Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 282 of 318
Found at i:89256191 original size:7 final size:7
Alignment explanation
Indices: 89256179--89256205 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
89256169 CAGCATGTGT
89256179 GGTTTAG
1 GGTTTAG
89256186 GGTTTAG
1 GGTTTAG
89256193 GGTTTAG
1 GGTTTAG
89256200 GGTTTA
1 GGTTTA
89256206 ATATAATAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:89259731 original size:46 final size:44
Alignment explanation
Indices: 89259647--89259738 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 44
89259637 ATATCTATTC
*
89259647 CATTCAACCAAACACAATAATACTATTACAGTTCTATTCCATTA
1 CATTCAACCAAACACAATAATACTATTACAGCTCTATTCCATTA
*
89259691 CATTCAACCAAACA-ATTGAATTACTAATTACAGCTCTATTCCATTA
1 CATTCAACCAAACACAAT-AA-TACT-ATTACAGCTCTATTCCATTA
89259737 CA
1 CA
89259739 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 2 0.05
44 16 0.37
45 4 0.09
46 21 0.49
ACGTcount: A:0.40, C:0.25, G:0.03, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAATAATACTATTACAGCTCTATTCCATTA
Found at i:89259738 original size:16 final size:16
Alignment explanation
Indices: 89259717--89259783 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
89259707 TGAATTACTA
89259717 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
89259733 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
89259749 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
89259765 ATTACAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
89259781 ATT
1 ATT
89259784 CCAGTGAACC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
15 1 0.02
16 45 0.98
ACGTcount: A:0.25, C:0.27, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:89259758 original size:32 final size:32
Alignment explanation
Indices: 89259717--89259783 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
89259707 TGAATTACTA
*
89259717 ATTACAGCTCTATTCCATTACAGCTTTATTCC
1 ATTACAGCTCTATTCCATTACAGCCTTATTCC
*
89259749 ATTACAGCTCTATTCTATTACAGCCTTATTCC
1 ATTACAGCTCTATTCCATTACAGCCTTATTCC
89259781 ATT
1 ATT
89259784 CCAGTGAACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.06, T:0.42
Consensus pattern (32 bp):
ATTACAGCTCTATTCCATTACAGCCTTATTCC
Found at i:89260091 original size:21 final size:21
Alignment explanation
Indices: 89260065--89260106 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
89260055 TGATTTTTAC
*
89260065 TAAGGAAATTTCAAAGAAAAA
1 TAAGGAAATTTCAAAAAAAAA
89260086 TAAGGAAATTTCAAAAAAAAA
1 TAAGGAAATTTCAAAAAAAAA
89260107 AAATGAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.12, T:0.19
Consensus pattern (21 bp):
TAAGGAAATTTCAAAAAAAAA
Found at i:89260118 original size:22 final size:21
Alignment explanation
Indices: 89260066--89260118 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
89260056 GATTTTTACT
* *
89260066 AAGGAAATTTCAAAGAAAAAT
1 AAGGAAATTTCAAAAAAAAAA
89260087 AAGGAAATTTCAAAAAAAAAA
1 AAGGAAATTTCAAAAAAAAAA
*
89260108 AATGAAGATTT
1 AAGGAA-ATTT
89260119 GAAGCTTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.62, C:0.04, G:0.13, T:0.21
Consensus pattern (21 bp):
AAGGAAATTTCAAAAAAAAAA
Found at i:89261739 original size:2 final size:2
Alignment explanation
Indices: 89261726--89261766 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
89261716 TAAACTTACT
89261726 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89261767 CACACGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:89261930 original size:20 final size:20
Alignment explanation
Indices: 89261873--89261932 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
89261863 GCAAATATAT
89261873 TATAT-TTCAAAATTATATTTA
1 TATATATTC-AAATT-TATTTA
**
89261894 TATATATTTTAATTTATTTA
1 TATATATTCAAATTTATTTA
89261914 TAT-TATTCAAATATTATTT
1 TATATATTCAAAT-TTATTT
89261933 CATCAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 7 0.21
20 15 0.45
21 9 0.27
22 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATATTCAAATTTATTTA
Found at i:89274962 original size:94 final size:94
Alignment explanation
Indices: 89274843--89275048 Score: 317
Period size: 94 Copynumber: 2.2 Consensus size: 94
89274833 CGCACACAAA
* *
89274843 AGAAAAAAAG--AGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGGCAAAGTCCATAA
1 AGAAAAAAAGAAAGCAAGAACGCCATTGCAACACTAAAGAAGTAAAAACAAGGCAAAGCCCATAA
*
89274906 AAACAAACATTGAAAGCAAGGAAATAAGT
66 AAACAAACATGGAAAGCAAGGAAATAAGT
* * * **
89274935 TGAAAAAAAGAAAGCAAGAACGGCATTGCAACATTAAAGAAGTAAAAATGAGGCAAAGCCCATAA
1 AGAAAAAAAGAAAGCAAGAACGCCATTGCAACACTAAAGAAGTAAAAACAAGGCAAAGCCCATAA
*
89275000 AAACAAACATGGAAAGCAAGGGAATAAGT
66 AAACAAACATGGAAAGCAAGGAAATAAGT
89275029 AGAAAAAAAGAAAGCAAGAA
1 AGAAAAAAAGAAAGCAAGAA
89275049 AATCTAAAAC
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 9 0.09
94 93 0.91
ACGTcount: A:0.57, C:0.13, G:0.19, T:0.11
Consensus pattern (94 bp):
AGAAAAAAAGAAAGCAAGAACGCCATTGCAACACTAAAGAAGTAAAAACAAGGCAAAGCCCATAA
AAACAAACATGGAAAGCAAGGAAATAAGT
Found at i:89275791 original size:21 final size:22
Alignment explanation
Indices: 89275767--89275810 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
89275757 AAAAAGTTAA
*
89275767 TAAATAAAAATTAT-TAAATAT
1 TAAATAAAAATCATATAAATAT
*
89275788 TAAATTAAAATCATATAAATAT
1 TAAATAAAAATCATATAAATAT
89275810 T
1 T
89275811 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATAAAAATCATATAAATAT
Found at i:89275854 original size:17 final size:17
Alignment explanation
Indices: 89275829--89275868 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
89275819 ATAAAAAATT
*
89275829 AATATGAGCATGCCTAA
1 AATAAGAGCATGCCTAA
89275846 AATAAGAGCATGCCTAA
1 AATAAGAGCATGCCTAA
89275863 AATAAG
1 AATAAG
89275869 CTTAGGTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (17 bp):
AATAAGAGCATGCCTAA
Found at i:89286029 original size:33 final size:33
Alignment explanation
Indices: 89285987--89286054 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
89285977 AAATACAAGT
89285987 AGAAGGACTAAATTCTTAATTTTTTAAAAGTAC
1 AGAAGGACTAAATTCTTAATTTTTTAAAAGTAC
89286020 AGAAGGACTAAATTCTTAATTTTTTAAAAGTAC
1 AGAAGGACTAAATTCTTAATTTTTTAAAAGTAC
89286053 AG
1 AG
89286055 GGATTATAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (33 bp):
AGAAGGACTAAATTCTTAATTTTTTAAAAGTAC
Found at i:89286398 original size:2 final size:2
Alignment explanation
Indices: 89286393--89286431 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
89286383 AAAAAAAAAA
89286393 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
89286432 ATAAAAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:89293926 original size:58 final size:56
Alignment explanation
Indices: 89293863--89294027 Score: 165
Period size: 58 Copynumber: 2.9 Consensus size: 56
89293853 TTTTTATAGT
* * *
89293863 ATTATATATTATGATTT-TTTAATTCATA-TAATAATAATTATATTAAGAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATT-ATATTAATAATAATTATATTAA-AATATGATTAA
* *
89293921 ATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTATTAAATTATA-TTAATAATAATTATATTAAAATATGATTAA
* * *
89293978 ATTATTTATTATTTTTATTAAATTATTTTTAACAATAATCT-TATTAAAAT
1 ATTATATATTA-TTTTATTAAATTA-TATTAATAATAAT-TATATTAAAAT
89294028 TTAATAACAA
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
56 6 0.07
57 24 0.26
58 60 0.65
59 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (56 bp):
ATTATATATTATTTTATTAAATTATATTAATAATAATTATATTAAAATATGATTAA
Found at i:89294215 original size:16 final size:16
Alignment explanation
Indices: 89294194--89294248 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
89294184 TGAATTACTT
89294194 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
89294210 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
*
89294226 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
89294242 ATTACAG
1 ATTACAG
89294249 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:89294709 original size:22 final size:23
Alignment explanation
Indices: 89294684--89294727 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
89294674 TCTCTCCCGG
89294684 AAAAAATTGAACTT-GAAATCTT
1 AAAAAATTGAACTTCGAAATCTT
** *
89294706 AAAATTTTGAATTTCGAAATCT
1 AAAAAATTGAACTTCGAAATCT
89294728 CTTCCTTGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (23 bp):
AAAAAATTGAACTTCGAAATCTT
Found at i:89294876 original size:16 final size:16
Alignment explanation
Indices: 89294855--89294901 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
89294845 CACTGGAATG
*
89294855 GAATAGGGCTGTAATA
1 GAATAGAGCTGTAATA
89294871 GAATAGAGCTGTAATA
1 GAATAGAGCTGTAATA
* *
89294887 AAATAAAGCTGTAAT
1 GAATAGAGCTGTAAT
89294902 TAGTAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (16 bp):
GAATAGAGCTGTAATA
Found at i:89295070 original size:19 final size:20
Alignment explanation
Indices: 89295034--89295071 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
89295024 TAACAAAATT
*
89295034 TTTTTAGATAAGGGTATTAA
1 TTTTTAGATAAGAGTATTAA
*
89295054 TTTTTA-ATAAGATTATTA
1 TTTTTAGATAAGAGTATTA
89295072 TTAATTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTTTAGATAAGAGTATTAA
Found at i:89304042 original size:32 final size:32
Alignment explanation
Indices: 89304001--89304062 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
89303991 ACCACAACAG
89304001 TTAGCTCTAAATCATGCATCGGATAATTACGT
1 TTAGCTCTAAATCATGCATCGGATAATTACGT
89304033 TTAGCTCTAAATCATGCATCGGATAATTAC
1 TTAGCTCTAAATCATGCATCGGATAATTAC
89304063 ATTCATGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (32 bp):
TTAGCTCTAAATCATGCATCGGATAATTACGT
Found at i:89308007 original size:16 final size:16
