543589 TTATCTCTTA
*
81543599 CATAA-CCATAAA-T
1 CATAATCCATAAACC
*
81543612 CATAATCCCTAAACC
1 CATAATCCATAAACC
81543627 CATAATCCATAAACC
1 CATAATCCATAAACC
81543642 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:81543646 original size:22 final size:22
Alignment explanation
Indices: 81543604--81543690 Score: 52
Period size: 22 Copynumber: 4.0 Consensus size: 22
81543594 TCTTACATAA
*
81543604 CCATAAATCATAATCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
81543626 CCAT-AATCCATAAACCTTAAAA
1 CCATAAAT-CATAAACCCTAAAC
** * * **
81543648 TAATAACTCATACACTTTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
81543670 CC-TAAACCTTAAACCCTAAAC
1 CCATAAATCATAAACCCTAAAC
81543691 TATAATGATA
Statistics
Matches: 46, Mismatches: 17, Indels: 5
0.68 0.25 0.07
Matches are distributed among these distances:
21 16 0.35
22 28 0.61
23 2 0.04
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:81543683 original size:14 final size:14
Alignment explanation
Indices: 81543664--81543690 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
81543654 CTCATACACT
81543664 TTAAACCCTAAACC
1 TTAAACCCTAAACC
81543678 TTAAACCCTAAAC
1 TTAAACCCTAAAC
81543691 TATAATGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (14 bp):
TTAAACCCTAAACC
Found at i:81543883 original size:14 final size:15
Alignment explanation
Indices: 81543855--81543892 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
81543845 AAACCCCTCA
*
81543855 CCCTTAACCCATAAC
1 CCCTAAACCCATAAC
81543870 CCCTAAACCC-TAAC
1 CCCTAAACCCATAAC
*
81543884 ACCTAAACC
1 CCCTAAACC
81543893 TTAAACCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (15 bp):
CCCTAAACCCATAAC
Found at i:81543883 original size:21 final size:21
Alignment explanation
Indices: 81543831--81543906 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
81543821 TCCTAAAACA
*
81543831 TAAA-CCTAAACCATAAACCCC
1 TAAACCCTAACCCAT-AACCCC
*
81543852 T-CACCCTTAACCCATAACCCC
1 TAAACCC-TAACCCATAACCCC
* *
81543873 TAAACCCTAACACC-TAAACCT
1 TAAACCCTAAC-CCATAACCCC
*
81543894 TAAACCCCAACCC
1 TAAACCCTAACCC
81543907 TTAAATCACC
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 3 0.07
21 29 0.64
22 13 0.29
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (21 bp):
TAAACCCTAACCCATAACCCC
Found at i:81544340 original size:115 final size:109
Alignment explanation
Indices: 81544201--81544495 Score: 367
Period size: 115 Copynumber: 2.6 Consensus size: 109
81544191 TCAAGCATTA
81544201 GCGGCGTTTCTTAAAAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTTTGAAAAGCGCCGCT
1 GCGGCGTTT-TT-AAAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTTTGAAAAGCGCCGCT
* *
81544266 AAAGCCACTAAAAGCTCAATACAAAACGACGTCGTTTTGAAAAATTCTTTT
64 AAAGCCACTAAAAGCTCAAT-----ACGAAGTCATTTTGAAAAATTCTTTT
* *
81544317 GCGGCGTTTTTAAAAAAGCGCCGCTAGTACTCGATCTTTAGCGGCGTTTTTGAAAAGCGCCGCTA
1 GCGGCGTTTTTAAAAAA-CGCCGCTAATACTCAATCTTTAGCGGCGTTTTTGAAAAGCGCCGCTA
* *
81544382 AAGCCACTAAAAGCTCAATATGAAGTCATTTTGCAAAATTCTTTT
65 AAGCCACTAAAAGCTCAATACGAAGTCATTTTGAAAAATTCTTTT
* * * * * * *
81544427 GCGGCGTTTTTTGAAAAACGCCACTAA-AGATCAAGCATTAGCGGCATTTTTTAGAAAGCGCCGC
1 GCGGCG-TTTTTAAAAAACGCCGCTAATA-CTCAATCTTTAGCGGCGTTTTTGA-AAAGCGCCGC
81544491 TAAAG
63 TAAAG
81544496 GTGTACTTAT
Statistics
Matches: 160, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
109 1 0.01
110 53 0.33
111 25 0.16
114 6 0.04
115 66 0.41
116 9 0.06
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (109 bp):
GCGGCGTTTTTAAAAAACGCCGCTAATACTCAATCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAA
AGCCACTAAAAGCTCAATACGAAGTCATTTTGAAAAATTCTTTT
Found at i:81544597 original size:39 final size:39
Alignment explanation
Indices: 81544523--81544597 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
81544513 TTTCTTAAAA
*
81544523 AAGCGCAGCTAATACTCCATCTTTAGCAGCGTTTTTGAG
1 AAGCGCAGCTAATACTCCATCTTTAGCAGCATTTTTGAG
* * **
81544562 AAGCGCCGCTAATGCT-CATTCTTTAGTGGCATTTTT
1 AAGCGCAGCTAATACTCCA-TCTTTAGCAGCATTTTT
81544598 CATTCAAACG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.07
39 28 0.93
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (39 bp):
AAGCGCAGCTAATACTCCATCTTTAGCAGCATTTTTGAG
Found at i:81544667 original size:14 final size:14
Alignment explanation
Indices: 81544648--81544715 Score: 75
Period size: 14 Copynumber: 4.9 Consensus size: 14
81544638 GGTGTAGTGA
81544648 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
81544662 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
* * *
81544676 GTGTAGGATTT-TG
1 GTTTAGGGTTTAAG
*
81544689 AGTTTAAGGTTTAAG
1 -GTTTAGGGTTTAAG
*
81544704 GTTTCGGGTTTA
1 GTTTAGGGTTTA
81544716 GGGTATAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
13 1 0.02
14 41 0.95
15 1 0.02
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:81544672 original size:21 final size:21
Alignment explanation
Indices: 81544648--81544715 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
81544638 GGTGTAGTGA
*
81544648 GTTTAGGGTTTAAGGTTTAGG
1 GTTTAAGGTTTAAGGTTTAGG
* * *
