Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 249 of 290
Found at i:85816518 original size:26 final size:25
Alignment explanation
Indices: 85816491--85816540 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
85816481 GATCAAATAT
*
85816491 ATATTTAATATA-TTAAAAAAATTA
1 ATATTAAATATATTTAAAAAAATTA
*
85816515 ATATTAAATATATTTTAAAAAATTA
1 ATATTAAATATATTTAAAAAAATTA
85816540 A
1 A
85816541 AGTACGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATATTAAATATATTTAAAAAAATTA
Found at i:85818015 original size:14 final size:14
Alignment explanation
Indices: 85817996--85818022 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85817986 AAAAAATCGG
85817996 TTTGAATCCTATGA
1 TTTGAATCCTATGA
85818010 TTTGAATCCTATG
1 TTTGAATCCTATG
85818023 TGATGGCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (14 bp):
TTTGAATCCTATGA
Found at i:85819740 original size:36 final size:36
Alignment explanation
Indices: 85819691--85819766 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
85819681 TGACCCCTCT
* * * * *
85819691 CATCTCGCTATTCATCCTCGTTGACTCATCCGTTCC
1 CATCTCGCCATTCAACATCGTTGACCCATCCGCTCC
*
85819727 CATCTCGCCATTCAACATCGTTGACCCATCTGCTCC
1 CATCTCGCCATTCAACATCGTTGACCCATCCGCTCC
85819763 CATC
1 CATC
85819767 GTGAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.17, C:0.41, G:0.11, T:0.32
Consensus pattern (36 bp):
CATCTCGCCATTCAACATCGTTGACCCATCCGCTCC
Found at i:85824388 original size:40 final size:40
Alignment explanation
Indices: 85824344--85824439 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
85824334 TAATTCCCAG
* ** * *
85824344 AATTTCTATTGTTTTGGCAGTATATTTAATGATTTACTAA
1 AATTTCTATTGTTTTAGCAAAATATTTAATGAGTTACAAA
** * * *
85824384 AATTTCTAAGGGTTTATCAAAATATTTGATGAGTTACAAA
1 AATTTCTATTGTTTTAGCAAAATATTTAATGAGTTACAAA
85824424 AATTTCTATTGTTTTA
1 AATTTCTATTGTTTTA
85824440 CCAATATTTA
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (40 bp):
AATTTCTATTGTTTTAGCAAAATATTTAATGAGTTACAAA
Found at i:85824611 original size:20 final size:20
Alignment explanation
Indices: 85824548--85824642 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 20
85824538 ATGGGCTTAT
* *
85824548 CAAAATATCTAAGAATTTGC
1 CAAAATATCTAACAATTTAC
* * * *
85824568 CTATATATCTAACAACTGAC
1 CAAAATATCTAACAATTTAC
*
85824588 CAAAATATCTAACAATTTAT
1 CAAAATATCTAACAATTTAC
* * **
85824608 CAAAATTTCTATCGTTTTAC
1 CAAAATATCTAACAATTTAC
*
85824628 CAATATATCTAACAA
1 CAAAATATCTAACAA
85824643 ATTATTAACA
Statistics
Matches: 54, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (20 bp):
CAAAATATCTAACAATTTAC
Found at i:85824673 original size:40 final size:40
Alignment explanation
Indices: 85824586--85824665 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
85824576 CTAACAACTG
* * * *
85824586 ACCAAAATATCTAACAATTTATCAAAATTTCTATCGTTTT
1 ACCAATATATCTAACAAATTATCAAAATTTCTATCATTAT
* *
85824626 ACCAATATATCTAACAAATTATTAACATTTCTATCATTAT
1 ACCAATATATCTAACAAATTATCAAAATTTCTATCATTAT
85824666 GTCAATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.40
Consensus pattern (40 bp):
ACCAATATATCTAACAAATTATCAAAATTTCTATCATTAT
Found at i:85824790 original size:20 final size:20
Alignment explanation
Indices: 85824767--85824843 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
85824757 TTTTTTTAAA
*
85824767 GATTTACCAATATTTCTAAG
1 GATTTACCAAAATTTCTAAG
* *
85824787 GA-TTCCCAAAATATT-TAAC
1 GATTTACCAAAAT-TTCTAAG
85824806 GATTTACCAAAATTTCTAAG
1 GATTTACCAAAATTTCTAAG
85824826 GATTTACCAAAATTTCTA
1 GATTTACCAAAATTTCTA
85824844 TCATTTTACC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
19 15 0.31
20 34 0.69
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (20 bp):
GATTTACCAAAATTTCTAAG
Found at i:85824852 original size:40 final size:39
Alignment explanation
Indices: 85824761--85824860 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 39
85824751 TTACAATTTT
* *
85824761 TTTAAAGATTTACCAATATTTCTAAGGATTCCCAAAATA
1 TTTAACGATTTACCAATATTTCTAAGGATTACCAAAATA
*
85824800 TTTAACGATTTACCAAAATTTCTAAGGATTTACCAAAAT-
1 TTTAACGATTTACCAATATTTCTAAGGA-TTACCAAAATA
*
85824839 TTCTATC-ATTTTACCAATATTT
1 TT-TAACGA-TTTACCAATATTT
85824861 ATGAGACTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (39 bp):
TTTAACGATTTACCAATATTTCTAAGGATTACCAAAATA
Found at i:85824976 original size:164 final size:163
Alignment explanation
Indices: 85824792--85825188 Score: 428
Period size: 164 Copynumber: 2.4 Consensus size: 163
85824782 CTAAGGATTC
* * * *
85824792 CCAAAATATTTAACGATTTACCAAAATTTCTAAGGATTTACCAAAATTTCTATCATTTTACCAAT
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACA-TTTACCAAT
* * * * **
85824857 ATT-TATGAGACTTTACCGAA-AT-TTTAAAGATTTTATCAATATTTTTAAATTTTCTAAAC-CT
65 ATTCTAT--CACTTTACC-AATATGTAT-AAGACTTTACCAATATTTCCAAATTTTCTAAACAC-
85824918 TATACCAAGTAC-TAACAATTACCAAAATTTCTATAAC-A
125 TATACCAAGT-CTTAACAATTACCAAAATTTCTATAACTA
* * * *
85824956 CCAAAATATCTAAGGATTTACCAATATTTCTAAGCATTTACCAATATATCTAAGGATTTACCAAA
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATATCTAA-CATTTACC-AA
* ** * * * *
85825021 AATTCTATCTTTTTACCAGTATGTATGAGACTTTACCCATATTTCCAATTTTTCTAAACACTATA
64 TATTCTATCACTTTACCAATATGTATAAGACTTTACCAATATTTCCAAATTTTCTAAACACTATA
*
85825086 CCAAGTCTTAACAATTACTAAAATTTCTATAACTTTA
129 CCAAGTCTTAACAATTACCAAAATTTCTATAAC--TA
**
85825123 CCAAAATATCTAATAATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACAATTTACCAAT
1 CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATATCTAAC-ATTTACCAAT
85825188 A
65 A
85825189 ATTTTAAGGA
Statistics
Matches: 194, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
163 2 0.01
164 120 0.62
165 9 0.05
166 6 0.03
167 57 0.29
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (163 bp):
CCAAAATATCTAACGATTTACCAAAATTTCTAAGGATTTACCAATATATCTAACATTTACCAATA
TTCTATCACTTTACCAATATGTATAAGACTTTACCAATATTTCCAAATTTTCTAAACACTATACC
AAGTCTTAACAATTACCAAAATTTCTATAACTA
Found at i:85824987 original size:20 final size:20
Alignment explanation
Indices: 85824955--85825019 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
85824945 TTTCTATAAC
*
85824955 ACCAAAATATCTAAGGATTT
1 ACCAATATATCTAAGGATTT
* *
85824975 ACCAATATTTCTAAGCATTT
1 ACCAATATATCTAAGGATTT
85824995 ACCAATATATCTAAGGATTT
1 ACCAATATATCTAAGGATTT
85825015 ACCAA
1 ACCAA
85825020 AAATTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (20 bp):
ACCAATATATCTAAGGATTT
Found at i:85825027 original size:20 final size:21
Alignment explanation
Indices: 85824958--85825027 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 21
85824948 CTATAACACC
85824958 AAAATATCTAAGGATTTACC-
1 AAAATATCTAAGGATTTACCA
* * *
85824978 AATATTTCTAAGCATTTACC-
1 AAAATATCTAAGGATTTACCA
*
85824998 AATATATCTAAGGATTTACCA
1 AAAATATCTAAGGATTTACCA
85825019 AAAAT-TCTA
1 AAAATATCTA
85825028 TCTTTTTACC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 39 0.91
21 4 0.09
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAATATCTAAGGATTTACCA
Found at i:85825149 original size:40 final size:39
Alignment explanation
Indices: 85825094--85825601 Score: 222
Period size: 40 Copynumber: 12.6 Consensus size: 39
85825084 TACCAAGTCT
*
85825094 TAACAA-TTACTAAAATTTCTATA-ACTTTACCAAAATATC
1 TAACAATTTACCAAAATTTCTA-AGA-TTTACCAAAATATC
* *
85825133 TAATAATTTACCAAAATTTCTAAGGATTTACCAATATATC
1 TAACAATTTACCAAAATTTCTAA-GATTTACCAAAATATC
* *
85825173 TAACAATTTACCAATAATTT-TAAGGATTTTCTAAAATATC
1 TAACAATTTACCAA-AATTTCTAA-GATTTACCAAAATATC
* * * * *
85825213 TAATAGTTTTCCAAAATTTCTAAGGATTTACCGATATATC
1 TAACAATTTACCAAAATTTCTAA-GATTTACCAAAATATC
* * * *
85825253 TAACAAATTACTAAAAATTT-TAA-AGTGTTACCAAAACATA
1 TAACAATTTAC-CAAAATTTCTAAGA-T-TTACCAAAATATC
* * *
85825293 TAACGATTTACCAAAATTT-TCAATGTTTTATCAAAATATC
1 TAACAATTTACCAAAATTTCT-AA-GATTTACCAAAATATC
* * * * *
85825333 TAACGATTTACCAAAATTTTTATTGATTTACCAATATTTTC
1 TAACAATTTACCAAAATTTCTA-AGATTTACCAA-AATATC
* * ** * *
85825374 TAAATTTCTAAACCTTATACC-AAGTTT-TAACAAATACCGAAATTTC
1 T-AA---C--AA--TT-TACCAAAATTTCTAAGATTTACCAAAATATC
**** * * * **
85825420 TATGGCTTTGCCAAAATATCTAAGGATTTATCAATTTATC
1 TAACAATTTACCAAAATTTCTAA-GATTTACCAAAATATC
** * * * *
85825460 TAACGTTTTCCCAATATTCCTAAGGATTTACTAAAATATC
1 TAACAATTTACCAAAATTTCTAA-GATTTACCAAAATATC
** * * *
85825500 TAATGATTTACTAAAATTTTTAAGGATTTACCAAAATATT
1 TAACAATTTACCAAAATTTCTAA-GATTTACCAAAATATC
* * * * * * *
85825540 TGACAGTTTACTAATATTTTTAAAGATTTACCAACATATT
1 TAACAATTTACCAAAATTTCT-AAGATTTACCAAAATATC
*
85825580 TAACAATTTAACAAAATTTCTA
1 TAACAATTTACCAAAATTTCTA
85825602 TAAATTTTAC
Statistics
Matches: 352, Mismatches: 90, Indels: 54
0.71 0.18 0.11
Matches are distributed among these distances:
37 3 0.01
38 7 0.02
39 24 0.07
40 266 0.76
41 22 0.06
42 2 0.01
45 2 0.01
46 6 0.02
47 7 0.02
48 2 0.01
49 7 0.02
50 4 0.01
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.39
Consensus pattern (39 bp):
TAACAATTTACCAAAATTTCTAAGATTTACCAAAATATC
Found at i:85825209 original size:80 final size:79
Alignment explanation
Indices: 85825094--85825352 Score: 265
Period size: 80 Copynumber: 3.3 Consensus size: 79
85825084 TACCAAGTCT
* *
85825094 TAACAA-TTACTAAAATTTCTATAACT-TTACCAAAATATCTAATAATTTACCAAAATTTCTAAG
1 TAACAATTTACCAAAATTT-TA-AAGTGTTACCAAAATATCTAATAATTTACCAAAATTTCTAAG
85825157 GATTTACCAATATATC
64 GATTTACCAATATATC
* * * * *
85825173 TAACAATTTACCAATAATTTTAAGGAT-TTTCTAAAATATCTAATAGTTTTCCAAAATTTCTAAG
1 TAACAATTTACCAA-AATTTTAAAG-TGTTACCAAAATATCTAATAATTTACCAAAATTTCTAAG
*
85825237 GATTTACCGATATATC
64 GATTTACCAATATATC
* * * * ** *
