Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 180 of 318
Found at i:55935535 original size:30 final size:30
Alignment explanation
Indices: 55935494--55935556 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
55935484 AATCGGAAGT
* *
55935494 TTTGGCACTAAGTGTGTAATTTAAACTAGC
1 TTTGACACTAAGTGTGCAATTTAAACTAGC
*
55935524 TTTGACACTAAGTGTGCGATTTAAACTAGC
1 TTTGACACTAAGTGTGCAATTTAAACTAGC
55935554 TTT
1 TTT
55935557 AGCTACTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (30 bp):
TTTGACACTAAGTGTGCAATTTAAACTAGC
Found at i:55936815 original size:21 final size:23
Alignment explanation
Indices: 55936788--55936837 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
55936778 GTAGTGATGA
* *
55936788 AGAAAAATGTTGTTTTG-AAGAG
1 AGAAAAATGGTGTTTGGCAAGAG
55936810 -GAAAAATGGTGTTTGGCAAGAG
1 AGAAAAATGGTGTTTGGCAAGAG
55936832 AGAAAA
1 AGAAAA
55936838 TGAGAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 14 0.58
22 5 0.21
23 5 0.21
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (23 bp):
AGAAAAATGGTGTTTGGCAAGAG
Found at i:55940857 original size:22 final size:22
Alignment explanation
Indices: 55940827--55940871 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
55940817 ATTGTATGAT
*
55940827 TTATGAAT-GCATGATAATTGCA
1 TTATGAATGGCATGA-AAATGCA
*
55940849 TTATTAATGGCATGAAAATGCA
1 TTATGAATGGCATGAAAATGCA
55940871 T
1 T
55940872 GAAATGCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (22 bp):
TTATGAATGGCATGAAAATGCA
Found at i:55943186 original size:40 final size:40
Alignment explanation
Indices: 55943131--55943298 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
55943121 TGAATGATAC
* *
55943131 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
55943171 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
55943211 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * * * *
55943251 CCAGGTTAAGACCCGAAGGCAATTGTGCTTGCGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
55943291 CC-GGCTAA
1 CCGGGCTAA
55943299 ATTCCAAAGA
Statistics
Matches: 104, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 6 0.06
40 96 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:55943288 original size:80 final size:80
Alignment explanation
Indices: 55943131--55943298 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 80
55943121 TGAATGATAC
* * ** * *
55943131 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCAGGCTAAGACCCGAAGGCATTCG
**
55943196 TGCGAGTTGTTATAT
66 TGCGAGCGGTTATAT
* * *
55943211 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCAGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCAGGCTAAGACCCGAAGGC-ATTC
**
55943275 GTGCTTGCGGTTATAT
65 GTGCGAGCGGTTATAT
55943291 CC-GGCTAA
1 CCGGGCTAA
55943299 ATTCCAAAGA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
79 6 0.08
80 65 0.88
81 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCAGGCTAAGACCCGAAGGCATTCG
TGCGAGCGGTTATAT
Found at i:55948953 original size:20 final size:22
Alignment explanation
Indices: 55948924--55948968 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
55948914 CCCATACCCT
55948924 AATTTCTGAAATT-C-TTGATG
1 AATTTCTGAAATTCCATTGATG
* *
55948944 AATTTTTGAATTTCCATTGATG
1 AATTTCTGAAATTCCATTGATG
55948966 AAT
1 AAT
55948969 GCTTGAGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 1 0.05
22 9 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (22 bp):
AATTTCTGAAATTCCATTGATG
Found at i:55949703 original size:43 final size:44
Alignment explanation
Indices: 55949609--55949706 Score: 112
Period size: 43 Copynumber: 2.2 Consensus size: 44
55949599 TGTAAGCCCT
*
55949609 TGTCTGGGACATTGGCATTGTATATGAGATTACGTGTAAGACCA
1 TGTCTGGGACATTGGCATTGTATATGAGATTACGTGTAAAACCA
* * * *
55949653 TGCCTGGGACATTGGCATCAT-TA-AT-CGATTTCGTGTAAAACCC
1 TGTCTGGGACATTGGCAT--TGTATATGAGATTACGTGTAAAACCA
55949696 TGTCTGGGACA
1 TGTCTGGGACA
55949707 GCGACATCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
43 24 0.52
44 19 0.41
45 2 0.04
46 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (44 bp):
TGTCTGGGACATTGGCATTGTATATGAGATTACGTGTAAAACCA
Found at i:55950908 original size:227 final size:227
Alignment explanation
Indices: 55950508--55950950 Score: 697
Period size: 227 Copynumber: 2.0 Consensus size: 227