81544669 GTTTAAGGTGT-AGGATTTTGA
1 GTTTAAGGTTTAAGG-TTTAGG
*
81544690 GTTTAAGGTTTAAGGTTTCGG
1 GTTTAAGGTTTAAGGTTTAGG
81544711 GTTTA
1 GTTTA
81544716 GGGTATAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 3 0.08
21 32 0.84
22 3 0.08
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (21 bp):
GTTTAAGGTTTAAGGTTTAGG
Found at i:81544713 original size:7 final size:7
Alignment explanation
Indices: 81544648--81544719 Score: 63
Period size: 7 Copynumber: 10.3 Consensus size: 7
81544638 GGTGTAGTGA
81544648 GTTTAGG
1 GTTTAGG
*
81544655 GTTTAAG
1 GTTTAGG
81544662 GTTTAGG
1 GTTTAGG
*
81544669 GTTTAAG
1 GTTTAGG
*
81544676 GTGTAGG
1 GTTTAGG
* * *
81544683 ATTTTGA
1 GTTTAGG
*
81544690 GTTTAAG
1 GTTTAGG
*
81544697 GTTTAAG
1 GTTTAGG
*
81544704 GTTTCGG
1 GTTTAGG
81544711 GTTTAGG
1 GTTTAGG
81544718 GT
1 GT
81544720 ATAATTTTGG
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:81544762 original size:15 final size:15
Alignment explanation
Indices: 81544742--81544773 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
81544732 TTTAATTTAG
81544742 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
81544757 AAGATAAATATATAT
1 AAGATAAATATAAAT
81544772 AA
1 AA
81544774 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:81547496 original size:13 final size:14
Alignment explanation
Indices: 81547480--81547508 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
81547470 TTATAAATAT
81547480 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
81547493 TTATAATGGTTTAA
1 TTATAATGGTTTAA
81547507 TT
1 TT
81547509 CTTCTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:81548266 original size:31 final size:31
Alignment explanation
Indices: 81548230--81548295 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
81548220 TGTATTTTTT
* * *
81548230 ATGCTACATTTGTTGTTTTTGGTTCGATTTC
1 ATGCTACATTTGCTGTTTTTAGTTCGATTTA
* *
81548261 ATGCTATATTTGCTGTTTTTAGTTGGATTTA
1 ATGCTACATTTGCTGTTTTTAGTTCGATTTA
81548292 ATGC
1 ATGC
81548296 AAAAGGGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.17, C:0.11, G:0.20, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTTTTAGTTCGATTTA
Found at i:81557781 original size:24 final size:26
Alignment explanation
Indices: 81557732--81557781 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
81557722 ACAAATAACT
81557732 TTTAATCAAGAAGCTCACGAAGAGCC
1 TTTAATCAAGAAGCTCACGAAGAGCC
* *
81557758 TTTAATC-AGGAGCTC-CGAATAGCC
1 TTTAATCAAGAAGCTCACGAAGAGCC
81557782 ATATATCGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 7 0.32
26 7 0.32
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (26 bp):
TTTAATCAAGAAGCTCACGAAGAGCC
Found at i:81557901 original size:65 final size:65
Alignment explanation
Indices: 81557819--81557958 Score: 219
Period size: 65 Copynumber: 2.2 Consensus size: 65
81557809 ATCAGGACAC
* * * *
81557819 TCACAAAGAGCTGCATTTGTGTTCGCAATATATGTAGGATCACTATCGATCATAAAACAAGACGC
1 TCACAAAGAGCTGCATTTGTGTCCGCAATATATGCAGGATCACAACCGATCATAAAACAAGACG-
81557884 T
65 T
*
81557885 T-ACAAAGAGCTGCATTTGTGTCCGCAATATATGCAGGATCACAACCGATCATAAAACAGGACGT
1 TCACAAAGAGCTGCATTTGTGTCCGCAATATATGCAGGATCACAACCGATCATAAAACAAGACGT
81557949 TCACAAAGAG
1 TCACAAAGAG
81557959 TTGTGGTAGT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
64 2 0.03
65 65 0.96
66 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (65 bp):
TCACAAAGAGCTGCATTTGTGTCCGCAATATATGCAGGATCACAACCGATCATAAAACAAGACGT
Found at i:81560711 original size:26 final size:26
Alignment explanation
Indices: 81560681--81560788 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
81560671 TGAAATGCCC
81560681 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
81560707 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
81560733 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
81560759 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
81560785 ATCA
1 ATCA
81560789 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:81578884 original size:20 final size:20
Alignment explanation
Indices: 81578863--81578928 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
81578853 ACGGGATTTG
* *
81578863 CACTTTGGTGCCTCTGTTTG
1 CACTTTAGTGCCTCTGTTTA
*
81578883 CACTTTATTGCCTCTGTTTA
1 CACTTTAGTGCCTCTGTTTA
* * *
81578903 TACTTTAATGCCTCTGTATA
1 CACTTTAGTGCCTCTGTTTA
81578923 CACTTT
1 CACTTT
81578929 GGTGTCCCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.15, C:0.24, G:0.14, T:0.47
Consensus pattern (20 bp):
CACTTTAGTGCCTCTGTTTA
Found at i:81583965 original size:49 final size:49
Alignment explanation
Indices: 81583900--81584073 Score: 203
Period size: 49 Copynumber: 3.6 Consensus size: 49
81583890 ATCAAAGTCA
* *
81583900 ATGCCATGTGCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTCG
* * * *
81583949 ATGCCGTGTCCCAGACAGGTCTTACACTGTCTCTCATCTATCG-GTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GTCG
* * *
81583998 ATGCCATGTCCTAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGTCG
*
81584047 ATG-CATGTCCCAGACATGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