85825253 TAACAAATTACTAAAAATTTTAAAGTGTTACCAAAACATATAACGATTTACCAAAATTT-TCAAT
1 TAACAATTTAC-CAAAATTTTAAAGTGTTACCAAAATATCTAATAATTTACCAAAATTTCT-AAG
* * *
85825317 GTTTTATCAAAATATC
64 GATTTACCAATATATC
*
85825333 TAACGATTTACCAAAATTTT
1 TAACAATTTACCAAAATTTT
85825353 TATTGATTTA
Statistics
Matches: 147, Mismatches: 27, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
79 17 0.12
80 123 0.84
81 7 0.05
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (79 bp):
TAACAATTTACCAAAATTTTAAAGTGTTACCAAAATATCTAATAATTTACCAAAATTTCTAAGGA
TTTACCAATATATC
Found at i:85825360 original size:20 final size:20
Alignment explanation
Indices: 85825119--85825372 Score: 100
Period size: 20 Copynumber: 12.7 Consensus size: 20
85825109 TTTCTATAAC
* * *
85825119 TTTACCAAAATATCTAATAA
1 TTTACCAAAATTTTTAATGA
* *
85825139 TTTACCAAAATTTCTAAGGA
1 TTTACCAAAATTTTTAATGA
* * * **
85825159 TTTACCAATATATCTAACAA
1 TTTACCAAAATTTTTAATGA
*
85825179 TTTACCAATAA-TTTTAAGGA
1 TTTACCAA-AATTTTTAATGA
* * * *
85825199 TTTTCTAAAATATCTAAT-A
1 TTTACCAAAATTTTTAATGA
* * *
85825218 GTTTTCCAAAATTTCTAAGGA
1 -TTTACCAAAATTTTTAATGA
* * * * **
85825239 TTTACCGATATATCTAACAA
1 TTTACCAAAATTTTTAATGA
* * * *
85825259 ATTACTAAAAATTTTAAAG-
1 TTTACCAAAATTTTTAATGA
** * *
85825278 TGTTACCAAAACATATAACGA
1 T-TTACCAAAATTTTTAATGA
* *
85825299 TTTACCAAAATTTTCAATGT
1 TTTACCAAAATTTTTAATGA
* * * *
85825319 TTTATCAAAATATCTAACGA
1 TTTACCAAAATTTTTAATGA
*
85825339 TTTACCAAAATTTTTATTGA
1 TTTACCAAAATTTTTAATGA
*
85825359 TTTACCAATATTTT
1 TTTACCAAAATTTT
85825373 CTAAATTTCT
Statistics
Matches: 169, Mismatches: 59, Indels: 12
0.70 0.25 0.05
Matches are distributed among these distances:
19 3 0.02
20 163 0.96
21 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (20 bp):
TTTACCAAAATTTTTAATGA
Found at i:85825507 original size:20 final size:20
Alignment explanation
Indices: 85825479--85825538 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
85825469 CCCAATATTC
85825479 CTAAGGATTTACTAAAATAT
1 CTAAGGATTTACTAAAATAT
* *
85825499 CTAATGATTTACTAAAATTT
1 CTAAGGATTTACTAAAATAT
* *
85825519 TTAAGGATTTACCAAAATAT
1 CTAAGGATTTACTAAAATAT
85825539 TTGACAGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.38
Consensus pattern (20 bp):
CTAAGGATTTACTAAAATAT
Found at i:85825549 original size:20 final size:20
Alignment explanation
Indices: 85825526--85825596 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
85825516 TTTTTAAGGA
*
85825526 TTTACCAAAATATTTGACAG
1 TTTACCAAAATATTTAACAG
* * *
85825546 TTTACTAATATTTTTAA-AG
1 TTTACCAAAATATTTAACAG
* *
85825565 ATTTACCAACATATTTAACAA
1 -TTTACCAAAATATTTAACAG
*
85825586 TTTAACAAAAT
1 TTTACCAAAAT
85825597 TTCTATAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
19 2 0.05
20 36 0.92
21 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (20 bp):
TTTACCAAAATATTTAACAG
Found at i:85825619 original size:21 final size:20
Alignment explanation
Indices: 85825586--85825629 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
85825576 TATTTAACAA
*
85825586 TTTAACAAAATTTCTATAAAT
1 TTTAACAAAATTTCCA-AAAT
* *
85825607 TTTACCAATATTTCCAAAAT
1 TTTAACAAAATTTCCAAAAT
85825627 TTT
1 TTT
85825630 TAACTCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAACAAAATTTCCAAAAT
Found at i:85827933 original size:44 final size:45
Alignment explanation
Indices: 85827884--85827973 Score: 164
Period size: 44 Copynumber: 2.0 Consensus size: 45
85827874 TTAAAAAAAT
85827884 AATTTTGTAAACATTCAATAATAATATT-AAAAAAATTGTTTCTA
1 AATTTTGTAAACATTCAATAATAATATTAAAAAAAATTGTTTCTA
85827928 AATTTTGTAAACATTCAATAATAATATTAAAAAAAAATTGTTTCTA
1 AATTTTGTAAACATTCAATAATAATATT-AAAAAAAATTGTTTCTA
85827974 TGTTTTGCAG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 28 0.64
46 16 0.36
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (45 bp):
AATTTTGTAAACATTCAATAATAATATTAAAAAAAATTGTTTCTA
Found at i:85830415 original size:22 final size:21
Alignment explanation
Indices: 85830365--85830408 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
85830355 ACTTTAATTC
85830365 AACCAATACCATTTTCATGCAT
1 AACCAATACCATTTTCAT-CAT
*
85830387 GACCAATACCATTTTCAT-AT
1 AACCAATACCATTTTCATCAT
85830407 AA
1 AA
85830409 GCACAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
22 17 0.85
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.32
Consensus pattern (21 bp):
AACCAATACCATTTTCATCAT
Found at i:85830914 original size:43 final size:42
Alignment explanation
Indices: 85830778--85831006 Score: 235
Period size: 43 Copynumber: 5.4 Consensus size: 42
85830768 ATGCCGCTAT
* * *
85830778 AGAACATGATCTTTAGCGGCGCTTTTCTCACAGACGCTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCTCACAAACCCT-CTAA
* * * * * *
85830821 AGAACATGACCTTTAGCAGCG-TCTTCCCAAAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCTCACAAA-CCCTCTAA
* *
85830863 AGAACATGACATTTAGCGGCGCTTTTCTTACAAACACCTCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCTCACAAAC-CCTCTAA
* * * *
85830906 AGAACATGATCTTTAGCGGCGCTTTTCCCACAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCTCACAAA-CCCTCTAA
* * **
85830949 AGTACATGACCTTTAGCGGCACTTTTCTCACAAACGTTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCTCACAAACCCT-CTAA
85830992 AGAACATGACCTTTA
1 AGAACATGACCTTTA
85831007 AAAAATTATT
Statistics
Matches: 149, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
42 31 0.21
43 118 0.79
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
AGAACATGACCTTTAGCGGCGCTTTTCTCACAAACCCTCTAA
Found at i:85830974 original size:86 final size:85
Alignment explanation
Indices: 85830764--85831006 Score: 344
Period size: 86 Copynumber: 2.8 Consensus size: 85
85830754 CGTTTATGAA
* * *
85830764 AAAAATGCCGCTATAGAACATGATCTTTAGCGGCGCTTTTCTCACAGACGCTGCTAAAGAACATG
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCTGCTAAAGAACATG
85830829 ACCTTTAGCAGCGTCTTCCC
66 ACCTTTAGCAGCGTCTTCCC
* * *
85830849 AAAAATGCCGCTAAAGAACATGACATTTAGCGGCGCTTTTCTTACAAACACCT-CTAAAGAACAT
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAAC-GCTGCTAAAGAACAT
* * *
85830913 GATCTTTAGCGGCGCTTTTCCC
65 GACCTTTAGCAGCG-TCTTCCC
* * * *
85830935 ACAAATGCCGCTAAAGTACATGACCTTTAGCGGCACTTTTCTCACAAACGTTGCTAAAGAACATG
1 AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCTGCTAAAGAACATG
85831000 ACCTTTA
66 ACCTTTA
85831007 AAAAATTATT
Statistics
Matches: 138, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
85 68 0.49
86 70 0.51
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (85 bp):
AAAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCTGCTAAAGAACATG
ACCTTTAGCAGCGTCTTCCC
Found at i:85834411 original size:21 final size:21
Alignment explanation
Indices: 85834385--85834425 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
85834375 ATCTGCTCAA
* *
85834385 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
85834406 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
85834426 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:85854303 original size:49 final size:48
Alignment explanation
Indices: 85854238--85854508 Score: 266
Period size: 49 Copynumber: 5.6 Consensus size: 48
85854228 ACATGTAAGT
85854238 TGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
1 TGATG-CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * * * *
85854287 TGATGTCATATCCCAGACGGGTCTTACACTGGCTCTCATCTATCG-GTG-
1 TGATG-CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GC
* *
85854335 TCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATATATTGAGGC
1 T-GATG-CATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * * * *
85854385 TGATGCTATGTCCCAGATAGGTTTTACACTGTCTTGCATATCTCGAGGC
1 TGATGC-ATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * *
85854434 TGATGCATGTCCCAGACATGCCTTACACTGGCTCTT-ATA-AT--ATGGC
1 TGATGCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCGA-GGC
* * *
85854480 CGATGCATGTCCCAAACATGTCTTACACT
1 TGATGCATGTCCCAGACAGGTCTTACACT
85854509 AGCACACATA
Statistics
Matches: 185, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 29 0.16
47 1 0.01
48 28 0.15
49 124 0.67
50 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
TGATGCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
Found at i:85854439 original size:98 final size:97
Alignment explanation
Indices: 85854210--85854463 Score: 284
Period size: 98 Copynumber: 2.6 Consensus size: 97
85854200 TTCCAAGCAT
* * * ** *
85854210 GGTCTTACACTGGCTCACACATGTAAGT-TGATGCCATGTCCCAGACAGGTCTTACACTGACTTT
1 GGTCTTACACTGGCTCTCATATATCGGTGTGATGCCATGTCCCAGACAGGTCTTACACTGACTTC
*
85854274 CATATATCGAGGCTGATGTCATATCCCAGACG
66 CATATATCGAGGCTGATGTCATATCCCAGACA
*
85854306 GGTCTTACACTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTT
1 GGTCTTACACTGGCTCTCATATATCGGTGT-GATGCCATGTCCCAGACAGGTCTTACACTGACTT
* * *
85854371 CCATATATTGAGGCTGATG-CTATGTCCCAGATA
65 CCATATATCGAGGCTGATGTC-ATATCCCAGACA
* * * * *
85854404 GGTTTTACACTGTCT-TGCATATCTCGAG-GCTGATG-CATGTCCCAGACATGCCTTACACTG
1 GGTCTTACACTGGCTCT-CATATATCG-GTG-TGATGCCATGTCCCAGACAGGTCTTACACTG
85854464 GCTCTTATAA
Statistics
Matches: 135, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
96 22 0.16
97 26 0.19
98 85 0.63
99 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (97 bp):
GGTCTTACACTGGCTCTCATATATCGGTGTGATGCCATGTCCCAGACAGGTCTTACACTGACTTC
CATATATCGAGGCTGATGTCATATCCCAGACA
Found at i:85855198 original size:20 final size:20
Alignment explanation
Indices: 85855173--85855211 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
85855163 ATAATTTCAA
