Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 230 of 410
Found at i:71076375 original size:17 final size:17
Alignment explanation
Indices: 71076349--71076382 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71076339 TATATATTTG
*
71076349 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
71076366 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
71076383 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:71077762 original size:26 final size:24
Alignment explanation
Indices: 71077701--71077809 Score: 130
Period size: 24 Copynumber: 4.5 Consensus size: 24
71077691 GAAATGACAT
71077701 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
71077725 TGGCATTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
71077749 TGGCACTACGTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTTG-AA
* * *
71077774 -GGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
71077797 TGGCACTATGTGT
1 TGGCACTATGTGT
71077810 ACGAATTTCC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
23 1 0.01
24 71 0.96
25 2 0.03
ACGTcount: A:0.20, C:0.13, G:0.34, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:71082810 original size:64 final size:64
Alignment explanation
Indices: 71082729--71082912 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
71082719 AGACATTATG
* * **
71082729 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
71082793 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
71082858 AA
63 AA
* * *
71082860 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
71082913 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:71098071 original size:27 final size:28
Alignment explanation
Indices: 71098040--71098101 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 28
71098030 ATAAAAATCG
*
71098040 ATTTTGTC-GCCTAGGGGCAAAATGGTC
1 ATTTTGTCAGCCTAGGAGCAAAATGGTC
*
71098067 ATTTTGTCAAAGTCTAGGAGCAAAATGGTC
1 ATTTTGTC--AGCCTAGGAGCAAAATGGTC
71098097 ATTTT
1 ATTTT
71098102 ACCAAAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 8 0.27
30 22 0.73
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (28 bp):
ATTTTGTCAGCCTAGGAGCAAAATGGTC
Found at i:71098108 original size:30 final size:30
Alignment explanation
Indices: 71098050--71098108 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
71098040 ATTTTGTCGC
* **
71098050 CTAGGGGCAAAATGGTCATTTTGTCAAAGT
1 CTAGGAGCAAAATGGTCATTTTACCAAAGT
71098080 CTAGGAGCAAAATGGTCATTTTACCAAAG
1 CTAGGAGCAAAATGGTCATTTTACCAAAG
71098109 ATATGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (30 bp):
CTAGGAGCAAAATGGTCATTTTACCAAAGT
Found at i:71098621 original size:46 final size:45
Alignment explanation
Indices: 71098545--71098667 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 45
71098535 GACGAGTGCT
* ** *
71098545 AGTGTAAGACATATCTGGGACATGTTTCGGCCT-CGAGATACCAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGACAT--CAGTC
**
71098591 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGACATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGACATCAGTC
*
71098635 AGTGTAAGACCATGTCTGGGACGTGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
71098668 ATAGATATGC
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
44 12 0.18
45 15 0.23
46 39 0.59
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGACATCAGTC
Found at i:71100933 original size:34 final size:34
Alignment explanation
Indices: 71100895--71100962 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
71100885 CAGTTCAGTT
71100895 TCAGT-TAGGGCCTCAGCCCAATACAGTAATAGTA
1 TCAGTGTA-GGCCTCAGCCCAATACAGTAATAGTA
* * *
71100929 TCAGTGTAGGCCTTAGCCCATTTCAGTAATAGTA
1 TCAGTGTAGGCCTCAGCCCAATACAGTAATAGTA
71100963 ACAATATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (34 bp):
TCAGTGTAGGCCTCAGCCCAATACAGTAATAGTA
Found at i:71101871 original size:31 final size:31
Alignment explanation
Indices: 71101836--71101896 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
71101826 TATTCATGAG
* *
71101836 ATTACCTATCACTTGCTTAGATCAATCACGC
1 ATTACCTATAACTTGCTCAGATCAATCACGC
71101867 ATTACCTATAACTTGCTCAGATCAATCACG
1 ATTACCTATAACTTGCTCAGATCAATCACG
71101897 TAATAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (31 bp):
ATTACCTATAACTTGCTCAGATCAATCACGC
Found at i:71109928 original size:13 final size:13
Alignment explanation
Indices: 71109910--71109934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71109900 GAGATGTAGC
71109910 CGTGTGTCTTAGT
1 CGTGTGTCTTAGT
71109923 CGTGTGTCTTAG
1 CGTGTGTCTTAG
71109935 CCATGTAAAG
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:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (13 bp):
CGTGTGTCTTAGT
Found at i:71111014 original size:35 final size:35
Alignment explanation
Indices: 71110966--71111057 Score: 175
Period size: 35 Copynumber: 2.6 Consensus size: 35
71110956 GCTCGGATCT
*
71110966 GAATTACCAGTCCAGGCTAAATTCAAACCCTAATC
1 GAATTACCCGTCCAGGCTAAATTCAAACCCTAATC
71111001 GAATTACCCGTCCAGGCTAAATTCAAACCCTAATC
1 GAATTACCCGTCCAGGCTAAATTCAAACCCTAATC
71111036 GAATTACCCGTCCAGGCTAAAT
1 GAATTACCCGTCCAGGCTAAAT
71111058 CCACAATGCA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (35 bp):
GAATTACCCGTCCAGGCTAAATTCAAACCCTAATC
Found at i:71117884 original size:46 final size:46
Alignment explanation
Indices: 71117831--71118006 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
71117821 TGGTTGAGCA
*
71117831 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
71117877 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
71117924 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
71117970 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71118007 GTGGGTTACA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 35 0.34
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:71117987 original size:93 final size:93
Alignment explanation
Indices: 71117828--71117999 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
71117818 GGATGGTTGA
*** *
71117828 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
71117893 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
71117921 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
71117986 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
71118000 CTTATGGGTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:71118492 original size:13 final size:13
Alignment explanation
Indices: 71118474--71118505 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
71118464 ATATTTTGAG
71118474 TATGGTCTTATGA
1 TATGGTCTTATGA
71118487 TATGGTCTTATGA
1 TATGGTCTTATGA
71118500 TATGGT
1 TATGGT
71118506 TATTGAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.47
Consensus pattern (13 bp):
TATGGTCTTATGA
Found at i:71144491 original size:92 final size:98
Alignment explanation
Indices: 71144233--71144495 Score: 242
Period size: 96 Copynumber: 2.8 Consensus size: 98
71144223 AGATGTCGAT
* * ** * *
71144233 ACCATGT-CCAGGACATGGTCTTACATTGGCTC-ATTTATCTA-GTCGATGCCATA-TCCCAAAC
1 ACCATGTCCCA-GACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCA-AGTCCCAAAC
*
71144294 ATGGTCTTACATTGACTATCGAAATCGAGGCTGAC
64 ATGGTCTTACATTGACTATCGAAATCGAGGCCGAC
* ** * * * *
71144329 ACCATGTCTCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCTATGTCCTAGACA
1 ACCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATATCAATGCCGATGCCAAGTCCCAAACA
**
71144394 TGGTCTTACATTGAC-A-C-ATCTCGTA-GCCGAC
65 TGGTCTTACATTGACTATCGAAATCG-AGGCCGAC
* * *
71144425 -GCATGTCCCAGACAT-GTCTTACACTAGCTCT-TATCTCAATGCCGATGCCAAGTCCCAAACAT
1 ACCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCAAGTCCCAAACAT
71144487 GGTCTTACA
66 GGTCTTACA
71144496 CTAGCTCTTG
Statistics
Matches: 136, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
92 32 0.24
94 16 0.12
95 13 0.10
96 35 0.26
97 4 0.03
98 6 0.04
99 30 0.22
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (98 bp):
ACCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCAAGTCCCAAACAT
GGTCTTACATTGACTATCGAAATCGAGGCCGAC
Found at i:71144498 original size:48 final size:48
Alignment explanation
Indices: 71144429--71144548 Score: 188
Period size: 48 Copynumber: 2.5 Consensus size: 48
71144419 GCCGACGCAT
*
71144429 GTCCCAGACAT-GTCTTACACTAGCTCTTATCTCAATGCCGATGCCAA
1 GTCCCAGACATGGTCTTACACTAGCTCTTATCTCAATACCGATGCCAA
* * *
71144476 GTCCCAAACATGGTCTTACACTAGCTCTTGTCTCAATACCGATGCCAT
1 GTCCCAGACATGGTCTTACACTAGCTCTTATCTCAATACCGATGCCAA
*
71144524 GTCCCAGACATGGTCTTACAATAGC
1 GTCCCAGACATGGTCTTACACTAGC
71144549 ACACAAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
47 10 0.15
48 56 0.85
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.28
Consensus pattern (48 bp):
GTCCCAGACATGGTCTTACACTAGCTCTTATCTCAATACCGATGCCAA
Found at i:71153386 original size:34 final size:34
Alignment explanation
Indices: 71153348--71153416 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
71153338 AACTTACTTT
71153348 TTCTTTCTCTTGGCAGGTTTTTATAGTTTTTGAC
1 TTCTTTCTCTTGGCAGGTTTTTATAGTTTTTGAC
71153382 TTCTTTCTCTTGGCAGGTTTTTATAGTTTTTGAC
1 TTCTTTCTCTTGGCAGGTTTTTATAGTTTTTGAC
71153416 T
1 T
71153417 AGAAGAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.12, C:0.14, G:0.17, T:0.57
Consensus pattern (34 bp):
TTCTTTCTCTTGGCAGGTTTTTATAGTTTTTGAC
Found at i:71155715 original size:31 final size:29
Alignment explanation
Indices: 71155629--71155760 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
71155619 GTGACGAGAT
71155629 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
71155658 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * *
71155687 TGGCACTAAAAGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
71155716 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71155745 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
71155761 GGCTTAAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71163604 original size:31 final size:29
Alignment explanation
Indices: 71163518--71163649 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
71163508 GTGACGAGAT
71163518 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
71163547 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * *
71163576 TGGCACTAAAAGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
71163605 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
71163634 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
71163650 GGCTTAAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:71172582 original size:27 final size:27
Alignment explanation
Indices: 71172552--71172702 Score: 115
Period size: 27 Copynumber: 5.6 Consensus size: 27