Alignment explanation
Indices: 89307988--89308020 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
89307978 AACAATATGA
*
89307988 TATTTTATATTATTAT
1 TATTTTACATTATTAT
89308004 TATTTTACATTATTAT
1 TATTTTACATTATTAT
89308020 T
1 T
89308021 TATATGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTACATTATTAT
Found at i:89308022 original size:28 final size:25
Alignment explanation
Indices: 89307991--89308053 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 25
89307981 AATATGATAT
89307991 TTTATATTATTATTATTTTACATTATTA
1 TTTATATTATTA-TATTTTAC-TTA-TA
89308019 TTTATATGGTTATTATATTTTACTTATA
1 TTTATA---TTATTATATTTTACTTATA
89308047 -TTATATT
1 TTTATATT
89308054 TGTATATACT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
24 2 0.06
27 5 0.16
28 8 0.25
29 3 0.09
30 8 0.25
31 6 0.19
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (25 bp):
TTTATATTATTATATTTTACTTATA
Found at i:89313955 original size:39 final size:39
Alignment explanation
Indices: 89313896--89314009 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
89313886 ATTTGATGTG
89313896 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
89313935 TATCTGGACTTAGGGTCCGCAGGCTATGTGCTAGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
89313974 TATCCAGACTTAAGGTCTGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
89314010 ATATGTCAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:89315489 original size:13 final size:13
Alignment explanation
Indices: 89315473--89315498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89315463 ATTTTATGCA
89315473 AACAAATGGTTTT
1 AACAAATGGTTTT
89315486 AACAAATGGTTTT
1 AACAAATGGTTTT
89315499 TGGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:89318159 original size:28 final size:26
Alignment explanation
Indices: 89318097--89318190 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 26
89318087 AGTCTATGAA
*
89318097 CCTCTGGGAATTGGGACTGCCCACGAC
1 CCTCTGGGAATT-GGACTACCCACGAC
* *
89318124 CCTTTGGGAATTAGGACTACCCCACGGC
1 CCTCTGGGAATT-GGACTA-CCCACGAC
*
89318152 CCTCTGGGAATTGAGACTACCCACGAT
1 CCTCTGGGAATTG-GACTACCCACGAC
*
89318179 TCTCTGGGAATT
1 CCTCTGGGAATT
89318191 TGGGAGATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
27 34 0.60
28 23 0.40
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (26 bp):
CCTCTGGGAATTGGACTACCCACGAC
Found at i:89324933 original size:40 final size:40
Alignment explanation
Indices: 89324825--89325034 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
89324815 CGGGATTTAA
* * * * *
89324825 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
89324865 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89324905 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89324945 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89324985 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89325025 CCGGATATAT
1 CCGGATATAT
89325035 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:89333068 original size:40 final size:40
Alignment explanation
Indices: 89332960--89333169 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
89332950 CGGGATTTAA
* * * * *
89332960 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
89333000 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89333040 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89333080 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89333120 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
89333160 CCGGATATAT
1 CCGGATATAT
89333170 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:89336303 original size:19 final size:20
Alignment explanation
Indices: 89336266--89336307 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
89336256 AGATATTTGT
*
89336266 ATAATAAAATATGGTATTTA
1 ATAATAAAATATAGTATTTA
89336286 ATAATAAAA-ATAGTATTTA
1 ATAATAAAATATAGTATTTA
89336305 ATA
1 ATA
89336308 TGCAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
ATAATAAAATATAGTATTTA
Found at i:89336793 original size:18 final size:17
Alignment explanation
Indices: 89336758--89336811 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
89336748 TAAGAATGCG
*
89336758 AAATAATAAT-ATTTTAT
1 AAATAA-AATAATTATAT
89336775 AAAGTAACAATAA-TATAT
1 AAA-TAA-AATAATTATAT
89336793 -AATAAAATAATTATAT
1 AAATAAAATAATTATAT
89336809 AAA
1 AAA
89336812 AATAAGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 5 0.16
16 8 0.26
17 7 0.23
18 10 0.32
19 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
AAATAAAATAATTATAT
Found at i:89336812 original size:13 final size:15
Alignment explanation
Indices: 89336708--89336810 Score: 50
Period size: 16 Copynumber: 6.5 Consensus size: 15
89336698 GTATATACGT
89336708 ATATATAA-ATAAATA
1 ATATATAATA-AAATA
89336723 ATATA-ATATAATAATA
1 ATATATA-ATAA-AATA
*
89336739 ATATATAAATAAGAATG
1 ATATAT-AATAA-AATA
** * * *
89336756 CGAAATAATAATATT
1 ATATATAATAAAATA
*
89336771 TTATA-AAGTAACAATA
1 ATATATAA-TAA-AATA
89336787 ATATATAATAAAATA
1 ATATATAATAAAATA
89336802 ATTATATAA
1 A-TATATAA
89336811 AAATAAGATT
Statistics
Matches: 66, Mismatches: 13, Indels: 17
0.69 0.14 0.18
Matches are distributed among these distances:
14 3 0.05
15 19 0.29
16 31 0.47
17 12 0.18
18 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (15 bp):
ATATATAATAAAATA
Found at i:89338578 original size:44 final size:43
Alignment explanation
Indices: 89338528--89338610 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
89338518 TATGTTGATA
**
89338528 TCTTCGATCTGCTCTCCGCCGAATACAGAGACGCCAAATCTGTT
1 TCTTCGATCTGCTCTCCAAC-AATACAGAGACGCCAAATCTGTT
* * * *
89338572 TCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCCAACAATACAGAGACGCCAAATC
89338611 ATCTTAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 18 0.55
44 15 0.45
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (43 bp):
TCTTCGATCTGCTCTCCAACAATACAGAGACGCCAAATCTGTT
Found at i:89338925 original size:205 final size:205
Alignment explanation
Indices: 89338573--89339536 Score: 1757
Period size: 205 Copynumber: 4.7 Consensus size: 205
89338563 AAATCTGTTT
89338573 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
*
89338638 GCGAAAACCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
89338703 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTTGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
89338768 AGATGCCAGA
196 AGATGCCAGA
89338778 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
*
89338843 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCGTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
89338908 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
89338973 AGATGCCAGA
196 AGATGCCAGA
* * *
89338983 CTTCGATTTGTTCTCTGACAATACAGAGATGCTAAATCATCTTAGATTTGCTTCAGCGTAAGCAA
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
89339048 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
89339113 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
89339178 AGATGCCAGA
196 AGATGCCAGA
*
89339188 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
89339253 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAAGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
89339318 GGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
89339383 AGATGCCAGA
196 AGATGCCAGA
* * * * *
89339393 CTTCGATTTGTTCTCTGACAATATAGAGATGCTAAATCATCTTAGATTTGTTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
89339458 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
89339523 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
89339537 CTAGATCTGC
Statistics
Matches: 737, Mismatches: 21, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
205 730 0.99
206 7 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:89340490 original size:1 final size:1
Alignment explanation
Indices: 89340479--89340547 Score: 57
Period size: 1 Copynumber: 69.0 Consensus size: 1
89340469 GGCCTCTCTA
* * * * * * * * *
89340479 TTTTTTCTTTTTTCTTTTTTTTTTCTTTTTTCTTTTTCTTTTTCTTTCTCTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
89340544 TTTT
1 TTTT
89340548 GAAATAGAAG
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:89340491 original size:7 final size:7
Alignment explanation
Indices: 89340479--89340545 Score: 70
Period size: 7 Copynumber: 9.9 Consensus size: 7
89340469 GGCCTCTCTA
89340479 TTTTTTC
1 TTTTTTC
89340486 TTTTTTC
1 TTTTTTC
89340493 --TTTT-
1 TTTTTTC
89340497 TTTTTTC
1 TTTTTTC
89340504 TTTTTTC
1 TTTTTTC
*
89340511 TTTTTCTT
1 TTTTT-TC
89340519 TTTCTTTC
1 TTT-TTTC
*
89340527 TCTTTTC
1 TTTTTTC
89340534 TTTTTT-
1 TTTTTTC
89340540 TTTTTT
1 TTTTTT
89340546 TTGAAATAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
5 4 0.08
6 10 0.20
7 28 0.55
8 7 0.14
9 2 0.04
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTC
Found at i:89340496 original size:6 final size:6
Alignment explanation
Indices: 89340480--89340547 Score: 81
Period size: 6 Copynumber: 11.7 Consensus size: 6
89340470 GCCTCTCTAT
*
89340480 TTTTTC TTTTTTC TTTTT- TTTTTC TTTTTTC TTTTTC TTTTTC TTTCTC
1 TTTTTC -TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC
89340529 -TTTTC TTTTT- TTTTT- TTTT
1 TTTTTC TTTTTC TTTTTC TTTT
89340548 GAAATAGAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
5 18 0.32
6 26 0.46
7 12 0.21
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTC
Found at i:89340502 original size:18 final size:18
Alignment explanation
Indices: 89340479--89340545 Score: 93
Period size: 18 Copynumber: 3.7 Consensus size: 18
89340469 GGCCTCTCTA
89340479 TTTTTTCTTTTTTCTTTT
1 TTTTTTCTTTTTTCTTTT
89340497 TTTTTTCTTTTTTCTTTT
