Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 104 of 362
Found at i:33742792 original size:16 final size:16
Alignment explanation
Indices: 33742771--33742803 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33742761 GTATAAGGCC
33742771 ATTGAAAATGGCTAAT
1 ATTGAAAATGGCTAAT
33742787 ATTGAAAATGGCTAAT
1 ATTGAAAATGGCTAAT
33742803 A
1 A
33742804 CTAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
ATTGAAAATGGCTAAT
Found at i:33742810 original size:16 final size:16
Alignment explanation
Indices: 33742775--33742811 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
33742765 AAGGCCATTG
* *
33742775 AAAATGGCTAATATTG
1 AAAATGGCTAATACTA
33742791 AAAATGGCTAATACTA
1 AAAATGGCTAATACTA
33742807 AAAAT
1 AAAAT
33742812 TATTATGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (16 bp):
AAAATGGCTAATACTA
Found at i:33747762 original size:42 final size:42
Alignment explanation
Indices: 33747682--33747798 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
33747672 CAATGTCATA
* * *
33747682 TCCCAGATATGGTCTTACATGATATAGT-ATATCGATGCCAATAG
1 TCCCAGACATGGTCTTACACGA-AT-CTCATATCGATGCCAAT-G
* ** *
33747726 -CCCTGGTATGGTTTTACACGAATCTCATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG
*
33747767 TCCCAGACATGGTCTTACATGAATCTCATATC
1 TCCCAGACATGGTCTTACACGAATCTCATATC
33747799 CCGGTAATCC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.03
42 42 0.69
43 17 0.28
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG
Found at i:33752588 original size:27 final size:27
Alignment explanation
Indices: 33752558--33752622 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
33752548 TTTCACCCTA
*
33752558 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAAATCTACAAAC
* *
33752585 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAAATCTACAAAC
*
33752612 CAATGGTATTT
1 CAAGGGTATTT
33752623 CTGTAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAAATCTACAAAC
Found at i:33752628 original size:27 final size:27
Alignment explanation
Indices: 33752578--33752895 Score: 167
Period size: 27 Copynumber: 12.0 Consensus size: 27
33752568 TTGGTAAATC
*
33752578 TACAAACCAAGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
* *
33752605 TACAAACCAATGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** *
33752632 TTGAAAGTCAAGGGTATTTTTGTAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTT
** * * *
33752660 TGTAAATTAGGGGTATTTTTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
*
33752687 T-CTAAATCAAGGGTATTTCGGTAATTT
1 TAC-AAATCAAGGGTATTTCTGTAATTT
* **
33752714 TACAAGTTGAGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
* *
33752741 TACAAGTCAAGGGCA----TGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* * *
33752764 CATAAATTAA-GGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
* *
33752790 TACAAACCAGGGGTATTT-TAGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
* * * *
33752817 TGCTAATCGATGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
** * * *
33752844 TGTAAACCAAAGGTA-TTCAGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** *
33752870 TGTAAA-CTAAGGGTATTTCAGTAATT
1 TACAAATC-AAGGGTATTTCTGTAATT
33752896 CTACCCTACA
Statistics
Matches: 231, Mismatches: 47, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.01
23 13 0.06
24 1 0.00
25 2 0.01
26 33 0.14
27 155 0.67
28 24 0.10
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCTGTAATTT
Found at i:33752648 original size:55 final size:54
Alignment explanation
Indices: 33752585--33752718 Score: 162
Period size: 55 Copynumber: 2.5 Consensus size: 54
33752575 ATCTACAAAC
*
33752585 CAAGGGTATTTTGGTAATTTTACAAACCAATGGTATTTCTGTAATTTT-TGAAAGT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCTGTAATTTTCT-AAA-T
* ** ** * *
33752640 CAAGGGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTTGTAATTTTCTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCTGTAATTTTCTAAAT
*
33752694 CAAGGGTATTTCGGTAATTTTACAA
1 CAAGGGTATTTTGGTAATTTTACAA
33752719 GTTGAGGGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
54 22 0.33
55 43 0.65
56 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCTGTAATTTTCTAAAT
Found at i:33756164 original size:40 final size:40
Alignment explanation
Indices: 33756069--33756220 Score: 200
Period size: 40 Copynumber: 3.8 Consensus size: 40
33756059 TGGATGATAA
* **
33756069 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACAT
*
33756110 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
33756150 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
33756190 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
33756221 AGCTATATCT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
39 8 0.08
40 64 0.64
41 24 0.24
42 4 0.04
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:33765060 original size:26 final size:26
Alignment explanation
Indices: 33765024--33765077 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
33765014 ACGGGAAGTT
*
33765024 AGTTTCCTTGGACATGTTGCATCCAC
1 AGTTTCCTTGGACATGTAGCATCCAC
* *
33765050 AGTTTCCTTGGACTTGTAGCATCTAC
1 AGTTTCCTTGGACATGTAGCATCCAC
33765076 AG
1 AG
33765078 AGGGTATTCG
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:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
AGTTTCCTTGGACATGTAGCATCCAC
Found at i:33778800 original size:15 final size:15
Alignment explanation
Indices: 33778780--33778822 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
33778770 TCTTATATAT
* * *
33778780 TGAAACTTTAGATTG
1 TGAAACTATAGACTA
33778795 TGAAACTATAGACTA
1 TGAAACTATAGACTA
33778810 TGAAACTATAGAC
1 TGAAACTATAGAC
33778823 AGTGAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (15 bp):
TGAAACTATAGACTA
Found at i:33778828 original size:15 final size:15
Alignment explanation
Indices: 33778780--33778829 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
33778770 TCTTATATAT
* **
33778780 TGAAACTTTAGATTG
1 TGAAACTATAGACAG
33778795 TGAAACTATAGACTA-
1 TGAAACTATAGAC-AG
33778810 TGAAACTATAGACAG
1 TGAAACTATAGACAG
33778825 TGAAA
1 TGAAA
33778830 TTGTGACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.97
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (15 bp):
TGAAACTATAGACAG
Found at i:33780868 original size:40 final size:40
Alignment explanation
Indices: 33780787--33781006 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
33780777 AAACCAAGTA
** * *
33780787 CCTTCGGGGTTTAG-CCGGATATAG-ATACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTA-ACTCGCACAAATG
*
33780826 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
33780866 CCTTCGGGACTTAGCCCGGTTATAGT-ACTTGCCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCG-CACAAATG
* *
33780906 -CTTCGGGACTTGGCCCGGTTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
33780945 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
33780985 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
33781007 CAATCCGAAT
Statistics
Matches: 162, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 60 0.37
40 101 0.62
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:33780922 original size:79 final size:80
Alignment explanation
Indices: 33780787--33781006 Score: 306
Period size: 79 Copynumber: 2.8 Consensus size: 80
33780777 AAACCAAGTA
** *
33780787 CCTTCGGGGTTTAG-CCGGATATAG-ATACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAGTA-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
* *
33780850 GTAACTCGCACAATTG
65 GTAACTCACACAAATG
* * * *
33780866 CCTTCGGGACTTAGCCCGGTTATAGT-ACTTGCCACAATTG-CTTCGGGACTTGGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCG-CACAAATGCCTTCGGGACTTAGCCCGGTTATA
33780929 GTAACTCACACAAATG
65 GTAACTCACACAAATG
33780945 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
33781007 CAATCCGAAT
Statistics
Matches: 123, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
79 97 0.79
80 26 0.21
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCACACAAATG
Found at i:33788911 original size:40 final size:40
Alignment explanation
Indices: 33788832--33789048 Score: 311
Period size: 40 Copynumber: 5.6 Consensus size: 40
33788822 AAACCAAGTA
** * *
33788832 CCTTCGGGGTTTAG-CCGGATATAG--ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
33788869 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
33788909 CCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
33788949 CCTTCGGGACTTGGCCCGGTTATAGTAACT--CACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
33788987 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
33789027 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
33789049 CAATCCGAAT
Statistics
Matches: 164, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
37 12 0.07
38 44 0.27
39 13 0.08
40 95 0.58
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:33789002 original size:78 final size:79
Alignment explanation
Indices: 33788832--33789048 Score: 318
Period size: 78 Copynumber: 2.8 Consensus size: 79
33788822 AAACCAAGTA
** *
33788832 CCTTCGGGGTTTAG-CCGGATATAG--ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
33788894 TAACTCGCACAATTG
66 TAACTC-CACAAATG
* * * *
33788909 CCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
33788974 TAACT-CACAAATG
66 TAACTCCACAAATG
33788987 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
33789049 CAATCCGAAT
Statistics
Matches: 125, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
77 25 0.20
78 61 0.49
80 39 0.31
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCCACAAATG
Found at i:33792435 original size:29 final size:29
Alignment explanation
Indices: 33792402--33792457 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
33792392 TTTTCGAGCA
* *
33792402 TAGGGGTAAAATGGTCATTTTGCCAAATC
1 TAGGGGCAAAATGGTCATTTTACCAAATC
33792431 TAGGGGCAAAATGGTCATTTTACCAAA
1 TAGGGGCAAAATGGTCATTTTACCAAA
33792458 AATGTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (29 bp):
TAGGGGCAAAATGGTCATTTTACCAAATC
Found at i:33792953 original size:46 final size:48
Alignment explanation
Indices: 33792842--33793115 Score: 210
Period size: 46 Copynumber: 5.8 Consensus size: 48
33792832 CAACATTATG
* * * * * *
33792842 AGAGCTAGTGTAAGACCATGTCTTGGAGATGGCATCGACATTGAGAT-A
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-CCTCGAGATGT
* * * *
33792890 AGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGGGACGT
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGATGT
* * * *
33792937 A-AGCCAGTATAAGA-CATGTTTGGGACAT-GCATCGGCTATGAGATGT
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCT-CGAGATGT
* * *
33792983 ---GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACG-GTTATGT
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAG--ATGT
*
33793029 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATG-
1 -AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCG-AGATGT
* * *
33793079 ATAGCCAGTTTAAGACCATGTGTGGGACATGGCATCG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