71172542 CAATTTGTAA
*
71172552 AATTACCAAAGTACCCTCGATTTACAG
1 AATTACCAAATTACCCTCGATTTACAG
*** *
71172579 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAATTACCCTCGATTTACAG
** * *
71172606 AATTACCATTTTACCCTCAATTTATAG
1 AATTACCAAATTACCCTCGATTTACAG
** * * *
71172633 AATTACCATTTTACCCTCGGTTTATAA
1 AATTACCAAATTACCCTCGATTTACAG
* * * *
71172660 AATTACTGAAA-TACCCTTGGTTTACAA
1 AATTAC-CAAATTACCCTCGATTTACAG
*
71172687 AATTACCAAAATACCC
1 AATTACCAAATTACCC
71172703 CTAGTTTGTA
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.03
27 102 0.96
28 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (27 bp):
AATTACCAAATTACCCTCGATTTACAG
Found at i:71172600 original size:54 final size:53
Alignment explanation
Indices: 71172538--71172694 Score: 161
Period size: 54 Copynumber: 2.9 Consensus size: 53
71172528 TATTAAAATG
* *
71172538 CCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCAATTTATAAAATTACCAAA-TACCCTCGATTTACAGAATTACCATTTTA
* * ** * *
71172592 CCCTCAATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTA
1 CCCTCAATTTATAAAATTACCA-AATACCCTCGATTTACAGAATTACCATTTTA
** * * * *
71172646 CCCTCGGTTTATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCA
1 CCCTCAATTTATAAAATTAC-CAAATACCCTCGATTTACAGAATTACCA
71172695 AAATACCCCT
Statistics
Matches: 81, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
54 80 0.99
55 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.35
Consensus pattern (53 bp):
CCCTCAATTTATAAAATTACCAAATACCCTCGATTTACAGAATTACCATTTTA
Found at i:71172737 original size:27 final size:27
Alignment explanation
Indices: 71172646--71172798 Score: 130
Period size: 27 Copynumber: 5.7 Consensus size: 27
71172636 TACCATTTTA
* *
71172646 CCCTCGGTTTATAAAATTACTGAAATAC
1 CCCT-GGTTTGTAAAATTACTAAAATAC
* ** *
71172674 CCTTGGTTTACAAAATTACCAAAATAC
1 CCCTGGTTTGTAAAATTACTAAAATAC
*
71172701 CCCTAGTTTGTAAAATTACTAAAATAC
1 CCCTGGTTTGTAAAATTACTAAAATAC
* *
71172728 CCCTGGTTTGTTAAATT-TTCAAAAT-C
1 CCCTGGTTTGTAAAATTACT-AAAATAC
** * * *
71172754 CTATGGCTAGTAAAATTACCAAAATAC
1 CCCTGGTTTGTAAAATTACTAAAATAC
* *
71172781 CCCTGATTTGTGAAATTA
1 CCCTGGTTTGTAAAATTA
71172799 TCGAAATACT
Statistics
Matches: 97, Mismatches: 25, Indels: 7
0.75 0.19 0.05
Matches are distributed among these distances:
26 19 0.20
27 75 0.77
28 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (27 bp):
CCCTGGTTTGTAAAATTACTAAAATAC
Found at i:71172744 original size:54 final size:54
Alignment explanation
Indices: 71172652--71172807 Score: 152
Period size: 53 Copynumber: 2.9 Consensus size: 54
71172642 TTTACCCTCG
* * * ** * *
71172652 GTTTATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTA
1 GTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCATA
* * * *
71172706 GTTTGTAAAATTACTAAAATACCCCTGGTTTGTTAAATTTTCAAAAT-CCTATG
1 GTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCATA
* * * * * *
71172759 GCTAGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATCGAAATAC
1 GTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTATCAAAATAC
71172808 TCTTGATTTG
Statistics
Matches: 83, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 43 0.52
54 40 0.48
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (54 bp):
GTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCATA
Found at i:71172805 original size:27 final size:26
Alignment explanation
Indices: 71172686--71172835 Score: 108
Period size: 27 Copynumber: 5.7 Consensus size: 26
71172676 TTGGTTTACA
*
71172686 AAATTACCAAAATACCCCT-AGTTTGT
1 AAATTATCAAAATACCCCTGA-TTTGT
*
71172712 AAAATTA-CTAAAATACCCCTGGTTTGTT
1 -AAATTATC-AAAATACCCCTGATTTG-T
* ** ** *
71172740 AAATTTTCAAAAT-CCTATGGCTAGT
1 AAATTATCAAAATACCCCTGATTTGT
*
71172765 AAAATTACCAAAATACCCCTGATTTGT
1 -AAATTATCAAAATACCCCTGATTTGT
* * *
71172792 GAAATTATCGAAATACTCTTGATTTGT
1 -AAATTATCAAAATACCCCTGATTTGT
*
71172819 AAAATATCAAAATACCC
1 AAATTATCAAAATACCC
71172836 TTGTAGGGTA
Statistics
Matches: 96, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
25 1 0.01
26 33 0.34
27 60 0.62
28 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (26 bp):
AAATTATCAAAATACCCCTGATTTGT
Found at i:71172818 original size:80 final size:79
Alignment explanation
Indices: 71172685--71172831 Score: 190
Period size: 80 Copynumber: 1.8 Consensus size: 79
71172675 CTTGGTTTAC
* * *
71172685 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTTAAATTTTCAA
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGATTTG-TAAAATATCAA
71172750 AATCCTATGGCTAGT
65 AATCCTATGGCTAGT
* * * *
71172765 AAAATTACCAAAATACCCCT-GATTTGTGAAATTA-TCGAAATACTCTTGATTTGTAAAATATCA
1 AAAATTACCAAAATACCCCTAG-TTTGTAAAATTACT-AAAATACCCCTGATTTGTAAAATATCA
71172828 AAAT
64 AAAT
71172832 ACCCTTGTAG
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.24
80 44 0.76
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (79 bp):
AAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATATCAAA
ATCCTATGGCTAGT
Found at i:71172830 original size:53 final size:52
Alignment explanation
Indices: 71172707--71172835 Score: 127
Period size: 53 Copynumber: 2.4 Consensus size: 52
71172697 ATACCCCTAG
* * * *
71172707 TTTGTAAAAT-TACTAAAATACCCCTGGTTTGTTAAATTTTCAAAATCCTATGG
1 TTTGTAAAATAT-C-AAAATACCCCTGATTTGTGAAATTATCAAAATCCTATGA
* * * *
71172760 CTAGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATCGAAATACTCT-TGA
1 TTTGTAAAA-TATCAAAATACCCCTGATTTGTGAAATTATCAAAAT-C-CTATGA
71172814 TTTGTAAAATATCAAAATACCC
1 TTTGTAAAATATCAAAATACCC
71172836 TTGTAGGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
53 47 0.77
54 12 0.20
55 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (52 bp):
TTTGTAAAATATCAAAATACCCCTGATTTGTGAAATTATCAAAATCCTATGA
Found at i:71172833 original size:26 final size:26
Alignment explanation
Indices: 71172668--71172838 Score: 89
Period size: 27 Copynumber: 6.4 Consensus size: 26
71172658 AAAATTACTG
* ** *
71172668 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGATTTGTAAAA-TATCA
*
71172695 AAATACCCCT-AGTTTGTAAAAT-TACTA
1 AAATACCCTTGA-TTTGTAAAATAT-C-A
* * * *
71172722 AAATACCCCTGGTTTGTTAAATTTTCA
1 AAATACCCTTGATTTG-TAAAATATCA
** * *
71172749 AAAT--CCTATGGCTAGTAAAATTACCA
1 AAATACCCT-TGATTTGTAAAA-TATCA
* * *
71172775 AAATACCCCTGATTTGTGAAATTATCG
1 AAATACCCTTGATTTGT-AAAATATCA
*
71172802 AAATACTCTTGATTTGTAAAATATCA
1 AAATACCCTTGATTTGTAAAATATCA
71172828 AAATACCCTTG
1 AAATACCCTTG
71172839 TAGGGTAGAA
Statistics
Matches: 108, Mismatches: 25, Indels: 23
0.69 0.16 0.15
Matches are distributed among these distances:
25 6 0.06
26 31 0.29
27 59 0.55
28 11 0.10
29 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (26 bp):
AAATACCCTTGATTTGTAAAATATCA
Found at i:71172859 original size:27 final size:27
Alignment explanation
Indices: 71172828--71173014 Score: 252
Period size: 27 Copynumber: 7.0 Consensus size: 27
71172818 TAAAATATCA
*
71172828 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
71172855 AAATACCC-TGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
71172881 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
71172908 AAATAACCC-TGTAGGGTAGAATTACCG
1 AAAT-ACCCTTGTAGGGTAGAATTACCG
* * *
71172935 AAATACCCTTGCAGGGTAAAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
71172962 AAATAACCATGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
71172989 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
71173015 ATTTTGCCCC
Statistics
Matches: 141, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
26 29 0.21
27 108 0.77
28 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:71172941 original size:54 final size:54
Alignment explanation
Indices: 71172828--71173013 Score: 284
Period size: 54 Copynumber: 3.5 Consensus size: 54
71172818 TAAAATATCA
*
71172828 AAATACCCTTGTAGGGTAGAATTACTGAAAT-ACCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAAAATTACTGAAATAACCCTGTAGGGTAGAATTACCG
* *
71172881 AAATACCCCTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAAAATTACTGAAATAACCCTGTAGGGTAGAATTACCG
* * * *
71172935 AAATACCCTTGCAGGGTAAAAATACCGAAATAACCATGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAAAATTACTGAAATAACCCTGTAGGGTAGAATTACCG
* *
71172989 AGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCTTGTAGGGTAAAATTAC
71173014 CATTTTGCCC
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 30 0.25
54 91 0.75
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAAAATTACTGAAATAACCCTGTAGGGTAGAATTACCG
Found at i:71173284 original size:25 final size:25
Alignment explanation
Indices: 71173217--71173284 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
71173207 AGGAAGTGCT
* * *
71173217 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
71173242 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
71173267 AAAAGGGCTTTGCCCCAG
1 AAAAGGGCTTTGCCCCAG
71173285 ATATTAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:71173299 original size:24 final size:25
Alignment explanation
Indices: 71173217--71173293 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
71173207 AGGAAGTGCT
* * * * *
71173217 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTATATCA
*
71173242 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTATATCA
*
71173267 AAAAGGGCTTTGCCCCAG-ATATTA
1 AAAAGGGCTTTGCCCCAGTATATCA
71173291 AAA
1 AAA
71173294 CAGGCTAGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 7 0.15
25 39 0.85
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTATATCA
Found at i:71175042 original size:68 final size:67
Alignment explanation
Indices: 71174970--71175119 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
71174960 CATCATGTGT
* * * *
71174970 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
71175032 ATGTAG
62 ATGTAG
** * *
71175038 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
71175103 AG
66 AG
71175105 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
71175120 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:71175075 original size:64 final size:64
Alignment explanation
Indices: 71174994--71175177 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
71174984 AGACATTATG
* *
71174994 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
71175058 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
71175123 AA
63 AA
* * * *
71175125 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
71175178 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:71175353 original size:28 final size:28
Alignment explanation
Indices: 71175321--71175379 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