1 TTTTTTCTTTTTTCTTTT
*
89340515 TCTTTTTC-TTTCTCTTTT
1 T-TTTTTCTTTTTTCTTTT
89340533 CTTTTTT-TTTTTT
1 -TTTTTTCTTTTTT
89340546 TTGAAATAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
18 37 0.84
19 7 0.16
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTTCTTTTTTCTTTT
Found at i:89349982 original size:19 final size:20
Alignment explanation
Indices: 89349945--89349986 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
89349935 AGATATTTGT
*
89349945 ATAATAAAATATGGTATTTA
1 ATAATAAAATATAGTATTTA
89349965 ATAATAAAA-ATAGTATTTA
1 ATAATAAAATATAGTATTTA
89349984 ATA
1 ATA
89349987 TGCAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
ATAATAAAATATAGTATTTA
Found at i:89350365 original size:16 final size:15
Alignment explanation
Indices: 89350329--89350372 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
89350319 AAAAAACGTA
*
89350329 ATAATATAAAATGAC
1 ATAATATAAAATAAC
*
89350344 ATAATATAAAATAATT
1 ATAATATAAAATAA-C
*
89350360 ATAATATATAATA
1 ATAATATAAAATA
89350373 TGAATGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAATATAAAATAAC
Found at i:89350473 original size:18 final size:17
Alignment explanation
Indices: 89350438--89350491 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
89350428 TAAGAATGCG
*
89350438 AAATAATAAT-ATTTTAT
1 AAATAA-AATAATTATAT
89350455 AAAGTAACAATAA-TATAT
1 AAA-TAA-AATAATTATAT
89350473 -AATAAAATAATTATAT
1 AAATAAAATAATTATAT
89350489 AAA
1 AAA
89350492 AATAAGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 5 0.16
16 8 0.26
17 7 0.23
18 10 0.32
19 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
AAATAAAATAATTATAT
Found at i:89354678 original size:26 final size:26
Alignment explanation
Indices: 89354639--89354706 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
89354629 CATATCAAGT
89354639 AGCTC-CAAAGAGCCATTAATCAGGA
1 AGCTCACAAAGAGCCATTAATCAGGA
* *
89354664 AGCTCACAAAGAGCCTTTAATCGGGA
1 AGCTCACAAAGAGCCATTAATCAGGA
*
89354690 AGCTCACGAAGAGCCAT
1 AGCTCACAAAGAGCCAT
89354707 ATACCGGGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
25 5 0.13
26 33 0.87
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (26 bp):
AGCTCACAAAGAGCCATTAATCAGGA
Found at i:89354714 original size:26 final size:26
Alignment explanation
Indices: 89354639--89354721 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
89354629 CATATCAAGT
* *
89354639 AGCTC-CAAAGAGCC-ATTAATCAGGA
1 AGCTCACAAAGAGCCTA-TAACCGGGA
* *
89354664 AGCTCACAAAGAGCCTTTAATCGGGA
1 AGCTCACAAAGAGCCTATAACCGGGA
*
89354690 AGCTCACGAAGAGCC-ATATACCGGGA
1 AGCTCACAAAGAGCCTATA-ACCGGGA
*
89354716 TGCTCA
1 AGCTCA
89354722 TAAAAGCTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
25 7 0.14
26 42 0.86
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (26 bp):
AGCTCACAAAGAGCCTATAACCGGGA
Found at i:89356734 original size:12 final size:12
Alignment explanation
Indices: 89356717--89356749 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
89356707 CAACCCGCCC
89356717 ATATTAATTTTT
1 ATATTAATTTTT
89356729 ATATT-ATTTTT
1 ATATTAATTTTT
89356740 ATA-TAATTTT
1 ATATTAATTTT
89356750 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:89356991 original size:22 final size:22
Alignment explanation
Indices: 89356966--89357008 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
89356956 TATCCAAACA
89356966 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* *
89356988 ATAATAGTAAAATAGTAGCAA
1 ATAACAATAAAATAGTAGCAA
89357009 AAAAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:89358081 original size:43 final size:43
Alignment explanation
Indices: 89358017--89358163 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
89358007 ATCAATATGT
*
89358017 GATTACATGTAAGACCCTGTGTGGGACAGAGGCATTGTATTGC
1 GATTACATGTAAGACCATGTGTGGGACAGAGGCATTGTATTGC
* ** * *
89358060 GATTACGTGTAAGACCATGTGTGGGACATCGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTGTGGGACAGAGGCATTG-TATTGC
* * * * * *
89358103 GACTT-CGTGTAAGACCCTGTGTGAGACAGTGGCA-TCTATATGT
1 GA-TTACATGTAAGACCATGTGTGGGACAGAGGCATTGTAT-TGC
89358146 GATTACATGTAAGACCAT
1 GATTACATGTAAGACCAT
89358164 ATCTAGGATA
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
42 3 0.04
43 73 0.88
44 5 0.06
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTGTGGGACAGAGGCATTGTATTGC
Found at i:89360899 original size:25 final size:25
Alignment explanation
Indices: 89360871--89360957 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
89360861 CGAGTATGTA
89360871 AACGGGAAGCTCTTTCGAGCCATAT
1 AACGGGAAGCTCTTTCGAGCCATAT
* * **
89360896 AACGGGAAACTCATGT-GAGCTGTAT
1 AACGGGAAGCTC-TTTCGAGCCATAT
* *
89360921 AACGGGAAGCTCTTACGAGCCATTT
1 AACGGGAAGCTCTTTCGAGCCATAT
* *
89360946 ATCGGAAAGCTC
1 AACGGGAAGCTC
89360958 AAGAGAGCCA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 1 0.02
25 45 0.94
26 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (25 bp):
AACGGGAAGCTCTTTCGAGCCATAT
Found at i:89360989 original size:25 final size:25
Alignment explanation
Indices: 89360927--89361015 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 25
89360917 GTATAACGGG
* * **
89360927 AAGCTCTTACGAGCCATTTATCGGA
1 AAGCTCATAAGAGCCAAATATCGGA
89360952 AAGCTCA-AGAGAGCCAAATATCGGA
1 AAGCTCATA-AGAGCCAAATATCGGA
* * *
89360977 ATGCTCATAAGAGCTAAATAACGGA
1 AAGCTCATAAGAGCCAAATATCGGA
*
89361002 AAGCTCGTAAGAGC
1 AAGCTCATAAGAGC
89361016 TGTGGTGTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.19
Consensus pattern (25 bp):
AAGCTCATAAGAGCCAAATATCGGA
Found at i:89361376 original size:23 final size:23
Alignment explanation
Indices: 89361346--89361399 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
89361336 TTAATAAAAT
89361346 ACATATTTAATTCAATCCAACAC
1 ACATATTTAATTCAATCCAACAC
89361369 ACATATTTAATTCAATCCAACAC
1 ACATATTTAATTCAATCCAACAC
89361392 ACATATTT
1 ACATATTT
89361400 TGGAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (23 bp):
ACATATTTAATTCAATCCAACAC
Found at i:89362414 original size:26 final size:26
Alignment explanation
Indices: 89362385--89362435 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
89362375 AAAAAGAAGA
*
89362385 TATGCCTTCACCATTTGAAATATGAC
1 TATGCCTTCACCATATGAAATATGAC
89362411 TATGCCTTCACCATATGAAATATGA
1 TATGCCTTCACCATATGAAATATGA
89362436 ATTAGTAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (26 bp):
TATGCCTTCACCATATGAAATATGAC
Found at i:89375488 original size:13 final size:13
Alignment explanation
Indices: 89375470--89375494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89375460 ATTATTTATC
89375470 ATTTAAATATATG
1 ATTTAAATATATG
89375483 ATTTAAATATAT
1 ATTTAAATATAT
89375495 TAATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATTTAAATATATG
Found at i:89375526 original size:19 final size:20
Alignment explanation
Indices: 89375488--89375545 Score: 82
Period size: 19 Copynumber: 2.9 Consensus size: 20
89375478 ATATGATTTA
*
89375488 AATATATTAATAATATATAAT
1 AATATATAAATAA-ATATAAT
89375509 AATATATAAATAAA-ATAAT
1 AATATATAAATAAATATAAT
*
89375528 AATATACAAATAAATATA
1 AATATATAAATAAATATA
89375546 TAAAGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 18 0.53
20 4 0.12
21 12 0.35
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AATATATAAATAAATATAAT
Found at i:89375545 original size:29 final size:29
Alignment explanation
Indices: 89375486--89375556 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
89375476 ATATATGATT
* * *
89375486 TAAATATATTAATAATATATAATAATATA
1 TAAATAAAATAATAATATAAAATAATATA
89375515 TAAATAAAATAATAATATACAAATAAATATA
1 TAAATAAAATAATAATATA-AAAT-AATATA
*
89375546 TAAAGAAAATA
1 TAAATAAAATA
89375557 TGCGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 17 0.47
30 3 0.08
31 16 0.44
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (29 bp):
TAAATAAAATAATAATATAAAATAATATA
Found at i:89375546 original size:14 final size:13
Alignment explanation
Indices: 89375486--89375549 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 13
89375476 ATATATGATT
*
89375486 TAAATATAT-TAA
1 TAAATATATAAAA
89375498 T-AATATATAATAA
1 TAAATATATAA-AA
* *
89375511 TATATAAATAAAA
1 TAAATATATAAAA
89375524 T-AATAATATACAAA
1 TAAAT-ATATA-AAA
89375538 TAAATATATAAA
1 TAAATATATAAA
89375550 GAAAATATGC
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
11 7 0.17
12 3 0.07
13 12 0.29
14 16 0.39
15 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAATATATAAAA
Found at i:89377491 original size:57 final size:57
Alignment explanation
Indices: 89377403--89377518 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
89377393 GAAAATACAA
89377403 CTTGAACTACATGCAGGGAGGCTCAAGTGGTATCATACTTGCAAGTAGATTGCCTAT
1 CTTGAACTACATGCAGGGAGGCTCAAGTGGTATCATACTTGCAAGTAGATTGCCTAT
89377460 CTTGAACTACATGCAGGGAGGCTCAAGTGGTATCATACTTGCAAGTAGATTGCCTAT
1 CTTGAACTACATGCAGGGAGGCTCAAGTGGTATCATACTTGCAAGTAGATTGCCTAT
89377517 CT
1 CT
89377519 AACTTAGGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (57 bp):
CTTGAACTACATGCAGGGAGGCTCAAGTGGTATCATACTTGCAAGTAGATTGCCTAT
Found at i:89391130 original size:94 final size:94
Alignment explanation
Indices: 89391012--89391216 Score: 315
Period size: 94 Copynumber: 2.2 Consensus size: 94
89391002 ACACAGAAAA
*
89391012 GAAAAAAAG--AGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGTCCATAAA
1 GAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
* *
89391075 AACAAACATTGGAAGCAAGGGAATAAGTT
66 AACAAACATAGAAAGCAAGGGAATAAGTT
* * * * *
89391104 GAAAAAAAGAAAGCAGGAATGGCATTGCAACATTAAAGAAGTAAAAACGAGGCAAAGCCCATAAA
1 GAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
*