33793116 GCACTTTACC
Statistics
Matches: 182, Mismatches: 30, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.06
45 17 0.09
46 54 0.30
47 14 0.08
48 15 0.08
49 32 0.18
50 31 0.17
51 7 0.04
53 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGATGT
Found at i:33807306 original size:78 final size:78
Alignment explanation
Indices: 33807215--33807374 Score: 293
Period size: 78 Copynumber: 2.1 Consensus size: 78
33807205 GGGAGTAACA
*
33807215 AGAAAGGTTTTAGAAGCTTAAGTTCGTGTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTG
1 AGAAAGGTTTTAGAAGCTTAAGTTCGTCTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTG
33807280 GGAAGGACTATAT
66 GGAAGGACTATAT
* *
33807293 AGAAAGTTTTTAGAAGCTTAAGTTTGTCTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTG
1 AGAAAGGTTTTAGAAGCTTAAGTTCGTCTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTG
33807358 GGAAGGACTATAT
66 GGAAGGACTATAT
33807371 AGAA
1 AGAA
33807375 GACAGTGATG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (78 bp):
AGAAAGGTTTTAGAAGCTTAAGTTCGTCTTGACTCAAGCACCTGTTTTGATCCAGCCTGAGTCTG
GGAAGGACTATAT
Found at i:33814172 original size:37 final size:37
Alignment explanation
Indices: 33814122--33814197 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
33814112 AGAACAAATT
* *
33814122 AAAATTTAGCAATGCAAATGATGAGGCATAGTCAAGA
1 AAAATTCAGCAATGCAAATGATGAGACATAGTCAAGA
*
33814159 AAAATTCAGCAATGCAAATGATGAGACATAGTCAGGA
1 AAAATTCAGCAATGCAAATGATGAGACATAGTCAAGA
33814196 AA
1 AA
33814198 CTAACCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (37 bp):
AAAATTCAGCAATGCAAATGATGAGACATAGTCAAGA
Found at i:33815627 original size:21 final size:21
Alignment explanation
Indices: 33815578--33815620 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
33815568 TACTTGAATG
33815578 TTGTGTTGTATGGAATTTGAC
1 TTGTGTTGTATGGAATTTGAC
33815599 TTGTGTTGTATGGAATTTGAC
1 TTGTGTTGTATGGAATTTGAC
33815620 T
1 T
33815621 GATGTTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.28, T:0.49
Consensus pattern (21 bp):
TTGTGTTGTATGGAATTTGAC
Found at i:33816479 original size:20 final size:20
Alignment explanation
Indices: 33816454--33816494 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
33816444 GGGTATACCT
33816454 AGTAGAATAATTTTGGTATA
1 AGTAGAATAATTTTGGTATA
*
33816474 AGTAGAATCATTTTGGTATA
1 AGTAGAATAATTTTGGTATA
33816494 A
1 A
33816495 TGGCATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (20 bp):
AGTAGAATAATTTTGGTATA
Found at i:33819098 original size:16 final size:17
Alignment explanation
Indices: 33819077--33819109 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33819067 CACATTGAAG
33819077 TGTTTT-TCGAAAACCT
1 TGTTTTATCGAAAACCT
33819093 TGTTTTCATCGAAAACC
1 TGTTTT-ATCGAAAACC
33819110 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (17 bp):
TGTTTTATCGAAAACCT
Found at i:33819722 original size:11 final size:11
Alignment explanation
Indices: 33819706--33819731 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33819696 TGAAGCCCAC
33819706 ATCACAATAAT
1 ATCACAATAAT
33819717 ATCACAATAAT
1 ATCACAATAAT
33819728 ATCA
1 ATCA
33819732 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:33820132 original size:27 final size:27
Alignment explanation
Indices: 33820102--33820166 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
33820092 GGCATTTCAG
* *
33820102 TAATTTTACAAGTCGAGGGTATTTCGA
1 TAATTTTACAAGTCAAGGATATTTCGA
* *
33820129 TAATTTTACAGGTCAAGGATATTTCGG
1 TAATTTTACAAGTCAAGGATATTTCGA
*
33820156 TAATTTCACAA
1 TAATTTTACAA
33820167 ATTATGGGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCAAGGATATTTCGA
Found at i:33820536 original size:29 final size:29
Alignment explanation
Indices: 33820482--33820538 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
33820472 AAGTCTACAT
*
33820482 ACATGCATATGGCCCACTAGGCCCAAATG
1 ACATGCATATGGCCCACTAGGACCAAATG
*
33820511 ACATTCATATGGCCCATCT-GGACCAAAT
1 ACATGCATATGGCCCA-CTAGGACCAAAT
33820539 CAATTGCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (29 bp):
ACATGCATATGGCCCACTAGGACCAAATG
Found at i:33820794 original size:16 final size:16
Alignment explanation
Indices: 33820760--33820794 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33820750 GTAGCCAAAC
*
33820760 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
*
33820776 TTTCGGCTTTTCGGGA
1 TTTCGGCTTTTCGGCA
33820792 TTT
1 TTT
33820795 TAGGATTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.17, G:0.26, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:33850534 original size:6 final size:6
Alignment explanation
Indices: 33850516--33850611 Score: 90
Period size: 6 Copynumber: 15.7 Consensus size: 6
33850506 AACAAACATT
* *
33850516 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAAA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
33850563 ATGACAGA ATCAGA ATCAGA ATTAGA ATTAG- ATGACAGA ATCAGA ATCA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCA
33850612 AAATGTGAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.07
6 62 0.82
7 5 0.07
8 4 0.05
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:33850571 original size:31 final size:31
Alignment explanation
Indices: 33850536--33850615 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
33850526 GAATCAGAAT
33850536 CAGAATCAGAATCAAAATCAGAATTAGATGA
1 CAGAATCAGAATCAAAATCAGAATTAGATGA
* *
33850567 CAGAATCAGAATCAGAATTAGAATTAGATGA
1 CAGAATCAGAATCAAAATCAGAATTAGATGA
33850598 CAGAATCAGAATCAAAAT
1 CAGAATCAGAATCAAAAT
33850616 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAAAATCAGAATTAGATGA
Found at i:33851075 original size:27 final size:27
Alignment explanation
Indices: 33851018--33851590 Score: 738
Period size: 27 Copynumber: 21.3 Consensus size: 27
33851008 GGGGCAAAAT
* * * *
33851018 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33851044 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33851071 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33851098 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33851125 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33851152 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33851179 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33851206 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33851233 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33851260 AGAAATTCTACCGTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33851286 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* * *
33851314 GGTAATCCTACCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33851341 GATAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
33851368 GGTAATTCTACCCTACAGGTTTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
33851395 GATAATTCTACCCTACAGGTTTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33851422 GGTAATTCTACCCTACAGGTGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33851449 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33851476 GATAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33851502 TGGTAATTCTACCCTACAGGGGTATTCC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
33851530 GGTAATTCTACACTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33851557 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33851584 GGTAATT
1 GGTAATT
33851591 TCACAAATCA
Statistics
Matches: 490, Mismatches: 52, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
26 19 0.04
27 466 0.95
28 5 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:33851605 original size:27 final size:27
Alignment explanation
Indices: 33851575--33851921 Score: 354
Period size: 27 Copynumber: 12.9 Consensus size: 27
33851565 TACCCTACAA
* * * *
33851575 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
33851602 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
33851629 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
*
33851656 GGGTATTTTGGTAATTTTATAAATCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
33851683 GCGTATTTTGGTAATTTTATAAACGAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
33851710 GGGTATTTTGGTAAATTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
33851737 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
33851764 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
33851791 GGGTATTTTGGTTATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
33851818 TGGTATTTTAGTAATTTTAAAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* * ** *
33851845 GGGTATTTTGGTACTTTTGTTGATC-G
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
33851871 AGGGTATTTGGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTATAAACCAG
** *
33851899 GGGTATTTCAGTAATTTTGTAAA
1 GGGTATTTTGGTAATTTTATAAA
33851922 TCGAGGGTAA
Statistics
Matches: 261, Mismatches: 57, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
26 1 0.00
27 260 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAG
Found at i:33851928 original size:27 final size:27
Alignment explanation
Indices: 33851572--33851957 Score: 321
Period size: 27 Copynumber: 14.3 Consensus size: 27
33851562 TTCTACCCTA
* * *
33851572 CAAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
33851599 CAGGGGTATTTTAGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
33851625 CTAGGGGTATTTTGGTAATTTTGTAAAC
1 C-AAGGGTATTTTGGTAATTTTATAAAT
33851653 CAAGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
33851680 C-AGGCGTATTTTGGTAATTTTATAAA-
1 CAAGG-GTATTTTGGTAATTTTATAAAT
* * *
33851706 CGAAGGGTATTTTGGTAAATTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* * *
33851734 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
33851761 CAAGGGTATTTTAGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
33851787 CTAGGGGTATTTTGGTTATTTTATAAAC
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* * * *
33851815 CAATGGTATTTTAGTAATTTTAAAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * **
33851842 CAGGGGTATTTTGGTACTTTTGTTGAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
33851869 CGAGGGTATTTGGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** *
33851896 CAAGGGTATTTCAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *** * *
33851923 CGAGGGTAAAATGGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
33851950 CGAGGGTA
1 CAAGGGTA
33851958 AAATGGTAAT
Statistics
Matches: 295, Mismatches: 56, Indels: 16
0.80 0.15 0.04
Matches are distributed among these distances:
26 6 0.02
27 283 0.96
28 6 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:33851958 original size:27 final size:27
Alignment explanation
Indices: 33851909--33851970 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
33851899 GGGTATTTCA
*
33851909 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
33851936 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
33851963 GTAATTCT
1 GTAATTCT
33851971 ATCTTATTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.34