55950498 TATTTAATAG
*
55950508 TCATATGAGATTGATGATTTTAGCATATTGATTTAGTATGTTTTGAATAAGGATTTAAGTATTAA
1 TCATATGAGATTGATGATTTTAGCATATTGATTTAGTATGTTTTGAATAAGGATTTAAGTAGTAA
* *
55950573 AATGGTTGATTATGAAATGGCATGAAATGTTTGTGAATTGGCATGTTTTTGCTGCCCATATTTGT
66 AATGGTTGATTATAAAATGGCATGAAATGTTTGTGAATTGGCATGTCTTTGCTGCCCATATTTGT
* * * * * *
55950638 GTTGAAATGATACCATAGTGATGGCTAGGTGAGTATGAGAAAAGGGAGGCAAATTGGCCTTATAA
131 GATGAAATGATACCATAGTGACGGCTAAGTGAGCATGAGAAAAGGGAGGCAAATTGGCATTACAA
* *
55950703 ATGGCTTATTTTTGTCGACACAGGCATGTGTC
196 ATGGCCTATTTTTGTCCACACAGGCATGTGTC
* *
55950735 TCATGTGAGATTGATGATTTTAGCATATTGGTTTAGTATGTTTTGAATAAGGATTTAAGTAGTAA
1 TCATATGAGATTGATGATTTTAGCATATTGATTTAGTATGTTTTGAATAAGGATTTAAGTAGTAA
* *
55950800 AATTGTTGATTATAAAATGGCATGAAATTTTTGTGAATTGGCATGTCTTTGCTGCCCATATTTGT
66 AATGGTTGATTATAAAATGGCATGAAATGTTTGTGAATTGGCATGTCTTTGCTGCCCATATTTGT
* ** * * *
55950865 GATGAAATTATACCATTTTGACGGCTAAGTGAGCATGAGAAAAGGGTGGCAAATTGGCATTGCGA
131 GATGAAATGATACCATAGTGACGGCTAAGTGAGCATGAGAAAAGGGAGGCAAATTGGCATTACAA
55950930 ATGGCCTATTTTTGTCCACAC
196 ATGGCCTATTTTTGTCCACAC
55950951 GGGTAGAGAC
Statistics
Matches: 195, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
227 195 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (227 bp):
TCATATGAGATTGATGATTTTAGCATATTGATTTAGTATGTTTTGAATAAGGATTTAAGTAGTAA
AATGGTTGATTATAAAATGGCATGAAATGTTTGTGAATTGGCATGTCTTTGCTGCCCATATTTGT
GATGAAATGATACCATAGTGACGGCTAAGTGAGCATGAGAAAAGGGAGGCAAATTGGCATTACAA
ATGGCCTATTTTTGTCCACACAGGCATGTGTC
Found at i:55963195 original size:17 final size:17
Alignment explanation
Indices: 55963173--55963206 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
55963163 CCAAACCTAA
55963173 TTCATCAAATCACATTT
1 TTCATCAAATCACATTT
55963190 TTCATCAAATCACATTT
1 TTCATCAAATCACATTT
55963207 CTACTACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (17 bp):
TTCATCAAATCACATTT
Found at i:55970480 original size:44 final size:44
Alignment explanation
Indices: 55970417--55970504 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
55970407 TACAAAATAG
*
55970417 TAGGAAATGGACCTAATCGTCAATAACCTTGTTCTTCCCCCGAT
1 TAGGAAATGAACCTAATCGTCAATAACCTTGTTCTTCCCCCGAT
*
55970461 TAGGAAATGAACCTAATCGTCAATAACCTTGTTCTTCCCTCGAT
1 TAGGAAATGAACCTAATCGTCAATAACCTTGTTCTTCCCCCGAT
55970505 CAAGGTCTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
TAGGAAATGAACCTAATCGTCAATAACCTTGTTCTTCCCCCGAT
Found at i:55983203 original size:40 final size:40
Alignment explanation
Indices: 55983136--55983238 Score: 165
Period size: 40 Copynumber: 2.6 Consensus size: 40
55983126 ACCCAAGTAT
*
55983136 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCGCAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
*
55983175 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
55983215 CTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGTCTTAGCCCGGATATAA
55983239 TCACTAGCAT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
38 1 0.02
39 11 0.19
40 47 0.80
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:55984757 original size:29 final size:28
Alignment explanation
Indices: 55984723--55984825 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
55984713 TACTCAATCA
*
55984723 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
55984752 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
55984781 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
55984810 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
55984826 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:55992775 original size:29 final size:28
Alignment explanation
Indices: 55992741--55992843 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
55992731 TACTCAATCA
*
55992741 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
55992770 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
55992799 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
55992828 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
55992844 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:56002998 original size:19 final size:20
Alignment explanation
Indices: 56002974--56003042 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 20
56002964 AAAACAATCA
56002974 ATTAAAAAAAT-TTAAAATT
