Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 210 of 427
Found at i:59073566 original size:87 final size:87
Alignment explanation
Indices: 59073417--59073576 Score: 205
Period size: 87 Copynumber: 1.8 Consensus size: 87
59073407 TGACGAGATT
* * * * * * *
59073417 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTACTGGAAATATATGGCACTA
1 GGCACTAAGTGTGCATGCTGGAAAAATATGACACCAAGTGTGCGAACTGGAAAAATACGGCACTA
59073482 AGTGTGCGTGCTGGAAATATAA
66 AGTGTGCGTGCTGGAAATATAA
* *
59073504 GGCACTAAGTGTGCATGCTGGAAAAATATGACTCCATGTGTGC-AAGCTGGAAAAATACGGCACT
1 GGCACTAAGTGTGCATGCTGGAAAAATATGACACCAAGTGTGCGAA-CTGGAAAAATACGGCACT
**
59073568 GGGTGTGCG
65 AAGTGTGCG
59073577 AGCTCGAAGG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
86 1 0.02
87 60 0.98
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (87 bp):
GGCACTAAGTGTGCATGCTGGAAAAATATGACACCAAGTGTGCGAACTGGAAAAATACGGCACTA
AGTGTGCGTGCTGGAAATATAA
Found at i:59073580 original size:29 final size:29
Alignment explanation
Indices: 59073416--59073635 Score: 185
Period size: 29 Copynumber: 7.6 Consensus size: 29
59073406 GTGACGAGAT
*
59073416 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
59073445 TGGCACTAAGTGTGCGTA-CTGGAAATATA
1 TGGCACTAAGTGTGCG-AGCTGGAAATATA
*
59073474 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
59073503 AGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGA-GCTGGAAATATA
* * * * * *
59073532 TGACTCCATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* ** * ***
59073561 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
** * * * *
59073590 TGGCACTGTGTGTGCGGGCT-TAAATTGTG
1 TGGCACTAAGTGTGCGAGCTGGAAA-TATA
59073619 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
59073636 AATCGAGTAG
Statistics
Matches: 155, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.01
29 152 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:59074753 original size:16 final size:16
Alignment explanation
Indices: 59074732--59074766 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
59074722 TTGTAACGCG
59074732 CGAAGGTCAGAGCAGT
1 CGAAGGTCAGAGCAGT
59074748 CGAAGGTCAGAGCAGT
1 CGAAGGTCAGAGCAGT
59074764 CGA
1 CGA
59074767 TCCCTGTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.20, G:0.37, T:0.11
Consensus pattern (16 bp):
CGAAGGTCAGAGCAGT
Found at i:59077698 original size:29 final size:29
Alignment explanation
Indices: 59077666--59077739 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
59077656 CTTCGAGCTC
*
59077666 GCACACTCAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
59077695 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
59077724 GCACACTTAGTGCCAT
1 GCACACTTAGTGCCAT
59077740 CTCATCACCG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:59079740 original size:27 final size:27
Alignment explanation
Indices: 59079710--59079844 Score: 153
Period size: 27 Copynumber: 5.0 Consensus size: 27
59079700 GGGGCAAAAT
* *
59079710 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCCACAAGGGTATTTC
* * *
59079737 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTC
* *
59079764 GGTATTTCTACCCCACAAGGGTATTTT
1 GGTAATTCTACCCCACAAGGGTATTTC
* * *
59079791 GATAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTC
* * *
59079818 AGTAATTCTACCCCACAGGGGTGTTTC
1 GGTAATTCTACCCCACAAGGGTATTTC
59079845 AATAATTTTG
Statistics
Matches: 88, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCCACAAGGGTATTTC
Found at i:59079850 original size:54 final size:54
Alignment explanation
Indices: 59079711--59079851 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
59079701 GGGCAAAATG
* * * * *
59079711 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCCACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * *
59079765 GTATTTCTACCCCACAAGGGTATTTTGATAATTCTACCCTACATGGGTATTTCA
1 GTAATTCTACCCCACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * *
59079819 GTAATTCTACCCCACAGGGGTGTTTCAATAATT
1 GTAATTCTACCCCACAAGGGTATTTCGATAATT
59079852 TTGTAAATCG
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCCACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
Found at i:59082100 original size:39 final size:39
Alignment explanation
Indices: 59082007--59082225 Score: 250
Period size: 39 Copynumber: 5.6 Consensus size: 39
59081997 TACTCGTTCA
* * *
59082007 AATGCCTTCGGGACATAGGCCG-GTTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGAATT-TAGTAACTCGCAC
*
59082046 AAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCAC
* *
59082086 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCAC
59082125 AATGCCTTCGGG-CTTAGCCCGGAA-TTAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCC-GAATTTAGTAACTCGCAC
* * *
59082163 AAATGCCTTC-GGATCTTAGTCC-AGATTTAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGA-ATTTAGTAAC-TCGCAC
*
59082204 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
59082226 GACATCATTC
Statistics
Matches: 157, Mismatches: 12, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
38 24 0.15
39 62 0.39
40 61 0.39
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCAC
Found at i:59082116 original size:79 final size:79
Alignment explanation
Indices: 59082005--59082225 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
59081995 GCTACTCGTT
* * *
59082005 CAAATGCCTTCGGGACATAGGCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
59082069 AATTTAGTAACTCGCA
65 AA-TTAGTAACTCGCA
*
59082085 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-G
59082147 AATTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * *
59082162 CAAATGCCTTC-GGATCTTAGTCCAGATTTAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
59082225 G
64 G
59082226 GACATCATTC
Statistics
Matches: 125, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
77 24 0.19
78 40 0.32
79 48 0.38
80 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGA
ATTAGTAACTCGCA
Found at i:59082848 original size:42 final size:42
Alignment explanation
Indices: 59082801--59082883 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
59082791 TCTAAGTCAT
59082801 GCTAAAGCCATCAATAGGCTACCTATGGCCGAACATACACAA
1 GCTAAAGCCATCAATAGGCTACCTATGGCCGAACATACACAA
59082843 GCTAAAGCCATCAATAGGCTACCTATGGCCGAACATACACA
1 GCTAAAGCCATCAATAGGCTACCTATGGCCGAACATACACA
59082884 TCAACTCATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (42 bp):
GCTAAAGCCATCAATAGGCTACCTATGGCCGAACATACACAA
Found at i:59090148 original size:40 final size:39
Alignment explanation
Indices: 59090113--59090293 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
59090103 TACTCGTTCG
*
59090113 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
* *
59090152 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
*
59090192 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTC-CAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
59090229 AAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
59090270 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
59090294 CATCATTCGA
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
37 5 0.04
38 28 0.23
39 29 0.24
40 52 0.43
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:59090277 original size:78 final size:80
Alignment explanation
Indices: 59090116--59090293 Score: 249
Period size: 78 Copynumber: 2.3 Consensus size: 80
59090106 TCGTTCGAAT
* *
59090116 GCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
*
59090180 AGTAACTAGCACAAT
66 AGTAACTAGCACAAA
**
59090195 GCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTC-CACAAATGCCTTC-GGATCTTAGTCCGGATT
1 GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATT
*
59090256 TAGTCACTTAGCACAAA
65 TAGTAAC-TAGCACAAA
59090273 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
59090294 CATCATTCGA
Statistics
Matches: 89, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
76 3 0.03
77 30 0.34
78 35 0.39
79 21 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
AGTAACTAGCACAAA
Found at i:59099538 original size:25 final size:25
Alignment explanation
Indices: 59099504--59099553 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
59099494 TTTGGGTTAT
59099504 CGATTTATAGCTCGTAAGAGCATAC
1 CGATTTATAGCTCGTAAGAGCATAC
*
59099529 CGATTTATAGCTCGTGAGAGCATAC
1 CGATTTATAGCTCGTAAGAGCATAC
59099554 TGATCTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
CGATTTATAGCTCGTAAGAGCATAC
Found at i:59099597 original size:25 final size:25
Alignment explanation
Indices: 59099510--59099603 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
59099500 TTATCGATTT
* * *
59099510 ATAGCTCGTAAGAGCATACCGATTT
1 ATAGCTCGTATGAGCATACCAATTC
* *
59099535 ATAGCTCGTGA-GAGCATACTGATCTTC
1 ATAGCTCGT-ATGAGCATAC-CA-ATTC
59099562 A-A-CTCAG-ATGAGCATACCAATTC
1 ATAGCTC-GTATGAGCATACCAATTC
*
59099585 ATAGCTCGTATGATCATAC
1 ATAGCTCGTATGAGCATAC
59099604 ATGTATATGG
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
23 4 0.07
24 4 0.07
25 40 0.74
26 3 0.06
27 3 0.06
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (25 bp):
ATAGCTCGTATGAGCATACCAATTC
Found at i:59101888 original size:37 final size:37
Alignment explanation
Indices: 59101838--59101913 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
59101828 GTTACTTACT
59101838 TATTACTTGATCAAATGGTAACTTAAATTCTATGTTA
1 TATTACTTGATCAAATGGTAACTTAAATTCTATGTTA
*
59101875 TATTACTTGATCAAATGGTAAGTTAAATTCTATGTTA
1 TATTACTTGATCAAATGGTAACTTAAATTCTATGTTA
59101912 TA
1 TA
59101914 CGAACTTACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (37 bp):
TATTACTTGATCAAATGGTAACTTAAATTCTATGTTA