71175311 TGAATGATGT
71175321 GTTCATTAAGTGACCAGGATGTGGTAAG
1 GTTCATTAAGTGACCAGGATGTGGTAAG
71175349 GTTCATTAAGTGACCAGGATGTGGTAAG
1 GTTCATTAAGTGACCAGGATGTGGTAAG
71175377 GTT
1 GTT
71175380 ATAAACAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.10, G:0.32, T:0.31
Consensus pattern (28 bp):
GTTCATTAAGTGACCAGGATGTGGTAAG
Found at i:71179513 original size:68 final size:67
Alignment explanation
Indices: 71179441--71179590 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
71179431 CATCATGTGT
* * * *
71179441 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
71179503 ATGTAG
62 ATGTAG
** * *
71179509 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
71179574 AG
66 AG
71179576 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
71179591 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:71179546 original size:64 final size:64
Alignment explanation
Indices: 71179465--71179648 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
71179455 AGACATTATG
* *
71179465 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
71179529 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
71179594 AA
63 AA
* * * *
71179596 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
71179649 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:71179811 original size:22 final size:22
Alignment explanation
Indices: 71179786--71179835 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
71179776 TTATGTGAAT
71179786 GATGTGTTCATTAAGTGACCAG
1 GATGTGTTCATTAAGTGACCAG
71179808 GATGTGTTCATTAAGTGACCAG
1 GATGTGTTCATTAAGTGACCAG
71179830 GATGTG
1 GATGTG
71179836 GTAAGGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (22 bp):
GATGTGTTCATTAAGTGACCAG
Found at i:71183715 original size:27 final size:27
Alignment explanation
Indices: 71183669--71183855 Score: 178
Period size: 27 Copynumber: 6.9 Consensus size: 27
71183659 ATTACTGAAA
* ** **
71183669 TACCCTCAATTTGTAAAATTACCAAAG
1 TACCCTCGATTTACAAAATTACCAATT
* *
71183696 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAATT
*
71183723 TACCCTCGATTTACAGAATTACCAATT
1 TACCCTCGATTTACAAAATTACCAATT
* * * *
71183750 TACCCTCGACTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAATT
* * *
71183777 TACGCTCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAATT
* * *
71183804 TACCCTTGATTTACAAAATTACTGAA-A
1 TACCCTCGATTTACAAAATTAC-CAATT
* *
71183831 TACCCTTGGTTTACAAAATTACCAA
1 TACCCTCGATTTACAAAATTACCAA
71183856 AATACCCTGG
Statistics
Matches: 135, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.01
27 132 0.98
28 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAATT
Found at i:71183743 original size:54 final size:54
Alignment explanation
Indices: 71183669--71183825 Score: 206
Period size: 54 Copynumber: 2.9 Consensus size: 54
71183659 ATTACTGAAA
** **
71183669 TACCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCAATTTACAAAATTACCAATTTACCCTCGATTTACAGAATTACCATTT
* * * *
71183723 TACCCTCGATTTACAGAATTACCAATTTACCCTCGACTTATAGAATTACCATTT
1 TACCCTCAATTTACAAAATTACCAATTTACCCTCGATTTACAGAATTACCATTT
* * * *
71183777 TACGCTCAATTTACAAAATTACCATTTTACCCTTGATTTACAAAATTAC
1 TACCCTCAATTTACAAAATTACCAATTTACCCTCGATTTACAGAATTAC
71183826 TGAAATACCC
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 87 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.35
Consensus pattern (54 bp):
TACCCTCAATTTACAAAATTACCAATTTACCCTCGATTTACAGAATTACCATTT
Found at i:71183835 original size:81 final size:81
Alignment explanation
Indices: 71183651--71183863 Score: 221
Period size: 81 Copynumber: 2.6 Consensus size: 81
71183641 AATACGTTAG
* * * * *
71183651 TTTACCAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATT
1 TTTACAAAATTACTGAAATACCCTCAACTTATAAAATTACCAAAGTACCCTCAATTTACAAAATT
71183716 ACCATTTTACCCTCGA
66 ACCATTTTACCCTCGA
* * * * * *** *
71183732 TTTACAGAATTAC-CAATTTACCCTCGACTTATAGAATTACCATTTTACGCTCAATTTACAAAAT
1 TTTACAAAATTACTGAA-ATACCCTCAACTTATAAAATTACCAAAGTACCCTCAATTTACAAAAT
*
71183796 TACCATTTTACCCTTGA
65 TACCATTTTACCCTCGA
**** * *
71183813 TTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCT
1 TTTACAAAATTACTGAAATACCCTCAACTTATAAAATTACCAAAGTACCCT
71183864 GGCTTGTAAA
Statistics
Matches: 103, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
80 2 0.02
81 99 0.96
82 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (81 bp):
TTTACAAAATTACTGAAATACCCTCAACTTATAAAATTACCAAAGTACCCTCAATTTACAAAATT
ACCATTTTACCCTCGA
Found at i:71183844 original size:54 final size:53
Alignment explanation
Indices: 71183786--71183915 Score: 154
Period size: 53 Copynumber: 2.4 Consensus size: 53
71183776 TTACGCTCAA
*** * * *
71183786 TTTACAAAATTACCATTTTACCCTTGATT-TACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTGGATTGT--AAAATTACTAAAATACCCCTGG
*
71183840 TTTACAAAATTACCAAAATACCCTGGCTTGTAAAATTACTAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTGGATTGTAAAATTACTAAAATACCCCTGG
* *
71183893 TCTATAAAATTACCAAAATACCC
1 TTTACAAAATTACCAAAATACCC
71183916 CTAATTTGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
53 41 0.62
54 24 0.36
55 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (53 bp):
TTTACAAAATTACCAAAATACCCTGGATTGTAAAATTACTAAAATACCCCTGG
Found at i:71183858 original size:27 final size:27
Alignment explanation
Indices: 71183786--71183915 Score: 136
Period size: 27 Copynumber: 4.9 Consensus size: 27
71183776 TTACGCTCAA
*** *
71183786 TTTACAAAATTACCATTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTTGG
**
71183813 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
71183840 TTTACAAAATTACCAAAATACCC-TGG
1 TTTACAAAATTACCAAAATACCCTTGG
* ** * *
71183866 CTTGTAAAATTACTAAAATACCCCTGG
1 TTTACAAAATTACCAAAATACCCTTGG
* *
71183893 TCTATAAAATTACCAAAATACCC
1 TTTACAAAATTACCAAAATACCC
71183916 CTAATTTGTA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 22 0.26
27 64 0.74
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:71183927 original size:27 final size:27
Alignment explanation
Indices: 71183818--71183940 Score: 122
Period size: 27 Copynumber: 4.6 Consensus size: 27
71183808 CTTGATTTAC
** * **
71183818 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
*
71183845 AAAATTACCAAAATA-CCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
71183871 AAAATTACTAAAATACCCCTGGTCTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
71183898 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
71183925 AAAATTATCGAAATAC
1 AAAATTACCAAAATAC
71183941 TCTCGATTTG
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 21 0.27
27 57 0.73
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:71184174 original size:27 final size:27
Alignment explanation
Indices: 71183959--71184175 Score: 272
Period size: 27 Copynumber: 8.0 Consensus size: 27
71183949 TGTAAAATAT
* *
71183959 CGAAATGCCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
71183986 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
71184013 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
71184040 TGAAATAACCTTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
71184067 TGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
71184094 CGAAATACCCTTGTAGGGTAAAAATAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
71184121 TGAAATACCCCTGTAGGGTACAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
71184148 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
71184175 C
1 C
71184176 ATTTTGCCTC
Statistics
Matches: 166, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 166 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:71186702 original size:50 final size:49
Alignment explanation
Indices: 71186596--71186772 Score: 203
Period size: 50 Copynumber: 3.6 Consensus size: 49
71186586 CTGGTAAGCA
* * ** *
71186596 TAGTAGCCTACACATAGTACTACACATGAGACCAATTATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATCTGACCAATTATCTGATACATG
*
71186645 TAGTAGCCTGCACTTAGTACTACACATCTGACCTAACTATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATCTGACC-AATTATCTGATACATG
* * ***
71186695 TAGTAGCCTGCACTTAGTACTACACA-CGTGATCGAAGTTATCGGATACGCA
1 TAGTAGCCTGCACTTAGTACTACACATC-TGA-CCAA-TTATCTGATACATG
*
71186746 TAGTAGCATGCACTTAGTACTACACAT
1 TAGTAGCCTGCACTTAGTACTACACAT
71186773 GCGACCTCAC
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
49 30 0.27
50 45 0.41
51 35 0.32
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATCTGACCAATTATCTGATACATG
Found at i:71191835 original size:40 final size:40
Alignment explanation
Indices: 71191770--71191976 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
71191760 TCTTCGGAAT
* ** *
71191770 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
71191809 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
71191849 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
71191889 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
71191929 TTAG-CCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
71191968 TTAGCCCGG
1 TTAGCCCGG
71191977 GTATCATTCA
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.25
40 113 0.75
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:71200084 original size:40 final size:40
Alignment explanation
Indices: 71199976--71200182 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
71199966 TCTTCGGAAT
* ** * *
71199976 TTAG-CCGGATATAACCACAAGCACAATTGCTTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
71200015 TTAACCCGGGTA-AGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
71200054 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
71200094 TTAGCCCGGATATAACAACTCGTAAAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
71200134 TTAGCCCGGATATAATC-ACTAGCATAAATACCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
*
71200174 GTAGCCCGG
1 TTAGCCCGG
71200183 GTATCATTCA
Statistics
Matches: 144, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 34 0.24
40 109 0.76
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:71204183 original size:51 final size:49
Alignment explanation
Indices: 71204066--71204205 Score: 154
Period size: 51 Copynumber: 2.8 Consensus size: 49
71204056 AGGTTATCTA
* ** *
71204066 GTACGCATAGTAGCCTGCACATAGTACTATGCATGCGACCAATTATCCG
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCG
*** * * *
71204115 GTACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGG
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCG
* *
71204166 GTACGCATAGTAGCCTGCGCTTAGTACTACACATGCGACC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
71204206 TCACAATAGA
Statistics