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:33854037 original size:6 final size:6
Alignment explanation
Indices: 33854026--33854091 Score: 80
Period size: 6 Copynumber: 10.8 Consensus size: 6
33854016 TATCACAACT
* *
33854026 AGAATC AGAATC AGAATC AGAATC AGAATTC GGTGA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAA-TC AG-AATC AGAATC AGAATC
*
33854075 AAAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
33854092 TTGTTGACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
5 1 0.02
6 46 0.90
7 3 0.06
8 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:33854038 original size:18 final size:18
Alignment explanation
Indices: 33854017--33854091 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
33854007 AAGAAACATT
33854017 ATCACAA-CTAGAATCAGA
1 ATCACAATC-AGAATCAGA
*
33854035 ATCAGAATCAGAATCAGA
1 ATCACAATCAGAATCAGA
* **
33854053 AT-TCGGTGACAGAATCAGA
1 ATCACAAT--CAGAATCAGA
*
33854072 ATCAAAATCAGAATCAGA
1 ATCACAATCAGAATCAGA
33854090 AT
1 AT
33854092 TTGTTGACAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
17 1 0.02
18 29 0.66
19 13 0.30
20 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (18 bp):
ATCACAATCAGAATCAGA
Found at i:33854068 original size:37 final size:37
Alignment explanation
Indices: 33854026--33854146 Score: 179
Period size: 37 Copynumber: 3.3 Consensus size: 37
33854016 TATCACAACT
*
33854026 AGAATCAGAATCAGAATCAGAATCAGAATTCGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
* * *
33854063 AGAATCAGAATCAAAATCAGAATCAGAATTTGTTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
* * *
33854100 AAAATCAAAATCAGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
33854137 AGAATCAGAA
1 AGAATCAGAA
33854147 ATGCAATCCC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:33854601 original size:27 final size:27
Alignment explanation
Indices: 33854545--33855036 Score: 680
Period size: 27 Copynumber: 18.3 Consensus size: 27
33854535 GGGGCAAAAT
* * * *
33854545 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33854571 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33854598 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33854625 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33854652 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33854679 GTTAATTCTACCCTACAGGGGTGTTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
33854706 GATAATTCTACCTTAAAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33854733 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33854760 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33854787 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
33854814 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33854841 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33854868 GATAATTCTACCCTACAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33854895 GGTAATTCTACCCTACAGGGGTAATCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33854922 GGTAATTCTACCCTATAGGTGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33854949 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
33854976 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33855003 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33855030 GGTAATT
1 GGTAATT
33855037 TCACAAATTA
Statistics
Matches: 415, Mismatches: 50, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
26 14 0.03
27 401 0.97
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:33855079 original size:54 final size:54
Alignment explanation
Indices: 33855021--33855367 Score: 406
Period size: 54 Copynumber: 6.4 Consensus size: 54
33855011 TACCCTACAA
* * * ** * *
33855021 GGGTATTTCGGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * *
33855075 GGGTATTTTGGTAGTTTTGTAAACCAAGGATATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * *
33855129 GGGTATTTTGGTGATTTTATAAGCCATGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* *
33855183 GGGTATTTTGGTAATTTTATAAGCCATGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * ** *
33855237 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAGTAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* * * * ** *
33855291 GGGTATTTTGGTAATTTTATTAATCGAGGGTATTTGGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
* ** *
33855345 TGGTATTTCAGTAATTTTGTAAA
1 GGGTATTTTGGTAATTTTATAAA
33855368 TTGAGGGTAA
Statistics
Matches: 252, Mismatches: 41, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 252 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
Found at i:33855103 original size:81 final size:81
Alignment explanation
Indices: 33855018--33855362 Score: 395
Period size: 81 Copynumber: 4.3 Consensus size: 81
33855008 TTCTACCCTA
** * ** *
33855018 CAAGGGTATTTCGGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
* *
33855083 TGGTAGTTTTGTAAAC
66 TGGTAATTTTATAAAC
* * * * * *
33855099 CAAGGATATTTTTGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAGCCATGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
*
33855164 TGGTAATTTTACAAAC
66 TGGTAATTTTATAAAC
* * * * *
33855180 CAGGGGTATTTTGGTAATTTTATAAGCCATGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
*
33855245 TGGTGATTTTATAAAC
66 TGGTAATTTTATAAAC
** * ** *
33855261 CAAGGGTATTTTAGTAATTTTACAAAGTAAGGGTATTTTGGTAATTTTATTAATC-GAGGGTATT
1 CAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATT
* *
33855325 TGGGTAATTTTGTAAAC
65 TTGGTAATTTTATAAAC
* *
33855342 CAATGGTATTTCAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
33855363 GTAAATTGAG
Statistics
Matches: 222, Mismatches: 41, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
80 1 0.00
81 221 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (81 bp):
CAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
TGGTAATTTTATAAAC
Found at i:33855363 original size:27 final size:27
Alignment explanation
Indices: 33855018--33855367 Score: 358
Period size: 27 Copynumber: 13.0 Consensus size: 27
33855008 TTCTACCCTA
* * * *
33855018 CAAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
33855045 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
33855072 TAGGGGTATTTTGGTAGTTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
33855099 CAAGGATATTTTTGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
33855126 CAGGGGTATTTTGGTGATTTTATAAGC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
33855153 CATGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
33855180 CAGGGGTATTTTGGTAATTTTATAAGC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
33855207 CATGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
33855234 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
33855261 CAAGGGTATTTTAGTAATTTTACAAAG
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
33855288 TAAGGGTATTTTGGTAATTTTATTAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
33855315 CGAGGGTATTTGGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** *
33855342 CAATGGTATTTCAGTAATTTTGTAAA
1 CAAGGGTATTTTGGTAATTTTATAAA
33855368 TTGAGGGTAA
Statistics
Matches: 269, Mismatches: 54, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 269 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:33855385 original size:27 final size:27
Alignment explanation
Indices: 33855355--33855416 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
33855345 TGGTATTTCA
* *
33855355 GTAATTTTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
33855382 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
33855409 GTAATTCT
1 GTAATTCT
33855417 ATCTTATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:33855412 original size:81 final size:80
Alignment explanation
Indices: 33855245--33855414 Score: 178
Period size: 81 Copynumber: 2.1 Consensus size: 80
33855235 AGGGGTATTT
* * *** *
33855245 TGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAGTAAGGGTATTTTGGTAATTTTA
1 TGGTAATTTTATAAACCAAGGGTATTTCAGTAATTTTACAAAGTAAGGGTAAAATGGTAATTCTA
* **
33855310 TTAATCGAGGGTATT
66 TAAATCGAGGGTAAA
* * ** * *
33855325 TGGGTAATTTTGTAAACCAATGGTATTTCAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCT
1 T-GGTAATTTTATAAACCAAGGGTATTTCAGTAATTTTACAAAGTAAGGGTAAAATGGTAATTCT
*
33855390 GTAAATCGAGGGTAAAA
65 ATAAATCGAGGGT-AAA
33855407 TGGTAATT
1 TGGTAATT
33855415 CTATCTTATT
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
80 1 0.01
81 69 0.96
82 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.39
Consensus pattern (80 bp):
TGGTAATTTTATAAACCAAGGGTATTTCAGTAATTTTACAAAGTAAGGGTAAAATGGTAATTCTA
TAAATCGAGGGTAAA
Found at i:33855451 original size:27 final size:26
Alignment explanation
Indices: 33855421--33855515 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
33855411 AATTCTATCT
*
33855421 TATTTCAGTAATTTTATAAATCGAGGA
1 TATTT-AGTAATTTTATAAATCGAGGG
* *
33855448 TATTTGGATAATTTTATAAATCGGGGG
1 TATTTAG-TAATTTTATAAATCGAGGG
* * *
33855475 TACTTTGGTAATTTTACAAGTCGAGGG
1 TA-TTTAGTAATTTTATAAATCGAGGG
33855502 TATTTCAGTAATTT
1 TATTT-AGTAATTT
33855516 GGTAAACTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.07
27 49 0.84
28 5 0.09
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (26 bp):
TATTTAGTAATTTTATAAATCGAGGG
Found at i:33857469 original size:6 final size:6
Alignment explanation
Indices: 33857458--33857541 Score: 82
Period size: 6 Copynumber: 13.7 Consensus size: 6
33857448 TATCACAACT
* *
33857458 AGAATC AGAATC AGAATC GGTGA-C AGAATC AGAATC A-AATC AGAATC
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* *
33857505 AGAAGTGAC AAAATC AAAATC AGAATC AGAATC AGAA
1 AGAA-T--C AGAATC AGAATC AGAATC AGAATC AGAA
33857542 AGGTGATAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
5 6 0.09
6 53 0.80
7 2 0.03
8 1 0.02
9 4 0.06
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.15
Consensus pattern (6 bp):
AGAATC
Found at i:33858010 original size:27 final size:27
Alignment explanation
Indices: 33857954--33858342 Score: 401
Period size: 26 Copynumber: 14.6 Consensus size: 27
33857944 AGGGCAAAAT
* * * *
33857954 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33857980 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33858007 AGTAATTCTACCCTACAGGGGTATTT-
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33858033 GGTATTTCTACCCTACAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
33858059 GGTAATTCTACCCTACAGGGGTATTTCC
1 GGTAATTCTACCCTACAGGGGTATTT-C
* * *
33858087 GTTAATTCTACCCTACA--GGTGTTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
33858112 GATAATTCTACCTTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
**
33858139 TATAATTCTACATATCCTCCTACAGGGGTA-TTC
1 GGTAA-T-T-C-TA--C-CCTACAGGGGTATTTC
*
33858172 GGTAATTCTACCCTACA-TGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33858198 GGTAATTCTA-CCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33858224 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33858251 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