Found at i:59106674 original size:37 final size:37
Alignment explanation
Indices: 59106624--59106700 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
59106614 TCTTTCATCT
59106624 TATGGTAACAGGTACATCCTAGTGGCTGTTGACTATG
1 TATGGTAACAGGTACATCCTAGTGGCTGTTGACTATG
*
59106661 TATGGTAACAGGTATATCCTAGTGGCTGTTGACTATG
1 TATGGTAACAGGTACATCCTAGTGGCTGTTGACTATG
59106698 TAT
1 TAT
59106701 CCTAGTGGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (37 bp):
TATGGTAACAGGTACATCCTAGTGGCTGTTGACTATG
Found at i:59109922 original size:20 final size:21
Alignment explanation
Indices: 59109897--59109937 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
59109887 GCAAGTATGA
*
59109897 TTTTTTATTTTATC-TAAGTT
1 TTTTTTATGTTATCTTAAGTT
59109917 TTTTTTATGTTATCTTAAGTT
1 TTTTTTATGTTATCTTAAGTT
59109938 ATGGAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTTTATGTTATCTTAAGTT
Found at i:59115860 original size:21 final size:21
Alignment explanation
Indices: 59115834--59115881 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
59115824 AAGAAAATTT
** *
59115834 TAAAATTTTGTAAAATTTTAA
1 TAAAATTTTCAAAAATTATAA
59115855 TAAAATTTTCAAAAATTATAA
1 TAAAATTTTCAAAAATTATAA
*
59115876 AAAAAT
1 TAAAAT
59115882 ATTTAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAAATTTTCAAAAATTATAA
Found at i:59115903 original size:9 final size:9
Alignment explanation
Indices: 59115827--59115918 Score: 60
Period size: 10 Copynumber: 9.4 Consensus size: 9
59115817 AAAATAAAAG
59115827 AAAATTTT-
1 AAAATTTTA
*
59115835 AAAATTTTGT
1 AAAATTTT-A
59115845 AAAATTTTAA
1 AAAATTTT-A
59115855 TAAAATTTTCA
1 -AAAATTTT-A
*
59115866 AAAATTATAAA
1 AAAATT-T-TA
59115877 AAAATATTTA
1 AAAAT-TTTA
**
59115887 ATTTATTTTA
1 A-AAATTTTA
59115897 AAAATTTTA
1 AAAATTTTA
*
59115906 AAAATATTA
1 AAAATTTTA
59115915 AAAA
1 AAAA
59115919 CTATTTTAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
8 8 0.12
9 18 0.27
10 21 0.31
11 19 0.28
12 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (9 bp):
AAAATTTTA
Found at i:59115924 original size:30 final size:30
Alignment explanation
Indices: 59115890--59115948 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
59115880 ATATTTAATT
59115890 TATTTTAAAAATTTTA-AAAATATTAAAAAC
1 TATTTT-AAAATTTTAGAAAATATTAAAAAC
* * *
59115920 TATTTTAGATTTTTAGTAAATATTAAAAA
1 TATTTTAAAATTTTAGAAAATATTAAAAA
59115949 GTATAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (30 bp):
TATTTTAAAATTTTAGAAAATATTAAAAAC
Found at i:59116321 original size:14 final size:15
Alignment explanation
Indices: 59116296--59116324 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59116286 GGTCATAAAA
59116296 TAAAATTAAAATTAT
1 TAAAATTAAAATTAT
59116311 TAAAA-TAAAATTAT
1 TAAAATTAAAATTAT
59116325 ATTATGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAATTAAAATTAT
Found at i:59116336 original size:20 final size:20
Alignment explanation
Indices: 59116292--59116338 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
59116282 TTAAGGTCAT
*
59116292 AAAATAAAATTAAAATTATT
1 AAAATAAAATTAAAATTATG
*
59116312 AAAATAAAATT-ATATTATG
1 AAAATAAAATTAAAATTATG
59116331 ATAAATAA
1 A-AAATAA
59116339 TAACAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAATAAAATTAAAATTATG
Found at i:59122944 original size:34 final size:34
Alignment explanation
Indices: 59122900--59122977 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
59122890 ATATGTCTAA
* * *
59122900 TTGAACGTTGTGCAAATGATGAGTTA-TCTTATGG
1 TTGAATGTTGTGCAAATAATGAGTTATTC-TATAG
59122934 TTGAATGTTGTGCAAATAATGAGTTATTCTATAG
1 TTGAATGTTGTGCAAATAATGAGTTATTCTATAG
59122968 TTGAATGTTG
1 TTGAATGTTG
59122978 ATGTATTGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 38 0.95
35 2 0.05
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.41
Consensus pattern (34 bp):
TTGAATGTTGTGCAAATAATGAGTTATTCTATAG
Found at i:59126676 original size:50 final size:51
Alignment explanation
Indices: 59126550--59126769 Score: 201
Period size: 51 Copynumber: 4.3 Consensus size: 51
59126540 ATTGTGAGAA
* **
59126550 CACATGTGTAGTACTATGTACAGGCTACTATGTGTTTAAAATGGTCTTAGGT
1 CACATGTGTAGTACTAAGTACAGGCTACTATGTGTACAAAATGG-CTTAGGT
* * *
59126602 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGG-TTAGGT
1 CACATGTGTAGTACTAAGTACAGGCTACTATGTGTACAAAATGGCTTAGGT
* * ** *** * * *
59126652 CGCATGTGTAGTACAAAGTACAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTACAGGCTACTATGTGTACAAAATGGCTTAGGT
* * * * *
59126703 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA-AAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTACAGGCTACTATGTGTACAAA-ATGGCTTAGGT
* *
59126754 CACAAGTGTGGTACTA
1 CACATGTGTAGTACTA
59126770 TGTGAAGGCA
Statistics
Matches: 136, Mismatches: 30, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
50 41 0.30
51 57 0.42
52 38 0.28
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTACAGGCTACTATGTGTACAAAATGGCTTAGGT
Found at i:59126727 original size:51 final size:50
Alignment explanation
Indices: 59126550--59126734 Score: 154
Period size: 50 Copynumber: 3.6 Consensus size: 50
59126540 ATTGTGAGAA
* * ** *** *
59126550 CACATGTGTAGTACTATGTACAGGCTACTATGTGTTTAAAATGGTCTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAAAT-G-CTTAGAT
* ** * *
59126602 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAAATGCTTAGAT
* * * ** *
59126652 CGCATGTGTAGTACAAAGTACAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAAAT-GCTTAGAT
* *
59126703 CACATGTGTGGTACTAAGTGCAGGCCACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
59126735 TGTAAAAGAT
Statistics
Matches: 109, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 40 0.37
51 33 0.30
52 36 0.33
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAAATGCTTAGAT
Found at i:59126746 original size:51 final size:51
Alignment explanation
Indices: 59126550--59126800 Score: 195
Period size: 51 Copynumber: 4.9 Consensus size: 51
59126540 ATTGTGAGAA
* * * *
59126550 CACATGTGTAGTACTATGTACAGGCTACTATGTGTTTAAA-ATGGTCTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG-TAAAAGATAG-CTTAGGT
* * *
59126602 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAA-AT-GGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-AAAGATAGCTTAGGT
* * * ** *** * *
59126652 CGCATGTGTAGTACAAAGTACAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* * *
59126703 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
* * * * * * *
59126754 CACAAGTGTGGTACTATGTGAAGGCAACTTTGTG-AAGAAGGTAGCTT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAA-AAGATAGCTT
59126801 TGACTACAAG
Statistics
Matches: 160, Mismatches: 35, Indels: 9
0.78 0.17 0.04
Matches are distributed among these distances:
49 1 0.01
50 40 0.25
51 84 0.52
52 35 0.22
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAAAAGATAGCTTAGGT
Found at i:59126801 original size:51 final size:51
Alignment explanation
Indices: 59126691--59126829 Score: 156
Period size: 51 Copynumber: 2.7 Consensus size: 51
59126681 ATGCATACCC
* * * * *
59126691 GATAGCTTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAA
1 GATAGCTTTGGTCACAAGTGTGGTACTATGTGCAGGCAACTATGTGTAAAA
* *
59126742 GATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCAACTTTGTG-AAGAA
1 GATAGCTTTGGTCACAAGTGTGGTACTATGTGCAGGCAACTATGTGTAA-AA
* * *
59126793 GGTAGCTTT-GACTACAAGGGTGGTACTATGTGCAGGC
1 GATAGCTTTGGTC-ACAAGTGTGGTACTATGTGCAGGC
59126830 CACCGAGCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
50 4 0.05
51 71 0.95
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (51 bp):
GATAGCTTTGGTCACAAGTGTGGTACTATGTGCAGGCAACTATGTGTAAAA
Found at i:59131048 original size:28 final size:27
Alignment explanation
Indices: 59130976--59131067 Score: 134
Period size: 26 Copynumber: 3.4 Consensus size: 27
59130966 TAGAACACGA
*
59130976 AATTACCCTTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
59131003 AATTA-CCCTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
*
59131029 AAATTACCCCTAAGGAGCAAAATTACC-
1 -AATTACCCCTAAAGAGCAAAATTACCG
59131056 AATATACCCCTA
1 AAT-TACCCCTA
59131068 GGGTTTAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
26 23 0.38
27 18 0.30
28 19 0.32
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.21
Consensus pattern (27 bp):
AATTACCCCTAAAGAGCAAAATTACCG
Found at i:59135744 original size:27 final size:28
Alignment explanation
Indices: 59135710--59135805 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
59135700 ACGTAGAACA
* *
59135710 CGAAATTACCCTTAAAGAGCAAAATTAT
1 CGAAATTACCCCTAAAGAGCAAAATTAC
59135738 CG-AATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
59135765 CGAAATTACCCCTAAGGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
59135793 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
59135806 GGGTTTAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.05
27 33 0.52
28 27 0.43
ACGTcount: A:0.44, C:0.25, G:0.10, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:59141129 original size:38 final size:38
Alignment explanation
Indices: 59141068--59141228 Score: 261
Period size: 38 Copynumber: 4.3 Consensus size: 38
59141058 AGGCCTGGAT
*
59141068 ATAT-TTCCAGCACATAGCCTGCGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
* *
59141105 ATATGTTCCAGCATGTAGCTTGCGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
**
59141143 ATATGTTCCAGCACGTAGCCTATGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
*
59141181 ATATGTTCCAGCACGCAGCCTGCGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
59141219 ATATGTTCCA
1 ATATGTTCCA
59141229 AATACCATGC