Matches: 72, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
49 30 0.42
50 4 0.06
51 38 0.53
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (49 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCG
Found at i:71207602 original size:28 final size:29
Alignment explanation
Indices: 71207571--71207629 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
71207561 AAAGTGATTT
*
71207571 TTGAGAAAAATGTCAATT-AGGGATTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
* * *
71207599 TTGAGGAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
71207628 TT
1 TT
71207630 ATGAAACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.31
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:71213161 original size:40 final size:39
Alignment explanation
Indices: 71213108--71213301 Score: 162
Period size: 39 Copynumber: 4.9 Consensus size: 39
71213098 GAATTCAATC
* *
71213108 ACCAACACAAAGCCTACGGGACTTTAAGCCCGGATATAGT
1 ACCAGCACGAAGCCT-CGGGACTTTAAGCCCGGATATAGT
* * *
71213148 ACCAGTACGAAGCCT-GTGGACCTTAAGTCCGGATATAGT
1 ACCAGCACGAAGCCTCG-GGACTTTAAGCCCGGATATAGT
* * * *
71213187 ACCAGCACGAAGTCT-GCGGA-TCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTCG-GGACT-TTAAGCCCGGATATAGT
* *
71213226 TCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATTA-T
1 ACCAGCACGAAGCCT-CGGGACTTTAAGCCCGGATA-TAGT
* * * *
71213266 TCCAGCACAAAGCCTCTGGGTCTTTAAGCCCTGATA
1 ACCAGCACGAAGCCTC-GGGACTTTAAGCCCGGATA
71213302 CAATTCCAAC
Statistics
Matches: 129, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 66 0.51
40 59 0.46
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (39 bp):
ACCAGCACGAAGCCTCGGGACTTTAAGCCCGGATATAGT
Found at i:71213308 original size:40 final size:40
Alignment explanation
Indices: 71213113--71213343 Score: 177
Period size: 40 Copynumber: 5.8 Consensus size: 40
71213103 CAATCACCAA
* * * *
71213113 CACAAAGCCTAC-GGGACTTTAAGCCCGGATATAGTACCAG
1 CACAAAGCCT-CTGGGTCTTTAAGCCCGGATACAATTCCAG
* * * * * * * * *
71213153 TACGAAGCCTGT-GGACCTTAAGTCCGGATATAGTACCAG
1 CACAAAGCCTCTGGGTCTTTAAGCCCGGATACAATTCCAG
* *
71213192 CACGAAG--TCTGCGGATC-TTAAGTCCGGATACAATTCCAG
1 CACAAAGCCTCTG-GG-TCTTTAAGCCCGGATACAATTCCAG
* **
71213231 CACGAAGCCTGC-GGGTCTTTAAGCCCGGATATTATTCCAG
1 CACAAAGCCT-CTGGGTCTTTAAGCCCGGATACAATTCCAG
* *
71213271 CACAAAGCCTCTGGGTCTTTAAGCCCTGATACAATTCCAA
1 CACAAAGCCTCTGGGTCTTTAAGCCCGGATACAATTCCAG
* * *
71213311 CATATAGCCTGTGGGTCTTTAAGCCCGGATACA
1 CACAAAGCCTCTGGGTCTTTAAGCCCGGATACA
71213344 CATAAAATAT
Statistics
Matches: 159, Mismatches: 23, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
37 2 0.01
39 62 0.39
40 92 0.58
41 2 0.01
42 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CACAAAGCCTCTGGGTCTTTAAGCCCGGATACAATTCCAG
Found at i:71220253 original size:159 final size:158
Alignment explanation
Indices: 71220011--71220342 Score: 434
Period size: 159 Copynumber: 2.1 Consensus size: 158
71220001 GCCTAGGGGA
* * * * *
71220011 CTTTAAGCCCGGATATAGTACCAGTATGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGAA
1 CTTTAAGCCCGGATATAATACCAGCATGAAGCCTGCGGACCTTAAGCCCGGATACAATACCAGAA
* *
71220076 CGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCACCACGAAGCCTGCGGGTCTTTAAGCCCAG
66 CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCACCACAAAGCCTGCGGGTCTTTAAGCCCAG
* * *
71220141 ATACTATTTCAGCACGA-AGCCTGCGGGT
131 ATACAATTCCAGCA-GATAGCCTGCGAGT
* * * * *
71220169 CTTTAAGCTCGGATATAATTCCAGCAT-ATAGCCTGCGAGTCTTTAAGCCCGGATACAATTCCAG
1 CTTTAAGCCCGGATATAATACCAGCATGA-AGCCTGCG-GACCTTAAGCCCGGATACAATACCAG
* * * *
71220233 CACGAAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAAAGCCTGTGGGTCTTTAAGCCC
64 AACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCACCACAAAGCCTGCGGGTCTTTAAGCCC
* *
71220298 GGATACAATTCCAGCATATAGCCTGCGAGT
129 AGATACAATTCCAGCAGATAGCCTGCGAGT
71220328 CTTTAAGCCCGGATA
1 CTTTAAGCCCGGATA
71220343 CACATCAAAT
Statistics
Matches: 149, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
157 1 0.01
158 32 0.21
159 116 0.78
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (158 bp):
CTTTAAGCCCGGATATAATACCAGCATGAAGCCTGCGGACCTTAAGCCCGGATACAATACCAGAA
CGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCACCACAAAGCCTGCGGGTCTTTAAGCCCAG
ATACAATTCCAGCAGATAGCCTGCGAGT
Found at i:71220280 original size:119 final size:120
Alignment explanation
Indices: 71220079--71220344 Score: 387
Period size: 119 Copynumber: 2.2 Consensus size: 120
71220069 ACCAGAACGA
* * *
71220079 AGCCTGCG-GATC-TTAAGTCCGGATACAATTCCACCACGAAGCCTGCGGGTCTTTAAGCCCAGA
1 AGCCTGCGAG-TCTTTAAGCCCGGATACAATTCCACCACGAAGCCTGCGGGACCTTAAGCCCAGA
* * * *
71220142 TACTATTTCAGCACGAAGCCTGCGGGTCTTTAAGCTCGGATATAATTCCAGCATAT
65 TACTATTCCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
* * *
71220198 AGCCTGCGAGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAAGTCCGGAT
1 AGCCTGCGAGTCTTTAAGCCCGGATACAATTCCACCACGAAGCCTGCGGGACCTTAAGCCCAGAT
*
71220262 A-TAATTCCAGCACAAAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
66 ACT-ATTCCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
71220317 AGCCTGCGAGTCTTTAAGCCCGGATACA
1 AGCCTGCGAGTCTTTAAGCCCGGATACA
71220345 CATCAAATAT
Statistics
Matches: 133, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
118 1 0.01
119 99 0.74
120 33 0.25
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (120 bp):
AGCCTGCGAGTCTTTAAGCCCGGATACAATTCCACCACGAAGCCTGCGGGACCTTAAGCCCAGAT
ACTATTCCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:71220291 original size:79 final size:79
Alignment explanation
Indices: 71220039--71220313 Score: 338
Period size: 79 Copynumber: 3.5 Consensus size: 79
71220029 TACCAGTATG
* * * * * * * *
71220039 AAGCCTGC-GGACCTTAAGTCCGGATATAGTACCAGAACGAAGCCTGCGGATCTTAAGTCCGGAT
1 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
* * *
71220103 ACAATTCCACCACG
66 ATAATTCCAGCACA
* * * * *
71220117 AAGCCTGCGGGTCTTTAAGCCCAGATACTATTTCAGCACGAAGCCTGCGGGTCTTTAAG-CTCGG
1 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAAGTC-CGG
*
71220181 ATATAATTCCAGCATA
64 ATATAATTCCAGCACA
* *
71220197 TAGCCTGCGAGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
71220262 ATAATTCCAGCACA
66 ATAATTCCAGCACA
*
71220276 AAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAGCA
1 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA
71220314 TATAGCCTGC
Statistics
Matches: 165, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 8 0.05
79 91 0.55
80 66 0.40
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (79 bp):
AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
ATAATTCCAGCACA
Found at i:71220308 original size:40 final size:40
Alignment explanation
Indices: 71219995--71220344 Score: 330
Period size: 40 Copynumber: 8.8 Consensus size: 40
71219985 TAATCACCAA
* * * *
71219995 CACAAAGCCTAG-GGGACTTTAAGCCCGGATATAGTACCAG
1 CACAAAGCCT-GCGGGTCTTTAAGCCCGGATACAATTCCAG
* ** * * * * * *
71220035 TATGAAGCCTGC-GGACCTTAAGTCCGGATATAGTACCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
* * * * *
71220074 AACGAAGCCTGCGGATC-TTAAGTCCGGATACAATTCCAC
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
* * * *
71220113 CACGAAGCCTGCGGGTCTTTAAGCCCAGATACTATTTCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
* * *
71220153 CACGAAGCCTGCGGGTCTTTAAGCTCGGATATAATTCCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
* * *
71220193 CATATAGCCTGCGAGTCTTTAAGCCCGGATACAATTCCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
* * * * *
71220233 CACGAAGCCTGC-GGACCTTAAGTCCGGATATAATTCCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
*
71220272 CACAAAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAG
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
* * *
71220312 CATATAGCCTGCGAGTCTTTAAGCCCGGATACA
1 CACAAAGCCTGCGGGTCTTTAAGCCCGGATACA
71220345 CATCAAATAT
Statistics
Matches: 257, Mismatches: 49, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
39 101 0.39
40 156 0.61
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAG
Found at i:71236605 original size:55 final size:55
Alignment explanation
Indices: 71236528--71236654 Score: 148
Period size: 55 Copynumber: 2.3 Consensus size: 55
71236518 GTTCAAGCCC
** * * * * *
71236528 CACGCCCGTGTTAATTTGACAGGTTCGCCCACAGGT-GTTAGACAGGGGCGTGTCG
1 CACGCCCGTGTTGTTTTAACAGGTTCACCCAC-GGTCCTTACACACGGGCGTGTCG
* * *
71236583 CACGCCCGTGCTGTTTTAACAGGTTCATCCACGGTCCTTCCACACGGGCGTGTCG
1 CACGCCCGTGTTGTTTTAACAGGTTCACCCACGGTCCTTACACACGGGCGTGTCG
71236638 CACGCCCGTGTTGTTTT
1 CACGCCCGTGTTGTTTT
71236655 GGCAGGCTGA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 3 0.05
55 57 0.95
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.27
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTAACAGGTTCACCCACGGTCCTTACACACGGGCGTGTCG
Found at i:71236682 original size:55 final size:55
Alignment explanation
Indices: 71236573--71236689 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
71236563 TGTTAGACAG
* * **
71236573 GGGCGTGTCGCACGCCCGTGCTGTTTTAACAGGTTCATCCACGGTCCTTCCACAC
1 GGGCGTGTCGCACGCCCGTGCTGTTTTAACAGGCTCAACCACGGTCCTGACACAC
* ** *
71236628 GGGCGTGTCGCACGCCCGTGTTGTTTTGGCAGGCTGAACCACGG-CCATGACACAC
1 GGGCGTGTCGCACGCCCGTGCTGTTTTAACAGGCTCAACCACGGTCC-TGACACAC
*
71236683 GGCCGTG
1 GGGCGTG
71236690 GCGTTTTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 2 0.04
55 50 0.96
ACGTcount: A:0.15, C:0.32, G:0.31, T:0.22
Consensus pattern (55 bp):
GGGCGTGTCGCACGCCCGTGCTGTTTTAACAGGCTCAACCACGGTCCTGACACAC
Found at i:71241408 original size:40 final size:40
Alignment explanation
Indices: 71241313--71241532 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
71241303 ACCCAAGTAT
* ** * *
71241313 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
71241351 CTTAGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
71241391 CTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
71241431 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
71241471 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
*
71241511 CTTCGGGATTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
71241533 CATTCGAATA
Statistics
Matches: 150, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
38 10 0.07
39 18 0.12
40 118 0.79
41 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:71250621 original size:2 final size:2
Alignment explanation
Indices: 71250614--71250638 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
71250604 GCTTCGCCAC
71250614 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