81584074 AGCTCTCGTC
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
48 23 0.22
49 81 0.76
50 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTCG
Found at i:81584073 original size:48 final size:48
Alignment explanation
Indices: 81583996--81584266 Score: 237
Period size: 48 Copynumber: 5.7 Consensus size: 48
81583986 CTATCGGTGT
* *
81583996 CGATGCCATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
* ** ** * *
81584045 CGATGCATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTTAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
* * * *
81584091 CTATGCATGTTCCAGACATGTCTTACACT-GGTTGGTATATTTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT-GTATATCTCGAGGC
* * * ** * *
81584139 TGATGCATGTCCCAGACATGTCTTTCACTAGC-TCT-CGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
* * * * * *
81584185 CGATGCATATCCTAGACATGTTTTACATTGGCTGGTATATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
* *
81584233 CGATGCATGTCCCAGACATGTTTTAAACTAGCTT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT
81584267 TGTAATGTGT
Statistics
Matches: 166, Mismatches: 50, Indels: 13
0.72 0.22 0.06
Matches are distributed among these distances:
45 1 0.01
46 64 0.39
47 5 0.03
48 90 0.54
49 6 0.04
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGC
Found at i:81584130 original size:94 final size:94
Alignment explanation
Indices: 81583955--81584308 Score: 385
Period size: 94 Copynumber: 3.7 Consensus size: 94
81583945 GTTGATGCCG
* * ** *
81583955 TGTCCCAGACAGGTCTTACACT-GTCTCTCATCTATCGGTGTCGATGCCATGTCCTAGACAGGTC
1 TGTCCCAGACATGTCTTACACTAG-CTCTCGTCT-T-AATGTCGATG-CATGTCCTAGACATGTC
*
81584019 TTACACTAGCTT-GTATATCTCGAGGCCGATGCA
62 TTACACT-GGTTGGTATATCTCGAGGCCGATGCA
*
81584052 TGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATGTCTATGCATGTTCC-AGACATGTCTTA
1 TGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATGTCGATGCATG-TCCTAGACATGTCTTA
* *
81584116 CACTGGTTGGTATATTTCGAGGCTGATGCA
65 CACTGGTTGGTATATCTCGAGGCCGATGCA
* * * * *
81584146 TGTCCCAGACATGTCTTTCACTAGCTCTCGTCTCAATGCCGATGCATATCCTAGACATGTTTTAC
1 TGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATGTCGATGCATGTCCTAGACATGTCTTAC
* *
81584211 ATTGGCTGGTATATCTCGAGGCCGATGCA
66 ACTGGTTGGTATATCTCGAGGCCGATGCA
* * * ** * * * *
81584240 TGTCCCAGACATGTTTTAAACTAGCT-TTGTAAT-GTGTTCAATGCCTGTCCTAGACATGTTTTA
1 TGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATG-TCGATGCATGTCCTAGACATGTCTTA
81584303 CACTGG
65 CACTGG
81584309 CACACGTATC
Statistics
Matches: 220, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
92 2 0.01
93 36 0.16
94 141 0.64
95 10 0.05
96 1 0.00
97 29 0.13
98 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (94 bp):
TGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATGTCGATGCATGTCCTAGACATGTCTTAC
ACTGGTTGGTATATCTCGAGGCCGATGCA
Found at i:81584203 original size:46 final size:46
Alignment explanation
Indices: 81583955--81584265 Score: 183
Period size: 48 Copynumber: 6.6 Consensus size: 46
81583945 GTTGATGCCG
* * ** *
81583955 TGTCCCAGACAGGTCTTACACT-GTCTCTCATCTATCGGTGTCGATGCCA
1 TGTCCCAGACATGTCTTACACTAG-CTCTCGTC--TCAATGCCGATG-CA
* * * ** * *
81584004 TGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATGCA
* * *
81584052 TGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATGTCTATGCA
1 TGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCA
* * * * ** * * * *
81584098 TGTTCCAGACATGTCTTACACTGGTTGGTATATTTCGAGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCT-CT-CGTCTCAATGCCGATGCA
*
81584146 TGTCCCAGACATGTCTTTCACTAGCTCTCGTCTCAATGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCA
* * * * * * ** * *
81584192 TATCCTAGACATGTTTTACATTGGCTGGTATATCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCT-CT-CGTCTCAATGCCGATGCA
* *
81584240 TGTCCCAGACATGTTTTAAACTAGCT
1 TGTCCCAGACATGTCTTACACTAGCT
81584266 TTGTAATGTG
Statistics
Matches: 199, Mismatches: 56, Indels: 15
0.74 0.21 0.06
Matches are distributed among these distances:
46 66 0.33
47 5 0.03
48 91 0.46
49 31 0.16
50 3 0.02
51 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCA
Found at i:81584227 original size:188 final size:191
Alignment explanation
Indices: 81583904--81584265 Score: 466
Period size: 188 Copynumber: 1.9 Consensus size: 191
81583894 AAGTCAATGC
* *
81583904 CATGTGCCAGACAGGTCTTACACTGACTTTCATATATCGAGGTTGATGCCGTGTCCCAGACAGGT
1 CATGTGCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCATGTCCCAGACAGGT
** * * *
81583969 CTTACACTGTCTCTCATCTATCGGTGTCGATGCCATGTCCTAGACAGGTCTTACACTAGCTTGTA
66 CTTACACTGTCTCTCATC-ATCAATGCCGATGCCATATCCTAGACAGGTCTTACACTAGCTGGTA
*
81584034 TATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATGTCTATG
130 TATCTCGAGGCCGATGCATGTCCCAGACATGTCTTAAACTAGCTCTCGTCTTAATGTCTATG
* * * * *
81584096 CATGTTCCAGACATGTCTTACACTG-GTTGGT-ATATTTCGAGGCTGATG-CATGTCCCAGACAT
1 CATGTGCCAGACAGGTCTTACACTGACTT--TCATATATCGAGGCTGATGCCATGTCCCAGACAG
* * * * * *
81584158 GTCTTTCACTAG-CTCTCGTC-TCAATGCCGATG-CATATCCTAGACATGTTTTACATTGGCTGG