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
37 4 0.04
38 109 0.96
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.24
Consensus pattern (38 bp):
ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
Found at i:59144523 original size:51 final size:51
Alignment explanation
Indices: 59144327--59144546 Score: 181
Period size: 51 Copynumber: 4.3 Consensus size: 51
59144317 GTTGTGAGAA
* * * *** * * *
59144327 CACATGTGTAGTACTATGTGCAGTCTACTATGTGTGTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAG-CTTAGGT
* * * *
59144379 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAG-TTGGTTAGGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAGCTTAGGT
* * * ** * * *
59144429 CGCATGTGTAGTACAAAGTGCAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAGCTTAGGT
* ** *
59144480 CACATGTGTGGTACTAAGTGTAGGCTACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAGCTTAGGT
* *
59144531 CACAAGTGTGGTACTA
1 CACATGTGTAGTACTA
59144547 TATGAAGGAC
Statistics
Matches: 132, Mismatches: 35, Indels: 3
0.78 0.21 0.02
Matches are distributed among these distances:
50 38 0.29
51 63 0.48
52 31 0.23
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAGCTTAGGT
Found at i:59153059 original size:46 final size:46
Alignment explanation
Indices: 59152895--59153114 Score: 297
Period size: 46 Copynumber: 4.8 Consensus size: 46
59152885 ATTTGGGCAT
* *
59152895 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AGCGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
59152940 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
59152985 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
59153033 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
59153079 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59153115 GCGGGTTACA
Statistics
Matches: 157, Mismatches: 8, Indels: 19
0.85 0.04 0.10
Matches are distributed among these distances:
42 6 0.04
44 2 0.01
45 29 0.18
46 81 0.52
47 28 0.18
48 4 0.03
50 4 0.03
51 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:59159351 original size:30 final size:30
Alignment explanation
Indices: 59159313--59159376 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
59159303 TCAAAAATGT
59159313 AATT-TTGTCATAATATGATTTTTGGACTG
1 AATTATTGTCATAATATGATTTTTGGACTG
*
59159342 AATTATTGTCATAATATGATTTTTGGACTT
1 AATTATTGTCATAATATGATTTTTGGACTG
59159372 AATTA
1 AATTA
59159377 AACAATGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.48
Consensus pattern (30 bp):
AATTATTGTCATAATATGATTTTTGGACTG
Found at i:59159878 original size:2 final size:2
Alignment explanation
Indices: 59159871--59159919 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
59159861 GTTTGGCTAC
59159871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59159913 AT AT AT A
1 AT AT AT A
59159920 CGTTAATATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:59165467 original size:28 final size:28
Alignment explanation
Indices: 59165435--59165499 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
59165425 ATTTACTAGA
*
59165435 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
59165463 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
59165491 ATACCCCTA
1 ATACCCCTA
59165500 GGGTTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:59165646 original size:28 final size:29
Alignment explanation
Indices: 59165605--59165667 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
59165595 AGGAAGCGTC
*
59165605 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
59165633 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
59165662 CTGGTG
1 CTGGTG
59165668 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:59165678 original size:29 final size:28
Alignment explanation
Indices: 59165615--59165678 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
59165605 CTGGTGGCTA
* *
59165615 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
59165643 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
59165672 TGTCACA
1 TGCCACA
59165679 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:59166155 original size:19 final size:19
Alignment explanation
Indices: 59166131--59166169 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
59166121 TTTTAATTAT
* *
59166131 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
59166150 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
59166169 T
1 T
59166170 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:59168441 original size:40 final size:39
Alignment explanation
Indices: 59168320--59168479 Score: 178
Period size: 39 Copynumber: 4.1 Consensus size: 39
59168310 TGTGTATGAA
* * *
59168320 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCATT
*
59168359 TGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCGA-T
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC-ATT
* *
59168398 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCATT
* * * * * *
59168438 TGTGCGGGTTATCATAACTGGGCTATGTCCCGAAGGCGTT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCATT
59168478 TG
1 TG
59168480 AACGAGTAGC
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 59 0.57
40 45 0.43
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCATT
Found at i:59168461 original size:79 final size:79
Alignment explanation
Indices: 59168320--59168475 Score: 215
Period size: 79 Copynumber: 2.0 Consensus size: 79
59168310 TGTGTATGAA
* *
59168320 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAA
59168385 G-CCCGAAGGCGAT
66 GTCCCGAAGGCGAT
* * * * * *
59168398 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACTGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTA
*
59168463 TGTCCCGAAGGCG
65 AGTCCCGAAGGCG
59168476 TTTGAACGAG
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 25 0.37
79 32 0.48
80 10 0.15
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAA
GTCCCGAAGGCGAT
Found at i:59168501 original size:79 final size:78
Alignment explanation
Indices: 59168330--59168512 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 78
59168320 TGTGCGAATT
* * *
59168330 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAAGCCCGAAGGC
** *
59168395 GATTGTGCGAGTT
66 GATTGAACGAGTA
* * * * *
59168408 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACTGGGCTATGTCCCGAAG
1 GTGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAAG-CCCGAAG
*
59168473 GCGTTTGAACGAGTA
64 GCGATTGAACGAGTA
*
59168488 GCT-ATATCC-GGTTAAACTCCGAAGG
1 G-TGATATCCGGGTTAAGC-CCGAAGG
59168513 TATGTGATTT
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
78 17 0.19
79 45 0.51
80 25 0.28
81 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (78 bp):
GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAAGCCCGAAGGC
GATTGAACGAGTA
Found at i:59171942 original size:13 final size:13
Alignment explanation
Indices: 59171926--59172041 Score: 76
Period size: 13 Copynumber: 8.7 Consensus size: 13
59171916 AAATTTATAA
59171926 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
59171939 ATG-AATCAGTTAT
1 ATGAAAT-GGTTAT
**
59171952 ATGGAAA-CATATAT
1 AT-GAAATGGT-TAT
59171966 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
59171979 ATG-ATTCGGTTAT
1 ATGAAAT-GGTTAT
* * *
59171992 ATGGAAATTGATAA
1 AT-GAAATGGTTAT
59172006 ATGAAATGGTTAT
1 ATGAAATGGTTAT
* *
59172019 ATGAAAATAGATAT
1 ATG-AAATGGTTAT
59172033 ATGAAATGG
1 ATGAAATGG
59172042 AACATTGGGC
Statistics
Matches: 78, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
12 5 0.06
13 45 0.58
14 24 0.31
15 4 0.05
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:59172038 original size:27 final size:27
Alignment explanation
Indices: 59171986--59172041 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
59171976 TATATGATTC
* *
59171986 GGTTATATGGAAATTGATAAATGAAAT
1 GGTTATATGAAAATAGATAAATGAAAT
*
59172013 GGTTATATGAAAATAGATATATGAAAT
1 GGTTATATGAAAATAGATAAATGAAAT
59172040 GG
1 GG
59172042 AACATTGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (27 bp):
GGTTATATGAAAATAGATAAATGAAAT
Found at i:59172039 original size:40 final size:39
Alignment explanation
Indices: 59171920--59172023 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 39
59171910 GGTGAAAAAT
59171920 TTATAAATGAAATGGTTATATGAATCAGTTATATGGAAA
1 TTATAAATGAAATGGTTATATGAATCAGTTATATGGAAA
* * * *
59171959 CATATATATGAAATGGTTATATGATTCGGTTATATGGAAA
1 -TTATAAATGAAATGGTTATATGAATCAGTTATATGGAAA
59171999 TTGATAAATGAAATGGTTATATGAA
1 TT-ATAAATGAAATGGTTATATGAA
59172024 AATAGATATA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (39 bp):
TTATAAATGAAATGGTTATATGAATCAGTTATATGGAAA
Found at i:59174395 original size:29 final size:29
Alignment explanation
Indices: 59174361--59174425 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
59174351 GCTCGCACCC
* *
59174361 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
59174390 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
59174419 AGTGCCA
1 AGTGCCA
59174426 ATCTCGTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:59175630 original size:24 final size:24
Alignment explanation
Indices: 59175589--59175644 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
59175579 TTTTTTTCCT
59175589 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* *
59175614 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
59175637 TATTCTTT
1 T-TTCTTT
59175645 CTACATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:59194411 original size:40 final size:40
Alignment explanation