33858278 -G-AATTCTA-CCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33858301 GGTAATTCTACCCTACA--GGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33858326 GATAATTCTACCCTACA
1 GGTAATTCTACCCTACA
33858343 NNNNNNNNNN
Statistics
Matches: 310, Mismatches: 34, Indels: 39
0.81 0.09 0.10
Matches are distributed among these distances:
23 8 0.03
24 7 0.02
25 65 0.21
26 102 0.33
27 85 0.27
28 18 0.06
29 3 0.01
30 2 0.01
31 3 0.01
32 1 0.00
33 6 0.02
34 10 0.03
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:33858084 original size:79 final size:79
Alignment explanation
Indices: 33857953--33858342 Score: 406
Period size: 79 Copynumber: 4.9 Consensus size: 79
33857943 TAGGGCAAAA
* * * *
33857953 TGGTAATTTTACCCCACAA-GGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
1 TGGTAATTCTACCCTACAAGGGTAT-TCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
33858017 CCCTACAGGGGTATT
65 CCCTACAGGGGTATT
* *
33858032 TGGTATTTCTACCCTACAAGGGTATTCGGTAATTCTACCCTACAGGGGTATTTCCGTTAATTCTA
1 TGGTAATTCTACCCTACAAGGGTATTCGGTAATTCTACCCTACAGGGGTATTT-CGGTAATTCTA
* *
33858097 CCCTACAGGTGT-TG
65 CCCTACAGGGGTATT
* * * ***
33858111 CGATAATTCTACCTTACAAGGGTATTTTTATAATTCTACATATCCTCCTACAGGGGTA-TTCGGT
1 TGGTAATTCTACCCTACAAGGGTA-TTCGGTAA-T-T-C-TA--C-CCTACAGGGGTATTTCGGT
*
33858175 AATTCTACCCTACA-TGGTATT
58 AATTCTACCCTACAGGGGTATT
* *
33858196 TCGGTAATTCTA-CCTACAGGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCT
1 T-GGTAATTCTACCCTACAAGGGTATT-CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCT
33858260 ACCCTACAGGGGTA-T
64 ACCCTACAGGGGTATT
* *
33858275 TGCG-AATTCTA-CCTAC-AGGGTATTTCGGTAATTCTACCCTACA--GGTATTGCGATAATTCT
1 TG-GTAATTCTACCCTACAAGGGTA-TTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCT
33858335 ACCCTACA
64 ACCCTACA
33858343 NNNNNNNNNN
Statistics
Matches: 264, Mismatches: 30, Indels: 38
0.80 0.09 0.11
Matches are distributed among these distances:
75 23 0.09
77 22 0.08
78 27 0.10
79 88 0.33
80 34 0.13
81 3 0.01
82 2 0.01
83 2 0.01
84 7 0.03
85 32 0.12
86 12 0.05
87 12 0.05
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (79 bp):
TGGTAATTCTACCCTACAAGGGTATTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAGGGGTATT
Found at i:33858186 original size:26 final size:26
Alignment explanation
Indices: 33858157--33858342 Score: 235
Period size: 25 Copynumber: 7.2 Consensus size: 26
33858147 TACATATCCT
33858157 CCTACAGGGGTATTCGGTAATTCTAC
1 CCTACAGGGGTATTCGGTAATTCTAC
*
33858183 CCTACA-TGGTATTTCGGTAATTCTA-
1 CCTACAGGGGTA-TTCGGTAATTCTAC
*
33858208 CCTACAGGGGTATTGCGATAATTCTAC
1 CCTACAGGGGTATT-CGGTAATTCTAC
33858235 CCTACAGGGGTATTTCGGTAATTCTAC
1 CCTACAGGGGTA-TTCGGTAATTCTAC
33858262 CCTACAGGGGTATT-GCG-AATTCTA-
1 CCTACAGGGGTATTCG-GTAATTCTAC
33858286 CCTACA-GGGTATTTCGGTAATTCTAC
1 CCTACAGGGGTA-TTCGGTAATTCTAC
*
33858312 CCTACA--GGTATTGCGATAATTCTAC
1 CCTACAGGGGTATT-CGGTAATTCTAC
33858337 CCTACA
1 CCTACA
33858343 NNNNNNNNNN
Statistics
Matches: 144, Mismatches: 5, Indels: 23
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.03
24 11 0.08
25 49 0.34
26 42 0.29
27 35 0.24
28 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (26 bp):
CCTACAGGGGTATTCGGTAATTCTAC
Found at i:33858248 original size:112 final size:104
Alignment explanation
Indices: 33857954--33858342 Score: 439
Period size: 105 Copynumber: 3.7 Consensus size: 104
33857944 AGGGCAAAAT
* * * * * *
33857954 GGTAATTTTACCCCACAAGGTATCTCAGTAATTCTACCCTACAGGGGTATTTC-AGTAATTCTAC
1 GGTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACA--GGTATTGCGA-TAATTCTAC
* * * *
33858018 CCTACAGGGGTATTT-GGTATTTCTACCCTACAAGGGTATTC
63 CCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTC
* *
33858059 GGTAATTCTACCCTACAGGGGTATTTCCGTTAATTCTACCCTACAGGTGTTGCGATAATTCTACC
1 GGTAATTCTACCCTACA-GGGTATTT-CGGTAATTCTACCCTACAGGTATTGCGATAATTCTACC
* **
33858124 TTACAAGGGTATTTTTATAATTCTACATATCCTCCTACAGGGGTATTC
64 CTACAAGGGTATTTCGATAA-T-T-C-TA--C-CCTACAGGGGTATTC
*
33858172 GGTAATTCTACCCTACATGGTATTTCGGTAATTCTA-CCTACAGGGGTATTGCGATAATTCTACC
1 GGTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACA--GGTATTGCGATAATTCTACC
* *
33858236 CTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT-
64 CTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTC
33858276 GCG-AATTCTA-CCTACAGGGTATTTCGGTAATTCTACCCTACAGGTATTGCGATAATTCTACCC
1 G-GTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGTATTGCGATAATTCTACCC
33858339 TACA
65 TACA
33858343 NNNNNNNNNN
Statistics
Matches: 246, Mismatches: 23, Indels: 33
0.81 0.08 0.11
Matches are distributed among these distances:
102 25 0.10
103 24 0.10
104 14 0.06
105 58 0.24
106 10 0.04
107 17 0.07
108 3 0.01
109 2 0.01
110 9 0.04
111 11 0.04
112 42 0.17
113 31 0.13
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (104 bp):
GGTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGTATTGCGATAATTCTACCCT
ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTC
Found at i:33858257 original size:139 final size:139
Alignment explanation
Indices: 33858018--33858275 Score: 378
Period size: 139 Copynumber: 1.9 Consensus size: 139
33858008 GTAATTCTAC
* *
33858018 CCTACAGGGGTATTTGGTATTTCTACCCTACAAGGGTATTCGGTAATTCTACCCTACAGGGGTAT
1 CCTACAGGGGTATTCGGTAATTCTACCCTACAAGGGTATTCGGTAATTCTACCCTACAGGGGTAT
* * *
33858083 TTCCGTTAATTCTACCCTACAGGTGTTGCGATAATTCTACCTTACAAGGGTATTTTTATAATTCT
66 TTCCGATAATTCTACCCTACAGGTATTGCGATAATTCTACCCTACAAGGGTATTTTTATAATTCT
33858148 ACATATCCT
131 ACATATCCT
*
33858157 CCTACAGGGGTATTCGGTAATTCTACCCTAC-ATGGTATTTCGGTAATTCTA-CCTACAGGGGTA
1 CCTACAGGGGTATTCGGTAATTCTACCCTACAAGGGTA-TTCGGTAATTCTACCCTACAGGGGTA
* * * *
33858220 -TTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATT
65 TTTCCGATAATTCTACCCTACA--GGTATTGCGATAATTCTACCCTACAAGGGTATT
33858276 GCGAATTCTA
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
137 19 0.18
138 17 0.16
139 70 0.66
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (139 bp):
CCTACAGGGGTATTCGGTAATTCTACCCTACAAGGGTATTCGGTAATTCTACCCTACAGGGGTAT
TTCCGATAATTCTACCCTACAGGTATTGCGATAATTCTACCCTACAAGGGTATTTTTATAATTCT
ACATATCCT
Found at i:33861499 original size:17 final size:17
Alignment explanation
Indices: 33861477--33861514 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
33861467 GTTTTTGGAA
33861477 TTATGTT-AGCATAAAGT
1 TTATGTTAAG-ATAAAGT
*
33861494 TTATGTTAAGATTAAGT
1 TTATGTTAAGATAAAGT
33861511 TTAT
1 TTAT
33861515 ATCCTTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (17 bp):
TTATGTTAAGATAAAGT
Found at i:33893773 original size:5 final size:5
Alignment explanation
Indices: 33893763--33893788 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33893753 TGAAATGGAA
33893763 ATGAT ATGAT ATGAT ATGAT ATGAT A
1 ATGAT ATGAT ATGAT ATGAT ATGAT A
33893789 AATTAGACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (5 bp):
ATGAT
Found at i:33898378 original size:6 final size:6
Alignment explanation
Indices: 33898367--33898403 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
33898357 ATTACTAATG
33898367 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
33898404 GGATTGTAGT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:33903049 original size:40 final size:40
Alignment explanation
Indices: 33902987--33903203 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
33902977 AAGCCAAGTA
* * * * *
33902987 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
33903026 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33903066 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33903106 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33903145 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33903185 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33903204 TTATCATCCA
Statistics
Matches: 163, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 52 0.32
40 111 0.68
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33903138 original size:79 final size:78
Alignment explanation
Indices: 33902987--33903200 Score: 288
Period size: 79 Copynumber: 2.7 Consensus size: 78
33902977 AAGCCAAGTA
* * * * * *
33902987 CCTTCGGGATTTA-ACCGGATATAGCTACTTGCTCGAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTAGCACAAATGCCTTCGGGACTTAG-CCGGATATAG
*
33903051 TAACTCGCACCAATG
64 TAACTCGCACAAATG
*
33903066 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
33903131 AACTCGCACAAATG
65 AACTCGCACAAATG
*
33903145 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTAGCACAAATGCCTTCGGGACTTAGCC
33903201 CGGTTATCAT
Statistics
Matches: 122, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
78 1 0.01
79 88 0.72
80 33 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTAGCACAAATGCCTTCGGGACTTAGCCGGATATAGTA
ACTCGCACAAATG
Found at i:33903198 original size:119 final size:119
Alignment explanation
Indices: 33902987--33903203 Score: 312
Period size: 119 Copynumber: 1.8 Consensus size: 119
33902977 AAGCCAAGTA
* * * *
33902987 CCTTCGGGATTTAACCGGATATAGCTACTTGCTCGAATGCCTTCGGGACATAGCCCGGATATAGT
1 CCTTCGGGACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
* *
33903052 AACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
33903106 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTAACCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TA
* *
33903169 GTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
64 GTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
33903204 TTATCATCCA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
118 2 0.02
119 84 0.98
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (119 bp):
CCTTCGGGACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33904487 original size:17 final size:17
Alignment explanation
Indices: 33904457--33904491 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33904447 ACATGAGAGC
* *
33904457 CTTTTTTTTTTTTTTTT
1 CTTTTCTTTCTTTTTTT
33904474 CTTTTCTTTCTTTTTTT
1 CTTTTCTTTCTTTTTTT
33904491 C
1 C
33904492 ATCATCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
CTTTTCTTTCTTTTTTT
Found at i:33911024 original size:40 final size:40
Alignment explanation
Indices: 33910962--33911176 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
33910952 AAGCCAAGTA
* * * *
33910962 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
33911001 CCTTCGGGACATAGCCCGGATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33911040 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33911080 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
33911120 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAG--CAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33911158 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33911177 TTATCATCCA
Statistics
Matches: 165, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 25 0.15
39 51 0.31
40 89 0.54
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33911095 original size:79 final size:78