85855173 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
85855193 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
85855212 AATAACCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:85864768 original size:20 final size:20
Alignment explanation
Indices: 85864730--85864768 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
85864720 TTTAATTAAT
*
85864730 ATAAATAAACCAGTTAAATA
1 ATAAATAAACCAGTAAAATA
85864750 ATAAATAAA-CAGATAAAAT
1 ATAAATAAACCAG-TAAAAT
85864769 GTTTTTTGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (20 bp):
ATAAATAAACCAGTAAAATA
Found at i:85864820 original size:40 final size:40
Alignment explanation
Indices: 85864776--85864872 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
85864766 AATGTTTTTT
* *
85864776 GCGGCGTTTTTAAAAAAGCGCTGCTAAAGCTCGATCTATA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTCGACCTATA
* * * *
85864816 GCGGCGTTTTTCAAAAAGTGCCGCTAATGGTCGACCTATA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTCGACCTATA
* *
85864856 GCAGTGTTTTTAAAAAA
1 GCGGCGTTTTTAAAAAA
85864873 ACTAAAAAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (40 bp):
GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTCGACCTATA
Found at i:85864943 original size:88 final size:88
Alignment explanation
Indices: 85864788--85864960 Score: 222
Period size: 88 Copynumber: 2.0 Consensus size: 88
85864778 GGCGTTTTTA
* * * * *
85864788 AAAAAGCGCTGCTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCGCTAATGGTCGACCT
1 AAAAAGCACCGCTAAAGCTCGATCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCT
85864853 ATAGCAGTGTTTTTAAAAAAACT
66 ATAGCAGTGTTTTTAAAAAAACT
* * ** *
85864876 AAAAAGCACCGCTAATGCTCGATTTATAGCATTGTTTTTCAACAAA-CGCCGCTAATGCTCGATC
1 AAAAAGCACCGCTAAAGCTCGATCTATAGCAGCGTTTTTCAA-AAAGCGCCGCTAATGCTCGACC
* *
85864940 TATAGCATTGTTTTTCAAAAA
65 TATAGCAGTGTTTTTAAAAAA
85864961 GCGCGCTAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 69 0.96
89 3 0.04
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (88 bp):
AAAAAGCACCGCTAAAGCTCGATCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCT
ATAGCAGTGTTTTTAAAAAAACT
Found at i:85864944 original size:40 final size:38
Alignment explanation
Indices: 85864884--85864982 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 38
85864874 CTAAAAAGCA
*
85864884 CCGCTAATGCTCGATTTATAGCATTGTTTTTCAACAAACG
1 CCGCTAATGCTCGATCTATAGCATTGTTTTTCAA-AAA-G
85864924 CCGCTAATGCTCGATCTATAGCATTGTTTTTCAAAAAG
1 CCGCTAATGCTCGATCTATAGCATTGTTTTTCAAAAAG
*
85864962 CGCGCTAATGCTCTATCTATA
1 C-CGCTAATGCTCGATCTATA
85864983 ACGGCGTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
38 2 0.04
39 21 0.38
40 33 0.59
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (38 bp):
CCGCTAATGCTCGATCTATAGCATTGTTTTTCAAAAAG
Found at i:85866459 original size:27 final size:27
Alignment explanation
Indices: 85866406--85866459 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
85866396 GCATGATCCT
* *
85866406 ATATGATTTCATTTTTCAATTTTTCCC
1 ATATGATTACATTTTTCAATTTGTCCC
*
85866433 ATATG-TTACATTTTTTAATTTAGTCCC
1 ATATGATTACATTTTTCAATTT-GTCCC
85866460 TGAACTCGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.24, C:0.17, G:0.06, T:0.54
Consensus pattern (27 bp):
ATATGATTACATTTTTCAATTTGTCCC
Found at i:85882313 original size:22 final size:22
Alignment explanation
Indices: 85882288--85882330 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
85882278 TATCCAAACA
85882288 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
85882310 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
85882331 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:85882334 original size:11 final size:11
Alignment explanation
Indices: 85882295--85882335 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
85882285 ACAATAACAA
85882295 CAAAATAGTAG
1 CAAAATAGTAG
* *
85882306 CAACATAATAG
1 CAAAATAGTAG
*
85882317 TAAAATAGTAG
1 CAAAATAGTAG
85882328 CAAAATAG
1 CAAAATAG
85882336 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:85892519 original size:15 final size:15
Alignment explanation
Indices: 85892501--85892536 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
85892491 GTTTTTGCAT
85892501 CAGCAGCAACAACAG
1 CAGCAGCAACAACAG
*
85892516 CAGCAGCAACAGCAG
1 CAGCAGCAACAACAG
85892531 CAGCAG
1 CAGCAG
85892537 TTGCTCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.33, G:0.25, T:0.00
Consensus pattern (15 bp):
CAGCAGCAACAACAG
Found at i:85892533 original size:12 final size:12
Alignment explanation
Indices: 85892501--85892535 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
85892491 GTTTTTGCAT
*
85892501 CAGCAGCAACAA
1 CAGCAGCAGCAA
85892513 CAGCAGCAGCAA
1 CAGCAGCAGCAA
85892525 CAGCAGCAGCA
1 CAGCAGCAGCA
85892536 GTTGCTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.34, G:0.23, T:0.00
Consensus pattern (12 bp):
CAGCAGCAGCAA
Found at i:85899334 original size:29 final size:30
Alignment explanation
Indices: 85899281--85899353 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
85899271 TGTTTAAATT
*
85899281 TTTTTAT-TTTTTATATATTTAAAATTTAA
1 TTTTTATATTTTTATATATTCAAAATTTAA
85899310 TTTTTATATTTTTAT-T-TTCAGAAATTTAA
1 TTTTTATATTTTTATATATTCA-AAATTTAA
*
85899339 TTCTTATACTTTTTA
1 TTTTTATA-TTTTTA
85899354 ACATGGCCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 3 0.08
29 23 0.59
30 13 0.33
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (30 bp):
TTTTTATATTTTTATATATTCAAAATTTAA
Found at i:85900623 original size:48 final size:48
Alignment explanation
Indices: 85900571--85900872 Score: 177
Period size: 48 Copynumber: 6.4 Consensus size: 48
85900561 CTTGTTCCAA
* * * *
85900571 ACATGGTCTTACATTGGCTCACATGTTGAGGCTGATGCCATGTCGTAG
1 ACATGGTCTTACACTGGCTCTCATATTGAGGCTGATGCCATGTCCTAG
* * * * ** * *
85900619 ACATGTTCTTACACTAGCTCTCGTCTCAATGCTGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATATTGAGGCTGATGCCATGTCCTAG
* * * *
85900667 ACATGGTCTTGCACTGGCTCTCACAATGTGGCTGATGCCATGTCCTAG
1 ACATGGTCTTACACTGGCTCTCATATTGAGGCTGATGCCATGTCCTAG
** * * ** ** * * *
85900715 ACATGGTCTTACACCAGCGCACATATCAATACCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGGCTCTCATATTGAGGCTGATGCCATGTCCTAG
* * * ** * *
85900763 ACATGGTCTTACATTGGCTCACACA-ACA-TCGTCGATGCCATGTTCC-AA
1 ACATGGTCTTACACTGGCTCTCATATTGAGGC-T-GATGCCATG-TCCTAG
* * * *
85900811 ACATGGTCTT--AC--GCTCTCATATCGTGGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATATTGAGGCTGATGCCATGTCCTAG
*
85900855 ACATGGTTTTACACTGGC
1 ACATGGTCTTACACTGGC
85900873 ACACATATCA
Statistics
Matches: 187, Mismatches: 57, Indels: 20
0.71 0.22 0.08
Matches are distributed among these distances:
43 3 0.02
44 26 0.14
46 5 0.03
47 1 0.01
48 149 0.80
49 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCTCATATTGAGGCTGATGCCATGTCCTAG
Found at i:85900725 original size:96 final size:95
Alignment explanation
Indices: 85900555--85900877 Score: 300
Period size: 96 Copynumber: 3.4 Consensus size: 95
85900545 GGTGAATTGT
* * * * **** *
85900555 CGATGCCTTGTTCCAAACATGGTCTTACATTGGCTCACATGTTGA-GGCTGATGCCATGTCGTAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-CAACATGGCTGATGCCATGTCCTAG
* * *
85900619 ACATGTTCTTACACTAGCTCTCGTCTCAATGC
65 ACATGGTCTTACAC-AGCTCTCATATCAATGC
* * * **
85900651 TGATGCCATGTCCCAGACATGGTCTTGCACTGGCTCTCACAATGTGGCTGATGCCATGTCCTAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACAACATGGCTGATGCCATGTCCTAGA
* * *
85900716 CATGGTCTTACACCAGCGCACATATCAATAC
66 CATGGTCTTACA-CAGCTCTCATATCAATGC
* * *
85900747 CGATGCCATGTCCCAAACATGGTCTTACATTGGCTCACACAACATCG-TCGATGCCATGTTCC-A
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACAACATGGCT-GATGCCATG-TCCTA
* *
85900810 AACATGGTCTT--AC-GCTCTCATATC-GTGGC
64 GACATGGTCTTACACAGCTCTCATATCAAT-GC
* *
85900839 CGATGCCATGTCCCAGACATGGTTTTACACTGGCACACA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
85900878 TATCACTCAA
Statistics
Matches: 186, Mismatches: 36, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
91 1 0.01
92 45 0.24
93 1 0.01
94 1 0.01
95 1 0.01
96 133 0.72
97 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACAACATGGCTGATGCCATGTCCTAGA
CATGGTCTTACACAGCTCTCATATCAATGC
Found at i:85908399 original size:48 final size:48
Alignment explanation
Indices: 85908275--85908595 Score: 199
Period size: 48 Copynumber: 6.7 Consensus size: 48
85908265 GGTGAATTGT
* * * * * ** * *
85908275 CGATGCCGTGTTCCAAACATGGTCTTACAATGGCTCACATATTGAGGA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAATGC
* * ** *
85908323 CGATGCCATGTCCTATACACAGTTTTACACTAGCTTC-CATCTCAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGC-TCACATCTCAATGC
* * * *
85908371 CGATGCCATATCCCATACATGGTCTTACACTGGCTCTCA--T-AATGTTTC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAATG---C
* * * * *
85908419 TGATGCCGTGTCTCAAACATGGTCTTACACTAGCACACATATCAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAATGC
* * * * *
85908467 CGATGCCTTATCCCAGACATGGTCTTACACTGGCTCACA-C-AACAT-C
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATCTCA-ATGC
* * * *
85908513 ACTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGC
1 -C-GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAT-GC
* * *
85908563 CAATGCCATGTCTCAGACATGGTCTTACACTAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTAG
85908596 TACGCATATC
Statistics
Matches: 209, Mismatches: 49, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
45 4 0.02
46 3 0.01
47 5 0.02
48 188 0.90
49 3 0.01
50 2 0.01