64 GTCTTACACT-GTCTCTCATCATCAATGCCGATGCCATATCCTAGACAGGTCTTACACTAGCTGG
*
81584220 TATATCTCGAGGCCGATGCATGTCCCAGACATGTTTTAAACTAGCT
128 TATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTAAACTAGCT
81584266 TTGTAATGTG
Statistics
Matches: 147, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
188 68 0.46
189 9 0.06
191 30 0.20
192 39 0.27
193 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (191 bp):
CATGTGCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCTGATGCCATGTCCCAGACAGGT
CTTACACTGTCTCTCATCATCAATGCCGATGCCATATCCTAGACAGGTCTTACACTAGCTGGTAT
ATCTCGAGGCCGATGCATGTCCCAGACATGTCTTAAACTAGCTCTCGTCTTAATGTCTATG
Found at i:81595461 original size:49 final size:49
Alignment explanation
Indices: 81595349--81595476 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 49
81595339 GAACATCAAA
* *
81595349 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATAAAG
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATAAAG
* * * * * **
81595398 GTCAATGTCGTGTCCCAAACAGGTCTTACACTGGCTCTCATCTAT-TGG
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATAAAG
* *
81595446 TGTTGATGCCATGTCCCAAACAGGTCCTACA
1 -GTCGATGCCATGTCCCAAACAGGTCTTACA
81595477 TAGACACACA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 1 0.02
49 63 0.98
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATAAAG
Found at i:81595636 original size:46 final size:46
Alignment explanation
Indices: 81595539--81595662 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
81595529 TATATCTCGA
* * *
81595539 GGCCGATGCATGTCTCAGACATGTCTTACATTAGCTCTCGTCTTAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGAC-TAAT
81595586 -GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-AC-AATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGACTAA--T
* *
81595631 GGCCGATGCATGACCCAAACATGTCTTACACT
1 GGCCGATGCATGTCCCAGACATGTCTTACACT
81595663 GACACACGTA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
43 2 0.03
45 2 0.03
46 65 0.94
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGACTAAT
Found at i:81600991 original size:25 final size:26
Alignment explanation
Indices: 81600922--81600995 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
81600912 GATTTTGTCG
* *
81600922 AAATTTTATCGAGGGTAAAATCGTCA
1 AAATTTTATCGAGGGTAAAATTGCCA
*
81600948 AAAATTTATCGAGGGTAAAATTGCCA
1 AAATTTTATCGAGGGTAAAATTGCCA
* *
81600974 AAATTTTA-CTAGGATAAAATTG
1 AAATTTTATCGAGGGTAAAATTG
81600996 GGATGAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 12 0.29
26 30 0.71
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (26 bp):
AAATTTTATCGAGGGTAAAATTGCCA
Found at i:81601642 original size:26 final size:26
Alignment explanation
Indices: 81601610--81601691 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
81601600 TGATACAAAT
81601610 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
81601636 TGCTAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
81601662 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
81601688 TGAT
1 TGAT
81601692 GGAATTTCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:81608737 original size:26 final size:26
Alignment explanation
Indices: 81608696--81608776 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
81608686 TGATACAAAT
81608696 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
81608721 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
81608747 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
81608773 TGAT
1 TGAT
81608777 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
25 7 0.13
26 46 0.87
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:81613055 original size:40 final size:40
Alignment explanation
Indices: 81613011--81613213 Score: 205
Period size: 39 Copynumber: 5.2 Consensus size: 40
81613001 GTTCAAAACA
* * ***
81613011 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
81613051 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * * *
81613091 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGCAGAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** *
81613130 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** * *
81613169 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTA
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
81613208 CCTTCG
1 CCTTCG
81613214 CATCTTTGTT
Statistics
Matches: 146, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 106 0.73
40 40 0.27
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:81613122 original size:39 final size:39
Alignment explanation
Indices: 81613041--81613213 Score: 265
Period size: 39 Copynumber: 4.4 Consensus size: 39
81613031 TATGGTAACC
* *
81613041 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
81613081 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
81613120 CGCAGAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
81613159 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
81613198 CGCACAATTACCTTCG
1 CGCACAATTGCCTTCG
81613214 CATCTTTGTT
Statistics