1 ATTAAAAAAATATTAAAATT
*
56002993 ATT-AAAACATATTAAAATT
1 ATTAAAAAAATATTAAAATT
*
56003012 -TTATAAAAATGTATTAAAATT
1 ATTA-AAAAA-ATATTAAAATT
*
56003033 CTATAAAAAA
1 AT-TAAAAAA
56003043 TCATAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 8 0.20
19 11 0.27
20 4 0.10
21 10 0.24
22 6 0.15
23 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
ATTAAAAAAATATTAAAATT
Found at i:56003020 original size:21 final size:21
Alignment explanation
Indices: 56002976--56003042 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
56002966 AACAATCAAT
56002976 TAAAAAAAT-TTAAAA--TTA
1 TAAAAAAATATTAAAATTTTA
* *
56002994 TTAAAACATATTAAAATTTTA
1 TAAAAAAATATTAAAATTTTA
** *
56003015 TAAAAATGTATTAAAATTCTA
1 TAAAAAAATATTAAAATTTTA
56003036 TAAAAAA
1 TAAAAAA
56003043 TCATAAAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 7 0.18
19 6 0.15
21 26 0.67
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (21 bp):
TAAAAAAATATTAAAATTTTA
Found at i:56003627 original size:10 final size:10
Alignment explanation
Indices: 56003612--56003653 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
56003602 TAGATTTTTT
56003612 ATATTTTATA
1 ATATTTTATA
56003622 ATA-TTTATA
1 ATATTTTATA
* *
56003631 AGTTTTTTTTA
1 A-TATTTTATA
56003642 ATATTTTATA
1 ATATTTTATA
56003652 AT
1 AT
56003654 TTTAGTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.27
10 13 0.50
11 6 0.23
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
ATATTTTATA
Found at i:56003627 original size:19 final size:19
Alignment explanation
Indices: 56003587--56003627 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
56003577 TAATTTTATT
*
56003587 TTTTTTATAATTTATTAGA
1 TTTTTTATAATTTATAAGA
* *
56003606 TTTTTTATATTTTATAATA
1 TTTTTTATAATTTATAAGA
56003625 TTT
1 TTT
56003628 ATAAGTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTTATAATTTATAAGA
Found at i:56003627 original size:28 final size:28
Alignment explanation
Indices: 56003572--56003657 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 28
56003562 TTAAATAAGT
*
56003572 TTTATTA-ATTTTATT-TTTTTTAT-A-A
1 TTTATTAGATTTT-TTATATTTTATAATA
56003597 TTTATTAGATTTTTTATATTTTATAATA
1 TTTATTAGATTTTTTATATTTTATAATA
* *
56003625 TTTATAAGTTTTTTTTAATATTTTATAAT-
1 TTTATTAG-ATTTTTT-ATATTTTATAATA
56003654 TTTA
1 TTTA
56003658 GTAAGTTTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
25 9 0.17
26 12 0.23
27 1 0.02
28 8 0.15
29 10 0.19
30 12 0.23
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTATTAGATTTTTTATATTTTATAATA
Found at i:56003640 original size:30 final size:30
Alignment explanation
Indices: 56003606--56003665 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
56003596 ATTTATTAGA
56003606 TTTTTT-ATATTTTATAATATTTA-TAAGTT
1 TTTTTTAATATTTTATAAT-TTTAGTAAGTT
56003635 TTTTTTAATATTTTATAATTTTAGTAAGTT
1 TTTTTTAATATTTTATAATTTTAGTAAGTT
56003665 T
1 T
56003666 ATATCAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (30 bp):
TTTTTTAATATTTTATAATTTTAGTAAGTT
Found at i:56003643 original size:20 final size:20
Alignment explanation
Indices: 56003615--56003656 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
56003605 ATTTTTTATA
56003615 TTTTATAATA-TTTATAAGTT
1 TTTTATAATATTTTATAA-TT
*
56003635 TTTTTTAATATTTTATAATT
1 TTTTATAATATTTTATAATT
56003655 TT
1 TT
56003657 AGTAAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATAATATTTTATAATT
Found at i:56008987 original size:31 final size:33
Alignment explanation
Indices: 56008927--56008988 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
56008917 AGAATAAGCT
56008927 TGAAATTGTTAATATAATTTGGTTAGTTTAAAA
1 TGAAATTGTTAATATAATTTGGTTAGTTTAAAA
*
56008960 TGAAA-TGTTTATAT-ATTTGAGTT-GTTTAA
1 TGAAATTGTTAATATAATTTG-GTTAGTTTAA
56008989 TTGCTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 11 0.41
32 11 0.41
33 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (33 bp):
TGAAATTGTTAATATAATTTGGTTAGTTTAAAA
Found at i:56010715 original size:43 final size:41
Alignment explanation
Indices: 56010658--56010769 Score: 118
Period size: 43 Copynumber: 2.7 Consensus size: 41
56010648 CCATATCCCA
**
56010658 AATATGGTCTTACATGGGATCTCAAATCAATGTCAATAGCCC
1 AATATGGTCTTACATGAAATCTCAAATCAATG-CAATAGCCC
* * * *
56010700 AACTATGGTCTTACATGAAATCTCATATCGATGCCATATCCC