89391169 AAGAAACATAGAAAGCAAGGGAATAAGTT
66 AACAAACATAGAAAGCAAGGGAATAAGTT
89391198 GAAAAAAAGAAAGCAAGAA
1 GAAAAAAAGAAAGCAAGAA
89391217 AATCTAAAAC
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 9 0.09
94 92 0.91
ACGTcount: A:0.56, C:0.12, G:0.20, T:0.11
Consensus pattern (94 bp):
GAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
AACAAACATAGAAAGCAAGGGAATAAGTT
Found at i:89392469 original size:6 final size:6
Alignment explanation
Indices: 89392460--89392496 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
89392450 AAAAAAAAAA
89392460 ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC A
1 ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC A
89392497 TTTATGCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCAC
Found at i:89396296 original size:31 final size:31
Alignment explanation
Indices: 89396251--89396402 Score: 205
Period size: 31 Copynumber: 4.9 Consensus size: 31
89396241 TCACAAAGAC
* *
89396251 AAATTAATTACACTACAAACAAGCTGTCGAT
1 AAATTAGTTACACTACAAACAAGTTGTCGAT
* *
89396282 AAATTAGTTGCACTACAAACAAGTTATCGAT
1 AAATTAGTTACACTACAAACAAGTTGTCGAT
*
89396313 AAATTAGTTAGACTACAAACAAGTTGTCGAT
1 AAATTAGTTACACTACAAACAAGTTGTCGAT
* *
89396344 AAATTAGTTACACTGCAAACAAGTTATCGAT
1 AAATTAGTTACACTACAAACAAGTTGTCGAT
* * * *
89396375 AAATCAGCTACACTACATACAAGCTGTC
1 AAATTAGTTACACTACAAACAAGTTGTC
89396403 CATCAATCCA
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (31 bp):
AAATTAGTTACACTACAAACAAGTTGTCGAT
Found at i:89396348 original size:62 final size:62
Alignment explanation
Indices: 89396251--89396402 Score: 232
Period size: 62 Copynumber: 2.5 Consensus size: 62
89396241 TCACAAAGAC
* *
89396251 AAATTAATTACACTACAAACAAGCTGTCGATAAATTAGTTGCACTACAAACAAGTTATCGAT
1 AAATTAGTTACACTACAAACAAGCTGTCGATAAATTAGTTACACTACAAACAAGTTATCGAT
* * *
89396313 AAATTAGTTAGACTACAAACAAGTTGTCGATAAATTAGTTACACTGCAAACAAGTTATCGAT
1 AAATTAGTTACACTACAAACAAGCTGTCGATAAATTAGTTACACTACAAACAAGTTATCGAT
* * *
89396375 AAATCAGCTACACTACATACAAGCTGTC
1 AAATTAGTTACACTACAAACAAGCTGTC
89396403 CATCAATCCA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (62 bp):
AAATTAGTTACACTACAAACAAGCTGTCGATAAATTAGTTACACTACAAACAAGTTATCGAT
Found at i:89400006 original size:94 final size:94
Alignment explanation
Indices: 89399842--89400046 Score: 333
Period size: 94 Copynumber: 2.2 Consensus size: 94
89399832 ACACACAAAA
* *
89399842 GAAAAAAAG--AGCAAGAATGGCATTGCAACACTAAAGAAGTATAAACAAGACAAAGTCCATAAA
1 GAAAAAAAGAAAGCAAGAATGGCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
*
89399905 AACAAACATTGAAAGCAAGGGAATAAGTT
66 AACAAACATAGAAAGCAAGGGAATAAGTT
* *
89399934 GAAAAAAAGAAAGCAAGAATGGCATTGCAACACTAAAGAAGTAAAAACGAGGCAAAGCCCATAAA
1 GAAAAAAAGAAAGCAAGAATGGCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
* *
89399999 AAGAAACATAGAAAGCAGGGGAATAAGTT
66 AACAAACATAGAAAGCAAGGGAATAAGTT
89400028 GAAAAAAAGAAAGCAAGAA
1 GAAAAAAAGAAAGCAAGAA
89400047 AATCTAAAAC
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 9 0.09
94 95 0.91
ACGTcount: A:0.56, C:0.12, G:0.20, T:0.11
Consensus pattern (94 bp):
GAAAAAAAGAAAGCAAGAATGGCATTGCAACACTAAAGAAGTAAAAACAAGACAAAGCCCATAAA
AACAAACATAGAAAGCAAGGGAATAAGTT
Found at i:89408857 original size:17 final size:17
Alignment explanation
Indices: 89408831--89408866 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
89408821 TCAGATTTTA
89408831 AAGTTCCTGATTTGACT
1 AAGTTCCTGATTTGACT
*
89408848 AAGTTTCTGATTTGACT
1 AAGTTCCTGATTTGACT
89408865 AA
1 AA
89408867 CTCAGCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (17 bp):
AAGTTCCTGATTTGACT
Found at i:89413113 original size:30 final size:30
Alignment explanation
Indices: 89413079--89413141 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
89413069 ACACGCCCGA
89413079 GTGGCTAGACCATGCATGTCACACACCTGT
1 GTGGCTAGACCATGCATGTCACACACCTGT
* * * * *
89413109 GTGGCTAGGCCGTGCTTGTCACACGCTTGT
1 GTGGCTAGACCATGCATGTCACACACCTGT
89413139 GTG
1 GTG
89413142 ACAGACCGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (30 bp):
GTGGCTAGACCATGCATGTCACACACCTGT
Found at i:89414793 original size:27 final size:27
Alignment explanation
Indices: 89414754--89414879 Score: 207
Period size: 27 Copynumber: 4.7 Consensus size: 27
89414744 AGTAGTCTAT
* * *
89414754 GACCCTCTAGGAATTGGGACTGCCTAC
1 GACCCTCTGGGAATTGGGACTACCCAC
89414781 GACCCTCTGGGAATTGGGACTACCCAC
1 GACCCTCTGGGAATTGGGACTACCCAC
89414808 GACCCTCTGGGAATTGGGACTACCCAC
1 GACCCTCTGGGAATTGGGACTACCCAC
*
89414835 GACCCTCTGGGAATTGGGATTACCCAC
1 GACCCTCTGGGAATTGGGACTACCCAC
*
89414862 AACCCTCTGGGAATTGGG
1 GACCCTCTGGGAATTGGG
89414880 GAGATCTAAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.21
Consensus pattern (27 bp):
GACCCTCTGGGAATTGGGACTACCCAC
Found at i:89417817 original size:71 final size:71
Alignment explanation
Indices: 89417733--89417896 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
89417723 CGATTTGTCT
89417733 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
89417798 CTTTCA
66 CTTTCA
89417804 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
89417869 CTTTCA
66 CTTTCA
89417875 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
89417897 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:89417934 original size:71 final size:70
Alignment explanation
Indices: 89417733--89417930 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
89417723 CGATTTGTCT
* * * *
89417733 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
89417798 CTTTCA
65 CTTTCA
* * * *
89417804 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
89417869 CTTTCA
65 CTTTCA
* *
89417875 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
89417931 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:89420950 original size:6 final size:6
Alignment explanation
Indices: 89420939--89420975 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
89420929 ATTGCATAAA
89420939 TGTGGG TGTGGG TGTGGG TGTGGG TGTGGG TGTGGG T
1 TGTGGG TGTGGG TGTGGG TGTGGG TGTGGG TGTGGG T
89420976 TTTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (6 bp):
TGTGGG
Found at i:89422327 original size:94 final size:94
Alignment explanation
Indices: 89422223--89422423 Score: 307
Period size: 94 Copynumber: 2.2 Consensus size: 94
89422213 TAGATTTTCT
* * *
89422223 TGCTTTCTTTTTTTCAACTTATTCCCTTGCTTTCTATGTTTCTTTTTATGGGCTTTGCCTCGTTT
1 TGCTTTCTTTTTTTCAACTTATTCCCTTGCTTCCAATGTTTCTTTTTATGGACTTTGCCTCGTTT
89422288 TTACTTCTTTAATGTTGCAATGCCATTCC
66 TTACTTCTTTAATGTTGCAATGCCATTCC
* * *
89422317 TGCTTTCTTTTTTTCAACTTATTCCCTTGCTTCCAATGTTTGTTTTTATGGACTTTGTCTTGTTT
1 TGCTTTCTTTTTTTCAACTTATTCCCTTGCTTCCAATGTTTCTTTTTATGGACTTTGCCTCGTTT
* * *
89422382 TTACTTCTTTAGTGTTGCAATGGCATTCT
66 TTACTTCTTTAATGTTGCAATGCCATTCC
89422411 TGC--TCTTTTTTTC
1 TGCTTTCTTTTTTTC
89422424 TTTTCTGTGT
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 10 0.10
94 88 0.90
ACGTcount: A:0.11, C:0.20, G:0.12, T:0.56
Consensus pattern (94 bp):
TGCTTTCTTTTTTTCAACTTATTCCCTTGCTTCCAATGTTTCTTTTTATGGACTTTGCCTCGTTT
TTACTTCTTTAATGTTGCAATGCCATTCC
Found at i:89431176 original size:57 final size:57
Alignment explanation
Indices: 89431107--89431222 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
89431097 AACCTAAGTT
89431107 AGATAGGCAATCTACTTGCAAGTATGATACCACTTGAGCCTCCCTGCATGTAGTTCA
1 AGATAGGCAATCTACTTGCAAGTATGATACCACTTGAGCCTCCCTGCATGTAGTTCA
89431164 AGATAGGCAATCTACTTGCAAGTATGATACCACTTGAGCCTCCCTGCATGTAGTTCA
1 AGATAGGCAATCTACTTGCAAGTATGATACCACTTGAGCCTCCCTGCATGTAGTTCA
89431221 AG
1 AG
89431223 TTGTATTTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (57 bp):
AGATAGGCAATCTACTTGCAAGTATGATACCACTTGAGCCTCCCTGCATGTAGTTCA
Found at i:89437363 original size:26 final size:25
Alignment explanation
Indices: 89437314--89437373 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
89437304 TTATTTCATT
* *
89437314 AAATAAA-AAATTTAAAAAATATAA
1 AAATAAATATATTTAAAAAACATAA
89437338 TAAATCAAATATATTT-AAAAACATAA
1 -AAAT-AAATATATTTAAAAAACATAA
89437364 AAATAAATAT
1 AAATAAATAT
89437374 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 12 0.39
27 5 0.16
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (25 bp):
AAATAAATATATTTAAAAAACATAA
Found at i:89437378 original size:21 final size:22
Alignment explanation
Indices: 89437344--89437399 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
89437334 ATAATAAATC
* *
89437344 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
89437364 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
89437386 AAAT-AATACTAAAA
1 AAATAAATATTAAAA
89437400 TAATTCTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 15 0.48
22 9 0.29
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:89437479 original size:15 final size:16
Alignment explanation
Indices: 89437449--89437481 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
89437439 AAATAGTTAT
89437449 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
89437466 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
89437481 A
1 A
89437482 AAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:89442176 original size:23 final size:23
Alignment explanation
Indices: 89442146--89442192 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
89442136 TATGAGATTA
89442146 TGGAATGTATTGGGCTGGTTGCT
1 TGGAATGTATTGGGCTGGTTGCT
89442169 TGGAATGTATTGGGCTGGTTGCT
1 TGGAATGTATTGGGCTGGTTGCT
89442192 T
1 T
89442193 ATAGATTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.13, C:0.09, G:0.38, T:0.40
Consensus pattern (23 bp):
TGGAATGTATTGGGCTGGTTGCT
Found at i:89444126 original size:10 final size:11
Alignment explanation