Matches: 123, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 106 0.86
40 17 0.14
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:81616198 original size:20 final size:18
Alignment explanation
Indices: 81616172--81616214 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
81616162 GTTAAAGTAT
81616172 ATTAATTAAGTCATGATTA
1 ATTAATTAAGTCA-GATTA
*
81616191 AGTTAATTAAGTTAGATTA
1 A-TTAATTAAGTCAGATTA
81616210 ATTAA
1 ATTAA
81616215 ATCTTAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 7 0.32
20 11 0.50
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (18 bp):
ATTAATTAAGTCAGATTA
Found at i:81618775 original size:41 final size:41
Alignment explanation
Indices: 81618718--81618799 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
81618708 AAGTTGAGGG
81618718 AGTGTTGGTGTCGAAGTGGGTTTGTAGGCACTCATGCATTC
1 AGTGTTGGTGTCGAAGTGGGTTTGTAGGCACTCATGCATTC
81618759 AGTGTTGGTGTCGAAGTGGGTTTGTAGGCACTCATGCATTC
1 AGTGTTGGTGTCGAAGTGGGTTTGTAGGCACTCATGCATTC
81618800 GGTTTTGGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.17, C:0.15, G:0.34, T:0.34
Consensus pattern (41 bp):
AGTGTTGGTGTCGAAGTGGGTTTGTAGGCACTCATGCATTC
Found at i:81620186 original size:27 final size:27
Alignment explanation
Indices: 81620153--81620229 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
81620143 CAATTTGATG
*
81620153 AAATGACTGCTATACCCCTATGAGGTA
1 AAATGACTGATATACCCCTATGAGGTA
* *
81620180 AAGTGACTGTTATACCCCTATGAGGTA
1 AAATGACTGATATACCCCTATGAGGTA
*
81620207 AAATGACTGATATACCCTTATGA
1 AAATGACTGATATACCCCTATGA
81620230 TATGTATAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (27 bp):
AAATGACTGATATACCCCTATGAGGTA
Found at i:81620536 original size:34 final size:34
Alignment explanation
Indices: 81620492--81620558 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
81620482 TGCATTCTGT
* * *
81620492 TACTGTTACTGTTACTAAAATGGGCTAAGGCCCA
1 TACTGATACTGATACTAAAATGGGCTAAAGCCCA
**
81620526 TACTGATACTGATACTGCAATGGGCTAAAGCCC
1 TACTGATACTGATACTAAAATGGGCTAAAGCCC
81620559 TAATTGGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (34 bp):
TACTGATACTGATACTAAAATGGGCTAAAGCCCA
Found at i:81622175 original size:39 final size:39
Alignment explanation
Indices: 81622132--81622310 Score: 173
Period size: 39 Copynumber: 4.6 Consensus size: 39
81622122 AGATGTTTTT
* *
81622132 GAGTATTGGGATATATGCTTGAATGTTATGTGATTATAC
1 GAGTATTGTGATATATGCTTAAATGTTATGTGATTATAC
* * * *
81622171 GAGTATTATGATATATGCTTAAATGATATGCGAGTATAC
1 GAGTATTGTGATATATGCTTAAATGTTATGTGATTATAC
* ** **
81622210 GAGTATTGTGATATATACTTAAATGTTACATGATTATTT
1 GAGTATTGTGATATATGCTTAAATGTTATGTGATTATAC
*** *
81622249 GAGTATTGTGATATATGCTGGTATGTTA-GATGATTATAT
1 GAGTATTGTGATATATGCTTAAATGTTATG-TGATTATAC
* *
81622288 GTGTAATAG-GATATATGCTTAAA
1 GAGT-ATTGTGATATATGCTTAAA
81622311 AGTGAATGTG
Statistics
Matches: 112, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 109 0.97
40 3 0.03
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (39 bp):
GAGTATTGTGATATATGCTTAAATGTTATGTGATTATAC
Found at i:81624970 original size:32 final size:32
Alignment explanation
Indices: 81624934--81624998 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
81624924 TGTATGCATC
81624934 TTAGCATTTTAAAAGTTAATGGATGATGGGCA
1 TTAGCATTTTAAAAGTTAATGGATGATGGGCA
*
81624966 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAAAAGTTAATGGATGATGGGCA
81624998 T
1 T
81624999 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAAAAGTTAATGGATGATGGGCA
Found at i:81626507 original size:26 final size:26
Alignment explanation
Indices: 81626478--81626530 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
81626468 TTTACAGTTT
81626478 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
81626504 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
81626530 T
1 T
81626531 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:81637492 original size:44 final size:43
Alignment explanation
Indices: 81637392--81637492 Score: 114
Period size: 43 Copynumber: 2.3 Consensus size: 43
81637382 CTCGTACAAC
* ** * *
81637392 GCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGAT
1 GCCAACGTCCCAGACAAGGTCTTACATGTAATCAAAAATCGAT
* *
81637435 TCC-ACTGTCCCAGACAAGGTCTTACATGTAAATTAAAAATCGAT
1 GCCAAC-GTCCCAGACAAGGTCTTACATGT-AATCAAAAATCGAT
81637479 GCCAACGTCCCAGA
1 GCCAACGTCCCAGA
81637493 TGTGATCTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
42 2 0.04
43 22 0.47
44 21 0.45
45 2 0.04
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCAACGTCCCAGACAAGGTCTTACATGTAATCAAAAATCGAT
Found at i:81637502 original size:44 final size:43
Alignment explanation
Indices: 81637392--81637504 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 43
81637382 CTCGTACAAC
* * *
81637392 GCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAAATCGAT
* ** *
81637435 TCC-ACTGTCCCAGACAAGGTCTTACATGTAAATTAAAAATCGAT
1 GCCAAC-GTCCCAGACGTGGTCTTACATGT-AATCAAAAATCGAT
* *
81637479 GCCAACGTCCCAGATGTGATCTTACA
1 GCCAACGTCCCAGACGTGGTCTTACA
81637505 CGAAATCACA