71250639 GGTTATGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71253160 original size:28 final size:27
Alignment explanation
Indices: 71253097--71253166 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
71253087 ATAGTGAGTC
71253097 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
71253124 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
71253152 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71253167 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:71257660 original size:40 final size:40
Alignment explanation
Indices: 71257533--71257662 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
71257523 ATGCTGGAAA
* *
71257533 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
71257573 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
71257613 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
71257653 TTATATCCGG
1 TTATATCCGG
71257663 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:71263983 original size:40 final size:40
Alignment explanation
Indices: 71263821--71264022 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
71263811 CGAATGATGT
*
71263821 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
71263861 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
71263900 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
71263938 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
71263979 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
71264019 CCGG
1 CCGG
71264023 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:71263985 original size:78 final size:79
Alignment explanation
Indices: 71263820--71263971 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
71263810 TCGAATGATG
* * *
71263820 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
71263885 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
71263900 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
71263963 GTGCAAGTC
65 GTGCAAGTC
71263972 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:71271194 original size:39 final size:39
Alignment explanation
Indices: 71271065--71271242 Score: 132
Period size: 40 Copynumber: 4.5 Consensus size: 39
71271055 ATGATGCCCG
* * * *
71271065 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAACCC
* * * *
71271104 GGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAATCCG
1 GG-CTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA-CCC
*
71271145 GGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTAAACCCC
1 GGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA-CCC
* ** *
71271183 GGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAACCG
1 GGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AACCC
*
71271223 GGCTTCA-TCCCGAAGGCATT
1 GGC-TAAGTCCCGAAGGCATT
71271243 TGAGCGAGTC
Statistics
Matches: 109, Mismatches: 21, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
38 23 0.21
39 20 0.18
40 52 0.48
41 14 0.13
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAACCC
Found at i:71271224 original size:78 final size:79
Alignment explanation
Indices: 71271062--71271244 Score: 194
Period size: 78 Copynumber: 2.3 Consensus size: 79
71271052 CGAATGATGC
* * *
71271062 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCG
1 CCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
* *
71271127 TGCGAGTTAATAAAT
65 TGCAAGTCAATAAAT
* *
71271142 CCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCCGG-TTAAG-TCCCGAAGGCATTC
1 CCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAA-CCCGGACTAAGAT-CCGAAGGCATTC
**
71271204 GTGCAAGTCGCTATAA-
64 GTGCAAGTCAATA-AAT
*
71271220 CCGGGCTTCATCCCGAAGGCATTTG
1 CCGGGC-TAATCCCGAAGGC-TTTG
71271245 AGCGAGTCGT
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 39 0.44
79 35 0.40
80 13 0.15
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (79 bp):
CCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGT
GCAAGTCAATAAAT
Found at i:71271234 original size:40 final size:40
Alignment explanation
Indices: 71271114--71271242 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 40
71271104 GGACTAGGAT
* * *
71271114 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGC-TAATC
1 CCGAAGGCATTCGTGCAAGTTACTAAACCCGGGCTTAATC
* *
71271153 CCGAAGGC-TTTGTGCAAGTTACTAAACCCCGG-TTAAGTC
1 CCGAAGGCATTCGTGCAAGTTACTAAACCCGGGCTTAA-TC
** *
71271192 CCGAAGGCATTCGTGCAAGTCGCTATAA-CCGGGCTTCATC
1 CCGAAGGCATTCGTGCAAGTTACTA-AACCCGGGCTTAATC
71271232 CCGAAGGCATT
1 CCGAAGGCATT
71271243 TGAGCGAGTC
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
38 22 0.29
39 18 0.24
40 30 0.40
41 5 0.07
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCAAGTTACTAAACCCGGGCTTAATC
Found at i:71272982 original size:28 final size:27
Alignment explanation
Indices: 71272919--71272988 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
71272909 ATAGTGAGTC
71272919 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
71272946 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
71272974 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71272989 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:71278815 original size:18 final size:19
Alignment explanation
Indices: 71278778--71278815 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
71278768 CAAAATAATC
*
71278778 TTCATTTTTCTCATATTATT
1 TTCATTTTCCTCA-ATTATT
71278798 TTCATTTTCCTC-ATTATT
1 TTCATTTTCCTCAATTATT
71278816 CTGTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (19 bp):
TTCATTTTCCTCAATTATT
Found at i:71280922 original size:17 final size:17
Alignment explanation
Indices: 71280896--71280929 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
71280886 TTTAGGATAA
* *
71280896 ATTTTGATTGATTTATG
1 ATTTTAATTGATATATG
71280913 ATTTTAATTGATATATG
1 ATTTTAATTGATATATG
71280930 TTAAATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (17 bp):
ATTTTAATTGATATATG
Found at i:71285231 original size:24 final size:24
Alignment explanation
Indices: 71285204--71285254 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
71285194 GCGCCATCCA
*
71285204 TTGCGCGGG-GATAGGCGTAGTTCC
1 TTGCGCGGGAG-TAGGCGCAGTTCC
71285228 TTGCGCGGGAGTAGGCGCAGTTCC
1 TTGCGCGGGAGTAGGCGCAGTTCC
71285252 TTG
1 TTG
71285255 TATGGGAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.12, C:0.22, G:0.41, T:0.25
Consensus pattern (24 bp):
TTGCGCGGGAGTAGGCGCAGTTCC
Found at i:71285261 original size:24 final size:24
Alignment explanation
Indices: 71285211--71285270 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
71285201 CCATTGCGCG
* *
71285211 GGGA-TAGGCGTAGTTCCTTGCGC
1 GGGAGTAGGCGCAGTTCCTTGCAC
* *
71285234 GGGAGTAGGCGCAGTTCCTTGTAT
1 GGGAGTAGGCGCAGTTCCTTGCAC
*
71285258 GGGAGCAGGCGCA
1 GGGAGTAGGCGCA
71285271 TTGCTTTTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.17, C:0.20, G:0.42, T:0.22
Consensus pattern (24 bp):
GGGAGTAGGCGCAGTTCCTTGCAC
Found at i:71298065 original size:48 final size:48
Alignment explanation
Indices: 71297996--71298115 Score: 188
Period size: 48 Copynumber: 2.5 Consensus size: 48
71297986 GCCGACGTAT
71297996 GTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAATGCCAATGCCAA
1 GTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGCCAA
* ** * *
71298043 GTCCCAAACATGGTCTTACACTAGCTCTTGTCTCAATGCCGATGCCAT
1 GTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGCCAA
71298091 GTCCCAGACATGGTCTTACACTAGC
1 GTCCCAGACATGGTCTTACACTAGC
71298116 ACAGAAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
47 10 0.15
48 56 0.85
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.27
Consensus pattern (48 bp):
GTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGCCAA
Found at i:71300341 original size:20 final size:20
Alignment explanation
Indices: 71300316--71300362 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
71300306 ATTCTGATAT
71300316 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71300336 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
71300356 ACATGAT
1 ACATGAT
71300363 GTATTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71300515 original size:24 final size:24
Alignment explanation
Indices: 71300409--71300509 Score: 121
Period size: 24 Copynumber: 4.1 Consensus size: 24
71300399 GAGGAAGTGC
**
71300409 AAAAGGGCTTTGCCCCAGTTACCG
1 AAAAGGGCTTTGCCCCAGTTATTG
* *
71300433 AAAAGGGCTTTGCCCCAGTTTACTA
1 AAAAGGGCTTTGCCCCAG-TTATTG
* * *
71300458 AAAAGGGCTTTTGCCTCAGTTTTTC
1 AAAAGGGC-TTTGCCCCAGTTATTG
71300483 AAAAGGGCTTTGCCCCAGTTATTG
1 AAAAGGGCTTTGCCCCAGTTATTG
71300507 AAA
1 AAA
71300510 GAGGCTAGGC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
24 34 0.52
25 23 0.35
26 9 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATTG
Found at i:71300758 original size:31 final size:31
Alignment explanation
Indices: 71300723--71300786 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71300713 CGTTTACAGT
71300723 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
71300754 AAAGGCTTCGGCCCCGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
71300785 AA
1 AA
71300787 TATGTAAAGG
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:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:71302488 original size:22 final size:22
Alignment explanation
Indices: 71302460--71302503 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
71302450 CGTGAGGGAG
71302460 AGTACCCCGATTGAACGAGTAA
1 AGTACCCCGATTGAACGAGTAA
71302482 AGTACCCCGATTGAACGAGTAA
1 AGTACCCCGATTGAACGAGTAA
71302504 CCTGGGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (22 bp):
AGTACCCCGATTGAACGAGTAA
Found at i:71308542 original size:25 final size:25
Alignment explanation
Indices: 71308490--71308583 Score: 129
Period size: 24 Copynumber: 3.8 Consensus size: 25
71308480 GAGGAAGTGC
* *
71308490 AAAAGGGCTATGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACTG
71308514 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
71308539 AAAAGGGCTTTTGCCCCAGTTTA-TC
1 AAAAGGGC-TTTGCCCCAGTTTACTG
*
71308564 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
71308584 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
24 28 0.44
25 22 0.34
26 14 0.22
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTG
Found at i:71308596 original size:24 final size:24
Alignment explanation
Indices: 71308489--71308596 Score: 121
Period size: 24 Copynumber: 4.4 Consensus size: 24
71308479 GGAGGAAGTG
* *
71308489 CAAAAGGGCTATGCCCCAG-TTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
71308512 CGAAAAGGGCTTTGCCCCAGTTTACT
1 C-AAAAGGGCTTTGCCCCAGTTTA-T
*