Alignment explanation
Indices: 33910962--33911176 Score: 303
Period size: 79 Copynumber: 2.7 Consensus size: 78
33910952 AAGCCAAGTA
* * * *
33910962 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGC-CAAATGCCTTCGGGACTTAGCCCGGATATAG
33911026 TAACTCGCAC-AATG
64 TAACTCGCACAAATG
33911040 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGC-CAAATGCCTTCGGGACTTAGCCCGGATATAG
33911105 TAACTCGCACAAATG
64 TAACTCGCACAAATG
*
33911120 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAG-CAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCCAAATGCCTTCGGGACTTAGCCCGG
33911177 TTATCATCCA
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
78 38 0.30
79 56 0.44
80 32 0.25
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCCAAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTCGCACAAATG
Found at i:33912065 original size:27 final size:27
Alignment explanation
Indices: 33912027--33912082 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
33912017 CATTCAATTT
33912027 TGGTCATGGGTTACACAAAGAACTTAA
1 TGGTCATGGGTTACACAAAGAACTTAA
33912054 TGGTCATGGGTTACACAAAGAACTTAA
1 TGGTCATGGGTTACACAAAGAACTTAA
33912081 TG
1 TG
33912083 TCTAACTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (27 bp):
TGGTCATGGGTTACACAAAGAACTTAA
Found at i:33912479 original size:6 final size:6
Alignment explanation
Indices: 33912461--33912497 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
33912451 CATGAGAGCC
*
33912461 TTTCTT TTT-TT TTTCTT TTTCTT TCTC-T TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
33912498 TTCATCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 9 0.33
6 18 0.67
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:33912483 original size:17 final size:17
Alignment explanation
Indices: 33912461--33912497 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
33912451 CATGAGAGCC
* *
33912461 TTTCTTTTTTTTTTCTT
1 TTTCTTTCTCTTTTCTT
33912478 TTTCTTTCTCTTTTCTT
1 TTTCTTTCTCTTTTCTT
33912495 TTT
1 TTT
33912498 TTCATCATCA
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTCTTTCTCTTTTCTT
Found at i:33913971 original size:25 final size:25
Alignment explanation
Indices: 33913934--33914005 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
33913924 CTCTTTTAAT
*
33913934 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
33913959 ATCTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
33913984 AACTGGGGTAAAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
33914006 CACTTCCTCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:33914063 original size:10 final size:10
Alignment explanation
Indices: 33914050--33914088 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
33914040 ATATATGAAT
33914050 ATATCATGGC
1 ATATCATGGC
33914060 ATATCATGTGC
1 ATATCATG-GC
**
33914071 ATATCATATC
1 ATATCATGGC
33914081 ATATCATG
1 ATATCATG
33914089 TATAAAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:33914076 original size:21 final size:21
Alignment explanation
Indices: 33914050--33914089 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33914040 ATATATGAAT
*
33914050 ATATCATGGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
33914071 ATATCATATCATATCATGT
1 ATATCATAGCATATCATGT
33914090 ATAAAATAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:33914156 original size:25 final size:25
Alignment explanation
Indices: 33914128--33914175 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
33914118 ATAACATATC
*
33914128 CCTAGCGGTATAATGGTCATTTTTA
1 CCTAGCGGCATAATGGTCATTTTTA
*
33914153 CCTAGGGGCATAATGGTCATTTT
1 CCTAGCGGCATAATGGTCATTTT
33914176 CACATTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (25 bp):
CCTAGCGGCATAATGGTCATTTTTA
Found at i:33923632 original size:40 final size:40
Alignment explanation
Indices: 33923533--33923735 Score: 248
Period size: 40 Copynumber: 5.1 Consensus size: 40
33923523 TGGATGATAA
* * * * **
33923533 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
33923573 TCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
33923612 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
33923652 CTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * * * *
33923693 -CGGGCTATGCCCCGAAGGCATTTGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
33923732 CCGG
1 CCGG
33923736 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 34 0.24
40 104 0.74
41 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:33925169 original size:25 final size:24
Alignment explanation
Indices: 33925124--33925222 Score: 94
Period size: 25 Copynumber: 4.0 Consensus size: 24
33925114 TGCTTTATCA
**
33925124 TATAACTGGAGGCCTAG-CCTTTTT
1 TATAACTGG-GGCAAAGCCCTTTTT
33925148 TAATAACTGGGGCAAAGCCCTTTTT
1 T-ATAACTGGGGCAAAGCCCTTTTT
* * *
33925173 GATAAACTGGGGCACAGCCCTTTTCGG
1 TAT-AACTGGGGCAAAGCCCTTTT--T
33925200 TA-AACTGGGGCAAAGCCCTTTTT
1 TATAACTGGGGCAAAGCCCTTTTT
33925223 GCACTTCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
24 8 0.13
25 53 0.85
27 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
TATAACTGGGGCAAAGCCCTTTTT
Found at i:33925171 original size:24 final size:25
Alignment explanation
Indices: 33925139--33925223 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
33925129 CTGGAGGCCT
* *
33925139 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
*
33925163 AGCCCTTTTTGATAAACTGGGGCAC
1 AGCCCTTTTTGATAAACTGGGGCAA
* *
33925188 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
33925213 AGCCCTTTTTG
1 AGCCCTTTTTG
33925224 CACTTCCTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 11 0.21
25 42 0.79
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (25 bp):
AGCCCTTTTTGATAAACTGGGGCAA
Found at i:33928292 original size:17 final size:19
Alignment explanation
Indices: 33928250--33928293 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33928240 ATGGTATTTT
*
33928250 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
33928269 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
33928287 AA-TATTA
1 AATTATTA
33928294 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:33931308 original size:23 final size:26
Alignment explanation
Indices: 33931274--33931339 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 26
33931264 GACTCACCAT
33931274 AGCTC-ATAAGAGCTTACTG-TT-TC
1 AGCTCAATAAGAGCTTACTGTTTATC
* *
33931297 AGCTCAAT-AGAGTTTATTGTTTATC
1 AGCTCAATAAGAGCTTACTGTTTATC
*
33931322 AGCTCAGTAAGAGCTTAC
1 AGCTCAATAAGAGCTTAC
33931340 CGAACATGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
23 14 0.41
24 4 0.12
25 9 0.26
26 7 0.21
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (26 bp):
AGCTCAATAAGAGCTTACTGTTTATC
Found at i:33937289 original size:43 final size:41
Alignment explanation
Indices: 33937218--33937347 Score: 136
Period size: 43 Copynumber: 3.1 Consensus size: 41
33937208 CACAAAAGCT
* * *
33937218 CATACAATGCCATATCCCAGATATGGTCTTACATGTTATCA
1 CATACAATGCCATGTCCCAGACATGGTCTTACATGTAATCA
* * *
33937259 CATATCAATGCCACTGTCCCAGACAGGGTCTTACACGAAATCA
1 CATA-CAATGCCA-TGTCCCAGACATGGTCTTACATGTAATCA
* *
33937302 -ATTAACGATGTCAATGTCCCAGACATGGTCTTACATGTAATCA
1 CA-T-ACAATG-CCATGTCCCAGACATGGTCTTACATGTAATCA
33937345 CAT
1 CAT
33937348 CTCGATAACC
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
41 4 0.06
42 9 0.12
43 55 0.76
44 4 0.06
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (41 bp):
CATACAATGCCATGTCCCAGACATGGTCTTACATGTAATCA
Found at i:33938528 original size:21 final size:21
Alignment explanation
Indices: 33938502--33938545 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
33938492 TCAGATTTGT
33938502 TAAAACCGGGTTGTTACATGC
1 TAAAACCGGGTTGTTACATGC
*
33938523 TAAAACTGGGTTGTTACATGC
1 TAAAACCGGGTTGTTACATGC
33938544 TA
1 TA
33938546 TGACAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (21 bp):
TAAAACCGGGTTGTTACATGC
Found at i:33939710 original size:40 final size:40
Alignment explanation
Indices: 33939655--33939743 Score: 178
Period size: 40 Copynumber: 2.2 Consensus size: 40
33939645 TTCTCTCTTC
33939655 TTTAATAGTACCTAGTAGAATTGTTGTTCTGAAAAATATA
1 TTTAATAGTACCTAGTAGAATTGTTGTTCTGAAAAATATA
33939695 TTTAATAGTACCTAGTAGAATTGTTGTTCTGAAAAATATA
1 TTTAATAGTACCTAGTAGAATTGTTGTTCTGAAAAATATA
33939735 TTTAATAGT
1 TTTAATAGT
33939744 TGAGAATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (40 bp):
TTTAATAGTACCTAGTAGAATTGTTGTTCTGAAAAATATA
Found at i:33950413 original size:38 final size:38
Alignment explanation
Indices: 33950362--33950439 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
33950352 ATTAGGGTTG
* *
33950362 ATCCTCGAAAACTTGAAGTTGTTCTGGACTGGAGGCAT
1 ATCCTCGAAAACTTGAAGTTGTTATAGACTGGAGGCAT
33950400 ATCCTCGAAAACTTGAAGTTGTTATAGACTGGAGGCAT
1 ATCCTCGAAAACTTGAAGTTGTTATAGACTGGAGGCAT
33950438 AT
1 AT
33950440 AACACCCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (38 bp):
ATCCTCGAAAACTTGAAGTTGTTATAGACTGGAGGCAT
Found at i:33952539 original size:93 final size:93
Alignment explanation
Indices: 33952427--33952598 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
33952417 CGCCCATAAG
*
33952427 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
33952491 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
33952520 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33952585 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
33952599 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:33952593 original size:46 final size:46
Alignment explanation
Indices: 33952420--33952595 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
33952410 TGTAACCCGC
* *
33952420 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
33952466 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
33952516 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33952559 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33952596 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33960105 original size:93 final size:93
Alignment explanation
Indices: 33959993--33960164 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
33959983 CGCCCATAAG
*
33959993 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
33960057 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
33960086 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33960151 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
33960165 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:33960159 original size:46 final size:46
Alignment explanation
Indices: 33959986--33960161 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
33959976 TGTAACCCGC
* *
33959986 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
33960032 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
33960082 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
33960125 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
33960162 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33962726 original size:27 final size:26