Indices: 59194353--59194520 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
59194343 ATCTCGGGAT
*
59194353 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
59194392 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * * *
59194432 TTAGCCCGAATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * * *
59194472 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCAGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
59194512 TTAGTCCGG
1 TTAGCCCGG
59194521 TTATCATCCG
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 6 0.06
40 101 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:59201018 original size:93 final size:93
Alignment explanation
Indices: 59200906--59201077 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59200896 GCCCATAAGT
* *
59200906 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59200971 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59200999 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59201064 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59201078 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59201073 original size:46 final size:46
Alignment explanation
Indices: 59200898--59201073 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59200888 TGTAACCCGC
* * *
59200898 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59200944 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59200994 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
59201037 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59201074 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:59203502 original size:30 final size:30
Alignment explanation
Indices: 59203458--59203546 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
59203448 CAAAGATAAC
59203458 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
59203487 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
59203517 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
59203547 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:59203506 original size:15 final size:15
Alignment explanation
Indices: 59203458--59203537 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
59203448 CAAAGATAAC
*
59203458 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
59203472 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
59203487 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
59203502 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
59203517 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
59203532 AAGAAA
1 AAGAAA
59203538 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:59203546 original size:15 final size:15
Alignment explanation
Indices: 59203469--59203546 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
59203459 AGAAAACCGA
59203469 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
59203484 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
59203498 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
59203513 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59203529 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59203544 ATA
1 ATA
59203547 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59206568 original size:93 final size:93
Alignment explanation
Indices: 59206456--59206627 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59206446 GCCCATAAGT
* *
59206456 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59206521 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59206549 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59206614 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59206628 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59206623 original size:46 final size:46
Alignment explanation
Indices: 59206448--59206623 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59206438 TGTAACCCGC
* * *
59206448 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59206494 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59206544 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
59206587 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59206624 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:59210233 original size:40 final size:40
Alignment explanation
Indices: 59210165--59210342 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
59210155 AACCCAAGTA
*
59210165 CCTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATG
59210204 CCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
59210244 CCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATG
1 CCTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATG
* * *
59210284 CCTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATG
1 CCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATG
* *
59210324 CCTTCGGATCTTAGTCCGG
1 CCTTCGGGTCTTAGCCCGG
59210343 CTATCATCCG
Statistics
Matches: 121, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 104 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:59219311 original size:53 final size:53
Alignment explanation
Indices: 59219231--59219391 Score: 198
Period size: 53 Copynumber: 3.0 Consensus size: 53
59219221 TTTTCTTTTT
* * * *
59219231 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
*
59219284 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTGCCTTA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTA
* * * * *
59219337 TAGTAACTCATCAATGCCATGCCTTGGCAAGGTCTTACATGATATCCTTGTCTTA
1 T-G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
59219392 CCAAATGCCA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.02
53 46 0.49
54 1 0.01
55 42 0.45
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:59219422 original size:47 final size:46
Alignment explanation
Indices: 59219367--59219485 Score: 202
Period size: 47 Copynumber: 2.5 Consensus size: 46
59219357 GCCTTGGCAA
59219367 GGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACAT
1 GGTCTTACATG-TATCCTTGTCTTACCAAATGCCATGTTCCAAACAT
59219414 GGTCTTACATTGTATCCTTGTCTTACCAAATGCCATGTTCCAAACAT
1 GGTCTTACA-TGTATCCTTGTCTTACCAAATGCCATGTTCCAAACAT
*
59219461 GGTCTTACATGGTATCCTTCTCTTA
1 GGTCTTACAT-GTATCCTTGTCTTA
59219486 GTGCCAATGC
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
46 1 0.01
47 66 0.96
48 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (46 bp):
GGTCTTACATGTATCCTTGTCTTACCAAATGCCATGTTCCAAACAT
Found at i:59219707 original size:44 final size:44
Alignment explanation
Indices: 59219624--59219708 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
59219614 ATCCTTAACT
* * *
59219624 GTCAATTCCTCCTTAAATGCCATGTTATGAACATGGACTTTCCC
1 GTCAATTCCTCCTTAAATGCCATGGTATCAACATAGACTTTCCC
* * *
59219668 GTCAATTCTTCCTTAATTTCCATGGTA-CAACCATAGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTATCAA-CATAGACTTT
59219709 GAGATATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTATCAACATAGACTTTCCC
Found at i:59226436 original size:93 final size:93
Alignment explanation
Indices: 59226324--59226495 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59226314 GCCCATAAGT
* *
59226324 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59226389 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59226417 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59226482 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59226496 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59226491 original size:46 final size:46
Alignment explanation
Indices: 59226316--59226491 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59226306 TGTAACCCGC
* * *
59226316 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59226362 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59226412 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
59226455 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59226492 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:59228793 original size:30 final size:30
Alignment explanation
Indices: 59228749--59228837 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
59228739 CAAAGATAAC
59228749 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
59228778 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
59228808 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
59228838 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:59228797 original size:15 final size:15
Alignment explanation
Indices: 59228749--59228828 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
59228739 CAAAGATAAC
*
59228749 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
59228763 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
59228778 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
59228793 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
59228808 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
59228823 AAGAAA
1 AAGAAA
59228829 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:59228837 original size:15 final size:15
Alignment explanation
Indices: 59228760--59228837 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
59228750 AGAAAACCGA
59228760 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
59228775 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
59228789 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
59228804 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59228820 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59228835 ATA
1 ATA
59228838 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59231895 original size:93 final size:93