71308538 GAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAGGGC-TTTGCCCCAGTTTAT
*
71308563 CAAAAGGGCTTTGCCCTAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
71308586 TAAAAGAGGCT
1 CAAAAG-GGCT
71308597 AGGACTCCAG
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.14
24 30 0.41
25 20 0.27
26 14 0.19
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:71308841 original size:31 final size:31
Alignment explanation
Indices: 71308803--71308866 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71308793 CGTTTACAGT
71308803 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* **
71308834 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
71308865 AA
1 AA
71308867 TATGTAAAGG
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:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:71316865 original size:40 final size:39
Alignment explanation
Indices: 71316820--71316949 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
71316810 CGGAATATAA
71316820 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
71316860 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
71316900 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
71316940 CCGGATATAA
1 CCGGATATAA
71316950 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:71316964 original size:40 final size:40
Alignment explanation
Indices: 71316836--71316987 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
71316826 ATAACCATGT
* * *
71316836 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
71316876 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
71316916 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
71316956 GCATAATTGTCTTCGGGAT-TTATCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
71316988 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:71316970 original size:80 final size:80
Alignment explanation
Indices: 71316836--71316985 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
71316826 ATAACCATGT
*
71316836 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
71316900 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * * *
71316916 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
71316979 CCCGGAT
64 CCCGGAT
71316986 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:71324171 original size:40 final size:39
Alignment explanation
Indices: 71324126--71324255 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
71324116 CGGAATACAA
71324126 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
71324166 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
71324206 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
71324246 CCGGATATAA
1 CCGGATATAA
71324256 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:71325791 original size:40 final size:40
Alignment explanation
Indices: 71325742--71325989 Score: 284
Period size: 40 Copynumber: 6.2 Consensus size: 40
71325732 TCTTCGGAAT
* * *
71325742 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
71325781 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
71325821 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *** *
71325861 TTAGCCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
71325901 TTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
71325941 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
71325981 TTAGCCCGG
1 TTAGCCCGG
71325990 GTATCATTCA
Statistics
Matches: 173, Mismatches: 34, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
39 3 0.02
40 169 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:71325869 original size:80 final size:80
Alignment explanation
Indices: 71325742--71325989 Score: 365
Period size: 80 Copynumber: 3.1 Consensus size: 80
71325732 TCTTCGGAAT
* ** *
71325742 TTAG-CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCA
1 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATTTGGTAACTTGCA
71325805 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
71325821 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTGGTAACTTGCAC
71325886 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * ** * * *
71325901 TTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTGGTAACTTGCAC
*
71325966 AAATGCCTTCGGGAC
66 AAATGCCTTCGGGTC
71325981 TTAGCCCGG
1 TTAGCCCGG
71325990 GTATCATTCA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
79 4 0.03
80 148 0.96
81 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTGGTAACTTGCAC
AAATGCCTTCGGGTC
Found at i:71325971 original size:120 final size:120
Alignment explanation
Indices: 71325762--71325989 Score: 323
Period size: 120 Copynumber: 1.9 Consensus size: 120
71325752 ATAACCACAA
* * * *** *
71325762 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
* * *
71325827 CGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTGGTAACTT
66 CGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTAACTT
* *
71325882 GCACAAATGCCTTCGGGTCTTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
71325947 CGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGG
66 CGGATATAA-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
71325990 GTATCATTCA
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
120 93 0.99
121 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTAACTT
Found at i:71327046 original size:28 final size:28
Alignment explanation
Indices: 71326981--71327081 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71326971 ATAGTGAATC
*
71326981 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
71327010 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
71327038 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
71327068 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71327082 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:71331077 original size:40 final size:40
Alignment explanation
Indices: 71331012--71331219 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
71331002 TCTTCGGAAT
* ** *
71331012 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
71331051 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
71331091 TTAGCCCGGATATAACAACTCGCACAAATGCCTTTGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
71331131 TTTGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
71331171 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
71331211 TTAGCCCGG
1 TTAGCCCGG
71331220 GTATCATTCA
Statistics
Matches: 150, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.02
40 146 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:71358446 original size:23 final size:23
Alignment explanation
Indices: 71358420--71358468 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
71358410 TACTCTATAA
71358420 TCTTCGACTTCCCTCGGTCTAAG
1 TCTTCGACTTCCCTCGGTCTAAG
71358443 TCTTCGACTTCCCTCGGTCTAAG
1 TCTTCGACTTCCCTCGGTCTAAG
71358466 TCT
1 TCT
71358469 CAATTCCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.12, C:0.35, G:0.16, T:0.37
Consensus pattern (23 bp):
TCTTCGACTTCCCTCGGTCTAAG
Found at i:71365279 original size:38 final size:38
Alignment explanation
Indices: 71365196--71365309 Score: 147
Period size: 38 Copynumber: 2.9 Consensus size: 38
71365186 GAATCCAGTC
* *
71365196 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACAAAGCCTGCGGGA-TTTAA-CTCGGATATAAT
* * *
71365236 ACCAGCACTAAGCCTGCGAGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACTCGGATATAAT
* *
71365274 ACCAGCACGAAGTCTGCGGGATTTAACTCGGATATA
1 ACCAGCACAAAGCCTGCGGGATTTAACTCGGATATA
71365310 TTTCCAACTT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 42 0.65
39 5 0.08
40 18 0.28
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGCGGGATTTAACTCGGATATAAT
Found at i:71372729 original size:24 final size:24
Alignment explanation
Indices: 71372697--71372925 Score: 293
Period size: 24 Copynumber: 9.5 Consensus size: 24
71372687 AATCTCAAAT
*
71372697 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
71372721 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
71372745 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
71372769 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
*
71372793 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
71372817 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
71372841 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
71372865 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
71372889 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
71372913 GCACTATGTGTGC
1 GCACTATGTGTGC
71372926 AACGTTTGGT
Statistics
Matches: 178, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
23 10 0.06
24 153 0.86
25 15 0.08
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:71372773 original size:72 final size:71
Alignment explanation
Indices: 71372697--71372925 Score: 334
Period size: 72 Copynumber: 3.2 Consensus size: 71
71372687 AATCTCAAAT
* * **
71372697 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACA
* *
71372762 TACTATG
66 TAATA-A
** *
71372769 GCACTATGTGTGCGAACATAATA-AGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAA
1 GCACTATGTGTGCG-ATTTACTATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-A
71372833 CATAATAA
64 CATAATAA
71372841 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAAC
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-AC
71372906 ATAATAA
65 ATAATAA
71372913 GCACTATGTGTGC
1 GCACTATGTGTGC
71372926 AACGTTTGGT
Statistics
Matches: 142, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
71 5 0.04
72 127 0.89
73 10 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (71 bp):
GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACA
TAATAA
Found at i:71380640 original size:30 final size:30
Alignment explanation
Indices: 71380604--71380686 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
71380594 GTGCGAACTG
71380604 GCACTATGTGTGCGATTTACTATGCACTAT
1 GCACTATGTGTGCGATTTACTATGCACTAT
71380634 GCACTATGTGTGCGA--TA--AT--A--A-
1 GCACTATGTGTGCGATTTACTATGCACTAT
71380655 GCACTATGTGTGCGATTTACTATGGCACTAT
1 GCACTATGTGTGCGATTTACTAT-GCACTAT
71380686 G
1 G
71380687 TGTGCGAACT
Statistics
Matches: 43, Mismatches: 0, Indels: 19
0.69 0.00 0.31
Matches are distributed among these distances:
21 15 0.35
22 1 0.02
23 2 0.05
24 1 0.02
25 2 0.05
26 2 0.05
28 3 0.07
30 16 0.37
31 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (30 bp):
GCACTATGTGTGCGATTTACTATGCACTAT
Found at i:71380671 original size:51 final size:50
Alignment explanation
Indices: 71380583--71380729 Score: 186
Period size: 45 Copynumber: 3.1 Consensus size: 50