51 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATCTCAATGC
Found at i:85908447 original size:96 final size:96
Alignment explanation
Indices: 85908347--85908593 Score: 302
Period size: 96 Copynumber: 2.6 Consensus size: 96
85908337 ATACACAGTT
* * * *
85908347 TTACACTAGCTTC-CATCTCAATGCCGATGCCATATCCCATACATGGTCTTACACTGGCTCTCAT
1 TTACACTAGC-TCACATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACAC
** ** *
85908411 AATGTTTCTGATGCCGTG-TCTCAAACATGGTC
65 AACATCACTGATGCCATGTTC-CAAACATGGTC
* *
85908443 TTACACTAGCACACATATCAATGCCGATGCCTTATCCCAGACATGGTCTTACACTGGCTCACACA
1 TTACACTAGCTCACATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACA
85908508 ACATCACTGATGCCATGTTCCAAACATGGTC
66 ACATCACTGATGCCATGTTCCAAACATGGTC
* * * * *
85908539 TTACACTGGCTCTCATATC-ATGGCCAATGCCATGTCTCAGACATGGTCTTACACT
1 TTACACTAGCTCACATATCAAT-GCCGATGCCATATCCCAGACATGGTCTTACACT
85908594 AGTACGCATA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
95 3 0.02
96 125 0.96
97 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (96 bp):
TTACACTAGCTCACATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACA
ACATCACTGATGCCATGTTCCAAACATGGTC
Found at i:85913564 original size:23 final size:24
Alignment explanation
Indices: 85913536--85913580 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
85913526 AGAAATTATA
*
85913536 AAAATAAAAT-CTCAAATTTAAGC
1 AAAATAAAATGATCAAATTTAAGC
*
85913559 AAAATATAATGATCAAATTTAA
1 AAAATAAAATGATCAAATTTAA
85913581 AATTTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAATAAAATGATCAAATTTAAGC
Found at i:85923435 original size:37 final size:37
Alignment explanation
Indices: 85923385--85923456 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
85923375 TGTTCATTCG
*
85923385 AAGATCGTCTGACAACATCTTACTTCTTATGGTCTCA
1 AAGATCATCTGACAACATCTTACTTCTTATGGTCTCA
85923422 AAGATCATCTGACAACATCTTACTTCTTATGGTCT
1 AAGATCATCTGACAACATCTTACTTCTTATGGTCT
85923457 ATGTTAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (37 bp):
AAGATCATCTGACAACATCTTACTTCTTATGGTCTCA
Found at i:85924965 original size:33 final size:33
Alignment explanation
Indices: 85924928--85924995 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
85924918 ATGTACTTGC
*
85924928 TTCATTTCAACAATGTGATGTGCTCTCGTTTGA
1 TTCATTTCAACAATGTGATGTGCTCTAGTTTGA
85924961 TTCATTTCAACAATGTGATGTGCTCTAGTTTGA
1 TTCATTTCAACAATGTGATGTGCTCTAGTTTGA
85924994 TT
1 TT
85924996 TCAAAATTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (33 bp):
TTCATTTCAACAATGTGATGTGCTCTAGTTTGA
Found at i:85929773 original size:3 final size:3
Alignment explanation
Indices: 85929765--85929789 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85929755 ATGAATCTTC
85929765 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
85929790 ATTCATGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:85935753 original size:21 final size:21
Alignment explanation
Indices: 85935728--85935771 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
85935718 ATTCAACTAA
85935728 AAGAATACAACTCCAATGAAC
1 AAGAATACAACTCCAATGAAC
85935749 AAGAATACAACTCCAATGAAC
1 AAGAATACAACTCCAATGAAC
85935770 AA
1 AA
85935772 CTTTATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.23, G:0.09, T:0.14
Consensus pattern (21 bp):
AAGAATACAACTCCAATGAAC
Found at i:85946876 original size:10 final size:9
Alignment explanation
Indices: 85946859--85946927 Score: 59
Period size: 10 Copynumber: 7.3 Consensus size: 9
85946849 ATGTTTATAG
85946859 TTTTATAAT
1 TTTTATAAT
85946868 TTCTTATAAT
1 TT-TTATAAT
85946878 TTTATATAA-
1 TTT-TATAAT
*
85946887 TTGTATAAT
1 TTTTATAAT
85946896 TGTTTATAAAT
1 T-TTTAT-AAT
* *
85946907 TTATATATT
1 TTTTATAAT
*
85946916 TTTTAAAAT
1 TTTTATAAT
85946925 TTT
1 TTT
85946928 AAATCTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 5 0.10
9 17 0.35
10 22 0.46
11 4 0.08
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:85946885 original size:28 final size:28
Alignment explanation
Indices: 85946854--85946918 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
85946844 CTAGAATGTT
* *
85946854 TATAGTTTTATAATT-TCTTATAATTTTA
1 TATAATTTTATAATTGT-TTATAAATTTA
*
85946882 TATAATTGTATAATTGTTTATAAATTTA
1 TATAATTTTATAATTGTTTATAAATTTA
*
85946910 TATATTTTT
1 TATAATTTT
85946919 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (28 bp):
TATAATTTTATAATTGTTTATAAATTTA
Found at i:85946920 original size:19 final size:19
Alignment explanation
Indices: 85946877--85946940 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
85946867 TTTCTTATAA
85946877 TTTTATATAATTGTATA-ATT
1 TTTTATA-AATT-TATATATT
*
85946897 GTTTATAAATTTATATATT
1 TTTTATAAATTTATATATT
* *
85946916 TTTTA-AAATTTTAAATCTT
1 TTTTATAAA-TTTATATATT
85946935 TTTTAT
1 TTTTAT
85946941 TTTCAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 7 0.19
19 24 0.65
20 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTATAAATTTATATATT
Found at i:85946924 original size:18 final size:17
Alignment explanation
Indices: 85946871--85946926 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
85946861 TTATAATTTC
* *
85946871 TTATAATTTTATATAAT
1 TTATAATTTTTTAAAAT
*
85946888 TGTATAATTGTTTATAAAT
1 T-TATAATTTTTTA-AAAT
85946907 TTATATATTTTTTAAAAT
1 TTATA-ATTTTTTAAAAT
85946925 TT
1 TT
85946927 TAAATCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 20 0.62
19 11 0.34
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
TTATAATTTTTTAAAAT
Found at i:85947812 original size:25 final size:25
Alignment explanation
Indices: 85947774--85947829 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
85947764 ATGGCTTTTC
* *
85947774 CTTTTTTTTTTTCTCTTTTATATTA
1 CTTTTTTTTATTCTCTTTTAAATTA
* *
85947799 GTTTTTTTTATTCTTTTTTAAATTA
1 CTTTTTTTTATTCTCTTTTAAATTA
85947824 CTTTTT
1 CTTTTT
85947830 GGACATTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (25 bp):
CTTTTTTTTATTCTCTTTTAAATTA
Found at i:85951419 original size:20 final size:20
Alignment explanation
Indices: 85951382--85951419 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
85951372 TGATGGGGAG
*
85951382 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
85951402 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
85951420 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:85953313 original size:46 final size:46
Alignment explanation
Indices: 85953261--85953442 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
85953251 AGTGTGCTCT
*
85953261 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
85953307 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
85953353 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
85953399 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
85953443 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:85954331 original size:26 final size:26
Alignment explanation
Indices: 85954295--85954346 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
85954285 AAGGAAAGAA
85954295 AGAATATTAGAATTCGATGATATGAT
1 AGAATATTAGAATTCGATGATATGAT
*
85954321 AGAATATTAGAATTTGATGATATGAT
1 AGAATATTAGAATTCGATGATATGAT
85954347 TTCCAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (26 bp):
AGAATATTAGAATTCGATGATATGAT
Found at i:85955791 original size:26 final size:27
Alignment explanation
Indices: 85955761--85955828 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 27
85955751 AAATTCAAAA
*
85955761 AAAAATATAAAAACTTTTTAAAAA-T-T
1 AAAAATATAAAAA-TTGTTAAAAATTAT
*
85955787 AAAAATCATTAAAATTGTTAAAAATTAT
1 AAAAAT-ATAAAAATTGTTAAAAATTAT
*
85955815 AAAAATACAAAAAT
1 AAAAATATAAAAAT
85955829 AATTATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 15 0.43
27 13 0.37
28 7 0.20
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (27 bp):
AAAAATATAAAAATTGTTAAAAATTAT
Found at i:85972533 original size:3 final size:3
Alignment explanation
Indices: 85972525--85972569 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
85972515 GTATATACAT
* *
85972525 ATA ATA ATA ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
85972570 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:85972787 original size:30 final size:30
Alignment explanation
Indices: 85972730--85972787 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
85972720 GTCAATTTTT
* * *
85972730 TTATTTTTTTTTATTGTTTGTATTATATTA
1 TTATTTTTATATATTGTTAGTATTATATTA
85972760 TTATTTTTATATATT-TTAGTATATATAT
1 TTATTTTTATATATTGTTAGTAT-TATAT
85972788 ATGGGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (30 bp):
TTATTTTTATATATTGTTAGTATTATATTA
Found at i:85974214 original size:32 final size:32
Alignment explanation
Indices: 85974178--85974241 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
85974168 ATGGTTGGAA
85974178 AATGGAATGCAAAAGTTCGCCTGCTTCTGGGT
1 AATGGAATGCAAAAGTTCGCCTGCTTCTGGGT
85974210 AATGGAATGCAAAAGTTCGCCTGCTTCTGGGT
1 AATGGAATGCAAAAGTTCGCCTGCTTCTGGGT
85974242 TCAATTAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (32 bp):
AATGGAATGCAAAAGTTCGCCTGCTTCTGGGT
Found at i:85974497 original size:49 final size:47
Alignment explanation
Indices: 85974444--85974581 Score: 127
Period size: 49 Copynumber: 2.9 Consensus size: 47
85974434 AAAAACTATT
* *
85974444 TATTTAAATATATTGTTTTATTACTTTAATTTATGTTTAGATTTATAAA
1 TATTTAAATATATT-TTTTATTA-TTTAATTTATGTTTAAATTAATAAA
* ** * * *
85974493 TATTTAAAATAAATTTTACATGATATTAATTTATATTAAAATTAATAAA
1 TATTT-AAATATATTTTTTATTAT-TTAATTTATGTTTAAATTAATAAA
* *
85974542 -AGTTAAATATATTTTTTATTAATTT-ATTTAAGTTTAAATT
1 TATTTAAATATATTTTTTATT-ATTTAATTTATGTTTAAATT
85974582 GAACTAGATT
Statistics