Indices: 89444107--89444136 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
89444097 AATGAGGCAA
89444107 AAAGAATAGCT
1 AAAGAATAGCT
89444118 AAA-AATAGCT
1 AAAGAATAGCT
89444128 AAAGAATAG
1 AAAGAATAG
89444137 AAATAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.60, C:0.07, G:0.17, T:0.17
Consensus pattern (11 bp):
AAAGAATAGCT
Found at i:89444696 original size:26 final size:26
Alignment explanation
Indices: 89444659--89444712 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
89444649 ACTTACTAAT
89444659 TCATATTGCATATGGTAAAGACATAG
1 TCATATTGCATATGGTAAAGACATAG
* * *
89444685 TCATATTTCATATGGTGAAGGCATAG
1 TCATATTGCATATGGTAAAGACATAG
89444711 TC
1 TC
89444713 TTCTTTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (26 bp):
TCATATTGCATATGGTAAAGACATAG
Found at i:89446107 original size:25 final size:25
Alignment explanation
Indices: 89446079--89446127 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
89446069 AGCTTTCCAT
89446079 TATTTAGCTCT-TATGAGCATCCCGC
1 TATTTAGCTCTCT-TGAGCATCCCGC
* *
89446104 TATTTGGCTCTCTTGAGCTTCCCG
1 TATTTAGCTCTCTTGAGCATCCCG
89446128 ATAAATGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (25 bp):
TATTTAGCTCTCTTGAGCATCCCGC
Found at i:89448440 original size:26 final size:26
Alignment explanation
Indices: 89448411--89448487 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
89448401 TTTTATGGGA
89448411 TCCCGA-TATATGGCTCTTCGTGAGCT
1 TCCCGATTA-ATGGCTCTTCGTGAGCT
* *
89448437 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
* *
89448463 TCCTGATTAATAGCTCTTCG-GAGCT
1 TCCCGATTAATGGCTCTTCGTGAGCT
89448488 ACTTGATATG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 5 0.11
26 37 0.84
27 2 0.05
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCGTGAGCT
Found at i:89451693 original size:17 final size:17
Alignment explanation
Indices: 89451671--89451714 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
89451661 GCTTTGAAAA
89451671 TTTGGTGAAACTATTTG
1 TTTGGTGAAACTATTTG
89451688 TTTGGTGAAACTATTTG
1 TTTGGTGAAACTATTTG
89451705 TTTGGTGAAA
1 TTTGGTGAAA
89451715 AATGTCACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (17 bp):
TTTGGTGAAACTATTTG
Found at i:89457931 original size:19 final size:19
Alignment explanation
Indices: 89457907--89457997 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
89457897 ATAATCTTCA
*
89457907 ATGATATGCAATCTTAGAC
1 ATGATATGCAATCTTAGAT
89457926 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
89457945 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
89457962 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
89457980 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
89457998 GATTTAATTC
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:89457947 original size:14 final size:15
Alignment explanation
Indices: 89457928--89457983 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
89457918 TCTTAGACAT
89457928 GATATG-CAATCTTA
1 GATATGACAATCTTA
89457942 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
89457959 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
89457977 GATATGA
1 GATATGA
89457984 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:89457978 original size:35 final size:37
Alignment explanation
Indices: 89457907--89457997 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
89457897 ATAATCTTCA
89457907 ATGATATGCAATCTTAGACATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGACATGATATGCAATCTTAGAT
*
89457945 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGACATGATATGCAATCTTAGAT
89457980 ATGATATGCAATCTTAGA
1 ATGATA-GCAATCTTAGA
89457998 GATTTAATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (37 bp):
ATGATAGCAATCTTAGACATGATATGCAATCTTAGAT
Found at i:89461867 original size:56 final size:56
Alignment explanation
Indices: 89461739--89461851 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
89461729 GTTAAACTTT
89461739 TGCAATTCTTATTCTTTCATTCGTAGCACATAAATAATCATTCTTAAATTCATTCA
1 TGCAATTCTTATTCTTTCATTCGTAGCACATAAATAATCATTCTTAAATTCATTCA
89461795 TGCAATTCTTATTCTTTCATTCGTAGCACATAAATAATCATTCTTAAATTCATTCA
1 TGCAATTCTTATTCTTTCATTCGTAGCACATAAATAATCATTCTTAAATTCATTCA
89461851 T
1 T
89461852 TCTTTGTATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (56 bp):
TGCAATTCTTATTCTTTCATTCGTAGCACATAAATAATCATTCTTAAATTCATTCA
Found at i:89466477 original size:89 final size:87
Alignment explanation
Indices: 89466348--89466509 Score: 218
Period size: 89 Copynumber: 1.8 Consensus size: 87
89466338 ATTCGACGGA
* *
89466348 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATTGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATG-TTT-ACACTGAAGCAGATCCAAGATG
89466413 ATTTGGCATCCTTGTGTTTACAAG
64 ATTTGGCATCCTTGTGTTTACAAG
* ** * * *
89466437 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCA-GATGTTTACACTGAAGCAGATCCAAGATGA
89466501 TTTGGCATC
65 TTTGGCATC
89466510 TCTGTACTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 28 0.44
88 3 0.05
89 32 0.50
90 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATCCTTGTGTTTACAAG
Found at i:89466653 original size:78 final size:77
Alignment explanation
Indices: 89466543--89466834 Score: 442
Period size: 78 Copynumber: 3.7 Consensus size: 77
89466533 GAAGAAACAA
* * *
89466543 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTATATTAGACGG-GAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAAG
89466608 CAGATCCAAGATG
65 CAGATCCAAGATG
* *
89466621 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTATATTAGAC-GGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAAG
*
89466686 TAGATCCAAGATG
65 CAGATCCAAGATG
*
89466699 ATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGAA
1 ATTTGGCATCTCTATATTAGAC-GGGAGCAGATCAAAGACATAGCAGATCT-GACCTTCATTGAA
89466763 GCAGATCCAAGATG
64 GCAGATCCAAGATG
* * *
89466777 ATTTGGTATCTCTGTATTAGACGAGGAGCAGATCAAAGACATAGCAGATCTAACCTTC
1 ATTTGGCATCTCTATATTAGACG-GGAGCAGATCAAAGACATAGCAGATCTGACCTTC
89466835 GGATGTTTTC
Statistics
Matches: 195, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
77 2 0.01
78 190 0.97
79 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (77 bp):
ATTTGGCATCTCTATATTAGACGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAAGC
AGATCCAAGATG
Found at i:89466931 original size:89 final size:88
Alignment explanation
Indices: 89466759--89466966 Score: 210
Period size: 89 Copynumber: 2.4 Consensus size: 88
89466749 GGACCTTCAT
* * *
89466759 TGAAGCAGATCCAAGATGATTTGGTATCTCTGTATTAGACGAGGAGCAGATCAAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGCATTAGACAAGGAGCAGATCAAAGACATAGCAG
*
89466824 ATCTAACCTTCGGATGTTT-TCAC
66 ATCTAACCTTCCGATGTTTAT-AC
* * *
89466847 ATCGAAGTAGATCCAAGATGATTTGGCATCAT-TGCGTT-TACAAGGAGCAGATCGAAA-ACATA
1 -T-GAAGCAGATCCAAGATGATTTGGCATC-TCTGCATTAGACAAGGAGCAGATC-AAAGACATA
* ** * *
89466909 GCAGATTTGGCTTTCACG-TGTTTATGC
62 GCAGATCTAACCTTC-CGATGTTTATAC
*
89466936 TGAAGCAGATCTAAGATGATTTGGCATCTCT
1 TGAAGCAGATCCAAGATGATTTGGCATCTCT
89466967 ATACTGTCAG
Statistics
Matches: 99, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
86 1 0.01
87 26 0.26
88 1 0.01
89 36 0.36
90 34 0.34
91 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (88 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGCATTAGACAAGGAGCAGATCAAAGACATAGCAG
ATCTAACCTTCCGATGTTTATAC
Found at i:89467125 original size:78 final size:78
Alignment explanation
Indices: 89466996--89467369 Score: 430
Period size: 78 Copynumber: 4.6 Consensus size: 78
89466986 CGAAGAAACA
** * * * *
89466996 GATTTGGCATCTCCATATTCGACGGAGAGCAGACCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
89467061 GCAGATCCAAGAT
66 GCAGATCCAAGAT
** * *
89467074 GATTTGGCATCTCTGTATTAGATAGGGAGCAGATCGAAGACACAACAGATCTAACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
89467139 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* *
89467152 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCCAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
89467216 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
89467230 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCAAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCA-----
89467295 TTACATCGAAGCAGATCCAAGAT
61 -T---T-GAAGCAGATCCAAGAT
* *
89467318 AACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATC--AGAGATAACAGAT
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT
89467370 TTGGCATCTC
Statistics
Matches: 256, Mismatches: 24, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
77 1 0.00
78 192 0.75
79 1 0.00
84 1 0.00
87 1 0.00
88 16 0.06
90 11 0.04
92 33 0.13
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:89467173 original size:454 final size:452
Alignment explanation
Indices: 89466322--89467317 Score: 1717
Period size: 454 Copynumber: 2.2 Consensus size: 452
89466312 CGAAGAAACA
** * *
89466322 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGT
1 GATTTGGCATCTCTGTATTAGACGG-GAGCAGATCAAAGACATAGCAGATCTAACCTTC-GATGT
* * * *
89466387 TTTCACATTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAGCAGATCGAAGAC
64 TTTCACATCGAAGTAGATCCAAGATGATTTGGCATCATTGCGTTTACAAGGAGCAGATCGAAAAC
*
89466452 ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTAC
129 ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATAC
*
89466517 TGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGA
194 TGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGCAGACCGAAGA
89466582 CATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGG
259 CATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGG
* *
89466647 AGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCT
324 AGCAGATCAAAGACACAACAGATCTAACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCT
89466712 ATATTAGACGGGGAGCAGATCAAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGAT
389 ATATTAGACGGGGAGCAGATCAAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGAT
*
89466776 GATTTGGTATCTCTGTATTAGACGAGGAGCAGATCAAAGACATAGCAGATCTAACCTTCGGATGT
1 GATTTGGCATCTCTGTATTAGACG-GGAGCAGATCAAAGACATAGCAGATCTAACCTTC-GATGT
89466841 TTTCACATCGAAGTAGATCCAAGATGATTTGGCATCATTGCGTTTACAAGGAGCAGATCGAAAAC
64 TTTCACATCGAAGTAGATCCAAGATGATTTGGCATCATTGCGTTTACAAGGAGCAGATCGAAAAC
*
89466906 ATAGCAGATTTGGCTTTCACGTGTTTATGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATAC
129 ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATAC
*
89466971 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGACCGAAGA
194 TGTCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGCAGACCGAAGA
*
89467036 CATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATAGGG
259 CATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGG
*
89467101 AGCAGATCGAAGACACAACAGATCTAACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCT
324 AGCAGATCAAAGACACAACAGATCTAACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCT
* * *
89467166 GTATTAGACGGGGAGTAGATCCAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGAT
389 ATATTAGACGGGGAGCAGATCAAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGAT
* *
89467230 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCAAAGACATAGCAGATCTGACCTTC-ATGTG
1 GATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCAAAGACATAGCAGATCTAACCTTCGATGT-
*
89467294 TTT-ACATCGAAGCAGATCCAAGAT
64 TTTCACATCGAAGTAGATCCAAGAT
89467318 AACAGATTTG
Statistics
Matches: 514, Mismatches: 25, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
452 24 0.05
453 3 0.01
454 485 0.94
455 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (452 bp):
GATTTGGCATCTCTGTATTAGACGGGAGCAGATCAAAGACATAGCAGATCTAACCTTCGATGTTT
TCACATCGAAGTAGATCCAAGATGATTTGGCATCATTGCGTTTACAAGGAGCAGATCGAAAACAT
AGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATACTG
TCAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGCAGACCGAAGACA
TAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGGGAG
CAGATCAAAGACACAACAGATCTAACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTAT
ATTAGACGGGGAGCAGATCAAAGACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGAT
Found at i:89467435 original size:44 final size:45
Alignment explanation
Indices: 89467304--89467450 Score: 181
Period size: 45 Copynumber: 3.3 Consensus size: 45
89467294 TTTACATCGA
**
89467304 AGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
89467349 AGCA-AATCAGAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATTGA-AGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* ** * *
89467394 AGCAGATTGAAGA-AGCAGATTTGGCATCTCCATATTCGACGGAG
1 AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
*
89467438 AGCAGATCGAAGA
1 AGCAGATTGAAGA
89467451 CATATCAGAT
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
44 41 0.46
45 46 0.51
46 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.22
Consensus pattern (45 bp):
AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:89467778 original size:14 final size:15
Alignment explanation
Indices: 89467759--89467815 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
89467749 AATCTTCAAT
89467759 GATATG-CAATCTTA
1 GATATGACAATCTTA
89467773 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
89467790 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
89467809 GATATGA
1 GATATGA
89467816 TTGCAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:89467854 original size:17 final size:19
Alignment explanation
Indices: 89467757--89467847 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
89467747 ATAATCTTCA
89467757 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
89467776 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
89467793 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
89467812 ATGAT-TGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
89467830 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
89467848 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 17 0.25
18 17 0.25
19 33 0.49
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:89467870 original size:42 final size:37
Alignment explanation
Indices: 89467757--89467847 Score: 157
Period size: 37 Copynumber: 2.5 Consensus size: 37
89467747 ATAATCTTCA
*
89467757 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATTGCAATCTTAGAT
*
89467793 ATGATATGCAATCTTAGATATGATTGCAATATTAGAT
1 ATGATATGCAATCTTAGATATGATTGCAATCTTAGAT
89467830 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
89467848 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
36 23 0.44
37 29 0.56
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATTGCAATCTTAGAT
Found at i:89467873 original size:22 final size:22
Alignment explanation
Indices: 89467757--89467870 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
89467747 ATAATCTTCA
89467757 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
89467776 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
89467793 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
89467812 ATGAT-TGCAATATT---AGAT
1 ATGATATGCAATCTTAGAAGAT
89467830 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
89467852 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
89467871 GATTTAATTT
Statistics
Matches: 84, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
17 17 0.20
18 17 0.20
19 30 0.36
22 8 0.10
23 12 0.14
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:89469276 original size:27 final size:27
Alignment explanation
Indices: 89469246--89469344 Score: 171
Period size: 27 Copynumber: 3.7 Consensus size: 27
89469236 TTTATATCTC
*
89469246 CCCAATTCCCAGAGGGTCGTGGGTAAT
1 CCCAATTCCCAGAGGGTCGTGGGTAGT
89469273 CCCAATTCCCAGAGGGTCGTGGGTAGT
1 CCCAATTCCCAGAGGGTCGTGGGTAGT
* *
89469300 CCCAATTCCCAGAGGGTTGTGGGCAGT
1 CCCAATTCCCAGAGGGTCGTGGGTAGT
89469327 CCCAATTCCCAGAGGGTC
1 CCCAATTCCCAGAGGGTC
89469345 ATAGACTACT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.20, C:0.28, G:0.30, T:0.21
Consensus pattern (27 bp):
CCCAATTCCCAGAGGGTCGTGGGTAGT
Found at i:89471034 original size:30 final size:30
Alignment explanation
Indices: 89470961--89471034 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
89470951 CACGGTCTGT
*
89470961 CACACAAGCGTGTGACACGCACGGCCTAGC
1 CACACAGGCGTGTGACACGCACGGCCTAGC
* * *
89470991 CACACAGGTGTGTGACACGCATGGTCTAGC
1 CACACAGGCGTGTGACACGCACGGCCTAGC
* *
89471021 CACTCGGGCGTGTG
1 CACACAGGCGTGTG
89471035 TCTTGTTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (30 bp):
CACACAGGCGTGTGACACGCACGGCCTAGC
Found at i:89475315 original size:17 final size:17
Alignment explanation
Indices: 89475293--89475328 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
89475283 TAATGCTGAG
*
89475293 TTAGTCAAATTAGGAAC
1 TTAGTCAAATCAGGAAC
89475310 TTAGTCAAATCAGGAAC
1 TTAGTCAAATCAGGAAC
89475327 TT
1 TT
89475329 TAAAATCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (17 bp):
TTAGTCAAATCAGGAAC
Found at i:89481507 original size:17 final size:18
Alignment explanation
Indices: 89481471--89481505 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
89481461 TTCTAAGAAG
*
89481471 CACTTTTGGGATAAAAAA
1 CACTTTTGAGATAAAAAA
89481489 CACTTTTGAGATAAAAA
1 CACTTTTGAGATAAAAA
89481506 CATTGCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
CACTTTTGAGATAAAAAA
Found at i:89485730 original size:30 final size:30
Alignment explanation
Indices: 89485691--89485748 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
89485681 AAAACCTTGA
* *
89485691 GCTCTCCCTTAAGCTCATTGATCATCTCGT
1 GCTCCCCCTTAAGCTCACTGATCATCTCGT
*
89485721 GCTCCCCCTTAAGCTCACTGATCTTCTC
1 GCTCCCCCTTAAGCTCACTGATCATCTC
89485749 CTTCAACGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.38, G:0.12, T:0.34
Consensus pattern (30 bp):
GCTCCCCCTTAAGCTCACTGATCATCTCGT
Found at i:89487872 original size:94 final size:94
Alignment explanation
Indices: 89487763--89487967 Score: 333
Period size: 94 Copynumber: 2.2 Consensus size: 94
89487753 GTTTTAGATT
* *
89487763 TTCTTGCTTTCTTTTTTTCAACTTATTCCCTTGCTTTCTATGTTTCTTTTTATGGGCTTTGCCTC
1 TTCTTGCTTTCTTTTTTTCAACTTATTCCCTTGCTTTCAATGTTTCTTTTTATGGACTTTGCCTC
* *
89487828 GTTTTTACTTCTTTAGTGTTGCAATGCCA
66 GTTTATACTTCTTTAGTGCTGCAATGCCA
* * *
89487857 TTCTTGCTTTCTTTTTTTCAACTTATTCCCTTGCTTTCAATGTTTGTTTTTATGGACTTTGTCTT
1 TTCTTGCTTTCTTTTTTTCAACTTATTCCCTTGCTTTCAATGTTTCTTTTTATGGACTTTGCCTC
89487922 GTTTATACTTCTTTAGTGCTGCAATGCCA
66 GTTTATACTTCTTTAGTGCTGCAATGCCA
89487951 TTCTTGC--TCTTTTTTTC
1 TTCTTGCTTTCTTTTTTTC
89487968 TTTTGTGTGT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 10 0.10
94 94 0.90
ACGTcount: A:0.11, C:0.20, G:0.12, T:0.56
Consensus pattern (94 bp):
TTCTTGCTTTCTTTTTTTCAACTTATTCCCTTGCTTTCAATGTTTCTTTTTATGGACTTTGCCTC
GTTTATACTTCTTTAGTGCTGCAATGCCA
Found at i:89491439 original size:31 final size:31
Alignment explanation
Indices: 89491399--89491543 Score: 200
Period size: 31 Copynumber: 4.7 Consensus size: 31
89491389 TGGATTGATG
* * * *
89491399 GACAGCTTGTATGTAGTGTAGCTGATTTATC
1 GACAACTTGTTTGTAGTGTAACTAATTTATC
* *
89491430 GATAACTTGTTTGCAGTGTAACTAATTTATC
1 GACAACTTGTTTGTAGTGTAACTAATTTATC
*
89491461 GACAACTTGTTTGTAGTCTAACTAATTTATC
1 GACAACTTGTTTGTAGTGTAACTAATTTATC
* *
89491492 GATAACTTGTTTGTAGTGCAACTAATTTATC