71380573 ATGAGGGAAA
*
71380583 ATGCACTATGTGTGCGAACT-GGCACTATGTGTGCGATTTACTATGCACT
1 ATGCACTATGTGTGCGAACTAAGCACTATGTGTGCGATTTACTATGCACT
*
71380632 ATGCACTATGTGTGCGATAATAAGCACTATGTGTGCGATTTACTATG----
1 ATGCACTATGTGTGCGA-ACTAAGCACTATGTGTGCGATTTACTATGCACT
71380679 --GCACTATGTGTGCGAACTATAGCACTATGTGT--GATTTACTATGGCACT
1 ATGCACTATGTGTGCGAACTA-AGCACTATGTGTGCGATTTACTAT-GCACT
71380727 ATG
1 ATG
71380730 TGTGCGAACA
Statistics
Matches: 85, Mismatches: 3, Indels: 19
0.79 0.03 0.18
Matches are distributed among these distances:
43 10 0.12
44 4 0.05
45 27 0.32
49 17 0.20
50 3 0.04
51 24 0.28
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (50 bp):
ATGCACTATGTGTGCGAACTAAGCACTATGTGTGCGATTTACTATGCACT
Found at i:71380703 original size:45 final size:45
Alignment explanation
Indices: 71380629--71380758 Score: 187
Period size: 45 Copynumber: 2.9 Consensus size: 45
71380619 TTTACTATGC
*
71380629 ACTAT-GCACTATGTGTGCGATAATA-AGCACTATGTGTGCGATTT
1 ACTATGGCACTATGTGTGCGA-ACTATAGCACTATGTGTGCGATTT
71380673 ACTATGGCACTATGTGTGCGAACTATAGCACTATGTGT--GATTT
1 ACTATGGCACTATGTGTGCGAACTATAGCACTATGTGTGCGATTT
71380716 ACTATGGCACTATGTGTGCGAACATAATAAGCACTATGTGTGC
1 ACTATGGCACTATGTGTGCGAAC-T-AT-AGCACTATGTGTGC
71380759 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
43 28 0.36
44 9 0.12
45 29 0.37
46 12 0.15
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (45 bp):
ACTATGGCACTATGTGTGCGAACTATAGCACTATGTGTGCGATTT
Found at i:71380725 original size:22 final size:22
Alignment explanation
Indices: 71380655--71380733 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
71380645 GCGATAATAA
71380655 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGT--GATTTACTATG
*** *
71380679 GCACTATGTGTG-CGAACTATA
1 GCACTATGTGTGATTTACTATG
71380700 GCACTATGTGTGATTTACTATG
1 GCACTATGTGTGATTTACTATG
71380722 GCACTATGTGTG
1 GCACTATGTGTG
71380734 CGAACATAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.37
22 18 0.39
24 11 0.24
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.35
Consensus pattern (22 bp):
GCACTATGTGTGATTTACTATG
Found at i:71380749 original size:24 final size:23
Alignment explanation
Indices: 71380634--71380758 Score: 93
Period size: 24 Copynumber: 5.6 Consensus size: 23
71380624 TATGCACTAT
71380634 GCACTATGTGTGCG--ATAATAA
1 GCACTATGTGTGCGACATAATAA
** * *
71380655 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGACATAATA-A
71380679 GCACTATGTGTGCGA-ACT-AT-A
1 GCACTATGTGTGCGACA-TAATAA
** * *
71380700 GCACTATGTGT--GATTTACTATG
1 GCACTATGTGTGCGACATAATA-A
71380722 GCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCG-ACATAATAA
71380746 GCACTATGTGTGC
1 GCACTATGTGTGC
71380759 AACGTTTGGT
Statistics
Matches: 80, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.04
20 1 0.01
21 25 0.31
22 11 0.14
23 5 0.06
24 30 0.38
25 5 0.06
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (23 bp):
GCACTATGTGTGCGACATAATAA
Found at i:71382281 original size:43 final size:41
Alignment explanation
Indices: 71382230--71382353 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 41
71382220 TCCCAGATGT
*
71382230 GGTCTTACATGTAATCAAACATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAA-ATCGATGCCA-TGTCCCAGACAG
* * * *
71382273 GGTCTTACACGAAATC-AGATACAATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAATCAAAAT-CGATGCC-ATGTCCCAGACAG
*
71382315 GGTCTTACACGTAAAACAAAAGTCGATGCCAATGTCCCA
1 GGTCTTACACGT-AATCAAAA-TCGATGCC-ATGTCCCA
71382354 AATGTGGTCT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
41 2 0.03
42 29 0.44
43 18 0.27
44 16 0.24
45 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (41 bp):
GGTCTTACACGTAATCAAAATCGATGCCATGTCCCAGACAG
Found at i:71382435 original size:66 final size:66
Alignment explanation
Indices: 71382329--71382456 Score: 202
Period size: 66 Copynumber: 1.9 Consensus size: 66
71382319 TTACACGTAA
* *
71382329 AACAAAAGTCGATGCCAATGTCCCAAATGTGGTCTTACGTGAAATCACATAACAAAATCCTAGTA
1 AACAAAAGTCGATGCCAACGTCCCAAACGTGGTCTTACGTGAAATCACATAACAAAATCCTAGTA
71382394 G
66 G
* * * *
71382395 AACAAAATTCGATGCCAACGTCCCAGACGTGTTCTTACGTGAAATCACATAACGAAATCCTA
1 AACAAAAGTCGATGCCAACGTCCCAAACGTGGTCTTACGTGAAATCACATAACAAAATCCTA
71382457 TGTCATGACA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (66 bp):
AACAAAAGTCGATGCCAACGTCCCAAACGTGGTCTTACGTGAAATCACATAACAAAATCCTAGTA
G
Found at i:71387722 original size:24 final size:24
Alignment explanation
Indices: 71387695--71387803 Score: 112
Period size: 25 Copynumber: 4.4 Consensus size: 24
71387685 TTGGAGGCCT
71387695 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
71387719 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGCAA
**
71387744 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-AATAAACTGGGGCAA
* ** *
71387769 ATCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
71387794 AGCCCTTTTA
1 AGCCCTTTTA
71387804 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.01
24 14 0.18
25 61 0.80
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:71387742 original size:25 final size:25
Alignment explanation
Indices: 71387708--71387802 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
71387698 CTCTTTTAAT
* *
71387708 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
71387733 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
71387758 AACTGGGGCAAATCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
71387783 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
71387803 AGCACTTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:71389338 original size:93 final size:93
Alignment explanation
Indices: 71389230--71389400 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
71389220 GCCCCTAAGT
* * *
71389230 GAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACACAA
71389295 CGAGTTCGGATGCCTAGTTATATTTCAC
66 CGAGTTCGGATGCCTAGTTATATTTCAC
* *
71389323 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACACAA
1 GAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACACAA
71389388 CGAGTTCGGATGC
66 CGAGTTCGGATGC
71389401 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACACAA
CGAGTTCGGATGCCTAGTTATATTTCAC
Found at i:71389397 original size:46 final size:46
Alignment explanation
Indices: 71389225--71389397 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
71389215 AACCCGCCCC
* * * *
71389225 TAAGTGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
71389271 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGT-TA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A-TCCA
**
71389315 TATTTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGT---GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
71389364 TAAGTGAACTCGGACTCAACACAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71389398 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 7 0.07
45 1 0.01
46 59 0.56
47 28 0.26
48 1 0.01
49 8 0.08
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:71389854 original size:30 final size:30
Alignment explanation
Indices: 71389820--71389879 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
71389810 ATTTAATACG
*
71389820 AACTTTGGAAAAATTACACTTTTGGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
71389850 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
71389880 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:71395764 original size:46 final size:46
Alignment explanation
Indices: 71395711--71395882 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
71395701 TGAGCATCCA
71395711 AACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCG
* *
71395757 AACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G--TCCG
* * * *
71395804 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCG
* *
71395850 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
71395883 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 58 0.55
47 27 0.26
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCG
Found at i:71395863 original size:93 final size:93
Alignment explanation
Indices: 71395704--71395874 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
71395694 GGATGGTTGA
* *
71395704 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
71395769 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
71395797 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
71395862 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71395875 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71398820 original size:15 final size:15
Alignment explanation
Indices: 71398800--71398864 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
71398790 GTATCTTGGG
71398800 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
71398815 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
71398830 TTTCTCTATAT-TGGA
1 TTTCTTTAT-TCTGGA
*
71398845 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
71398859 TTTCTT
1 TTTCTT
71398865 ATTATCTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
14 9 0.20
15 35 0.78
16 1 0.02
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:71400831 original size:46 final size:46
Alignment explanation
Indices: 71400775--71400950 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
71400765 TGGTTGAGCA
71400775 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
71400821 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * * *
71400866 CATCCGAACTCGTTGAGTTGATTCCAAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
71400914 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
71400951 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 61 0.57
47 26 0.24
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:71400931 original size:93 final size:93
Alignment explanation
Indices: 71400772--71400942 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
71400762 GGATGGTTGA
* * *
71400772 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
71400837 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
71400865 GCATCCGAACTCGTTGAGTTGATTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
71400930 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71400943 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71404714 original size:30 final size:30
Alignment explanation
Indices: 71404680--71404739 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
71404670 ATTTAATACG
71404680 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
71404710 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
71404740 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:71405690 original size:27 final size:27