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
42 2 0.04
43 22 0.40
44 29 0.53
45 2 0.04
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAAATCGAT
Found at i:81638853 original size:28 final size:28
Alignment explanation
Indices: 81638820--81638876 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
81638810 TAGGTTTGGG
81638820 TAACATTCTCTCATAGCATCTTTGGGCT
1 TAACATTCTCTCATAGCATCTTTGGGCT
81638848 TAACATTCTCTCATAGCATCTTTGGGCT
1 TAACATTCTCTCATAGCATCTTTGGGCT
81638876 T
1 T
81638877 CCACGTAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (28 bp):
TAACATTCTCTCATAGCATCTTTGGGCT
Found at i:81641498 original size:46 final size:46
Alignment explanation
Indices: 81641431--81641522 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
81641421 ACCCCAGGGA
* *
81641431 GAAAAGCTCGGTCATACGAAACCTTTATCTGTTAATTCTTGCAACT
1 GAAAAACTCGGTCATACGAAACCTCTATCTGTTAATTCTTGCAACT
* *
81641477 GAAAAACTCGGTCGTGCGAAACCTCTATCTGTTAATTCTTGCAACT
1 GAAAAACTCGGTCATACGAAACCTCTATCTGTTAATTCTTGCAACT
81641523 AGGATTTCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (46 bp):
GAAAAACTCGGTCATACGAAACCTCTATCTGTTAATTCTTGCAACT
Found at i:81645363 original size:44 final size:44
Alignment explanation
Indices: 81645295--81645400 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 44
81645285 TCCTAGGCAT
*
81645295 GGTCTTACATGT-AATCACATATCGATGCC-ACTGTCCCAAACAG
1 GGTCTTACATGTAAATCACAAATCGATGCCAAC-GTCCCAAACAG
* * *
81645338 GGTCTTACACGTAAATCACAAATCGATGCCAACGTCCCAGACAT
1 GGTCTTACATGTAAATCACAAATCGATGCCAACGTCCCAAACAG
81645382 GGTCTTACATG-AAATCACA
1 GGTCTTACATGTAAATCACA
81645401 TATCCGAATC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 19 0.34
44 35 0.62
45 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (44 bp):
GGTCTTACATGTAAATCACAAATCGATGCCAACGTCCCAAACAG
Found at i:81648854 original size:46 final size:46
Alignment explanation
Indices: 81648794--81649121 Score: 453
Period size: 46 Copynumber: 7.0 Consensus size: 46
81648784 TTTGACATGA
* * * * *
81648794 TGCCATAGTGTCTTTCAACTATGGTCTTACACATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* **
81648840 TGCCATGGTATCTTTCAGCCATGGTCTTATTCATTTCATGTTACGCTGCCATGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA---TA---T--CA-GGT
*
81648895 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
81648941 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
81648987 TGCCATGGTA-CTTTCAACCATTGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
81649032 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
81649078 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
81649122 AGAGCACACT
Statistics
Matches: 254, Mismatches: 17, Indels: 22
0.87 0.06 0.08
Matches are distributed among these distances:
45 48 0.19
46 160 0.63
47 2 0.01
49 2 0.01
52 3 0.01
54 2 0.01
55 37 0.15
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:81649048 original size:91 final size:92
Alignment explanation
Indices: 81648892--81649121 Score: 426
Period size: 91 Copynumber: 2.5 Consensus size: 92
81648882 ACGCTGCCAT
81648892 GGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTC
1 GGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTC
81648957 AACCATGGTCTTACACATTTCATATCA
66 AACCATGGTCTTACACATTTCATATCA
* *
81648984 GGTTGCCATGGTA-CTTTCAACCATTGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTC
1 GGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTC
81649048 AACCATGGTCTTACACATTTCATATCA
66 AACCATGGTCTTACACATTTCATATCA
*
81649075 AGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
81649122 AGAGCACACT
Statistics
Matches: 133, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
91 88 0.66
92 45 0.34
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (92 bp):
GGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTC
AACCATGGTCTTACACATTTCATATCA
Found at i:81659139 original size:14 final size:14
Alignment explanation
Indices: 81659119--81659159 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
81659109 AAAATTAGAT
*
81659119 ATAAATCCTAAGCA
1 ATAAATCCTAAACA
*
81659133 TTAAATCCTAAACA
1 ATAAATCCTAAACA
*
81659147 ATAAATTCTAAAC
1 ATAAATCCTAAAC
81659160 TGGAAACTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (14 bp):
ATAAATCCTAAACA
Found at i:81662972 original size:16 final size:16
Alignment explanation
Indices: 81662953--81662984 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
81662943 AATTGTTTTA
81662953 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
81662969 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
81662985 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:81663248 original size:50 final size:50
Alignment explanation
Indices: 81663194--81663476 Score: 273
Period size: 50 Copynumber: 5.6 Consensus size: 50
81663184 CTGGTACGCA
* * * *
81663194 TAGTAGCCTGCACTTAGTACTACACATGCGACCGATCAATCTAGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTAGTACACG
* * * * * *
81663244 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTAATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTAGTACACG
* * ** * ** *
81663294 TAGTAGCTTGTACTTAGTACTACACACGTGATCAAAGTTAA-CGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTAGTACACG
* * * * *
81663345 TAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTAAACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTAGTACACG
* * * *
81663395 TAGTAGCCTGTACTTAGTACTACACACGTGACTTAACCATCT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTAG-TACACG
*
81663445 TATTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
81663477 TCACAATGAA
Statistics
Matches: 187, Mismatches: 42, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
49 4 0.02
50 149 0.80
51 33 0.18
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTAGTACACG
Found at i:81663368 original size:101 final size:100
Alignment explanation
Indices: 81663244--81663477 Score: 263
Period size: 101 Copynumber: 2.3 Consensus size: 100
81663234 CTAGTACATG
* * * * *
81663244 TAGTAGCCTACACTTAGTACTACACACGTGACTTAACCATCTAATACATGTAGTAGCTTGTACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTAATAAACGTAGTAGCCTGTACTT
** *
81663309 AGTACTACACACGTGA-TCAAAGTTAACGGGTACACA
66 AGTACTACACACGTGACT-AAA-CCAACGGATACACA
* * * * * **
81663345 TAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTAAACGTAGTAGCCTGTACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTAATAAACGTAGTAGCCTGTACTT
* * * *
81663410 AGTACTACACACGTGACTTAACCATCTGATACACG
66 AGTACTACACACGTGACTAAACCAACGGATACACA
*
81663445 TATTAGCCTGCACTTAGTACTACACACGTGACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT
81663478 CACAATGAAT
Statistics
Matches: 108, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
100 36 0.33
101 71 0.66
102 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTAATAAACGTAGTAGCCTGTACTT
AGTACTACACACGTGACTAAACCAACGGATACACA
Found at i:81663460 original size:151 final size:151
Alignment explanation
Indices: 81663186--81663475 Score: 463
Period size: 151 Copynumber: 1.9 Consensus size: 151
81663176 GAAGCTCTCT
* * *
81663186 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCGATCAATCTAGTACATGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGATCAATCTAGTAAACGTAGTAGC
* * *
81663251 CTACACTTAGTACTACACACGTGACTTAACCATCTAATACATGTAGTAGCTTGTACTTAGTACTA
66 CTACACTTAGTACTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTA
81663316 CACACGTGATCAAAGTTAACG
131 CACACGTGATCAAAGTTAACG
* * *
81663337 GGTACACATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTAAACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGATCAATCTAGTAAACGTAGTAGC
** * *
81663402 CTGTACTTAGTACTACACACGTGACTTAACCATCTGATACACGTATTAGCCTGCACTTAGTACTA
66 CTACACTTAGTACTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTA
81663467 CACACGTGA
131 CACACGTGA
81663476 CTCACAATGA
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 126 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (151 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGATCAATCTAGTAAACGTAGTAGC
CTACACTTAGTACTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCAAAGTTAACG
Found at i:81663853 original size:19 final size:20
Alignment explanation
Indices: 81663825--81663871 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
81663815 AAGAACATGT
81663825 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
81663846 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
81663865 TATATAT
1 TATATAT
81663872 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:81672786 original size:15 final size:15
Alignment explanation
Indices: 81672762--81672793 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
81672752 AAATTTAAAA
*
81672762 TTAAAGCTTACCACT
1 TTAAAACTTACCACT
81672777 TTAAAACTTACCACT
1 TTAAAACTTACCACT
81672792 TT
1 TT
81672794 TGACAAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (15 bp):
TTAAAACTTACCACT
Found at i:81674478 original size:2 final size:2
Alignment explanation
Indices: 81674471--81674502 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
81674461 CTTGGACCAC
81674471 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81674503 TGATTATCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81679735 original size:27 final size:26
Alignment explanation
Indices: 81679671--81679781 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
81679661 AGGAAGCGTC
* *
81679671 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
81679698 -TGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
81679724 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
81679752 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
81679778 CTGG
1 CTGG
81679782 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.03
26 25 0.34
27 30 0.41
28 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:81680863 original size:11 final size:10
Alignment explanation
Indices: 81680835--81680868 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
81680825 AGCCTGTAAG
81680835 TATTCTGAAT
1 TATTCTGAAT
*
81680845 TTTTCTGAAT
1 TATTCTGAAT
81680855 ATATTCTGAAT