Alignment explanation
Indices: 59231783--59231954 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59231773 GCCCATAAGT
* *
59231783 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59231848 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59231876 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59231941 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59231955 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59231950 original size:46 final size:46
Alignment explanation
Indices: 59231775--59231950 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59231765 TGTAACCCGC
* * *
59231775 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59231821 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59231871 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
59231914 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59231951 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:59233519 original size:42 final size:42
Alignment explanation
Indices: 59233407--59233561 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
59233397 TACCATACCA
* * *
59233407 ATGCCATATCCCAGATATGGCCTTACATG--GGATCTCGTATCA
1 ATGCCATATCCCAGATATGGCCTTACACGAAGTATC-C-TATCG
* * * *
59233449 ATTCCAATAGCCAAGCTATGGCCTTACACGAAGTATCCTATCG
1 ATGCC-ATATCCCAGATATGGCCTTACACGAAGTATCCTATCG
* * * *
59233492 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAGATATGGCCTTACACGAAGTATCCTATCG
* * *
59233534 ATGCCATATACCAGATATAGTCTTACAC
1 ATGCCATATCCCAGATATGGCCTTACAC
59233562 ATAGTCATAG
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 60 0.65
43 28 0.30
44 1 0.01
45 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGCCTTACACGAAGTATCCTATCG
Found at i:59237336 original size:40 final size:40
Alignment explanation
Indices: 59237152--59237371 Score: 252
Period size: 40 Copynumber: 5.5 Consensus size: 40
59237142 TCGAATGATG
* * * *
59237152 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAA
* * *
59237192 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTATGCGAGTTACTAAA
*
59237231 TCCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
* *
59237271 TCCGGGTTAAGTCCCGAAGGCATTTATACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
* *
59237311 TCCGGGTTAAGTCCCGAAGGCATTTACGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTA-AA
*
59237352 -CCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
59237372 GTTTGAACGA
Statistics
Matches: 159, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 34 0.21
40 116 0.73
41 9 0.06
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
Found at i:59237382 original size:80 final size:80
Alignment explanation
Indices: 59237152--59237409 Score: 235
Period size: 80 Copynumber: 3.2 Consensus size: 80
59237142 TCGAATGATG
* ** * * * *
59237152 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTACGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
* **
59237215 TTGTGTGAGTTACT-AA
64 TTATACGAGTTACTAAA
* ** *
59237231 TCCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 T-CCGGGTTAAGTCCCGAAGGCATTTACGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
59237295 TATACGAGTTACTAAA
65 TATACGAGTTACTAAA
* *
59237311 TCCGGGTTAAGTCCCGAAGGCATTTACGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCGTT
1 TCCGGGTTAAGTCCCGAAGGCATTTACGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
59237375 TGA-ACGAG-TAGCTATA
65 T-ATACGAGTTA-CTAAA
* *
59237391 TCC-GGTTAAATGCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59237410 TATGTGATTT
Statistics
Matches: 154, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 73 0.47
80 77 0.50
81 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTACGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
ATACGAGTTACTAAA
Found at i:59241961 original size:2 final size:2
Alignment explanation
Indices: 59241954--59241989 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59241944 TCATGACATG
59241954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59241990 ACTAGTCTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59242193 original size:17 final size:17
Alignment explanation
Indices: 59242173--59242205 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
59242163 ATGTATAAGT
59242173 GGTACTATAATAGACAA
1 GGTACTATAATAGACAA
59242190 GGTACTATAATAGACA
1 GGTACTATAATAGACA
59242206 CATGTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (17 bp):
GGTACTATAATAGACAA
Found at i:59247968 original size:42 final size:42
Alignment explanation
Indices: 59247851--59248002 Score: 148
Period size: 42 Copynumber: 3.6 Consensus size: 42
59247841 TAACATACCA
* * * * *
59247851 ATGCCATATCCCAGATATGGCCTTACATG-GGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TTTCATATAG
* * * *
59247893 ATGCCAATAGT-CAAGCTATGGTCTTATACGAAGTTTCATATCG
1 ATGCC-ATA-TCCCAGATATGGTCTTACACGAAGTTTCATATAG
*
59247936 ATGCCATATCCCAGATATGGTTTTACACGAAGTCTT-ATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGT-TTCATATAG
*
59247978 ATGTCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
59248003 TACATAGTCT
Statistics
Matches: 90, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 55 0.61
43 32 0.36
44 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTTTCATATAG
Found at i:59252922 original size:28 final size:29
Alignment explanation
Indices: 59252882--59252980 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
59252872 GTAATAAGCC
*
59252882 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
59252910 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
59252938 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
59252967 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59252981 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:59260604 original size:28 final size:29
Alignment explanation
Indices: 59260564--59260662 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
59260554 GTAATAAGCC
*
59260564 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
59260592 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
59260620 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
59260649 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59260663 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:59262767 original size:19 final size:19
Alignment explanation
Indices: 59262730--59262767 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
59262720 TTAAGGTCTA
*
59262730 CAGCATGATAGAACTATTG
1 CAGCATGATAGAACAATTG
*
59262749 CAGCATGATAGATCAATTG
1 CAGCATGATAGAACAATTG
59262768 TCTAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
CAGCATGATAGAACAATTG
Found at i:59264679 original size:40 final size:40
Alignment explanation
Indices: 59264528--59264713 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
59264518 TCGAATGATG
* * *
59264528 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
59264568 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGACTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
59264608 TCCGTACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
59264648 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
59264689 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59264714 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 113 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59269434 original size:16 final size:17
Alignment explanation
Indices: 59269393--59269438 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
59269383 CACTAGGAAC
*
59269393 TATGTGATTATGAGCTG
1 TATGTGATTATGTGCTG
**
59269410 -ATGAAATTATGTG-TG
1 TATGTGATTATGTGCTG
59269425 TATGTGATTATGTG
1 TATGTGATTATGTG
59269439 AATTCGGGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.43
Consensus pattern (17 bp):
TATGTGATTATGTGCTG
Found at i:59273228 original size:7 final size:7
Alignment explanation
Indices: 59273216--59273258 Score: 50
Period size: 7 Copynumber: 5.6 Consensus size: 7
59273206 AATATATATT
59273216 TTTTATA
1 TTTTATA
59273223 TTTTATA
1 TTTTATA
59273230 TTTTATA
1 TTTTATA
59273237 TTATTAAATA
1 TT-TT--ATA
59273247 TGTTTATA
1 T-TTTATA
59273255 TTTT
1 TTTT
59273259 TTATAAATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 19 0.59
8 6 0.19
10 6 0.19
11 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (7 bp):
TTTTATA
Found at i:59280111 original size:40 final size:38
Alignment explanation
Indices: 59280066--59280184 Score: 121
Period size: 35 Copynumber: 3.2 Consensus size: 38
59280056 AAAAAAAAAA
59280066 CATGCCACTATTCTATTGATAATCTTATTCGCATGTTAAG
1 CATGCCACTA-TCTATT-ATAATCTTATTCGCATGTTAAG
59280106 CATGCCACTATACTA--AT--T-TTGATTCGCATGTTAAG
1 CATGCCACTAT-CTATTATAATCTT-ATTCGCATGTTAAG
*
59280141 CATGCCACTA--TATTA-AATAC-CATTCGCATGTTAAG
1 CATGCCACTATCTATTATAAT-CTTATTCGCATGTTAAG
59280176 CATGCCACT
1 CATGCCACT
59280185 GTACTAATTC
Statistics
Matches: 70, Mismatches: 1, Indels: 21
0.76 0.01 0.23
Matches are distributed among these distances:
32 2 0.03
34 3 0.04
35 49 0.70
37 2 0.03
39 1 0.01
40 13 0.19
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (38 bp):
CATGCCACTATCTATTATAATCTTATTCGCATGTTAAG
Found at i:59280138 original size:35 final size:35
Alignment explanation
Indices: 59280092--59280221 Score: 161
Period size: 35 Copynumber: 3.7 Consensus size: 35
59280082 TGATAATCTT
* *
59280092 ATTCGCATGTTAAGCATGCCACTATACTAATTTTG
1 ATTCGCATGTTAAGCATGCCACTATACTAATTATA
* * **
59280127 ATTCGCATGTTAAGCATGCCACTATATTAAATACC
1 ATTCGCATGTTAAGCATGCCACTATACTAATTATA
* *
59280162 ATTCGCATGTTAAGCATGCCACTGTACTAATTCTA