Alignment explanation
Indices: 71405634--71405793 Score: 189
Period size: 27 Copynumber: 6.0 Consensus size: 27
71405624 TTAACAAAAT
* * * *
71405634 GGTAATTTTACCCCACAAGGGTAATCTC
1 GGTAATTCTACCCTACAGGGGT-ATTTC
* *
71405662 GGTAATTCCACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71405689 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71405716 GGCAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71405743 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71405770 AGTAATTCTA-CCTATA-GGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
71405794 TGATATTTTA
Statistics
Matches: 116, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
25 8 0.07
26 5 0.04
27 86 0.74
28 17 0.15
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:71405908 original size:81 final size:81
Alignment explanation
Indices: 71405785--71405990 Score: 238
Period size: 81 Copynumber: 2.6 Consensus size: 81
71405775 TTCTACCTAT
* * * * *
71405785 AGGGTATTTTGAT-ATTTTACAAATCAAGAGTA-TTTCGATAATTTCACAAATCAAGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTCACAAACCAAGGGTATTTT
71405848 GGTAATTTTA-AAAGTC
65 GGTAATTTTATAAAGTC
* * *
71405864 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTT
* ** * *
71405929 TGTAATTTTATTGATTG
65 GGTAATTTTATAAAGTC
**
71405946 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
71405991 TGTAAATCGA
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 11 0.10
81 88 0.82
82 7 0.07
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTG
GTAATTTTATAAAGTC
Found at i:71405916 original size:27 final size:27
Alignment explanation
Indices: 71405786--71405991 Score: 184
Period size: 27 Copynumber: 7.7 Consensus size: 27
71405776 TCTACCTATA
* * *
71405786 GGGTATTTTGAT-ATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * * *
71405812 GAGTATTTCGATAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
71405839 GGGTATTTTGGTAATTTTA-AAAGTCAG
1 GGGTATTTTGGTAATTTTACAAA-CCAG
71405866 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
71405893 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *** **
71405920 GGGTATTTTTGTAATTTTATTGA-TTG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
71405946 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAACCAG
*
71405974 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
71405992 GTAAATCGAG
Statistics
Matches: 151, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
26 14 0.09
27 134 0.89
28 3 0.02
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:71406014 original size:27 final size:27
Alignment explanation
Indices: 71405984--71406381 Score: 407
Period size: 27 Copynumber: 14.7 Consensus size: 27
71405974 GGGTATTTTA
* * *
71405984 GTAATTTTGTAAATCGAGGATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
71406011 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
71406038 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71406065 GTAATTCTATAAATAGAGGGTAGAGGGTAAAACG
1 GTAATTCTAT--A-A-A---TCGAGGGTAAAACG
*
71406099 ATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71406126 ATAATTCTATAAATCG-GGGATAAAACG
1 GTAATTCTATAAATCGAGGG-TAAAACG
* * *
71406153 ATAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71406180 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71406207 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
71406234 GTAATTCCATAAATTGAGGGT---A--
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71406256 --AATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
71406281 ATAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
71406308 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
71406335 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
71406362 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
71406382 CATTTCAGTA
Statistics
Matches: 317, Mismatches: 38, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
20 17 0.05
23 1 0.00
24 1 0.00
26 3 0.01
27 265 0.84
28 3 0.01
29 1 0.00
30 2 0.01
31 2 0.01
32 1 0.00
34 21 0.07
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:71406015 original size:81 final size:81
Alignment explanation
Indices: 71405866--71406018 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 81
71405856 TAAAAGTCAG
* * *****
71405866 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTTG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGATAAAACGG
71405931 TAATTTTATTGATTGA
66 TAATTTTATTGATTGA
** ** *
71405947 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATC-GAGGATAAAACG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAG-GGATAAAACG
71406011 GTAATTTT
65 GTAATTTT
71406019 GTAAATCGAG
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 1 0.02
81 58 0.98
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.42
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGATAAAACGG
TAATTTTATTGATTGA
Found at i:71406091 original size:34 final size:34
Alignment explanation
Indices: 71406053--71406120 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
71406043 TCTATAAATT
* *
71406053 GAGGGTAAAATGGTAATTCTATAAATAGAGGGTA
1 GAGGGTAAAACGATAATTCTATAAATAGAGGGTA
*
71406087 GAGGGTAAAACGATAATTCTATAAATCGAGGGTA
1 GAGGGTAAAACGATAATTCTATAAATAGAGGGTA
71406121 AAACGATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (34 bp):
GAGGGTAAAACGATAATTCTATAAATAGAGGGTA
Found at i:71406265 original size:20 final size:20
Alignment explanation
Indices: 71406236--71406277 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
71406226 GTAAAATGGT
*
71406236 AATTCCATAAATTGAGGGTA
1 AATTCCATAAATCGAGGGTA
*
71406256 AATTCTATAAATCGAGGGTA
1 AATTCCATAAATCGAGGGTA
71406276 AA
1 AA
71406278 ATGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (20 bp):
AATTCCATAAATCGAGGGTA
Found at i:71406265 original size:47 final size:47
Alignment explanation
Indices: 71406209--71406358 Score: 156
Period size: 47 Copynumber: 3.0 Consensus size: 47
71406199 GTAAAACGGT
* *
71406209 AATTCTATAAATCGAGGGTAAAATGGTAATTCCATAAATTGAGGGTA
1 AATTCTATAAATCGAGGGTAAAATGATAATTCCATAAATCGAGGGTA
***
71406256 AATTCTATAAATCGAGGGTAAAATGATAATTTTGTAAATCGAGGGTAAAA
1 AATTCTATAAATCGAGGGTAAAATGATAATTCCATAAATCGAGGGT---A
* * **
71406306 TGGTAATTCTATAAATTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
1 ----AATTCTATAAATCGAGGGTAAAATGATAATTCCATAAATCGAGGGTA
71406357 AA
1 AA
71406359 ACGGTAATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
47 43 0.49
50 1 0.01
51 1 0.01
54 43 0.49
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (47 bp):
AATTCTATAAATCGAGGGTAAAATGATAATTCCATAAATCGAGGGTA
Found at i:71406394 original size:155 final size:155
Alignment explanation
Indices: 71405993--71406359 Score: 189
Period size: 155 Copynumber: 2.5 Consensus size: 155
71405983 AGTAATTTTG
* * * * * * *
71405993 TAAATCGAGGATAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATTGAGGG
1 TAAATTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGG
* * *
71406058 TAAAATGGTAATTCTATAAATAGAGGG---------T--A--GAGGGTAAAACGATAATTCTATA
66 TAAAATAGTAATTCCATAAATTGAGGGTAAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
71406110 AATCGAGGG-TAAAACGATAATTCTA
131 AATCG-GGGATAAAACGATAATTCTA
* * * * **
71406135 TAAATCG-GGGATAAAACGATAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGG
1 TAAATTGAGGG-TAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGG
** * * * ** * * * *
71406199 GTAAAACGGTAATTCTATAAATCGAGGGTAAAAT-GGTAATTCCA---TAAATTGAGGGTAAATT
65 GTAAAATAGTAATTCCATAAATTGAGGGTAAATTCTATAAATCGAGGGTAAA---ACGAT-AATT
* * *
71406260 CTATAAATCGAGGG-TAAAATGATAATTTTG
126 CTATAAATCG-GGGATAAAACGATAATTCTA
* * * * * * **
71406290 TAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGATAATTCTGTAAATCGAGGG
1 TAAATTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGG
71406355 TAAAA
66 TAAAA
71406360 CGGTAATTTT
Statistics
Matches: 185, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
141 2 0.01
142 78 0.42
150 1 0.01
151 4 0.02
154 4 0.02
155 93 0.50
156 3 0.02
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (155 bp):
TAAATTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGG
TAAAATAGTAATTCCATAAATTGAGGGTAAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
AATCGGGGATAAAACGATAATTCTA
Found at i:71409244 original size:27 final size:27
Alignment explanation
Indices: 71408999--71409241 Score: 281
Period size: 27 Copynumber: 9.0 Consensus size: 27
71408989 GGGGCAAAAT
* * * *
71408999 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71409026 AGTAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71409053 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
71409080 GGCATTTCTACCCTACAGGGGCATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71409107 AGTAAGTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71409134 GGTAATTCTATCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71409161 GGTAATTCTACCATATA-GGGTTTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71409187 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71409214 GATAATTCTACCCTATAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71409241 G
1 G
71409242 ATATTTTACA
Statistics
Matches: 180, Mismatches: 35, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.12
27 158 0.88
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:71409267 original size:80 final size:80
Alignment explanation
Indices: 71409027--71409273 Score: 214
Period size: 80 Copynumber: 3.1 Consensus size: 80
71409017 GGGTATCTCA
* * * ** *
71409027 GTAATTCCACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGG-TATTTCGGCATTTCTAC
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTAC-AGGGTTATTTCGATAATTCTAC
** * * * **
71409091 CCTACAGGGGCATTTTA
65 CAAATA-GAGTATTTCG
* * * *
71409108 GTAAGTCTACCCTACAGGGGTATTTCGGTAATTCTATCCTACAGGGTTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGTTATTTCGATAATTCTACC
* * *
71409173 ATATAGGGTTTTTCG
66 AAATAGAGTATTTCG
* *
71409188 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAGAGG-TATTTCGAT-ATTTTA-
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAG-GGTTATTTCGATAATTCTAC
71409250 CAAATCGAGAGTATTTCG
65 CAAAT--AGAGTATTTCG
*
71409268 ATAATT
1 GTAATT
71409274 TCACAAATCA
Statistics
Matches: 140, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 4 0.03
79 5 0.04
80 72 0.51
81 59 0.42
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (80 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGTTATTTCGATAATTCTACC
AAATAGAGTATTTCG
Done.