Alignment explanation
Indices: 33962682--33962733 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
33962672 CTCGCTACAA
*
33962682 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
33962709 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
33962734 GCAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:33964170 original size:19 final size:19
Alignment explanation
Indices: 33964146--33964209 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
33964136 CTTTCTAGCT
33964146 TAGTAAGACCGTATGAAAA
1 TAGTAAGACCGTATGAAAA
* ** ***
33964165 TAGTAAAAGCTTTAT-AGCT
1 TAGTAAGA-CCGTATGAAAA
33964184 TAGTAAGACCGTATGAAAA
1 TAGTAAGACCGTATGAAAA
33964203 TAGTAAG
1 TAGTAAG
33964210 CAATTTATCA
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
18 4 0.13
19 23 0.74
20 4 0.13
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (19 bp):
TAGTAAGACCGTATGAAAA
Found at i:33964177 original size:38 final size:38
Alignment explanation
Indices: 33964133--33964208 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
33964123 AGGATAGGGT
*
33964133 AAGCTTTCTAGCTTAGTAAGACCGTATGAAAATAGTAA
1 AAGCTTTATAGCTTAGTAAGACCGTATGAAAATAGTAA
33964171 AAGCTTTATAGCTTAGTAAGACCGTATGAAAATAGTAA
1 AAGCTTTATAGCTTAGTAAGACCGTATGAAAATAGTAA
33964209 GCAATTTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (38 bp):
AAGCTTTATAGCTTAGTAAGACCGTATGAAAATAGTAA
Found at i:33964900 original size:115 final size:115
Alignment explanation
Indices: 33964698--33964928 Score: 408
Period size: 115 Copynumber: 2.0 Consensus size: 115
33964688 GAAACTACAC
33964698 TCATTAATATTTAATTTCATATTTTACACAGCCTTTAACTCAATTTCCACAATTTTTGATAGATT
1 TCATTAATATTTAATTTCATATTTTACACAGCCTTTAACTCAATTTCCACAATTTTTGATAGATT
*
33964763 TTGAAATTCATACAACTACTGCTGTCCAACACTGTTTTGGTGCAATATAA
66 TTCAAATTCATACAACTACTGCTGTCCAACACTGTTTTGGTGCAATATAA
* * *
33964813 TCATTAATATTTAATTTCATATTTTACTCAGCCTTTAACTCAATTTCCACAATTTTTGGTGGATT
1 TCATTAATATTTAATTTCATATTTTACACAGCCTTTAACTCAATTTCCACAATTTTTGATAGATT
* *
33964878 TTCAAATTTATACAACTGCTGCTGTCCAACACTGTTTTGGTGCAATATAA
66 TTCAAATTCATACAACTACTGCTGTCCAACACTGTTTTGGTGCAATATAA
33964928 T
1 T
33964929 GATAACTATC
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 110 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (115 bp):
TCATTAATATTTAATTTCATATTTTACACAGCCTTTAACTCAATTTCCACAATTTTTGATAGATT
TTCAAATTCATACAACTACTGCTGTCCAACACTGTTTTGGTGCAATATAA
Found at i:33966249 original size:20 final size:20
Alignment explanation
Indices: 33966224--33966262 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33966214 AAAATTTCAA
33966224 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
33966244 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
33966263 AATAGCCCCC
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:33969891 original size:40 final size:39
Alignment explanation
Indices: 33969854--33970030 Score: 189
Period size: 39 Copynumber: 4.5 Consensus size: 39
33969844 ATATCCGGAC
*
33969854 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
33969894 TAAGCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* *
33969933 TAAGTCCCGAAGGCATTCGTGCGAG-TCATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGGT
* * * *
33969973 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
33970012 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
33970031 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 65 0.55
40 54 0.45
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:33969943 original size:79 final size:78
Alignment explanation
Indices: 33969807--33970030 Score: 215
Period size: 79 Copynumber: 2.8 Consensus size: 78
33969797 TTGAATGCTG
* * * * * * *
33969807 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
33969870 TTGTGCGAG-A-TACAA
63 TTGTGCGAGCATTA-AA
* * *
33969885 GTTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 --TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCAT
*
33969949 TCGTGCGAGTCATTAAA
63 TTGTGCGAG-CATTAAA
* * *
33969966 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
33970031 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
79 88 0.72
80 28 0.23
81 4 0.03
82 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGCATTAAA
Found at i:33970048 original size:79 final size:80
Alignment explanation
Indices: 33969887--33970063 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
33969877 AGATACAAGT
* * *
33969887 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
33969951 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
33969966 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
33970030 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
33970045 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33970064 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:33977457 original size:80 final size:78
Alignment explanation
Indices: 33977373--33977544 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
33977363 GGACTAAGAT
*
33977373 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
33977436 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
33977453 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
33977518 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
33977532 CCGAAGGCATTTG
1 CCGAAGGCATTTG
33977545 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
79 38 0.47
80 37 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:33977535 original size:39 final size:39
Alignment explanation
Indices: 33977320--33977542 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
33977310 TTGAATGCTG
* * * * * *
33977320 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
33977360 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
33977400 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
33977440 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
33977480 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
33977519 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33977543 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 37 0.24
40 105 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:33977562 original size:79 final size:80
Alignment explanation
Indices: 33977400--33977577 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
33977390 AGATACAAGT
* * * *
33977400 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
33977465 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
33977480 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
33977544 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
33977559 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33977578 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:33981625 original size:26 final size:27
Alignment explanation
Indices: 33981594--33981653 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
33981584 CTGCCATGTT
33981594 CCTATGAGGTAAAAT-ACTAATATGCC
1 CCTATGAGGTAAAATGACTAATATGCC
*
33981620 CTTATGAGGTAAAATGACTAATATGCC
1 CCTATGAGGTAAAATGACTAATATGCC
33981647 CCTATGA
1 CCTATGA
33981654 TATGTATGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 14 0.45
27 17 0.55
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (27 bp):
CCTATGAGGTAAAATGACTAATATGCC
Found at i:33987803 original size:14 final size:14
Alignment explanation
Indices: 33987784--33987810 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33987774 TGATCAAGTA
33987784 AAATTAAATTAATC
1 AAATTAAATTAATC
33987798 AAATTAAATTAAT
1 AAATTAAATTAAT
33987811 ATGATATTTT
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:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTAAATTAATC
Found at i:33988269 original size:39 final size:37
Alignment explanation
Indices: 33988187--33988278 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 37
33988177 AAATATTGTT
33988187 TTAATAG-ATTTAATATTAAATTAAATTAAATACTTATC
1 TTAATAGTATTT--TATTAAATTAAATTAAATACTTATC
*
33988225 TTAATAGTATTTTATTAATTTAATATTAAAGTGA-TTATC
1 TTAATAGTATTTTATTAAATTAA-ATTAAA-T-ACTTATC
*
33988264 TTAATATTATATTTA
1 TTAATAGTAT-TTTA
33988279 ATCTAATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
37 10 0.21
38 13 0.28
39 19 0.40
40 5 0.11
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (37 bp):
TTAATAGTATTTTATTAAATTAAATTAAATACTTATC
Found at i:33988269 original size:68 final size:68
Alignment explanation
Indices: 33988196--33988329 Score: 182
Period size: 68 Copynumber: 2.0 Consensus size: 68
33988186 TTTAATAGAT
* *
33988196 TTAATATTAAATTAAAT-TAAATACTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTGA
1 TTAATATTAAATTAAATCT-AATACTTATCTTAATAAGTATTATATT-ATTTAATATTAAAGTAA
33988259 TTATC
64 TTATC
* * * *
33988264 TTAATATTATATTTAATCTAATATTTATCTTGATAAGTATTATATTATTTAATATTAAAGTAATT
1 TTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTATTTAATATTAAAGTAATT
33988329 A
66 A
33988330 AGTTTAATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
68 47 0.81
69 11 0.19
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (68 bp):
TTAATATTAAATTAAATCTAATACTTATCTTAATAAGTATTATATTATTTAATATTAAAGTAATT
ATC
Found at i:33990495 original size:38 final size:38
Alignment explanation
Indices: 33990442--33990595 Score: 173
Period size: 38 Copynumber: 3.8 Consensus size: 38
33990432 TTAACATGTA
*
33990442 TAACTGTGGCATATCCACTTAGCACCACGTTACATATT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATATT
* *
33990480 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCGATATAT
1 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATAT-T
* *
33990526 GTAACCGTGGCATATCCACTTAGCACCACGTTACACATA
1 -TAACCGTGGCATATCCACTTAGCACCACGTTACATATT
*
33990565 TAACCGTGGTATATCCACTTAGCACCACGTT
1 TAACCGTGGCATATCCACTTAGCACCACGTT
33990596 TTTCCATTTT
Statistics
Matches: 99, Mismatches: 8, Indels: 18
0.79 0.06 0.14
Matches are distributed among these distances:
38 56 0.57
39 1 0.01
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 4 0.04
46 2 0.02
47 27 0.27
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (38 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATATT
Found at i:33992004 original size:40 final size:40
Alignment explanation
Indices: 33991949--33992344 Score: 657
Period size: 40 Copynumber: 9.9 Consensus size: 40
33991939 CTCGCTGATG
*
33991949 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
33991989 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
33992029 ATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
33992069 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
33992109 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
33992149 ATCCAGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
33992189 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
33992229 ATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
33992269 ATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
** * *
33992309 ATCTAGGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