Matches: 70, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
46 12 0.17
47 14 0.20
48 6 0.09
49 30 0.43
50 8 0.11
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (47 bp):
TATTTAAATATATTTTTTATTATTTAATTTATGTTTAAATTAATAAA
Found at i:85975039 original size:13 final size:13
Alignment explanation
Indices: 85975021--85975045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85975011 ACAAATAATA
85975021 AAATATTAAAATC
1 AAATATTAAAATC
85975034 AAATATTAAAAT
1 AAATATTAAAAT
85975046 TGTGAATATT
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATTAAAATC
Found at i:85975180 original size:11 final size:13
Alignment explanation
Indices: 85975151--85975175 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85975141 TTAAATATTT
85975151 TTAATATTTTATA
1 TTAATATTTTATA
85975164 TTAATATTTTAT
1 TTAATATTTTAT
85975176 TAATAAATAT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATATTTTATA
Found at i:85976500 original size:6 final size:6
Alignment explanation
Indices: 85976489--85976515 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
85976479 ATGTAATATA
85976489 TAAATT TAAATT TAAATT TAAATT TAA
1 TAAATT TAAATT TAAATT TAAATT TAA
85976516 TTAGGTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAAATT
Found at i:85978225 original size:15 final size:15
Alignment explanation
Indices: 85978180--85978287 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
85978170 CCAATATCTC
85978180 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
85978195 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
85978210 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
85978225 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
85978240 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
85978255 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
85978270 GATACCCATATCTTT
1 GATACCCATATCTTT
85978285 GAT
1 GAT
85978288 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:85978294 original size:30 final size:30
Alignment explanation
Indices: 85978170--85978293 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
85978160 TTTTATTATG
*
85978170 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
85978201 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
85978231 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
85978261 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
85978291 CCA
1 CCA
85978294 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:85982919 original size:15 final size:15
Alignment explanation
Indices: 85982874--85982981 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
85982864 CCAATATCTC
85982874 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
85982889 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
85982904 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
85982919 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
85982934 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
85982949 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
85982964 GATACCCATATCTTT
1 GATACCCATATCTTT
85982979 GAT
1 GAT
85982982 TTTCCATAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:85982988 original size:30 final size:30
Alignment explanation
Indices: 85982864--85982987 Score: 212
Period size: 30 Copynumber: 4.1 Consensus size: 30
85982854 TTTTATTATG
*
85982864 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
85982895 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
85982925 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
85982955 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
85982985 CCA
1 CCA
85982988 TAAATATGGA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 83 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:85985708 original size:26 final size:26
Alignment explanation
Indices: 85985675--85985730 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
85985665 TATCTTGGAA
85985675 ATTTTTGACACATTTATTACTCATTG
1 ATTTTTGACACATTTATTACTCATTG
85985701 ATTTTTGACACATTTATTACTCATTG
1 ATTTTTGACACATTTATTACTCATTG
85985727 ATTT
1 ATTT
85985731 CTTTGACAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.52
Consensus pattern (26 bp):
ATTTTTGACACATTTATTACTCATTG
Found at i:85986733 original size:14 final size:14
Alignment explanation
Indices: 85986716--85986781 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
85986706 AAATATATAG
85986716 TATTTATTATAAAT
1 TATTTATTATAAAT
85986730 TATTTA-TATTAAAGT
1 TATTTATTA-TAAA-T
85986745 TAATTTAATTATATAA-
1 T-ATTT-ATTATA-AAT
*
85986761 TATTTATTATTAAT
1 TATTTATTATAAAT
*
85986775 AATTTAT
1 TATTTAT
85986782 ATTTGGTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
13 4 0.09
14 21 0.49
15 6 0.14
16 5 0.12
17 3 0.07
18 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TATTTATTATAAAT
Found at i:85986739 original size:20 final size:20
Alignment explanation
Indices: 85986716--85986785 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 20
85986706 AAATATATAG
*
85986716 TATTTATTATAAATTATTTA
1 TATTTATTATTAATTATTTA
* *
85986736 TATTAAAGTTAATTTAATTATATAA
1 TATT-TA-TT-A-TTAATTAT-TTA
*
85986761 TATTTATTATTAATAATTTA
1 TATTTATTATTAATTATTTA
85986781 TATTT
1 TATTT
85986786 GGTCAAGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
20 11 0.28
21 8 0.21
22 3 0.08
23 3 0.08
24 8 0.21
25 6 0.15
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
TATTTATTATTAATTATTTA
Found at i:85986746 original size:45 final size:45
Alignment explanation
Indices: 85986697--85986784 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
85986687 ATTAAATAAT
* *
85986697 AGTTAATTAAAATATATAGTATTTATTATAAATTATTTATATTAA
1 AGTTAATTAAAATATATAATATTTATTATAAATAATTTATATTAA
* * *
85986742 AGTTAATTTAATTATATAATATTTATTATTAATAATTTATATT
1 AGTTAATTAAAATATATAATATTTATTATAAATAATTTATATT
85986785 TGGTCAAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (45 bp):
AGTTAATTAAAATATATAATATTTATTATAAATAATTTATATTAA
Found at i:85989036 original size:24 final size:23
Alignment explanation
Indices: 85989004--85989186 Score: 87
Period size: 24 Copynumber: 7.9 Consensus size: 23
85988994 GTTTAAGTTT
85989004 CTTTCATATATTATTTATTTTAAA
1 CTTT-ATATATTATTTATTTTAAA
*
85989028 CTATTATATA-TATTATCTTTTAAA
1 CT-TTATATATTATT-TATTTTAAA
*
85989052 TTTTTATATATATATTT-TTTTAAA
1 -CTTTATATAT-TATTTATTTTAAA
*
85989076 TTGCTTTATATGTTATTT-TTTT--A
1 ---CTTTATATATTATTTATTTTAAA
* * *
85989099 -TATAT-TATTGTTCATTTTAAA
1 CTTTATATATTATTTATTTTAAA
* * *
85989120 CTGTTTTATTACTATTTATTTTAAGT
1 CT-TTATA-TATTATTTATTTTAA-A
* * * *
85989146 TTTTATATATTGTTTATATGAAA
1 CTTTATATATTATTTATTTTAAA
85989169 CTTT-TAT-TTATTTATTTT
1 CTTTATATATTATTTATTTT
85989187 TAATTTTTTT
Statistics
Matches: 118, Mismatches: 26, Indels: 33
0.67 0.15 0.19
Matches are distributed among these distances:
18 5 0.04
19 8 0.07
21 9 0.08
22 4 0.03
23 10 0.08
24 40 0.34
25 29 0.25
26 13 0.11
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (23 bp):
CTTTATATATTATTTATTTTAAA
Found at i:85989061 original size:26 final size:25
Alignment explanation
Indices: 85989002--85989098 Score: 89
Period size: 24 Copynumber: 3.9 Consensus size: 25
85988992 TAGTTTAAGT
85989002 TTCTTTCATATAT-TATTTATTTTAAA
1 TTCTTT-ATATATATATTT-TTTTAAA
*
85989028 --CTATTATATATAT-TATCTTTTAAA
1 TTCT-TTATATATATAT-TTTTTTAAA
85989052 TT-TTTATATATATATTTTTTTAAA
1 TTCTTTATATATATATTTTTTTAAA
*
85989076 TTGCTTTATATGT-TATTTTTTTA
1 TT-CTTTATATATATATTTTTTTA
85989099 TATATTATTG
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
24 36 0.60
25 16 0.27
26 8 0.13
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (25 bp):
TTCTTTATATATATATTTTTTTAAA
Found at i:85989062 original size:48 final size:46
Alignment explanation
Indices: 85989009--85989221 Score: 134
Period size: 48 Copynumber: 4.5 Consensus size: 46
85988999 AGTTTCTTTC
85989009 ATATATTATTTATTTTAAACTATTATATATATTATCTTTTAAATTTTT
1 ATATATTATTTATTTTAAACTATTATATATATTAT-TTTT-AATTTTT
* * * *
85989057 ATATATATATTT-TTTTAAATTGCTT-TATATGTTA-TTTT--TTTAT
1 ATATAT-TATTTATTTTAAACT-ATTATATATATTATTTTTAATTTTT
* * * *
85989100 ATATTATTGTTCATTTTAAACTGTTTTATTACTATT-TATTTTAAGTTTTT
1 ATA-TATTATTTATTTTAAACTATTATA-TA-TATTAT-TTTTAA-TTTTT
* * * * *
85989150 ATATATTGTTTATATGAAACTTTTATTTAT-TTATTTTTAATTTTTTTT
1 ATATATTATTTATTTTAAACTATTATATATATTATTTTTAA---TTTTT
* *
85989198 ATAAATTATCTATTTTAAACTATT
1 ATATATTATTTATTTTAAACTATT
85989222 CTTTATTTTA
Statistics
Matches: 127, Mismatches: 23, Indels: 30
0.71 0.13 0.17
Matches are distributed among these distances:
43 12 0.09
44 13 0.10
45 2 0.02
46 15 0.12
47 6 0.05
48 47 0.37
49 25 0.20
50 7 0.06
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (46 bp):
ATATATTATTTATTTTAAACTATTATATATATTATTTTTAATTTTT
Found at i:85989228 original size:17 final size:17
Alignment explanation
Indices: 85989208--85989244 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
85989198 ATAAATTATC
85989208 TATTTTAAACTATTCTT
1 TATTTTAAACTATTCTT
* *
85989225 TATTTTAAATTATTTTT
1 TATTTTAAACTATTCTT
85989242 TAT
1 TAT
85989245 ATTATTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTAAACTATTCTT
Found at i:85992986 original size:19 final size:19
Alignment explanation
Indices: 85992959--85992997 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
85992949 TTGCATTCTT
*
85992959 TCATCTGCATAAAATTTCA
1 TCATATGCATAAAATTTCA
* *
85992978 TCATATGCATTAAGTTTCA
1 TCATATGCATAAAATTTCA
85992997 T
1 T
85992998 AAAAAGAACC