1 GACAACTTGTTTGTAGTGTAACTAATTTATC
*
89491523 GACAGCTTGTTTGTAGTGTAA
1 GACAACTTGTTTGTAGTGTAA
89491544 TTAANACATG
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (31 bp):
GACAACTTGTTTGTAGTGTAACTAATTTATC
Found at i:89491476 original size:62 final size:62
Alignment explanation
Indices: 89491399--89491543 Score: 227
Period size: 62 Copynumber: 2.3 Consensus size: 62
89491389 TGGATTGATG
* * * *
89491399 GACAGCTTGTATGTAGTGTAGCTGATTTATCGATAACTTGTTTGCAGTGTAACTAATTTATC
1 GACAGCTTGTTTGTAGTGTAACTAATTTATCGATAACTTGTTTGCAGTGCAACTAATTTATC
* * *
89491461 GACAACTTGTTTGTAGTCTAACTAATTTATCGATAACTTGTTTGTAGTGCAACTAATTTATC
1 GACAGCTTGTTTGTAGTGTAACTAATTTATCGATAACTTGTTTGCAGTGCAACTAATTTATC
89491523 GACAGCTTGTTTGTAGTGTAA
1 GACAGCTTGTTTGTAGTGTAA
89491544 TTAANACATG
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 74 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (62 bp):
GACAGCTTGTTTGTAGTGTAACTAATTTATCGATAACTTGTTTGCAGTGCAACTAATTTATC
Found at i:89498483 original size:71 final size:71
Alignment explanation
Indices: 89498399--89498562 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
89498389 CGATTTGTCT
89498399 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
89498464 CTTTCA
66 CTTTCA
89498470 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
89498535 CTTTCA
66 CTTTCA
89498541 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
89498563 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:89498600 original size:71 final size:70
Alignment explanation
Indices: 89498399--89498596 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
89498389 CGATTTGTCT
* * * *
89498399 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
89498464 CTTTCA
65 CTTTCA
* * * *
89498470 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
89498535 CTTTCA
65 CTTTCA
* *
89498541 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
89498597 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:89500761 original size:19 final size:19
Alignment explanation
Indices: 89500737--89500823 Score: 142
Period size: 19 Copynumber: 4.7 Consensus size: 19
89500727 ATCAATCTTC
89500737 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
*
89500756 AAGATTGCATATCACATCT
1 AAGATTGCATATCATATCT
*
89500775 ATGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
89500792 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
89500811 AAGATTGCATATC
1 AAGATTGCATATC
89500824 CTTAAAGATT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
17 15 0.24
19 47 0.76
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:89500787 original size:36 final size:36
Alignment explanation
Indices: 89500737--89500817 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
89500727 ATCAATCTTC
89500737 AAGATTGCATATCATATCTAAGATTGCATATCACATCT
1 AAGATTG--TATCATATCTAAGATTGCATATCACATCT
* *
89500775 ATGATTGTATCATATCTAAGATTGCATATCATATCT
1 AAGATTGTATCATATCTAAGATTGCATATCACATCT
89500811 AAGATTG
1 AAGATTG
89500818 CATATCCTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 34 0.85
38 6 0.15
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
AAGATTGTATCATATCTAAGATTGCATATCACATCT
Found at i:89500832 original size:36 final size:35
Alignment explanation
Indices: 89500737--89500833 Score: 90
Period size: 36 Copynumber: 2.6 Consensus size: 35
89500727 ATCAATCTTC
*
89500737 AAGATTGCATATCATATCTAAGATTGCATATCACATCT
1 AAGATTGCATATC--CT-TAAGATTGCATATCACATCT
* *
89500775 ATGATTGTATCATAT-C-TAAGATTGCATATCATATCT
1 AAGATTG---CATATCCTTAAGATTGCATATCACATCT
89500811 AAGATTGCATATCCTTAAAGATT
1 AAGATTGCATATCCTT-AAGATT
89500834 ATATTTCCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
33 5 0.10
34 1 0.02
35 1 0.02
36 31 0.63
38 6 0.12
41 5 0.10
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (35 bp):
AAGATTGCATATCCTTAAGATTGCATATCACATCT
Found at i:89501564 original size:44 final size:43
Alignment explanation
Indices: 89501508--89501590 Score: 121
Period size: 44 Copynumber: 1.9 Consensus size: 43
89501498 ATCTGCTATG
* **
89501508 TCTTCGATTTGTTCTCCGTCGAATATGGAGATGCCAAATCTGTT
1 TCTTCGATTTGTTCTCCGAC-AATACAGAGATGCCAAATCTGTT
*
89501552 TCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATC
1 TCTTCGATTTGTTCTCCGACAATACAGAGATGCCAAATC
89501591 ATCTTGGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 17 0.49
44 18 0.51
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (43 bp):
TCTTCGATTTGTTCTCCGACAATACAGAGATGCCAAATCTGTT
Found at i:89501706 original size:220 final size:220
Alignment explanation
Indices: 89501452--89502294 Score: 1476
Period size: 220 Copynumber: 3.8 Consensus size: 220
89501442 ACAGATATGT
* *
89501452 CAAATCATCTTGGATCTGCTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATT
1 CAAATCATCTTGGATCTACTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATC
*
89501517 TGTTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGA
66 TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGA
* *
89501582 TGCCAAATCATCTTGGATCTGCTTTAGTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGAT
131 TGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGAT
89501647 TTGCTCCTTGTAAACACAAGAATGC
196 TTGCTCCTTGTAAACACAAGAATGC
* * *
89501672 CAAATCATCTTGGATCTACTTCGATATGAAAACATCTAAAGGTCAGATCTGCTATGTCTTCGATC
1 CAAATCATCTTGGATCTACTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATC
89501737 TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGA
66 TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGA
*
89501802 TGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAAATCTGCTATGTCTTCGAT
131 TGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGAT
89501867 TTGCTCCTTGTAAACACAAGAATGC
196 TTGCTCCTTGTAAACACAAGAATGC
* *
89501892 CAAATCATCTTGGATCTGCTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATT
1 CAAATCATCTTGGATCTACTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATC
* *
89501957 TGCTCTCCGTCGAATATGTAGATGCCAAATTTGTTTCTTCGATTTGTTCTCTG---ATACAGAGA
66 TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGA
*
89502019 TGCCAAATCATCTTGGATCTACTTCATTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGAT
131 TGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGAT
89502084 TTGCTCCTTGTAAACACAAGAATGC
196 TTGCTCCTTGTAAACACAAGAATGC
*
89502109 CAAATCATCTTGGATCTACTTCGATGTGAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATC
1 CAAATCATCTTGGATCTACTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATC
*
89502174 TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTGTTCTCTGACAATACAGAGA
66 TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGA
* * * * *
89502239 TGCCAAATCATCTTGGATCTGCTTTAGCGTGAACACCTGAAGGCCAGATCTGCTAT
131 TGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGCTAT
89502295 ACTTTAACCT
Statistics
Matches: 590, Mismatches: 30, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
217 209 0.35
220 381 0.65
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (220 bp):
CAAATCATCTTGGATCTACTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATC
TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGA
TGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGAT
TTGCTCCTTGTAAACACAAGAATGC
Found at i:89501741 original size:89 final size:87
Alignment explanation
Indices: 89501581--89501741 Score: 243
Period size: 89 Copynumber: 1.8 Consensus size: 87
89501571 CAATACAGAG
* * *
89501581 ATGCCAAATCATCTTGGATCTGCTTTAGTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGA
1 ATGCCAAATCATCTTGGATCTACTTTAGTGAAAACACCTAAAGGTCAGATCTGCTATGTCTTCGA
*
89501646 TTTGCTCCTTGTAAACACAAGA
66 TCTGCTCCTTGTAAACACAAGA
*
89501668 ATGCCAAATCATCTTGGATCTACTTCGATA-TGAAAACATCTAAAGGTCAGATCTGCTATGTCTT
1 ATGCCAAATCATCTTGGATCTACTT---TAGTGAAAACACCTAAAGGTCAGATCTGCTATGTCTT
89501732 CGATCTGCTC
63 CGATCTGCTC
89501742 TCCGTCGAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
87 24 0.36
89 40 0.61
90 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (87 bp):
ATGCCAAATCATCTTGGATCTACTTTAGTGAAAACACCTAAAGGTCAGATCTGCTATGTCTTCGA
TCTGCTCCTTGTAAACACAAGA
Found at i:89501895 original size:87 final size:88
Alignment explanation
Indices: 89501801--89501961 Score: 247
Period size: 89 Copynumber: 1.8 Consensus size: 88
89501791 CAATACAGAG
*
89501801 ATGCCAAATCATCTTGGATCTACTTC-AGTGT-AAACA-CCTGAAGGTCAAATCTGCTATGTCTT
1 ATGCCAAATCATCTTGGATCTACTTCGA-TGTAAAACATCC-AAAGGTCAAATCTGCTATGTCTT
89501863 CGATTTGCTCCTTGTAAACACAAGA
64 CGATTTGCTCCTTGTAAACACAAGA
* *
89501888 ATGCCAAATCATCTTGGATCTGCTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTC
1 ATGCCAAATCATCTTGGATCTACTTCGATGT-AAAACATCCAAAGGTCAAATCTGCTATGTCTTC
89501953 GATTTGCTC
65 GATTTGCTC
89501962 TCCGTCGAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
87 28 0.42
88 1 0.01
89 36 0.54
90 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (88 bp):
ATGCCAAATCATCTTGGATCTACTTCGATGTAAAACATCCAAAGGTCAAATCTGCTATGTCTTCG
ATTTGCTCCTTGTAAACACAAGA
Found at i:89502167 original size:89 final size:87
Alignment explanation
Indices: 89502018--89502178 Score: 261
Period size: 89 Copynumber: 1.8 Consensus size: 87
89502008 TGATACAGAG
* *
89502018 ATGCCAAATCATCTTGGATCTACTTCATTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGA
1 ATGCCAAATCATCTTGGATCTACTTCATTGAAAACACCTAAAGGTCAGATCTGCTATGTCTTCGA
*
89502083 TTTGCTCCTTGTAAACACAAGA
66 TCTGCTCCTTGTAAACACAAGA
89502105 ATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCC-AAAGGTCAGATCTGCTATGTCTT
1 ATGCCAAATCATCTTGGATCTACTTC-AT-TGAAAACA-CCTAAAGGTCAGATCTGCTATGTCTT
89502169 CGATCTGCTC
63 CGATCTGCTC
89502179 TCCGTCGAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