1 AA-TATGGTCTTACATGAAATCTCAAATCAATGCAATAGCCC
*
56010742 AGATATGGTCTTACACGTAAA-CTCAAAT
1 A-ATATGGTCTTACATG-AAATCTCAAAT
56010770 AACCCTAATG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (41 bp):
AATATGGTCTTACATGAAATCTCAAATCAATGCAATAGCCC
Found at i:56014927 original size:24 final size:24
Alignment explanation
Indices: 56014877--56014930 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
56014867 AATCGAATTT
*
56014877 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
56014901 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
56014925 GCACAC
1 GCACAC
56014931 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:56020661 original size:47 final size:47
Alignment explanation
Indices: 56020589--56020888 Score: 449
Period size: 47 Copynumber: 6.3 Consensus size: 47
56020579 CCCTTCGGGA
* * * * * * *
56020589 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56020636 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56020683 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56020730 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56020777 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
56020826 CTTATCACATATATACACACTTTCACATTCAT-ACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
56020874 CTTATCACATATATA
1 CTTATCACATATATA
56020889 TATCTCATAC
Statistics
Matches: 238, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 142 0.60
48 30 0.13
49 65 0.27
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56020667 original size:25 final size:25
Alignment explanation
Indices: 56020639--56020717 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
56020629 ACTCGGCCCT
*
56020639 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
56020664 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
56020686 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
56020711 ATCACAT
1 ATCACAT
56020718 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:56027583 original size:24 final size:24
Alignment explanation
Indices: 56027533--56027586 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
56027523 AATCGAATTT
*
56027533 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
56027557 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
56027581 GCACAC
1 GCACAC
56027587 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:56034198 original size:46 final size:46
Alignment explanation
Indices: 56034148--56034323 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
56034138 TGGTTGAGCA
*
56034148 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
56034194 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
56034241 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
56034287 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56034324 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56034304 original size:93 final size:93
Alignment explanation
Indices: 56034145--56034315 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
56034135 GGATGGTTGA
* * *
56034145 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
56034210 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
56034238 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
56034303 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56034316 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56035824 original size:23 final size:23
Alignment explanation
Indices: 56035790--56035841 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
56035780 CCTGATATAT
*
56035790 GGCTCTTCATGAGCTTCTCGATA
1 GGCTCTTCATGAGCTTCCCGATA
*
56035813 GGCTCTTTATGAGCTTCCCGATA
1 GGCTCTTCATGAGCTTCCCGATA
56035836 GTGCTC
1 G-GCTC
56035842 GCTTGAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.35
Consensus pattern (23 bp):
GGCTCTTCATGAGCTTCCCGATA
Found at i:56036344 original size:46 final size:46
Alignment explanation
Indices: 56036292--56036473 Score: 229
Period size: 46 Copynumber: 4.0 Consensus size: 46
56036282 AGTGTACTCT
* *
56036292 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
56036338 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGACATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
56036384 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