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:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (19 bp):
TCATATGCATAAAATTTCA
Found at i:86001416 original size:44 final size:44
Alignment explanation
Indices: 86001337--86001698 Score: 269
Period size: 44 Copynumber: 8.0 Consensus size: 44
86001327 CATGGCGAAT
* * *
86001337 CTTATCTCCCTTAAAGTTGCAGTAGAGCAGATTAAAGCCATAAAC
1 CTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTAAAGCCACAAAC
* * * *** *
86001382 CTTATCTCCCTGAAGTTGTAGTGGGGCAGGTTAAAAATAAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--AAAGCCACAAAC
* * *
86001428 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGACAGGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--A-A-A-GCCACAAAC
* * * *
86001477 CTTAACTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAAC
* * * * * *
86001521 CTCAACTCCTTGAAGTTGTAGTGGAGTAGATTAAAACCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAAC
* ** **
86001565 CTTATCTCCTTGAAGTTGCAGTGGAGCA-AGTTAAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCCACAAAC
* ** *
86001609 CTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAA-ATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCCA-CAAAC
* * * * * *
86001654 CTTATATCTCTGAAGCTGCAGTAGAGCGGATTAAAGCTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAAC
86001698 C
1 C
86001699 ACAAATCTTA
Statistics
Matches: 258, Mismatches: 49, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
43 1 0.00
44 134 0.52
45 47 0.18
46 38 0.15
47 2 0.01
48 1 0.00
49 35 0.14
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAAC
Found at i:86001535 original size:139 final size:138
Alignment explanation
Indices: 86001334--86001590 Score: 354
Period size: 139 Copynumber: 1.9 Consensus size: 138
86001324 TACCATGGCG
* * * * *
86001334 AATCTTATCTCCCTTAAAGTTGCAGTAGAGCAGATTAAAGCCATAAACCTTATCTCCCTGAAGTT
1 AATCTTAACTCCCTTAAAGTTGCAGTAGAGCAGATTAAAACCACAAACCTCAACTCCCTGAAGTT
* * *
86001399 GTAGTGGGGCAGGTTAAAAATAAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
66 GTAGTGGAGCAGATT-AAAA-AAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
86001464 ACAGGCTACA
129 ACAGGCTACA
* * *
86001474 AATCTTAACTCCC-TAAAGTTGCAGTGGAGCAGATTAAAACCACAAATCTCAACTCCTTGAAGTT
1 AATCTTAACTCCCTTAAAGTTGCAGTAGAGCAGATTAAAACCACAAACCTCAACTCCCTGAAGTT
* ** *
86001538 GTAGTGGAGTAGATTAAAACCACAAACCTTATCTCCTTGAAGTTGCAGTGGAG
66 GTAGTGGAGCAGATTAAAAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAG
86001591 CAAGTTAAAG
Statistics
Matches: 102, Mismatches: 15, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
137 30 0.29
138 4 0.04
139 56 0.55
140 12 0.12
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (138 bp):
AATCTTAACTCCCTTAAAGTTGCAGTAGAGCAGATTAAAACCACAAACCTCAACTCCCTGAAGTT
GTAGTGGAGCAGATTAAAAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAC
AGGCTACA
Found at i:86001623 original size:88 final size:88
Alignment explanation
Indices: 86001334--86001634 Score: 316
Period size: 88 Copynumber: 3.3 Consensus size: 88
86001324 TACCATGGCG
* * * * *
86001334 AATCTTATCTCCCTTAAAGTTGCAGTAGAGCAGATTAAAGCCATAAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCCC-TGAAGTTGCAGTGGAGTAGATTAAAACCACAAACCTTATCTCCCTGAAGTT
* * *
86001399 GTAGTGGGGCAGGTTAAAAATAAACA
65 GCAGTGGAGCAAGTT-AAAAT-AACA
* * * *
86001425 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGACAGGCTACAAATCTTAACTCCCTAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AA-A-A--CCACAAACCTTATCTCCCTGA
**
86001490 AGTTGCAGTGGAGC-AGATTAAAACCACA
61 AGTTGCAGTGGAGCAAG-TTAAAATAACA
* * * * *
86001518 AATCTCAACTCCTTGAAGTTGTAGTGGAGTAGATTAAAACCACAAACCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACAAACCTTATCTCCCTGAAGTTG
* *
86001583 CAGTGGAGCAAGTTAAAGTTACA
66 CAGTGGAGCAAGTTAAAATAACA
*
86001606 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
86001635 CATATTGAAA
Statistics
Matches: 172, Mismatches: 31, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
88 62 0.36
89 2 0.01
90 20 0.12
91 16 0.09
92 3 0.02
93 34 0.20
94 5 0.03
95 30 0.17
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACAAACCTTATCTCCCTGAAGTTG
CAGTGGAGCAAGTTAAAATAACA
Found at i:86003304 original size:24 final size:24
Alignment explanation
Indices: 86003246--86003453 Score: 128
Period size: 24 Copynumber: 8.7 Consensus size: 24
86003236 TAAAAAGGCT
*
86003246 CTTTTAT-TATTATTTATTTTAAGTTT
1 CTTTTATATATTATTTATTTTAA---A
*
86003272 CTTTCATATATTATTTATTTTAAA
1 CTTTTATATATTATTTATTTTAAA
* *
86003296 CTATTATATA-TATTATCTTTTAAA
1 CTTTTATATATTATT-TATTTTAAA
* *
86003320 TTTTTATATATTATTTTTTTTAAA
1 CTTTTATATATTATTTATTTTAAA
* *
86003344 TTGTTTTATATGTTATTT-TTTT--A
1 --CTTTTATATATTATTTATTTTAAA
* *
86003367 --TATAT-TATTATTCATTTTAAA
1 CTTTTATATATTATTTATTTTAAA
* *
86003388 CTGTTT-TATTACTATTTATTTTAAG
1 CT-TTTATA-TATTATTTATTTTAAA
* * *
86003413 TTTTTATATATTGTTTATTTGAAA
1 CTTTTATATATTATTTATTTTAAA
*
86003437 CTTTTATTTATTTATTT
1 CTTTTATATA-TTATTT
86003454 TTAATTGTTT
Statistics
Matches: 142, Mismatches: 25, Indels: 31
0.72 0.13 0.16
Matches are distributed among these distances:
18 6 0.04
19 8 0.06
21 1 0.01
23 6 0.04
24 57 0.40
25 29 0.20
26 20 0.14
27 15 0.11
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (24 bp):
CTTTTATATATTATTTATTTTAAA
Found at i:86003330 original size:48 final size:47
Alignment explanation
Indices: 86003250--86003490 Score: 176
Period size: 48 Copynumber: 5.1 Consensus size: 47
86003240 AAGGCTCTTT
86003250 TATTAT-TAT-TTA-TTTTAAGTTTCTTTCATATATTATTTATTTTAAAC
1 TATTATATATATTATTTTTAAG-TT-TTT-ATATATTATTTATTTTAAAC
* * *
86003297 TATTATATATATTATCTTTTAAATTTTTATATATTATTTTTTTTAAAT
1 TATTATATATATTAT-TTTTAAGTTTTTATATATTATTTATTTTAAAC
* * * * *
86003345 TGTTTTATATGTTA-TTTT---TTTATATATTATTATTCATTTTAAAC
1 TATTATATATATTATTTTTAAGTTTTTATA-TATTATTTATTTTAAAC
* * * *
86003389 TGTTTTATTACTATT-TATTTTAAGTTTTTATATATTGTTTATTTGAAAC
1 TATTATA-TA-TATTAT-TTTTAAGTTTTTATATATTATTTATTTTAAAC
* * * * *
86003438 TTTTATTTAT-TTATTTTTAATTGTTTTTATAAATTATCTATTTTAAAA
1 TATTATATATATTATTTTTAA--GTTTTTATATATTATTTATTTTAAAC
86003486 TATTA
1 TATTA
86003491 GTTATTTTAA
Statistics
Matches: 155, Mismatches: 24, Indels: 29
0.75 0.12 0.14
Matches are distributed among these distances:
43 7 0.05
44 21 0.14
45 2 0.01
46 15 0.10
47 12 0.08
48 59 0.38
49 24 0.15
50 9 0.06
51 6 0.04
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (47 bp):
TATTATATATATTATTTTTAAGTTTTTATATATTATTTATTTTAAAC
Found at i:86003338 original size:15 final size:15
Alignment explanation
Indices: 86003320--86003375 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
86003310 ATCTTTTAAA
86003320 TTTTTATATATTATT
1 TTTTTATATATTATT
86003335 TTTTT-TA-A--ATT
1 TTTTTATATATTATT
* *
86003346 GTTTTATATGTTATT
1 TTTTTATATATTATT
86003361 TTTTTATATATTATT
1 TTTTTATATATTATT
86003376 ATTCATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 7 0.21
12 2 0.06
13 1 0.03
14 2 0.06
15 21 0.64
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (15 bp):
TTTTTATATATTATT
Found at i:86003410 original size:44 final size:41
Alignment explanation
Indices: 86003320--86003410 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 41
86003310 ATCTTTTAAA
* **
86003320 TTTTTATATATTATTTTTTTTAAATTGTTTTATATGTTATT
1 TTTTTATATATTATTTTTTTTAAACTGTTTTATATACTATT
86003361 TTTTTATATATTATTATTCATTTTAAACTGTTTTAT-TACTATT
1 TTTTTATATATTATT-TT--TTTTAAACTGTTTTATATACTATT
86003404 TATTTTA
1 T-TTTTA
86003411 AGTTTTTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 15 0.35
42 2 0.05
43 6 0.14
44 20 0.47
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (41 bp):
TTTTTATATATTATTTTTTTTAAACTGTTTTATATACTATT
Found at i:86003423 original size:69 final size:67
Alignment explanation
Indices: 86003299--86003432 Score: 159
Period size: 69 Copynumber: 2.0 Consensus size: 67
86003289 TTTTAAACTA
* *
86003299 TTATATATATTATCTTTTAAATTTTTATATATTATTTTTTTTAAATTGTTTTATA-TG-TTATTT
1 TTATATATATTATCTTTTAAATTTTTATATACTATTTATTTTAAATTGTTTTATATTGTTTATTT
86003362 TT
66 TT
*
86003364 TTATATATTATTATTCATTTTAAACTGTTTTAT-TACTATTTATTTTAAGTT-TTTATATATTGT
1 TTATATA-TATTA-TC-TTTTAAA-T-TTTTATATACTATTTATTTTAAATTGTTT-TATATTGT
86003427 TTATTT
60 TTATTT
86003433 GAAACTTTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
65 7 0.12
66 5 0.09
67 2 0.03
68 10 0.17
69 20 0.34
70 8 0.14
71 6 0.10
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.66
Consensus pattern (67 bp):
TTATATATATTATCTTTTAAATTTTTATATACTATTTATTTTAAATTGTTTTATATTGTTTATTT
TT
Found at i:86005444 original size:48 final size:50
Alignment explanation
Indices: 86005388--86005498 Score: 136
Period size: 54 Copynumber: 2.2 Consensus size: 50
86005378 AGTTCTATAA
*
86005388 TTAAGACCA-TCAAAG-AGGCAATGTAACACCCTATACTCGGCCTAGACG
1 TTAAGACCAGTCAAAGCAGGCAATGTAACACCCCATACTCGGCCTAGACG
***
86005436 TTAAGACCAAGTTTGGAGCTCAGGCAATGTAACACCCCATACTCGGCCTAGACG
1 TTAAGACC-AG-TCAAAG--CAGGCAATGTAACACCCCATACTCGGCCTAGACG
86005490 TTAAGACCA
1 TTAAGACCA
86005499 AGTTTGGAGC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
48 8 0.15
49 1 0.02
51 3 0.06
53 1 0.02
54 40 0.75
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (50 bp):
TTAAGACCAGTCAAAGCAGGCAATGTAACACCCCATACTCGGCCTAGACG
Found at i:86005485 original size:54 final size:54
Alignment explanation
Indices: 86005403--86005511 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
86005393 ACCATCAAAG
*
86005403 AGGCAATGTAACACCCTATACTCGGCCTAGACGTTAAGACCAAGTTTGGAGCTC
1 AGGCAATGTAACACCCCATACTCGGCCTAGACGTTAAGACCAAGTTTGGAGCTC