87 26 0.38
88 2 0.03
89 38 0.56
90 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (87 bp):
ATGCCAAATCATCTTGGATCTACTTCATTGAAAACACCTAAAGGTCAGATCTGCTATGTCTTCGA
TCTGCTCCTTGTAAACACAAGA
Found at i:89502276 original size:437 final size:438
Alignment explanation
Indices: 89501452--89502294 Score: 1526
Period size: 437 Copynumber: 1.9 Consensus size: 438
89501442 ACAGATATGT
89501452 CAAATCATCTTGGATCTGCTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATT
1 CAAATCATCTTGGATCTGCTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATT
*
89501517 TGTTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACAATACAGAGA
66 TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTG--AATACAGAGA
* *
89501582 TGCCAAATCATCTTGGATCTGCTTTAGTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGAT
129 TGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGAT
*
89501647 TTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTACTTCGATATGAAAACATCTAAA
194 TTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTACTTCGATATGAAAACATCCAAA
89501712 GGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTC
259 GGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTC
* *
89501777 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGA
324 AATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGCGTAAACACCTGA
*
89501842 AGGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGC
389 AGGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGC
89501892 CAAATCATCTTGGATCTGCTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATT
1 CAAATCATCTTGGATCTGCTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATT
* *
89501957 TGCTCTCCGTCGAATATGTAGATGCCAAATTTGTTTCTTCGATTTGTTCTCTG-ATACAGAGATG
66 TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGAATACAGAGATG
*
89502021 CCAAATCATCTTGGATCTACTTCATTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGATTT
131 CCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGATTT
*
89502086 GCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCCAAAGG
196 GCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTACTTCGATATGAAAACATCCAAAGG
89502151 TCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAA
261 TCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAA
* * *
89502216 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCTGCTTTAGCGTGAACACCTGAAG
326 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGCGTAAACACCTGAAG
*
89502281 GCCAGATCTGCTAT
391 GCCAAATCTGCTAT
89502295 ACTTTAACCT
Statistics
Matches: 388, Mismatches: 15, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
437 273 0.70
440 115 0.30
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (438 bp):
CAAATCATCTTGGATCTGCTTCGATGTAAAAACATCCAAAGGTCAGATCTGCTATGTCTTCGATT
TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGAATACAGAGATG
CCAAATCATCTTGGATCTACTTCAGTGTAAACACCTGAAGGTCAGATCTGCTATGTCTTCGATTT
GCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTACTTCGATATGAAAACATCCAAAGG
TCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAA
TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATCTACTTCAGCGTAAACACCTGAAG
GCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGC
Found at i:89502416 original size:44 final size:44
Alignment explanation
Indices: 89502358--89502453 Score: 149
Period size: 44 Copynumber: 2.2 Consensus size: 44
89502348 TCCACTACAG
* *
89502358 CTTA-GGGAGATAAGATCCGCAATTTTGACCTGTTACCCTACTA
1 CTTAGGGGAGATAAGATCCGCAAATTTAACCTGTTACCCTACTA
* *
89502401 CTTAGGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTG
1 CTTAGGGGAGATAAGATCCGCAAATTTAACCTGTTACCCTACTA
89502445 CTTAGGGGA
1 CTTAGGGGA
89502454 TTAAGGCACT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 4 0.08
44 44 0.92
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
CTTAGGGGAGATAAGATCCGCAAATTTAACCTGTTACCCTACTA
Found at i:89508045 original size:40 final size:40
Alignment explanation
Indices: 89507953--89508102 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
89507943 AATTGAATGA
* * * *
89507953 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAAT-T
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
89507992 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
89508033 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
89508072 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
89508103 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 54 0.59
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:89508116 original size:40 final size:40
Alignment explanation
Indices: 89507992--89508118 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
89507982 GCTGGAAATT
* * * * *
89507992 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
89508032 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
89508072 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
89508112 TATCCGG
1 TATCCGG
89508119 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:89512247 original size:22 final size:21
Alignment explanation
Indices: 89512217--89512263 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
89512207 TACAAATTAA
89512217 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
89512239 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
89512260 ATCT
1 ATCT
89512264 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:89512269 original size:19 final size:19
Alignment explanation
Indices: 89512234--89512312 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
89512224 AGATTACAAG
89512234 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
89512255 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
89512272 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89512291 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89512310 ATC
1 ATC
89512313 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:89512289 original size:36 final size:38
Alignment explanation
Indices: 89512234--89512306 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
89512224 AGATTACAAG
89512234 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
89512272 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
89512307 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:89512321 original size:36 final size:35
Alignment explanation
Indices: 89512235--89512322 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 35
89512225 GATTACAAGA
89512235 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
89512271 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
89512307 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
89512323 ATATTTCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 32 0.68
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:89515306 original size:40 final size:40
Alignment explanation
Indices: 89515262--89515447 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
89515252 GCTACTCGTT
* *
89515262 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
89515302 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
89515342 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
** * * * *
89515382 TGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
89515423 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
89515448 CATCATTCGA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.89
41 11 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:89517738 original size:24 final size:24
Alignment explanation
Indices: 89517692--89517738 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
89517682 TCAAGTAATT
*
89517692 CCTTCCTTCCTTCCTCTGTGTGTC
1 CCTTCCTTCCTTCCTCTGGGTGTC
*
89517716 CCTTTCTTCC-TCCTCTAGGGTGT
1 CCTTCCTTCCTTCCTCT-GGGTGT
89517739 ATTTATAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.02, C:0.38, G:0.15, T:0.45
Consensus pattern (24 bp):
CCTTCCTTCCTTCCTCTGGGTGTC
Found at i:89523213 original size:26 final size:26
Alignment explanation
Indices: 89523176--89523259 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
89523166 TGATACAAAT
* *
89523176 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
89523202 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89523228 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89523254 TGATAA
1 TGATAA
89523260 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:89524771 original size:26 final size:26
Alignment explanation
Indices: 89524742--89524794 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
89524732 TTTACAGTTT
89524742 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
89524768 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
89524794 T
1 T
89524795 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:89528980 original size:26 final size:26
Alignment explanation
Indices: 89528943--89529026 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
89528933 TGATACAAAT
* *
89528943 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
89528969 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89528995 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89529021 TGATAA
1 TGATAA
89529027 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:89530531 original size:26 final size:26
Alignment explanation
Indices: 89530502--89530554 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
89530492 TTTACAGTTT
89530502 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
89530528 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
89530554 T
1 T
89530555 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Done.