56036430 ATGACAGAAAACGAGTAAGACCATAGTTGAAAAATACTATGGCA
1 CTGACATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
56036474 TCATGTCGAA
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGACATAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:56040432 original size:46 final size:46
Alignment explanation
Indices: 56040382--56040473 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
56040372 GATAGTTTTT
56040382 TTTTTTGTCTC-GAAAGTGATCACTAC-AACTCTCTCTACTAGACAAG
1 TTTTTTGTC-CAGAAAGTGATCACTACTAA-TCTCTCTACTAGACAAG
* * *
56040428 TTTTTTGTCCAGGAAGTGATTACTACTAATGTCTCTACTAGACAAG
1 TTTTTTGTCCAGAAAGTGATCACTACTAATCTCTCTACTAGACAAG
56040474 AGTTAAGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
45 1 0.02
46 38 0.93
47 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (46 bp):
TTTTTTGTCCAGAAAGTGATCACTACTAATCTCTCTACTAGACAAG
Found at i:56041698 original size:58 final size:57
Alignment explanation
Indices: 56041636--56041750 Score: 133
Period size: 58 Copynumber: 2.0 Consensus size: 57
56041626 GAATGAGTGG
* * *
56041636 AAAGTGAATGGGGTTGAAGTTTTTTTTAA-TTCCGCTCAACTTTTAATCTGTTAAGTTA
1 AAAGTGAATGGGGTTGAAGATTTTTGTAACTT-CGCTCAACTTTTAATCT-ATAAGTTA
* * * * *
56041694 AAAGTTATTGGGGTTTAAGATTTTTGTAACTTCGTTTAACTTTTAATCTATAAGTTA
1 AAAGTGAATGGGGTTGAAGATTTTTGTAACTTCGCTCAACTTTTAATCTATAAGTTA
56041751 GATGCTAGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
57 7 0.15
58 39 0.81
59 2 0.04
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (57 bp):
AAAGTGAATGGGGTTGAAGATTTTTGTAACTTCGCTCAACTTTTAATCTATAAGTTA
Found at i:56045972 original size:20 final size:22
Alignment explanation
Indices: 56045928--56045972 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
56045918 TTTAATAAAT
* *
56045928 AAATGAATAAATAAATACTATA
1 AAATGAATAAATAAAAACTAGA
56045950 AAATGAA-AAA-AAAAACTAGA
1 AAATGAATAAATAAAAACTAGA
56045970 AAA
1 AAA
56045973 GTAAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 3 0.14
22 7 0.33
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.18
Consensus pattern (22 bp):
AAATGAATAAATAAAAACTAGA
Found at i:56050223 original size:24 final size:24
Alignment explanation
Indices: 56050194--56050244 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
56050184 AACACATTAT
* *
56050194 ATACAAACATAGCATTCAATTAAC
1 ATACAAACACAACATTCAATTAAC
56050218 ATACAAACACAACATTCAATTAAC
1 ATACAAACACAACATTCAATTAAC
56050242 ATA
1 ATA
56050245 ATTACATGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.22, G:0.02, T:0.24
Consensus pattern (24 bp):
ATACAAACACAACATTCAATTAAC
Found at i:56056602 original size:29 final size:29
Alignment explanation
Indices: 56056543--56056639 Score: 155
Period size: 29 Copynumber: 3.4 Consensus size: 29
56056533 AGTAAGTCCA
*
56056543 CACACTTAGTGCT-TA-ATATTCAAACCCG
1 CACACTTAGTGCTATACA-ATTCAAACTCG
56056571 CACACTTAGTGCTATACAATTCAAACTCG
1 CACACTTAGTGCTATACAATTCAAACTCG
56056600 CACACTTAGTGCTATACAATT-AAACTCG
1 CACACTTAGTGCTATACAATTCAAACTCG
56056628 CACACTTAGTGC
1 CACACTTAGTGC
56056640 CAATCTCATT
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
28 32 0.48
29 33 0.50
30 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (29 bp):
CACACTTAGTGCTATACAATTCAAACTCG
Found at i:56065103 original size:2 final size:2
Alignment explanation
Indices: 56065096--56065126 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
56065086 TCTCCAATGC
56065096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56065127 GGGCTTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56069408 original size:30 final size:30
Alignment explanation
Indices: 56069354--56069511 Score: 204
Period size: 30 Copynumber: 5.5 Consensus size: 30
56069344 ATAGTGAATC
56069354 CGCACACTTAGTGCTATAT-A---TCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56069380 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56069410 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
56069440 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
56069468 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56069498 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56069512 CAATCTTGTC
Statistics
Matches: 119, Mismatches: 5, Indels: 12
0.88 0.04 0.09