1 ATTCGCATGTTAAGCATGCCACTATACTAATTATA
* *
59280197 ATTCACATGTAAAGCATGCCTACTA
1 ATTCGCATGTTAAGCATGCC-ACTA
59280222 AAAATTCTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
35 77 0.96
36 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (35 bp):
ATTCGCATGTTAAGCATGCCACTATACTAATTATA
Found at i:59286995 original size:48 final size:48
Alignment explanation
Indices: 59286924--59287271 Score: 258
Period size: 48 Copynumber: 7.4 Consensus size: 48
59286914 GGGATATGCA
*
59286924 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAAAATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAATATG
* *
59286972 TGATCCCATGTAAGAACATGTCTGGGACATGGCATT-GCATCAATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAATATG
* * ** * * * **
59287019 AGTTATCGTGTAAGACCATAG-CTAGG-CTATCGGC-TTTG-AT--ATACA
1 TGATCCCATGTAAGACCAT-GTCTGGGAC-AT-GGCATTAGTATCAATATG
* * * *
59287064 TGATCCCATGTAAGACCAAGTCTGGGAAATGGCATTGGTATCAAAATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAATATG
* * * * *
59287112 TGATCCCATGTAAGACCATGTATGAGATATGGCATTGGCATCAATATGAG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAATAT--G
* * ***
59287162 TTAT-CC-TGTAAGACCATAG-CTGGG-CTATCGGC-TTCG-AT--ATGCA
1 TGATCCCATGTAAGACCAT-GTCTGGGAC-AT-GGCATTAGTATCAATATG
* *
59287205 TGATCCTATGTAAGACCATGTCTAGGACATGGCATTAGTATCAATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAATATG
*
59287253 TAATCCCATGTAAGACCAT
1 TGATCCCATGTAAGACCAT
59287272 ACCTGGGATT
Statistics
Matches: 230, Mismatches: 47, Indels: 46
0.71 0.15 0.14
Matches are distributed among these distances:
43 3 0.01
44 9 0.04
45 47 0.20
46 6 0.03
47 34 0.15
48 121 0.53
49 6 0.03
50 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAATATG
Found at i:59287221 original size:141 final size:141
Alignment explanation
Indices: 59286916--59287295 Score: 591
Period size: 141 Copynumber: 2.7 Consensus size: 141
59286906 TAGCGTTAGG
59286916 GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAAAATGTGATCCCAT
1 GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAAAATGTGATCCCAT
* * *
59286981 GTAAGAACATGTCTGGGACATGGCATT-GCATCAATATGAGTTATCGTGTAAGACCATAGCTAGG
66 GTAAGACCATGTCTGGGATATGGCATTGGCATCAATATGAGTTATCCTGTAAGACCATAGCTAGG
*
59287045 CTATCGGCTTT
131 CTATCGGCTTC
* * * *
59287056 GATATACATGATCCCATGTAAGACCAAGTCTGGGAAATGGCATTGGTATCAAAATGTGATCCCAT
1 GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAAAATGTGATCCCAT
* * *
59287121 GTAAGACCATGTATGAGATATGGCATTGGCATCAATATGAGTTATCCTGTAAGACCATAGCTGGG
66 GTAAGACCATGTCTGGGATATGGCATTGGCATCAATATGAGTTATCCTGTAAGACCATAGCTAGG
59287186 CTATCGGCTTC
131 CTATCGGCTTC
* * * *
59287197 GATATGCATGATCCTATGTAAGACCATGTCTAGGACATGGCATTAGTATCAATATGTAATCCCAT
1 GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAAAATGTGATCCCAT
** *
59287262 GTAAGACCATACCTGGGATTTGGCATTGGCATCA
66 GTAAGACCATGTCTGGGATATGGCATTGGCATCA
59287296 GACTATGTGA
Statistics
Matches: 215, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
140 84 0.39
141 131 0.61
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (141 bp):
GATATGCATGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGTATCAAAATGTGATCCCAT
GTAAGACCATGTCTGGGATATGGCATTGGCATCAATATGAGTTATCCTGTAAGACCATAGCTAGG
CTATCGGCTTC
Found at i:59294424 original size:48 final size:48
Alignment explanation
Indices: 59294353--59294693 Score: 212
Period size: 48 Copynumber: 7.4 Consensus size: 48
59294343 GGGATATGCA
*
59294353 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAAAATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
*
59294401 TGATCCCATGTAAGACCATG--T----C-T-GCATTCGTATCAATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
* * * **
59294441 AG-TCATCGTGTAAGACCATAG-CTGGG-C-T---ATTGGCT-TTGATATG
1 TGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGG-TATCAATATG
* *
59294484 CATGATCCCGTGTAAGACCATGTCTGGGACATGGCATTGGTATCGAA-ATA
1 --TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATC-AATATG
** *
59294534 TGATCCCATGTAAGACCATGTCTCAGACATGGCATTGGCATCAATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
* * * * *
59294582 AG-TCATCGTGTAAGACCATAG-CTGGG-C-T---ATCGGCT-TCGATATG
1 TGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGG-TATCAATATG
* * *
59294625 CATGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGATATG
1 --TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
59294675 TGATCCCAAT-TAAGACCAT
1 TGATCCC-ATGTAAGACCAT
59294694 ACTTCGGATA
Statistics
Matches: 228, Mismatches: 32, Indels: 66
0.70 0.10 0.20
Matches are distributed among these distances:
39 2 0.01
40 28 0.12
41 2 0.01
42 2 0.01
43 21 0.09
44 3 0.01
45 39 0.17
46 8 0.04
47 7 0.03
48 92 0.40
49 4 0.02
50 19 0.08
51 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATATG
Found at i:59294626 original size:141 final size:141
Alignment explanation
Indices: 59294432--59294716 Score: 448
Period size: 141 Copynumber: 2.0 Consensus size: 141
59294422 CTGCATTCGT
* * *
59294432 ATCAATATGAGTCATCGTGTAAGACCATAGCTGGGCTATTGGCTTTGATATGCATGATCCCGTGT
1 ATCAATATGAGTCATCGTGTAAGACCATAGCTGGGCTATCGGCTTCGATATGCATGATCCCATGT
* *
59294497 AAGACCATGTCTGGGACATGGCATTGGTATCGAAATATGATCCC-ATGTAAGACCAT-GTCTCAG
66 AAGACCATGTCTGGGACATGGCATTGGCATCGAAATATGATCCCAAT-TAAGACCATACT-TCAG
59294560 ACATGGCATTGGC
129 ACATGGCATTGGC
59294573 ATCAATATGAGTCATCGTGTAAGACCATAGCTGGGCTATCGGCTTCGATATGCATGATCCCATGT
1 ATCAATATGAGTCATCGTGTAAGACCATAGCTGGGCTATCGGCTTCGATATGCATGATCCCATGT
* * * * *
59294638 AAGACCATGTCTGGGACATGGCGTTGGCATCGATATGTGATCCCAATTAAGACCATACTTCGGAT
66 AAGACCATGTCTGGGACATGGCATTGGCATCGAAATATGATCCCAATTAAGACCATACTTCAGAC
59294703 ATGGCATTGGC
131 ATGGCATTGGC
59294714 ATC
1 ATC
59294717 CGACTATGTG
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
141 129 0.98
142 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (141 bp):
ATCAATATGAGTCATCGTGTAAGACCATAGCTGGGCTATCGGCTTCGATATGCATGATCCCATGT
AAGACCATGTCTGGGACATGGCATTGGCATCGAAATATGATCCCAATTAAGACCATACTTCAGAC
ATGGCATTGGC
Found at i:59296646 original size:27 final size:27
Alignment explanation
Indices: 59296616--59296676 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
59296606 GGATAAAGTT
59296616 TAATTT-ACGAGCCTAGGGGCAAAAATG
1 TAATTTAAC-AGCCTAGGGGCAAAAATG
** *
59296643 TAATTTTAACAGTTTAGGGGCAAAATTG
1 TAA-TTTAACAGCCTAGGGGCAAAAATG
59296671 TAATTT
1 TAATTT
59296677 TTCCAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 6 0.21
28 21 0.72
29 2 0.07
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (27 bp):
TAATTTAACAGCCTAGGGGCAAAAATG
Found at i:59297022 original size:27 final size:27
Alignment explanation
Indices: 59296981--59297034 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
59296971 TGTCATGTGA
* *
59296981 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
59297008 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
59297035 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:59297457 original size:101 final size:98
Alignment explanation
Indices: 59297263--59297501 Score: 309
Period size: 100 Copynumber: 2.4 Consensus size: 98
59297253 TATTGTGAGT
* * * *
59297263 TCACGTGTGTAGTACTGAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAATTGGTCGAATGTGTAGTACT
*
59297328 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* **
59297363 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGTTAGGTC-AAGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAATT-GGTCGAA-TGTGTAGTA
* * *
59297427 CTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
64 CTAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* * *
59297462 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
59297502 GATAGCCTTG
Statistics
Matches: 122, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
99 37 0.30
100 44 0.36
101 41 0.34
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAATTGGTCGAATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:59297500 original size:49 final size:50
Alignment explanation
Indices: 59297268--59297505 Score: 277
Period size: 49 Copynumber: 4.8 Consensus size: 50
59297258 TGAGTTCACG
* *
59297268 TGTGTAGTACTGAGTGCAGGCTACTACGTGTACC-GAATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATAATTAGGTCGCA
* * * * * *
59297317 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTAGGTCGCA
* * ** *
59297368 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGTTAGGTC-AA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCGCA
* *
59297417 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 -TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCGCA
*
59297467 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
59297506 GCCTTGTCTA
Statistics
Matches: 158, Mismatches: 26, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
49 75 0.47
50 45 0.28
51 38 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCGCA
Found at i:59299776 original size:71 final size:71
Alignment explanation
Indices: 59299690--59299853 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59299680 CGATTTGTCT
59299690 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59299755 CTTTCA
66 CTTTCA
59299761 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59299826 CTTTCA
66 CTTTCA
59299832 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
59299854 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:59299891 original size:71 final size:70
Alignment explanation
Indices: 59299690--59299887 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
59299680 CGATTTGTCT
* * * *