33992345 ATGTGTATTC
Statistics
Matches: 334, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 334 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:33992558 original size:25 final size:25
Alignment explanation
Indices: 33992508--33992558 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
33992498 TGTGTAACAA
* *
33992508 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
33992533 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
33992558 C
1 C
33992559 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:33996260 original size:45 final size:46
Alignment explanation
Indices: 33996163--33996271 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 46
33996153 AGCTTAAGAT
*
33996163 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTGAATATGTGATAAGGC
*
33996210 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGAATATGTGATAAGGC
*
33996255 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
33996272 AAAGTGTGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 27 0.47
46 6 0.11
47 24 0.42
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGAATATGTGATAAGGC
Found at i:33996424 original size:40 final size:39
Alignment explanation
Indices: 33996342--33996426 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 39
33996332 AAATGAATTG
* ** * *
33996342 TGCTGAGATTGCATCCGGGTTAGGGACCCGCTGGCTTCA
1 TGCTGGGATTGCATCCGGGTTAAAGACCCGCAGGCTTAA
* *
33996381 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGCATCCGGG-TTAAAGACCCGCAGGCTTAA
33996421 TGCTGG
1 TGCTGG
33996427 TGAATTAAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 17 0.45
40 21 0.55
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.28
Consensus pattern (39 bp):
TGCTGGGATTGCATCCGGGTTAAAGACCCGCAGGCTTAA
Found at i:34006570 original size:273 final size:273
Alignment explanation
Indices: 34006075--34006611 Score: 727
Period size: 273 Copynumber: 2.0 Consensus size: 273
34006065 TGTCCCGGTT
*
34006075 GAAGTCAAAAAGGGAAATTCAATGGATAAACCATGGCTTACATGACTTGAGATCCTGCATGTGTT
1 GAAGTCAAAAAGGGAAATTCAATGGATAAACCATGACTTACATGACTTGAGATCCTGCATGTGTT
*
34006140 CTAGAAAAGGATTTAGCAAGGACGAGCAATCCATTGATCTCAAATATAGGAAGGATCTAACCCGA
66 CTAGAAAAGAATTTAGCAAGGACGAGCAATCCATTGATCTCAAATATAGGAAGGATCTAACCCGA
* ** * *
34006205 AAGGGTATTCCTTGAGTGATTGAGCCTCTCAAAGAATATGTGTGCATTGTGGATTCAGCCCGGAC
131 AAGGGTATTCCATGACCGATCGAGCCTCTCAAAGAATATATGTGCATTGTGGATTCAGCCCGGAC
* *
34006270 GGGTAATTCGACTAGAGTCAAAATTTAGCCTAGACTGGTAATTCAGATCCGAGCTCACTACGGGT
196 GGGTAATCCGACTAGAGTCAAAATTTAGCCTAGACTGGTAATTCAGATCCAAGCTCACTACGGGT
34006335 GTTTGTCACTGTG
261 GTTTGTCACTGTG
** * *
34006348 GAAGTCAAAAAGGGAAATTTGATGGATATACCATGACTTATATGACTTGAGATCCTGCATGTGTT
1 GAAGTCAAAAAGGGAAATTCAATGGATAAACCATGACTTACATGACTTGAGATCCTGCATGTGTT
** * * ** * * *
34006413 GC-AGAAAAGAATTTAGCCCGGACGGGTAATTGATTTATCTCAAATATTGGAAGGATCTAGCCCA
66 -CTAGAAAAGAATTTAGCAAGGACGAGCAATCCATTGATCTCAAATATAGGAAGGATCTAACCC-
* * * * * *
34006477 GACA-GGTGTTGCATGACCGATCGAGCCTCTCGAAGAATATATGTGCATTGTGGATTTAGCTCGG
129 GAAAGGGTATTCCATGACCGATCGAGCCTCTCAAAGAATATATGTGCATTGTGGATTCAGCCCGG
* * ** * * *
34006541 ACGTGTAATCCGACTAGGGTCTGAATTTAGCCTGGACTGTTAATTCAGATCCAAGCTCACTATGG
194 ACGGGTAATCCGACTAGAGTCAAAATTTAGCCTAGACTGGTAATTCAGATCCAAGCTCACTACGG
34006606 GTGTTT
259 GTGTTT
34006612 TTCGCTGTAA
Statistics
Matches: 227, Mismatches: 35, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
273 223 0.98
274 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (273 bp):
GAAGTCAAAAAGGGAAATTCAATGGATAAACCATGACTTACATGACTTGAGATCCTGCATGTGTT
CTAGAAAAGAATTTAGCAAGGACGAGCAATCCATTGATCTCAAATATAGGAAGGATCTAACCCGA
AAGGGTATTCCATGACCGATCGAGCCTCTCAAAGAATATATGTGCATTGTGGATTCAGCCCGGAC
GGGTAATCCGACTAGAGTCAAAATTTAGCCTAGACTGGTAATTCAGATCCAAGCTCACTACGGGT
GTTTGTCACTGTG
Found at i:34014485 original size:45 final size:46
Alignment explanation
Indices: 34014406--34014542 Score: 127
Period size: 47 Copynumber: 3.0 Consensus size: 46
34014396 GACAGGACAG
* * *
34014406 GACAGAAATGAGCCATGTAAGTCCATATAG-ATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATAGAATATATGGCATTGGA
34014451 GACAGGAATGA-CCATGTAAGCCCAT-TAGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATAG--A-ATATATGGCATTGGA
* ** * * * * *
34014498 GACAGGAATAATTCATGTAAGTCCATGTCGAACACATGGCATTGG
1 GACAGGAATGAGCCATGTAAGCCCATATAGAATATATGGCATTGG
34014543 CAGGATATTG
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
43 3 0.04
44 13 0.17
45 10 0.13
46 12 0.16
47 25 0.32
48 12 0.16
49 2 0.03
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (46 bp):
GACAGGAATGAGCCATGTAAGCCCATATAGAATATATGGCATTGGA
Found at i:34014499 original size:47 final size:45
Alignment explanation
Indices: 34014406--34014506 Score: 132
Period size: 47 Copynumber: 2.2 Consensus size: 45
34014396 GACAGGACAG
* * *
34014406 GACAGAAATGAGCCATGTAAGTCCATATAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATAGATATATGGCATTGGA
*
34014451 GACAGGAATGA-CCATGTAAGCCCATTAGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCA-T--ATAGATATATGGCATTGGA
34014498 GACAGGAAT
1 GACAGGAAT
34014507 AATTCATGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 12 0.24
45 11 0.22
47 26 0.53
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (45 bp):
GACAGGAATGAGCCATGTAAGCCCATATAGATATATGGCATTGGA
Found at i:34021777 original size:33 final size:33
Alignment explanation
Indices: 34021738--34021800 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
34021728 TATATTAGAG
34021738 TTCATTTTTAGATTCAAGAATAAATTTTGTGTA
1 TTCATTTTTAGATTCAAGAATAAATTTTGTGTA
34021771 TTCATTTTTAGATTCAAGAATAAATTTTGT
1 TTCATTTTTAGATTCAAGAATAAATTTTGT
34021801 TTATCCACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.49
Consensus pattern (33 bp):
TTCATTTTTAGATTCAAGAATAAATTTTGTGTA
Found at i:34027389 original size:46 final size:46
Alignment explanation
Indices: 34027225--34027398 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
34027215 TGTAACCCGC
* * * *
34027225 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * * *
34027271 CCATGAGTGAACTCGGAATCAACTCAACGGGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
34027321 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
34027364 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
34027399 AATGCTCAAC
Statistics
Matches: 103, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:34027391 original size:93 final size:93
Alignment explanation
Indices: 34027232--34027403 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
34027222 CGCCCATAAG
* * *
34027232 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGAATCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
* *
34027297 ACGGGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGAATGCCTAGTTACATCTCA
* * *
34027325 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
34027390 ACGAGTTCGAATGC
66 ACGAGTTCGAATGC
34027404 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
ACGAGTTCGAATGCCTAGTTACATCTCA
Found at i:34029855 original size:27 final size:25
Alignment explanation
Indices: 34029816--34029878 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 25
34029806 ACACCCTAAT
34029816 AGATAAAATGACTATTATGCCTCTATG
1 AGAT-AAATGACTATTATGCC-CTATG
* *
34029843 TGATAGAATGACTGTTATGCCCTATG
1 AGATA-AATGACTATTATGCCCTATG
34029869 AGATAAATGA
1 AGATAAATGA
34029879 TTATATTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.16
26 10 0.31
27 17 0.53
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (25 bp):
AGATAAATGACTATTATGCCCTATG
Found at i:34031131 original size:281 final size:279
Alignment explanation
Indices: 34030575--34031132 Score: 793
Period size: 281 Copynumber: 2.0 Consensus size: 279
34030565 AAAAGATAAA
* * *
34030575 TGTTTATCAAAAATACCACAAATACGCAACCTATTTTAAAGACCTTCGACAAGAAATAACGTTTA
1 TGTTTATCAAAAATAACACAAATACACAACCTATTTTAAAGACCTTCGACAAGAAATAACATTTA
* *
34030640 ATAAATTAATGATATTTTAATATGATTAACTTTTTGTCGAACGACTTGCATTTTGGAAAATAAAA
66 AGAAATTAATGATATTTTAATATGATTAACTTTTTGTCAAACGACTTGCATTTTGGAAAATAAAA
* * *
34030705 GACACCTTAAAAACATCGTTAAGATCACAAAGAGGATAAATATAGAACGGTTTTTTTTCAATGAT
131 GACACCTTAAAAACATCATTAAGATCACAAAGAGGATAAATATAGAACGGTTTGTTTTCAACGAT
* * * ** * * *
34030770 AACTTACTTTACGAAAAACACTTCAATGTGGCATTGCCAGATTCAGCCATAATGTCCAGGCCAGG
196 AACTCACTTTACGAAAAACACTTCAACGTGACATCACCAGATCCAGCCATAACGTCCAAGCCAGG
* *
34030835 TTTGTGGTGTTACATTTGT
261 TTTGGGGTCTTACATTTGT
* * * *
34030854 TGTTTTTCAAAAATAACACAAATACACAACCTGTTTTAAAGAGCTTCCG-CATGAAATAACATTT
1 TGTTTATCAAAAATAACACAAATACACAACCTATTTTAAAGACCTT-CGACAAGAAATAACATTT
*
34030918 TAGAAATTAATGAT-TTTTAATATGATTAACTTTTT-TCCAAACGACTTGCATTTTGGAAAATAA
65 AAGAAATTAATGATATTTTAATATGATTAACTTTTTGT-CAAACGACTTGCATTTTGGAAAATAA
*
34030981 ACGAGACATCC-TAAAAACATCATTAAGATCACAAAGAGGTTAAATATAGAACGGGTTTGTTTTC
129 A--AGACA-CCTTAAAAACATCATTAAGATCACAAAGAGGATAAATATAGAAC-GGTTTGTTTTC
34031045 AACGATAACTCACTTTACGAAAAACACTTCAACGTGACATCACCAGATCCAGCCATAACGTCCAA
190 AACGATAACTCACTTTACGAAAAACACTTCAACGTGACATCACCAGATCCAGCCATAACGTCCAA
*
34031110 GTC-GGCTTTGGGGTCTTACATTT
255 GCCAGG-TTTGGGGTCTTACATTT
34031133 TTTTGTATTA
Statistics
Matches: 247, Mismatches: 25, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
277 1 0.00
278 47 0.19
279 66 0.27
280 48 0.19
281 85 0.34
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (279 bp):
TGTTTATCAAAAATAACACAAATACACAACCTATTTTAAAGACCTTCGACAAGAAATAACATTTA
AGAAATTAATGATATTTTAATATGATTAACTTTTTGTCAAACGACTTGCATTTTGGAAAATAAAA
GACACCTTAAAAACATCATTAAGATCACAAAGAGGATAAATATAGAACGGTTTGTTTTCAACGAT
AACTCACTTTACGAAAAACACTTCAACGTGACATCACCAGATCCAGCCATAACGTCCAAGCCAGG
TTTGGGGTCTTACATTTGT
Found at i:34037836 original size:22 final size:22
Alignment explanation
Indices: 34037793--34037837 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
34037783 CATATTGAAT
* *
34037793 ACATGAATGATATTATGACATG
1 ACATGAATGACATGATGACATG
34037815 ACATGACATGACATGATG-CATG
1 ACATGA-ATGACATGATGACATG
34037837 A
1 A
34037838 TATGTTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (22 bp):
ACATGAATGACATGATGACATG
Found at i:34038863 original size:30 final size:30
Alignment explanation
Indices: 34038822--34038884 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
34038812 TTTCATGTGA
*
34038822 CATTACATACTTTGATTCTTACCACTCTTT
1 CATTACATACTTTGATTCGTACCACTCTTT
*
34038852 CATTGCATACTTTGATTCGTACCACTCTTT
1 CATTACATACTTTGATTCGTACCACTCTTT
34038882 CAT
1 CAT
34038885 GCACATAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.27, G:0.06, T:0.44
Consensus pattern (30 bp):
CATTACATACTTTGATTCGTACCACTCTTT
Found at i:34041989 original size:42 final size:42
Alignment explanation
Indices: 34041938--34042050 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 42
34041928 TTGCACATAG
* *
34041938 GACCATGTCTGGGACATTGGCATTGTATCTGACTT-CGTGTAA
1 GACCCTGTCTGGGACATTGGCATTGTATCTGA-TTACATGTAA
* * * *
34041980 GACCCTGTCTGGGACAGTAGCATTGATGTTTGATTACATGTAA