Matches are distributed among these distances:
26 19 0.16
27 3 0.03
28 22 0.18
30 74 0.62
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:56069502 original size:58 final size:58
Alignment explanation
Indices: 56069380--56069511 Score: 176
Period size: 58 Copynumber: 2.2 Consensus size: 58
56069370 TATATCAGCT
* * * * *
56069380 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAA--TTCAACTCGCACACTTAGTGCTATACAATTTTAAACC
*
56069440 CGCACACTTAGTGCTATATAA-TCAAACTCGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTC-AACTCGCACACTTAGTGCTATACAATTTTAAACC
56069498 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56069512 CAATCTTGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
57 2 0.03
58 42 0.65
60 21 0.32
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (58 bp):
CGCACACTTAGTGCTATATAATTCAACTCGCACACTTAGTGCTATACAATTTTAAACC
Found at i:56077369 original size:30 final size:30
Alignment explanation
Indices: 56077314--56077474 Score: 231
Period size: 30 Copynumber: 5.5 Consensus size: 30
56077304 ATAGTGAATC
56077314 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56077343 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56077373 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
56077403 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
56077431 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56077461 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56077475 CAATCTTGTC
Statistics
Matches: 122, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 19 0.16
30 78 0.64
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:56077465 original size:58 final size:57
Alignment explanation
Indices: 56077314--56077474 Score: 216
Period size: 58 Copynumber: 2.8 Consensus size: 57
56077304 ATAGTGAATC
* *
56077314 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAGCTCGCACACTTAGTGCTATATAA--TTCAACT
56077373 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTCAGCTCGCACACTTAGTGCTATATAATTC-AACT
* * * *
56077431 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-AATTTTCAGCTCGCACACTTAGTGC
56077475 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
57 2 0.02
58 42 0.45
59 18 0.19
60 31 0.33
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATAAATTTTCAGCTCGCACACTTAGTGCTATATAATTCAACT
Found at i:56082774 original size:20 final size:20
Alignment explanation
Indices: 56082745--56082789 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
56082735 AGCACATGTA
* *
56082745 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAAATT
*
56082765 TTCATCAAATTTTACAAATT
1 TTCATAAAATTTTACAAATT
56082785 TTCAT
1 TTCAT
56082790 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAAATT
Found at i:56083388 original size:12 final size:12
Alignment explanation
Indices: 56083371--56083395 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56083361 ACACGACATT
56083371 CCTACCATATTA
1 CCTACCATATTA
56083383 CCTACCATATTA
1 CCTACCATATTA
56083395 C
1 C
56083396 AGACCATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (12 bp):
CCTACCATATTA
Found at i:56086429 original size:13 final size:13
Alignment explanation
Indices: 56086411--56086436 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56086401 TTGGATCTGT
56086411 ACCAAAACAATCA
1 ACCAAAACAATCA
56086424 ACCAAAACAATCA
1 ACCAAAACAATCA
56086437 TGAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:56087543 original size:43 final size:44
Alignment explanation
Indices: 56087482--56087589 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
56087472 AACGCCAACG
* *
56087482 TCCCAGACGTGGTCTTACATGT-AACCACATATCGATGCCACTA
1 TCCCAGACGTGGTCTTACACGTAAACCACAAATCGATGCCACTA
* *
56087525 TCCCAGACAG-GGTCTTACACGTAAATCACAAATCGATGCCAAC-G
1 TCCCAGAC-GTGGTCTTACACGTAAACCACAAATCGATGCC-ACTA
*
56087569 TCCCAAACGTGGTCTTACACG
1 TCCCAGACGTGGTCTTACACG
56087590 GAATCACATA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
43 20 0.36
44 34 0.61
45 2 0.04
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (44 bp):
TCCCAGACGTGGTCTTACACGTAAACCACAAATCGATGCCACTA
Found at i:56087583 original size:44 final size:43
Alignment explanation
Indices: 56087475--56087602 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