86005457 AGGCAATGTAACACCCCATACTCGGCCTAGACGTTAAGACCAAGTTTGGAGCTC
1 AGGCAATGTAACACCCCATACTCGGCCTAGACGTTAAGACCAAGTTTGGAGCTC
86005511 A
1 A
86005512 CATCAAAATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (54 bp):
AGGCAATGTAACACCCCATACTCGGCCTAGACGTTAAGACCAAGTTTGGAGCTC
Found at i:86009270 original size:17 final size:17
Alignment explanation
Indices: 86009244--86009282 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
86009234 AATGAAATGC
* *
86009244 AAAAATAAAAATAAAAT
1 AAAAAGAAAAACAAAAT
*
86009261 AAAAAGAAAAACAAATT
1 AAAAAGAAAAACAAAAT
86009278 AAAAA
1 AAAAA
86009283 ATAAATAGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (17 bp):
AAAAAGAAAAACAAAAT
Found at i:86025234 original size:48 final size:48
Alignment explanation
Indices: 86025163--86025353 Score: 373
Period size: 48 Copynumber: 4.0 Consensus size: 48
86025153 NNNNNNNNNN
86025163 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
86025211 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
*
86025259 TGTGAAATATGTATGAGATATGTATATGCGGTAAAGCCGAATGGCTAA
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
86025307 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
86025354 GTGATTCGGC
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 141 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
Found at i:86025579 original size:37 final size:37
Alignment explanation
Indices: 86025529--86025628 Score: 164
Period size: 37 Copynumber: 2.7 Consensus size: 37
86025519 AATATATTCT
86025529 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
86025566 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* * *
86025603 AGGCAAGACCCGATAACTACGTGTGG
1 GGGTAAGACCCGATGACTACGTGTGG
86025629 GGACTATTCG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:86028092 original size:26 final size:26
Alignment explanation
Indices: 86028056--86028136 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
86028046 GTTGTGTATG
86028056 ACCCAAAGCTCCAGCACTCCAATTGA
1 ACCCAAAGCTCCAGCACTCCAATTGA
* *
86028082 ACCCAAAGCTCTAGCACTCTAATTGA
1 ACCCAAAGCTCCAGCACTCCAATTGA
* * *
86028108 AACCAAAGCTCCAGCATTTCAATTGA
1 ACCCAAAGCTCCAGCACTCCAATTGA
86028134 ACC
1 ACC
86028137 ATATTCAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.36, C:0.33, G:0.11, T:0.20
Consensus pattern (26 bp):
ACCCAAAGCTCCAGCACTCCAATTGA
Found at i:86030225 original size:25 final size:25
Alignment explanation
Indices: 86030141--86030228 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 25
86030131 CGCACCACAA
* ** *
86030141 CTCATATGAGCTTATTGATTTGTAG
1 CTCATATGAGCATACCGATTCGTAG
* * *
86030166 CTCGTATGAG-TTACCGATTCATAG
1 CTCATATGAGCATACCGATTCGTAG
**
86030190 CTTGTGA-GAGCATACCGATTCGTAG
1 CTCAT-ATGAGCATACCGATTCGTAG
86030215 CTCATATGAGCATA
1 CTCATATGAGCATA
86030229 TATGTACATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
24 18 0.36
25 32 0.64
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (25 bp):
CTCATATGAGCATACCGATTCGTAG
Found at i:86040543 original size:48 final size:47
Alignment explanation
Indices: 86040442--86040571 Score: 174
Period size: 47 Copynumber: 2.8 Consensus size: 47
86040432 GGGTGATTGT
* * *
86040442 GTGCCAGTGTAAGACATGTCTAGGACAT-GCATCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGATAA
* * *
86040488 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGA-GATAA
1 GTGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-CACATGATAA
86040536 GTGCCAGTGTAAGACATGTCTGGGACATGGCATCGG
1 GTGCCAGTGTAAGACATGTCTGGGACATGGCATCGG
86040572 AAACTTATCC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 13 0.18
47 35 0.47
48 24 0.32
49 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGATAA
Found at i:86043891 original size:17 final size:18
Alignment explanation
Indices: 86043853--86043895 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
86043843 AAGTAATTTC
86043853 AAAATATAAATAAAGATA
1 AAAATATAAATAAAGATA
86043871 AAAATA-AAATAAA-ATA
1 AAAATATAAATAAAGATA
*
86043887 AAAAAATAA
1 AAAATATAA
86043896 TAGGTGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAATATAAATAAAGATA
Found at i:86058859 original size:13 final size:13
Alignment explanation
Indices: 86058841--86058879 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
86058831 ATAATTATCT
86058841 ATAGAAATGAAAA
1 ATAGAAATGAAAA
86058854 ATAGAAATGAAAA
1 ATAGAAATGAAAA
86058867 ATAGAAATGAAAA
1 ATAGAAATGAAAA
86058880 CAGTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATAGAAATGAAAA
Found at i:86068080 original size:5 final size:5
Alignment explanation
Indices: 86068070--86068096 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
86068060 TAAAAAATTC
86068070 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
86068097 AGTTGATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:86104638 original size:48 final size:47
Alignment explanation
Indices: 86104562--86104657 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 47
86104552 TTAGGCTTGA
* *
86104562 ATAATTGTAATTTTGTCCAGAAGCTTCATTCTGATAATTTGCAATTT
1 ATAATTGCAATTTTGTCCAGAACCTTCATTCTGATAATTTGCAATTT
*
86104609 ATAATTGCAATTTTTTTCCAGAACCTTCATTCTGATAATTTGCAATTT
1 ATAATTGCAA-TTTTGTCCAGAACCTTCATTCTGATAATTTGCAATTT
86104657 A
1 A
86104658 CTTAATCATG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 9 0.20
48 36 0.80
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (47 bp):
ATAATTGCAATTTTGTCCAGAACCTTCATTCTGATAATTTGCAATTT
Found at i:86107881 original size:18 final size:18
Alignment explanation
Indices: 86107858--86107895 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
86107848 TTAATTTTAT
86107858 TTAAGCTAGGATGATTGC
1 TTAAGCTAGGATGATTGC
86107876 TTAAGCTAGGATGATTGC
1 TTAAGCTAGGATGATTGC
86107894 TT
1 TT
86107896 TGATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (18 bp):
TTAAGCTAGGATGATTGC
Found at i:86141291 original size:24 final size:24
Alignment explanation
Indices: 86141263--86141312 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
86141253 AATCAAATAC
86141263 TTAGGCAAAGAATTTCATCCTTAA
1 TTAGGCAAAGAATTTCATCCTTAA
86141287 TTAGGCAAAGAATTTCATCCTTAA
1 TTAGGCAAAGAATTTCATCCTTAA
86141311 TT
1 TT
86141313 TCCATTGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (24 bp):
TTAGGCAAAGAATTTCATCCTTAA
Found at i:86143367 original size:16 final size:16
Alignment explanation
Indices: 86143328--86143361 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
86143318 TAGCAACTTC
86143328 AATAACTAGTTTATTG
1 AATAACTAGTTTATTG
*
86143344 AATAACTATTTTATTG
1 AATAACTAGTTTATTG
86143360 AA
1 AA
86143362 AGACTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (16 bp):
AATAACTAGTTTATTG
Found at i:86144297 original size:59 final size:57
Alignment explanation
Indices: 86144226--86144348 Score: 165
Period size: 59 Copynumber: 2.1 Consensus size: 57
86144216 GGTTTTCTCC
* * * *
86144226 AAAATGAAAATGGAGAAATAGGAAACATTTGAAAATGAATTTTATTTTTCTCCCAAATG
1 AAAATGAAAATGGAGAAATAGGAAACACTTGAAAACGAA-TGTAGTTTTCT-CCAAATG
* * *
86144285 AAAATGAAAATGGAGAAATGGGGAACACTTGAAAACGAATGTGGTTTTCTCCAAATG
1 AAAATGAAAATGGAGAAATAGGAAACACTTGAAAACGAATGTAGTTTTCTCCAAATG
86144342 AAAATGA
1 AAAATGA
86144349 CTTGAAAATG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 14 0.25
58 8 0.14
59 35 0.61
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (57 bp):
AAAATGAAAATGGAGAAATAGGAAACACTTGAAAACGAATGTAGTTTTCTCCAAATG
Found at i:86144788 original size:26 final size:26
Alignment explanation
Indices: 86144759--86144868 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
86144749 TGATACAAAT
86144759 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
86144785 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
86144811 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
86144837 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
86144863 TGATAA
1 TGATAA
86144869 GAATTTCATG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:86146183 original size:54 final size:54
Alignment explanation
Indices: 86146089--86146233 Score: 229
Period size: 54 Copynumber: 2.7 Consensus size: 54
86146079 TGGAGGAAGC
* *
86146089 GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTCTGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCT
*
86146144 GTCCTGGTGGCTCTGCTACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTCTGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
86146198 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTCTGCCACAATTATCTG-ATCTGGTG
86146234 AGTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
53 6 0.07
54 59 0.70
55 19 0.23
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTCTGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:86146230 original size:27 final size:27
Alignment explanation
Indices: 86146092--86146251 Score: 177
Period size: 27 Copynumber: 5.9 Consensus size: 27
86146082 AGGAAGCGTC
* *
86146092 CTGGTGGCTATGCCACAATTTATCT-AAT
1 CTGGTGGCTCTGCCACAA--TATCTGTAT
*
86146120 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
86146147 CTGGTGGCTCTGCTACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
86146174 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
86146201 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
86146228 CTGGTGAGTTC-GTCACAATATCTG
1 CTGGTG-GCTCTGCCACAATATCTG
86146252 GCAGCCTCGC
Statistics
Matches: 116, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
26 9 0.08
27 86 0.74
28 20 0.17
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:86149813 original size:10 final size:11