1 GACCCTGTCTGGGACATTGGCATTG-TATCTGATTACATGTAA
* *
34042023 GACCAC-CTCTGAGACATTGGCATTGTAT
1 GACC-CTGTCTGGGACATTGGCATTGTAT
34042051 ATGTTCTCTA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.46
43 30 0.53
44 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
GACCCTGTCTGGGACATTGGCATTGTATCTGATTACATGTAA
Found at i:34057796 original size:47 final size:49
Alignment explanation
Indices: 34057724--34057988 Score: 199
Period size: 46 Copynumber: 5.7 Consensus size: 49
34057714 TGGATAAGGT
* * *
34057724 GCCGATGCTATGTCCTA-AACATGGTCTAACACTGGCTCAT-ATCTCA-A
1 GCCGATGCCATGTCCCAGAACATGGTCTTACACTGGCT-ATCATCTCATA
* *
34057771 GTCGATGCCATGTCCCAGAAC-TGGTCTTACACTGACTATCATCTCATA
1 GCCGATGCCATGTCCCAGAACATGGTCTTACACTGGCTATCATCTCATA
* *
34057819 GCCGATG-CATGTCCCAG-ACAT-GTCTTACACTGGCT-TACGTCTCGA-G
1 GCCGATGCCATGTCCCAGAACATGGTCTTACACTGGCTAT-CATCTC-ATA
* * * *
34057865 GCCGATG-GAGGTCCCA-AACAT-GTCTTACACTAG-TCTCATCTCAATA
1 GCCGATGCCATGTCCCAGAACATGGTCTTACACTGGCTATCATCTC-ATA
* * * * * *
34057911 -ACGATGCCATGTCCCAG-ACATGGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGAACATGGTCTTACACTGGCTATCAT-CTCATA
34057958 GCCGATG-CATGTCCCAG-ACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGAACATGGTCTTACACT
34057989 AGCCAACAAT
Statistics
Matches: 178, Mismatches: 25, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
45 13 0.07
46 72 0.40
47 71 0.40
48 21 0.12
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGAACATGGTCTTACACTGGCTATCATCTCATA
Found at i:34057962 original size:93 final size:91
Alignment explanation
Indices: 34057794--34057990 Score: 229
Period size: 93 Copynumber: 2.1 Consensus size: 91
34057784 CCCAGAACTG
* * *
34057794 GTCTTACACTGACTATCATCTCATAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGT
1 GTCTTACACT-AGTATCATCTCATAGACGATGCATGTCCCAGACATGTCTTACACTGGCTTACAT
* *
34057859 CTCGAGGCCGATGGAGGTCCCAAACAT
65 ATCGAGGCCGATGCAGGTCCCAAACAT
* *
34057886 GTCTTACACTAGTCTCATCTCAATA-ACGATGCCATGTCCCAGACATGGTCTTACATTGGCTCT-
1 GTCTTACACTAGTATCATCTC-ATAGACGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TA
* * *
34057949 CATAAT-GTGGCCGATGCATGTCCCAGACAT
62 CAT-ATCGAGGCCGATGCAGGTCCCAAACAT
34057979 GTCTTACACTAG
1 GTCTTACACTAG
34057991 CCAACAATAG
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
91 14 0.16
92 27 0.30
93 47 0.52
94 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (91 bp):
GTCTTACACTAGTATCATCTCATAGACGATGCATGTCCCAGACATGTCTTACACTGGCTTACATA
TCGAGGCCGATGCAGGTCCCAAACAT
Found at i:34060259 original size:34 final size:34
Alignment explanation
Indices: 34060221--34060288 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
34060211 AAGAAAGAAT
34060221 TTTTAGAACTCAAGTAGAGAAATATGACTGTGTC
1 TTTTAGAACTCAAGTAGAGAAATATGACTGTGTC
*
34060255 TTTTAGAACTCAAGTAGAGAAATATGATTGTGTC
1 TTTTAGAACTCAAGTAGAGAAATATGACTGTGTC
34060289 CGAACAGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (34 bp):
TTTTAGAACTCAAGTAGAGAAATATGACTGTGTC
Found at i:34060562 original size:31 final size:31
Alignment explanation
Indices: 34060524--34060587 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
34060514 AAAAAGAACT
34060524 ATGAGTAAGTCACAATCATTTGCTTCTAATA
1 ATGAGTAAGTCACAATCATTTGCTTCTAATA
*
34060555 ATGAGTAAGTCACAATCATTTTCTTCTAATA
1 ATGAGTAAGTCACAATCATTTGCTTCTAATA
34060586 AT
1 AT
34060588 TACAGAAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (31 bp):
ATGAGTAAGTCACAATCATTTGCTTCTAATA
Found at i:34061853 original size:37 final size:37
Alignment explanation
Indices: 34061794--34061902 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
34061784 AGCTCAGACG
* *
34061794 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
34061831 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
34061868 TAATCTCCACACGTAGTCATCGTGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
34061903 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:34062083 original size:48 final size:48
Alignment explanation
Indices: 34061961--34062299 Score: 538
Period size: 48 Copynumber: 7.0 Consensus size: 48
34061951 CATCGACTGT
*
34061961 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATA
* *
34062011 TATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATA
1 CATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATA
*
34062059 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTCATATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATA
* * *
34062109 TATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCATA
1 CATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATA
34062157 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
*
34062205 CATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
34062253 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
34062300 GTATACACAT
Statistics
Matches: 268, Mismatches: 15, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
48 182 0.68
49 4 0.01
50 82 0.31
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
Found at i:34062135 original size:98 final size:98
Alignment explanation
Indices: 34061961--34062304 Score: 595
Period size: 98 Copynumber: 3.5 Consensus size: 98
34061951 CATCGACTGT
*
34061961 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGA
34062026 CCATTCGGCTTTACCACATATGCATATCTCATA
66 CCATTCGGCTTTACCACATATGCATATCTCATA
*
34062059 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTCATATATATATTTCACATTGA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGA
*
34062124 CCATTCAGCTTTACCACATATGCATATCTCATA
66 CCATTCGGCTTTACCACATATGCATATCTCATA
*
34062157 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT-A
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGA
* *
34062219 GCCATTTGGCTTTACCACATATACATATCTCATA
66 -CCATTCGGCTTTACCACATATGCATATCTCATA
*
34062253 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATGTATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
34062305 CACATTCACA
Statistics
Matches: 233, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
95 1 0.00
96 90 0.39
98 142 0.61
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (98 bp):
CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGA
CCATTCGGCTTTACCACATATGCATATCTCATA
Found at i:34092947 original size:40 final size:40
Alignment explanation
Indices: 34092900--34093083 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
34092890 CTCGTACAAG
* * *
34092900 GCCTTCGGGTTTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
34092940 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
34092980 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
34093020 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
34093060 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
34093084 CATTCGAATA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:34092995 original size:80 final size:79
Alignment explanation
Indices: 34092864--34093083 Score: 257
Period size: 80 Copynumber: 2.8 Consensus size: 79
34092854 ACCCAAGTAT
* * * * * * *
34092864 CTTCGGGATTTAGCCGGATATAACCACTCGTAC-AAGGCCTTCGGGTTTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
34092928 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
34092942 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
*
34093007 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* * *
34093022 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
34093084 CATTCGAATA
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 12 0.10
79 20 0.16
80 90 0.74
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:34093043 original size:120 final size:118
Alignment explanation
Indices: 34092864--34093083 Score: 325
Period size: 120 Copynumber: 1.8 Consensus size: 118
34092854 ACCCAAGTAT
* * * * *
34092864 CTTCGGGATTTAGCCGGATATAACCACTCGTACAAGGCCTTCGGGTTTTAGCCCGGATATGGTCA
1 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
*
34092929 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
66 CTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
* * *
34092982 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAG
1 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAG
34093046 TCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
63 TCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
34093084 CATTCGAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
117 1 0.01
118 11 0.12
119 17 0.19
120 61 0.68
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (118 bp):
CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
CTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
Found at i:34095543 original size:55 final size:55
Alignment explanation
Indices: 34095459--34095568 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
34095449 GTCCAAAACA
34095459 AATGGTGTACGGCATTTTCGACCGTACAAAGCCTCGTAAGGTGCCATCTTAATAC
1 AATGGTGTACGGCATTTTCGACCGTACAAAGCCTCGTAAGGTGCCATCTTAATAC
*
34095514 AATGGTGTACGGCATTTTCGACCGTACAAAGCCTCGTAAGGTGTCATCTTAATAC
1 AATGGTGTACGGCATTTTCGACCGTACAAAGCCTCGTAAGGTGCCATCTTAATAC
34095569 TTGATTGAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (55 bp):
AATGGTGTACGGCATTTTCGACCGTACAAAGCCTCGTAAGGTGCCATCTTAATAC
Found at i:34096649 original size:26 final size:27
Alignment explanation
Indices: 34096611--34096791 Score: 190
Period size: 26 Copynumber: 6.7 Consensus size: 27
34096601 GCACTTCTAA
*
34096611 ATGTACGCACTAAGTGTGCGATTTGACT
1 ATGTA-GCACTAAGTGTGCGAATTGACT
* *
34096639 ATGT-GCACTAAGTGTGCGAAATGAAT
1 ATGTAGCACTAAGTGTGCGAATTGACT
*
34096665 ATG-ATGCACTAAGTGTGCGAATTGACC
1 ATGTA-GCACTAAGTGTGCGAATTGACT
* *
34096692 ATG-CGCACTAAGTTGTGCGAGTTTGACT
1 ATGTAGCACTAAG-TGTGCGA-ATTGACT
*
34096720 ATGTAGCACTAAGTGTGCG-ATTGATT
1 ATGTAGCACTAAGTGTGCGAATTGACT
* * *
34096746 ACGTAGCACTAAGTGTGCGAGTTGATT
1 ATGTAGCACTAAGTGTGCGAATTGACT
* *
34096773 ATATAGCACTGAGTGTGCG
1 ATGTAGCACTAAGTGTGCG
34096792 GACTCATATA
Statistics
Matches: 130, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
26 53 0.41
27 51 0.39
28 18 0.14
29 8 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
ATGTAGCACTAAGTGTGCGAATTGACT
Found at i:34096684 original size:53 final size:53
Alignment explanation
Indices: 34096617--34096791 Score: 194
Period size: 53 Copynumber: 3.3 Consensus size: 53
34096607 CTAAATGTAC
*
34096617 GCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGA-TTGACTATGTGCACTAAGTGTGCGAATTGAATATGATA
* * * *
34096670 GCACTAAGTGTGCGAATTGACCATGCGCACTAAGTTGTGCGAGTTTGACTATG-TA
1 GCACTAAGTGTGCG-ATTGACTATGTGCACTAAG-TGTGCGA-ATTGAATATGATA
* * * *
34096725 GCACTAAGTGTGCGATTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-ATA
1 GCACTAAGTGTGCGATTGACTATGT-GCACTAAGTGTGCGAATTGAATATGATA
*
34096778 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
34096792 GACTCATATA
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
53 52 0.50
54 23 0.22
55 29 0.28
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
GCACTAAGTGTGCGATTGACTATGTGCACTAAGTGTGCGAATTGAATATGATA
Done.