59299690 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
59299755 CTTTCA
65 CTTTCA
* * * *
59299761 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
59299826 CTTTCA
65 CTTTCA
* *
59299832 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
59299888 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:59307356 original size:71 final size:71
Alignment explanation
Indices: 59307270--59307433 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59307260 CGATTTGTCT
59307270 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59307335 CTTTCA
66 CTTTCA
59307341 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59307406 CTTTCA
66 CTTTCA
59307412 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
59307434 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:59307471 original size:71 final size:70
Alignment explanation
Indices: 59307270--59307467 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
59307260 CGATTTGTCT
* * * *
59307270 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
59307335 CTTTCA
65 CTTTCA
* * * *
59307341 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
59307406 CTTTCA
65 CTTTCA
* *
59307412 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
59307468 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:59312300 original size:16 final size:16
Alignment explanation
Indices: 59312279--59312312 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
59312269 TAATTAAAAG
59312279 AATTAAAAAGGGAAAT
1 AATTAAAAAGGGAAAT
59312295 AATTAAAAAGGGAAAT
1 AATTAAAAAGGGAAAT
59312311 AA
1 AA
59312313 GCCAAATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (16 bp):
AATTAAAAAGGGAAAT
Found at i:59313144 original size:27 final size:27
Alignment explanation
Indices: 59313103--59313156 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
59313093 TGCCATGTGA
* *
59313103 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
59313130 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
59313157 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:59313458 original size:49 final size:50
Alignment explanation
Indices: 59313388--59313625 Score: 259
Period size: 49 Copynumber: 4.8 Consensus size: 50
59313378 TGAGGTCATG
* * * *
59313388 TGTGTAGTATTGAGTGCAGGCTACTATGTGTACTGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAATTAGGTCACA
* * ** * * *
59313437 TGTGTAGCACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAA-TTAGGTCACA
* *
59313488 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TCAAATAGTTAGGTCAACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACT-AGATAATTAGGTC-ACA
** *
59313539 -GTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAATTAGGTCACA
* *
59313587 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATA
59313626 TCCTTGTCTA
Statistics
Matches: 156, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
48 2 0.01
49 72 0.46
50 42 0.27
51 40 0.26
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGATAATTAGGTCACA
Found at i:59316515 original size:25 final size:25
Alignment explanation
Indices: 59316487--59316544 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
59316477 AGCTCGTATA
*
59316487 AGCTTACCGATACTCAGCTTGCATG
1 AGCTTACCGATACTCAGCTTGCAGG
* * *
59316512 AGCTTACCGTTATTCAGCTTGGAGG
1 AGCTTACCGATACTCAGCTTGCAGG
59316537 AGCTTACC
1 AGCTTACC
59316545 ATTTACAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (25 bp):
AGCTTACCGATACTCAGCTTGCAGG
Found at i:59317663 original size:14 final size:15
Alignment explanation
Indices: 59317641--59317676 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
59317631 TCAACCATGT
*
59317641 GTGAAACACGACCA-
1 GTGACACACGACCAG
59317655 GTGACACACGACCAG
1 GTGACACACGACCAG
59317670 GTGACAC
1 GTGACAC
59317677 GGCTGTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.36, C:0.31, G:0.25, T:0.08
Consensus pattern (15 bp):
GTGACACACGACCAG
Found at i:59317831 original size:42 final size:42
Alignment explanation
Indices: 59317723--59317833 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
59317713 GTCAAGCTGT
* * * * *
59317723 TACACGGCCTGACACATAGGCGTGTAAGGTTACTTCGAAGGG
1 TACACGACCTGGCACACAGGCGTGTGAGGTTACTTCAAAGGG
* * **
59317765 TACACGGCCTGGTACACAAACGTGTGAGGTTACTTCAAAGGG
1 TACACGACCTGGCACACAGGCGTGTGAGGTTACTTCAAAGGG
* *
59317807 TACACGACTTGGCACACGGGCGTGTGA
1 TACACGACCTGGCACACAGGCGTGTGA
59317834 CTTGGCTGTG
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.21
Consensus pattern (42 bp):
TACACGACCTGGCACACAGGCGTGTGAGGTTACTTCAAAGGG
Found at i:59326470 original size:38 final size:38
Alignment explanation
Indices: 59326363--59326526 Score: 229
Period size: 38 Copynumber: 4.3 Consensus size: 38
59326353 ATATTCGATG
* *
59326363 TATATCCGGGTTAAATCCCGCAGACTTCGTGTTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
59326401 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
*
59326441 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
59326479 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
59326517 TATATTCGGG
1 TATATCCGGG
59326527 CCTTCGTGCT
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 74 0.66
39 10 0.09
40 28 0.25
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:59326600 original size:43 final size:42
Alignment explanation
Indices: 59326498--59326600 Score: 118
Period size: 43 Copynumber: 2.5 Consensus size: 42
59326488 GATAAATCCC
* *
59326498 GCAGGCCTAGTGCTGGT-ATTATATTCGGGCCTTCGTGCTTA
1 GCAGGCCTAGTGCTGGTGATTATATTCAGGCCTTCGTGCCTA
* * * *
59326539 GCAGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTA
1 GCAGGCCTAGTGCTGGTGAT-TATATTCAGGCCTTCGTGCCTA
* *
59326582 GCAGGCGTAATGCTGGTGA
1 GCAGGCCTAGTGCTGGTGA
59326601 AATGATATGT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 14 0.28
42 2 0.04
43 34 0.68
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (42 bp):
GCAGGCCTAGTGCTGGTGATTATATTCAGGCCTTCGTGCCTA
Found at i:59328584 original size:25 final size:24
Alignment explanation
Indices: 59328552--59328603 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
59328542 TGGAGGACCT
*
59328552 TACCATTTATAGCTCGTAAGAGCA
1 TACCATTTAGAGCTCGTAAGAGCA
*
59328576 TACCGATTTAGAGCTCGTATGAGCA
1 TACC-ATTTAGAGCTCGTAAGAGCA
59328601 TAC
1 TAC
59328604 ACGTACAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (24 bp):
TACCATTTAGAGCTCGTAAGAGCA
Found at i:59331550 original size:47 final size:45
Alignment explanation
Indices: 59331351--59331550 Score: 141
Period size: 46 Copynumber: 4.3 Consensus size: 45
59331341 GTCATTTGTG
* * *
59331351 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCTTTGGCATTGAGACA
1 TGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCTTCGAC-TCGAGACA
* * * * * * *
59331399 AGTGATAGTGTAAGACATGTCTAGGACATGCATCAACCTCGGGACA
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCTTCGA-CTCGAGACA
* * * * * *
59331445 TAAGCCAGTGTAAGACATGTCTTGGACATGCGTCGGCTACGAGATGA
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCTTCGACT-CGAGA-CA
* * *
59331492 T-AGTTAGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATA
1 TGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCTTCGACTCGAGACA
*
59331538 TGAGCTAATGTAA
1 TGAGCTAGTGTAA
59331551 ATTTGTGTCT
Statistics
Matches: 116, Mismatches: 30, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
45 2 0.02
46 53 0.46
47 42 0.36
48 19 0.16
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (45 bp):
TGAGCTAGTGTAAGACATGTCTGGGACATGCTTCGACTCGAGACA
Found at i:59333381 original size:29 final size:28
Alignment explanation
Indices: 59333349--59333451 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
59333339 GGGACGAGAT
* *
59333349 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
59333378 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
59333407 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
59333436 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59333452 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:59341415 original size:29 final size:28
Alignment explanation
Indices: 59341383--59341485 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
59341373 GGGACGAGAT
* *
59341383 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
59341412 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
59341441 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
59341470 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59341486 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:59343857 original size:42 final size:40
Alignment explanation
Indices: 59343779--59343858 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 40
59343769 AGGTTTTTGC
*
59343779 ACACGGGCTAGGACACGGGCGTGTCATGGCCGTGTGAATG
1 ACACGGGCTAAGACACGGGCGTGTCATGGCCGTGTGAATG
*
59343819 ACACGGGCTATAGACACGGGTGTGTGCCA-GGCCGTGTGAA
1 ACACGGGCTA-AGACACGGGCGTGT--CATGGCCGTGTGAA
59343859 AACCCTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 10 0.29
41 12 0.34
42 11 0.31
43 2 0.06
ACGTcount: A:0.21, C:0.23, G:0.39, T:0.17
Consensus pattern (40 bp):
ACACGGGCTAAGACACGGGCGTGTCATGGCCGTGTGAATG
Found at i:59356176 original size:46 final size:46
Alignment explanation
Indices: 59356067--59356236 Score: 141
Period size: 46 Copynumber: 3.6 Consensus size: 46
59356057 TCATTTGTGT
* *
59356067 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGA
* * *
59356115 GTGCTAGTGTAAGACATGTATGGGACATGCATCGGCCTCG-GCACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAG-ACG-A
* * * **
59356162 -AGCTAGTGTAAGACATCTCTAGGACATGCGTCGGC-TACGAGGTGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGACGA
* *
59356207 TG-GTTAGTGTAAGACCATGTTTGGGACATG
1 -GAGCTAGTGTAAGA-CATGTCTGGGACATG
59356237 GCTTCGACTT
Statistics
Matches: 99, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.03
46 56 0.57
47 27 0.27
48 13 0.13
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGA
Found at i:59360070 original size:21 final size:22
Alignment explanation
Indices: 59360046--59360086 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
59360036 TAAATAAAAA
*
59360046 AAAG-AAATGAAAAAGAGAAAC
1 AAAGCAAACGAAAAAGAGAAAC
*
59360067 AAAGCAAACGAAACAGAGAA
1 AAAGCAAACGAAAAAGAGAA
59360087 GAACAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.68, C:0.10, G:0.20, T:0.02
Consensus pattern (22 bp):
AAAGCAAACGAAAAAGAGAAAC
Found at i:59365298 original size:8 final size:8
Alignment explanation
Indices: 59365287--59365320 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
59365277 CCTTCCTTCC
59365287 TTTCTTTA
1 TTTCTTTA
59365295 TTTCTTTA
1 TTTCTTTA
59365303 TTT-TTTA
1 TTTCTTTA
59365310 TTTCTTTA
1 TTTCTTTA
59365318 TTT
1 TTT
59365321 TTCTCTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTCTTTA
Found at i:59365311 original size:15 final size:15
Alignment explanation
Indices: 59365291--59365322 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
59365281 CCTTCCTTTC
59365291 TTTATTTCTTTATTT
1 TTTATTTCTTTATTT
59365306 TTTATTTCTTTATTT
1 TTTATTTCTTTATTT
59365321 TT
1 TT
59365323 CTCTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTCTTTATTT
Found at i:59366710 original size:54 final size:55
Alignment explanation
Indices: 59366608--59366725 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 55
59366598 TGTCCTTAAC
* ** *
59366608 CGTGTAACTCACTGAGATGTCACACATGCCTGTGTGCCAGGTCATGTGCTAGG-T
1 CGTGTAACTCACTGAGATGCCACACATGCCCATGTGCCAGGCCATGTGCTAGGAT
* * * * *
59366662 CGTGTAACTCTCTGAGTTGCCACACATGCCCATGTGGCATGCCGTGTGCTAGGAT
1 CGTGTAACTCACTGAGATGCCACACATGCCCATGTGCCAGGCCATGTGCTAGGAT
59366717 -GTGTAACTC
1 CGTGTAACTC
59366726 GCGAACTTGG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 53 0.98
55 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.28
Consensus pattern (55 bp):
CGTGTAACTCACTGAGATGCCACACATGCCCATGTGCCAGGCCATGTGCTAGGAT
Found at i:59367464 original size:22 final size:22
Alignment explanation
Indices: 59367424--59367487 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
59367414 AGCCTGCTAT
* * *
59367424 GCACTAAACCTGAAGAACACTG
1 GCACTAAGCCTAAATAACACTG
*
59367446 GCACTAGGCCTAAATAACACTG
1 GCACTAAGCCTAAATAACACTG
59367468 GCACTAAGCCTAAATAACAC
1 GCACTAAGCCTAAATAACAC
59367488 CAATACTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.16
Consensus pattern (22 bp):
GCACTAAGCCTAAATAACACTG
Found at i:59367518 original size:38 final size:38
Alignment explanation
Indices: 59367475--59367548 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
59367465 CTGGCACTAA
* *
59367475 GCCTAAATAACACCAATACTAAGTCTGCTAGGCACTCG
1 GCCTAAATAACACCAACACTAAGCCTGCTAGGCACTCG
* ***
59367513 GCCTAAATATCACTGGCACTAAGCCTGCTAGGCACT
1 GCCTAAATAACACCAACACTAAGCCTGCTAGGCACT
59367549 AAACCTGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (38 bp):
GCCTAAATAACACCAACACTAAGCCTGCTAGGCACTCG
Found at i:59376235 original size:94 final size:92
Alignment explanation
Indices: 59376064--59376427 Score: 297
Period size: 94 Copynumber: 3.9 Consensus size: 92
59376054 GTTATGTGAG
* * * *
59376064 AGCCAGTGTAAGACCATGCCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACGTG
* * * *
59376129 TTTGGAATATGCATCAGCCATATTACGAT
65 TCTGGGACATGCATCAGCC-TATCACGAT
* * * *
59376158 AGCCAGTGTAAGACCATGTCT-AGATCATGGTATTGGCGTAGAGATGAGTGCCAGTGTAAGACGT
1 AGCCAGTGTAAGACCATGTCTGGGA-CATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACGT
* * * *
59376222 GTCTGGGACATGCATCGGCCTCAATGATGGT
64 GTCTGGGACATGCATCAGCCT--ATCACGAT
* * ** *
59376253 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCTA-AGCTTTGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACGTGT
* *
59376315 CTGGGACATGTATCAGCACTTATACACGAG
66 CTGGGACATGCATCAGC-C-TAT-CACGAT
* * ** * *
59376345 AGCTAGTGTAAGACCATGTCTGGGACACGGCATCAACCTCGATGAAGA-TAGCTAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTAGA-GATGAGT-GCTAGTGTAAGA-C
*
59376409 ATGTCTGGGACATGGCATC
62 GTGTCTGGGACAT-GCATC
59376428 GGTAACTTAA
Statistics
Matches: 213, Mismatches: 42, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
91 37 0.17
92 17 0.08
93 22 0.10
94 82 0.38
95 22 0.10
96 2 0.01
97 13 0.06
98 14 0.07
99 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (92 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACGTGT
CTGGGACATGCATCAGCCTATCACGAT
Found at i:59376320 original size:44 final size:46
Alignment explanation
Indices: 59376200--59376324 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 46
59376190 TTGGCGTAGA
59376200 GATGAGTGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAAT
1 GATG-GTGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAAT
59376247 GATGGTAGCCAGTGTAAGACGTGTCTGGGACATGCATCGG-CT-AA-
1 GATGGT-GCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAAT
* * * *
59376291 GCTTTGTGCTAGTGTAAGACATGTCTGGGACATG
1 G-ATGGTGCCAGTGTAAGACGTGTCTGGGACATG
59376325 TATCAGCACT
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
44 26 0.36
45 5 0.07
46 4 0.06
47 37 0.51
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (46 bp):
GATGGTGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAAT
Found at i:59376371 original size:49 final size:48
Alignment explanation
Indices: 59376298--59376427 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 48
59376288 TAAGCTTTGT
* * *
59376298 GCTAGTGTAAGA-CATGTCTGGGACATGTATCAGCACT-TAT-ACACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCAAC-CTCGATGA-A-GAGA
* *
59376346 GCTAGTGTAAGACCATGTCTGGGACACGGCATCAACCTCGATGAAGATA
1 GCTAGTGTAAGACCATGTCTGGGACA-TGCATCAACCTCGATGAAGAGA
59376395 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATC
59376428 GGTAACTTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
48 12 0.17
49 49 0.69
50 9 0.13
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCAACCTCGATGAAGAGA
Found at i:59377279 original size:55 final size:55
Alignment explanation
Indices: 59377175--59377280 Score: 167
Period size: 55 Copynumber: 1.9 Consensus size: 55
59377165 CTTAAACTTT
**
59377175 TAAGTCAGTATTGTCCATGGGTAGGCCACATGGGCATGTGCCATAGCCGTGTCTA
1 TAAGTCAGTATTGTCCATGGGTAGGCCACACAGGCATGTGCCATAGCCGTGTCTA
* * *
59377230 TAAGTCAGTATTGTCCATGGGTAGGCCACACAGGCGTGTGTCATGGCCGTG
1 TAAGTCAGTATTGTCCATGGGTAGGCCACACAGGCATGTGCCATAGCCGTG
59377281 CCTTAAAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCATGGGTAGGCCACACAGGCATGTGCCATAGCCGTGTCTA
Found at i:59380209 original size:12 final size:12
Alignment explanation
Indices: 59380192--59380236 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
59380182 CGTAAAAGTT
59380192 ATAAAATGTGTC
1 ATAAAATGTGTC
59380204 ATAAAA-GT-T-
1 ATAAAATGTGTC
*
59380213 ATAAAATTTGTC
1 ATAAAATGTGTC
59380225 ATAAAAGTGTGT
1 ATAAAA-TGTGT
59380237 TTTAGTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
9 6 0.22
10 2 0.07
11 3 0.11
12 12 0.44
13 4 0.15
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (12 bp):
ATAAAATGTGTC
Found at i:59380210 original size:21 final size:21
Alignment explanation
Indices: 59380184--59380232 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
59380174 GACTAAATCG
59380184 TAAAAGTTATAAAATGTGTCA
1 TAAAAGTTATAAAATGTGTCA
*
59380205 TAAAAGTTATAAAATTTGTCA
1 TAAAAGTTATAAAATGTGTCA
59380226 TAAAAGT
1 TAAAAGT
59380233 GTGTTTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (21 bp):
TAAAAGTTATAAAATGTGTCA
Found at i:59393708 original size:17 final size:17
Alignment explanation
Indices: 59393686--59393719 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
59393676 TACTAACTTG
* *
59393686 AAAATGTAATGACAATA
1 AAAATGAAATGAAAATA
59393703 AAAATGAAATGAAAATA
1 AAAATGAAATGAAAATA
59393720 TATATTTATC
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:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGAAATGAAAATA
Found at i:59404198 original size:19 final size:20
Alignment explanation
Indices: 59404176--59404228 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
59404166 TAAGAAGCTA
* *
59404176 CATGAGAGAG-AGTAAGCAC
1 CATGAAAGAGTAGTAACCAC
59404195 CATGAAAGAGTAGT-ACCAC
1 CATGAAAGAGTAGTAACCAC
59404214 CATGAAAGAGTAGTA
1 CATGAAAGAGTAGTA
59404229 CCCTCACCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 27 0.90
20 3 0.10
ACGTcount: A:0.43, C:0.15, G:0.26, T:0.15
Consensus pattern (20 bp):
CATGAAAGAGTAGTAACCAC
Found at i:59404229 original size:19 final size:19
Alignment explanation
Indices: 59404192--59404230 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
59404182 AGAGAGTAAG
59404192 CACCATGAAAGAGTAGTAC
1 CACCATGAAAGAGTAGTAC
59404211 CACCATGAAAGAGTAGTAC
1 CACCATGAAAGAGTAGTAC
59404230 C
1 C
59404231 CTCACCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (19 bp):
CACCATGAAAGAGTAGTAC
Found at i:59419439 original size:30 final size:30
Alignment explanation
Indices: 59419403--59419462 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
59419393 TGAAAAATAC
*
59419403 TACAAGAACTAATTATTGAGATACATCTTG
1 TACAAGAACTAACTATTGAGATACATCTTG
59419433 TACAAGAACTAACTATTGAGATACATCTTG
1 TACAAGAACTAACTATTGAGATACATCTTG
59419463 GGCAGATACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (30 bp):
TACAAGAACTAACTATTGAGATACATCTTG
Done.