1 -TATTCTGAAT
81680866 TAT
1 TAT
81680869 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:81688436 original size:8 final size:8
Alignment explanation
Indices: 81688425--81688452 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
81688415 AAAATACCAG
81688425 TTTTCGGC
1 TTTTCGGC
81688433 TTTTCGGC
1 TTTTCGGC
81688441 TTTTCGGC
1 TTTTCGGC
81688449 TTTT
1 TTTT
81688453 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.21, G:0.21, T:0.57
Consensus pattern (8 bp):
TTTTCGGC
Found at i:81689726 original size:25 final size:26
Alignment explanation
Indices: 81689627--81689735 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
81689617 CATGAAATTC
81689627 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
81689653 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
81689679 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
81689705 TTATCATGGAAC-TTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
81689730 TTATCA
1 TTATCA
81689736 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 19 0.23
26 62 0.77
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:81690678 original size:27 final size:27
Alignment explanation
Indices: 81690638--81690725 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
81690628 AGGAAGCGTC
81690638 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
81690665 CTGGTGGCTTTGCCACATATT-TCTGTT
1 CTGGTGGCTATGCCACA-ATTATCTGAT
* * *
81690692 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
81690720 CTGGTG
1 CTGGTG
81690726 ACTCTATCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
26 3 0.06
27 39 0.75
28 10 0.19
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:81690730 original size:28 final size:27
Alignment explanation
Indices: 81690638--81690749 Score: 97
Period size: 27 Copynumber: 4.1 Consensus size: 27
81690628 AGGAAGCGTC
* *
81690638 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATTTGTAT
*
81690665 CTGGTGGCTTTGCCACA-TATTTCTGT-T
1 CTGGTGGCTCTGCCACATTA-TT-TGTAT
81690692 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCAC-ATTATTTGTAT
* ** *
81690720 CTGGTGACTCTATCACATTATCTGT-T
1 CTGGTGGCTCTGCCACATTATTTGTAT
81690746 CTGG
1 CTGG
81690750 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
25 2 0.03
26 7 0.10
27 44 0.61
28 17 0.24
29 2 0.03
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATTTGTAT
Found at i:81690744 original size:54 final size:54
Alignment explanation
Indices: 81690638--81690749 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
81690628 AGGAAGCGTC
* * * *
81690638 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * * *
81690692 CTGGTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
81690746 CTGG
1 CTGG
81690750 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 33 0.67
55 16 0.33
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:81692198 original size:24 final size:24
Alignment explanation
Indices: 81692110--81692209 Score: 137
Period size: 24 Copynumber: 4.2 Consensus size: 24
81692100 GATTCAACTC
* * *
81692110 CGCACACATAGTGCCAAATAATTA
1 CGCACACATAGTGCCATACAAATA
* *
81692134 CGCACACGTAGTGCCATACATATA
1 CGCACACATAGTGCCATACAAATA
81692158 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
* *
81692182 CGCACACATAGTTCCATACCAATA
1 CGCACACATAGTGCCATACAAATA
81692206 CGCA
1 CGCA
81692210 TCCGCATATC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.19
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:81695030 original size:70 final size:70
Alignment explanation
Indices: 81694917--81695057 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
81694907 AAATATAGGC
81694917 TGCTGTGGTTGGGGTGGAGTGGTGATAAACCGTAAATTATACATATTTTTACCCCATGTTTAATA
1 TGCTGTGGTTGGGGTGGAGTGGTGATAAACCGTAAATTATACATATTTTTACCCCATGTTTAATA
81694982 CATTT
66 CATTT
*
81694987 TGCTGTGGTTGGGGTGGAGTGGTGATAAACCGTAAATTATACATATTTTTACCCCATGTTTAATG
1 TGCTGTGGTTGGGGTGGAGTGGTGATAAACCGTAAATTATACATATTTTTACCCCATGTTTAATA
81695052 CATTT
66 CATTT
81695057 T
1 T
81695058 ATAGATGATA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (70 bp):
TGCTGTGGTTGGGGTGGAGTGGTGATAAACCGTAAATTATACATATTTTTACCCCATGTTTAATA
CATTT
Found at i:81695177 original size:21 final size:21
Alignment explanation
Indices: 81695144--81695187 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
81695134 ACCAAGAGTC
*
81695144 AAAAGGAGCCAAAAATGAGCCA
1 AAAAGGAGACAAAAATGA-CCA
*
81695166 AAAAGGA-ACAAAACTGACCA
1 AAAAGGAGACAAAAATGACCA
81695186 AA
1 AA
81695188 TCGAGAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 8 0.40
22 7 0.35
ACGTcount: A:0.59, C:0.18, G:0.18, T:0.05
Consensus pattern (21 bp):
AAAAGGAGACAAAAATGACCA
Found at i:81704464 original size:13 final size:13
Alignment explanation
Indices: 81704433--81704457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81704423 GCCTAGCAAT
81704433 CATGTCACACGGC
1 CATGTCACACGGC
81704446 CATGTCACACGG
1 CATGTCACACGG
81704458 GCGTGTCCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (13 bp):
CATGTCACACGGC
Done.