Alignment explanation
Indices: 86149784--86149818 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
86149774 ACCCAACTGA
86149784 TTATAAAATAT
1 TTATAAAATAT
*
86149795 TTTTAAAAT-T
1 TTATAAAATAT
86149805 TTATAAAATAT
1 TTATAAAATAT
86149816 TTA
1 TTA
86149819 AATATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTATAAAATAT
Found at i:86178346 original size:16 final size:16
Alignment explanation
Indices: 86178325--86178355 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
86178315 ATAAATTTGA
86178325 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
86178341 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
86178356 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:86182928 original size:56 final size:56
Alignment explanation
Indices: 86182866--86182980 Score: 160
Period size: 56 Copynumber: 2.1 Consensus size: 56
86182856 TTCAGGCCAT
* ** *
86182866 TTTTATTTTCATTTTGGAGAAAATTACATTCATTTCCAAATGATTCC-GTTTCTCCA
1 TTTTATTTTCATTTTGGAGAAAATCACAACCATTTCCAAATG-TTCCTATTTCTCCA
* *
86182922 TTTTATTTTCATTTTGGAGAAAATCATAACCATTTCCAGATGTTCCTATTTCTCCA
1 TTTTATTTTCATTTTGGAGAAAATCACAACCATTTCCAAATGTTCCTATTTCTCCA
86182978 TTT
1 TTT
86182981 CATCATTTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 4 0.08
56 48 0.92
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (56 bp):
TTTTATTTTCATTTTGGAGAAAATCACAACCATTTCCAAATGTTCCTATTTCTCCA
Found at i:86187181 original size:18 final size:18
Alignment explanation
Indices: 86187158--86187210 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
86187148 AAAATTAAGA
86187158 TGGAGGTGGAGGTAGAGG
1 TGGAGGTGGAGGTAGAGG
* *
86187176 TGGAGGTGGCGATAGAGG
1 TGGAGGTGGAGGTAGAGG
* *
86187194 TGGAGATGGATGTAGAG
1 TGGAGGTGGAGGTAGAG
86187211 ATGAAGATGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.25, C:0.02, G:0.55, T:0.19
Consensus pattern (18 bp):
TGGAGGTGGAGGTAGAGG
Found at i:86189216 original size:85 final size:85
Alignment explanation
Indices: 86189058--86189228 Score: 238
Period size: 85 Copynumber: 2.0 Consensus size: 85
86189048 TAGGATTCGC
* * * ** * *
86189058 TTTCACTATAGGTAAGACAATTTTAGAGATAAGGTCAGAATCCAATTTGGGATGATCTTGTGACT
1 TTTCACCATAGGTAAGACAATGTTAAAGATAAGGTCAGAATCCAATTTCAGATGATCCTGTGACA
86189123 TAGCTGCAACGAA-ACAAGTA
66 TAGCTGCAAC-AACACAAGTA
*
86189143 TTTCACCATAGGTAAGACAATGTTAAAGATAAGGTCAGAATCCAATTTCAGATGATCCTGTGTCA
1 TTTCACCATAGGTAAGACAATGTTAAAGATAAGGTCAGAATCCAATTTCAGATGATCCTGTGACA
86189208 TA-CTTGCAACAACACAAGTA
66 TAGC-TGCAACAACACAAGTA
86189228 T
1 T
86189229 ATAGAGTATC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
84 3 0.04
85 73 0.96
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (85 bp):
TTTCACCATAGGTAAGACAATGTTAAAGATAAGGTCAGAATCCAATTTCAGATGATCCTGTGACA
TAGCTGCAACAACACAAGTA
Found at i:86194695 original size:20 final size:21
Alignment explanation
Indices: 86194658--86194703 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
86194648 CAAAATGCAA
86194658 TCAACCTAAAATGAATTAAAT
1 TCAACCTAAAATGAATTAAAT
* *
86194679 TCAAGCTAAATTG-ATTAAAT
1 TCAACCTAAAATGAATTAAAT
86194699 T-AACC
1 TCAACC
86194704 ATTCCAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 3 0.14
20 8 0.36
21 11 0.50
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (21 bp):
TCAACCTAAAATGAATTAAAT
Found at i:86197898 original size:33 final size:33
Alignment explanation
Indices: 86197856--86197922 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
86197846 ACGAATGAAA
*
86197856 TAGAACCATACCTTTGCGAGTGGTGTCAGATAT
1 TAGAACCATACCTTTGCGAATGGTGTCAGATAT
86197889 TAGAACCATACCTTTGCGAATGGTGTCAGATAT
1 TAGAACCATACCTTTGCGAATGGTGTCAGATAT
86197922 T
1 T
86197923 CTCTTCGACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (33 bp):
TAGAACCATACCTTTGCGAATGGTGTCAGATAT
Found at i:86199014 original size:17 final size:18
Alignment explanation
Indices: 86198987--86199022 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
86198977 AATCAAATAT
86198987 ATGCGTATTAAATTATTA
1 ATGCGTATTAAATTATTA
*
86199005 ATGC-TATTAATTTATTA
1 ATGCGTATTAAATTATTA
86199022 A
1 A
86199023 AACAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (18 bp):
ATGCGTATTAAATTATTA
Found at i:86206545 original size:21 final size:20
Alignment explanation
Indices: 86206521--86206562 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
86206511 TGAAATGCAA
86206521 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
86206542 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
86206562 T
1 T
86206563 AGCCATTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:86212150 original size:21 final size:20
Alignment explanation
Indices: 86212126--86212171 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
86212116 CGGAATGCAA
86212126 TCAACCTAAGA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
86212147 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
86212167 T-AACC
1 TCAACC
86212172 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:86213599 original size:17 final size:18
Alignment explanation
Indices: 86213558--86213600 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
86213548 TGTATTTACT
*
86213558 TATTATATAAGTAAATAA
1 TATTATATAAATAAATAA
* *
86213576 TAGTATA-AAATAAATTA
1 TATTATATAAATAAATAA
86213593 TATTATAT
1 TATTATAT
86213601 TATATAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAATAAATAA
Found at i:86220876 original size:17 final size:17
Alignment explanation
Indices: 86220835--86220876 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
86220825 TGTATTTACT
86220835 TATTATAAAAGTAAATAA
1 TATTAT-AAAGTAAATAA
* *
86220853 TAATATAAAGTAAATTA
1 TATTATAAAGTAAATAA
86220870 TATTATA
1 TATTATA
86220877 TTATATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
TATTATAAAGTAAATAA
Found at i:86223069 original size:9 final size:9
Alignment explanation
Indices: 86223055--86223081 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
86223045 ATCATCAGCT
86223055 TCAAAGAAA
1 TCAAAGAAA
86223064 TCAAAGAAA
1 TCAAAGAAA
86223073 TCAAAGAAA
1 TCAAAGAAA
86223082 AACCATGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (9 bp):
TCAAAGAAA
Found at i:86224088 original size:64 final size:64
Alignment explanation
Indices: 86223979--86224099 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 64
86223969 GCGAGCATCC
** * * *
86223979 TGATCAGTATTGATCTTGCATGTGTTGCGGACATACAATAACTCTTTGTGAGCATCCTGTTATA
1 TGATCAGTATTGATCTTGCACATATTGCGGACATACAACAACTCTTTATGAGCATCCTGTTATA
* * * *
86224043 TGATCGGTATTGATCTTGCACATATTGCGGACATGCCACAGCTCTTTATGAGCATCC
1 TGATCAGTATTGATCTTGCACATATTGCGGACATACAACAACTCTTTATGAGCATCC
86224100 CGATATAGGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (64 bp):
TGATCAGTATTGATCTTGCACATATTGCGGACATACAACAACTCTTTATGAGCATCCTGTTATA
Found at i:86238734 original size:20 final size:20
Alignment explanation
Indices: 86238688--86238735 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
86238678 TTTTGCTCCA
*
86238688 CTGAATAAGCACATCAAAAC
1 CTGAATTAGCACATCAAAAC
86238708 CTGAATTAGCACATCAAAAC
1 CTGAATTAGCACATCAAAAC
86238728 CTGAATTA
1 CTGAATTA
86238736 ATATATTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21
Consensus pattern (20 bp):
CTGAATTAGCACATCAAAAC
Found at i:86242648 original size:93 final size:93
Alignment explanation
Indices: 86242536--86242706 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
86242526 GCCCATAAGT
* *
86242536 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
86242601 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
86242629 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
86242694 CGAGTTCGGATGC
66 CGAGCTCGGATGC
86242707 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:86242703 original size:46 final size:46
Alignment explanation
Indices: 86242528--86242703 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
86242518 TGTAACCCGC
* *
86242528 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
86242574 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
86242624 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
86242667 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
86242704 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 65 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:86245732 original size:3 final size:3
Alignment explanation
Indices: 86245724--86245765 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
86245714 GAAATAAGAG
* * *
86245724 TAA TAA TAA TAA TAA TAA TAA GAT TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
86245766 AAAAATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:86246080 original size:26 final size:26
Alignment explanation
Indices: 86246044--86246101 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
86246034 GTAGGAAGAA
86246044 TGAATAGTGAAAGGAGGTGTGATGGG
1 TGAATAGTGAAAGGAGGTGTGATGGG
* *
86246070 TGAATAGTGAATGGGGGTGTGATGGG
1 TGAATAGTGAAAGGAGGTGTGATGGG
86246096 TGAATA
1 TGAATA
86246102 ATGGAGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (26 bp):
TGAATAGTGAAAGGAGGTGTGATGGG
Found at i:86255249 original size:24 final size:24
Alignment explanation
Indices: 86255217--86255264 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
86255207 GTATGACAAG
86255217 TATATCACTCAACAATATTCCTAT
1 TATATCACTCAACAATATTCCTAT
86255241 TATATCACTCAACAATATTCCTAT
1 TATATCACTCAACAATATTCCTAT
86255265 AAATCTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (24 bp):
TATATCACTCAACAATATTCCTAT
Done.