56087465 CTCGTACAAC
* *
56087475 GCCAACGTCCCAGACGTGGTCTTACATGTAACCACATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGAT
* *
56087518 GCC-ACTATCCCAGACAG-GGTCTTACACGTAAATCACAAATCGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AATCACATATCGAT
* *
56087562 GCCAACGTCCCAAACGTGGTCTTACACGGAATCACATATCG
1 GCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
56087603 GAACCCTATA
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 2 0.03
43 34 0.47
44 34 0.47
45 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGAT
Found at i:56101269 original size:40 final size:39
Alignment explanation
Indices: 56101224--56101431 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
56101214 CGGAATACAA
*
56101224 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56101264 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
56101304 CCGGATTTAACAACTTGCACGAATACCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
56101344 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
56101384 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56101424 CCGGATAT
1 CCGGATAT
56101432 CATTTAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56101371 original size:80 final size:81
Alignment explanation
Indices: 56101224--56101429 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
56101214 CGGAATACAA
* * * *
56101224 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
56101288 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * * *
56101304 CCGGATTTAACAACTTGCACGAATACCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
56101367 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
56101384 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
56101430 ATCATTTAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 1 0.01
80 102 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:56109256 original size:40 final size:39
Alignment explanation
Indices: 56109211--56109418 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
56109201 CGGAATACAA
*
56109211 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56109251 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56109291 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
56109331 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
56109371 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56109411 CCGGATAT
1 CCGGATAT
56109419 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56109358 original size:80 final size:81
Alignment explanation
Indices: 56109211--56109416 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
56109201 CGGAATACAA
* * * *
56109211 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
56109275 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
56109291 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
56109354 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
56109371 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
56109417 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:56112111 original size:7 final size:7
Alignment explanation
Indices: 56112073--56112115 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
56112063 AAGTAGTCTT
56112073 ACCCTAA
1 ACCCTAA
*
56112080 ACCTTAA
1 ACCCTAA
*
56112087 ACCTTAAA
1 ACCCT-AA
56112095 ACCCTAAA
1 ACCCT-AA
56112103 ACCCTAA
1 ACCCTAA
56112110 ACCCTA
1 ACCCTA
56112116 CTTGGTGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 19 0.58
8 14 0.42
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (7 bp):
ACCCTAA
Found at i:56112113 original size:15 final size:15
Alignment explanation
Indices: 56112073--56112115 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56112063 AAGTAGTCTT
*
56112073 ACCCTAAA-CCTTAA
1 ACCCTAAACCCTAAA
*
56112087 ACCTTAAAACCCTAAA
1 ACCCT-AAACCCTAAA
56112103 ACCCTAAACCCTA
1 ACCCTAAACCCTA
56112116 CTTGGTGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 11 0.46
16 9 0.38
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (15 bp):
ACCCTAAACCCTAAA
Found at i:56113426 original size:10 final size:10
Alignment explanation
Indices: 56113411--56113437 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
56113401 TAAATTAATG
56113411 AAATATGTGA
1 AAATATGTGA
56113421 AAATATGTGA
1 AAATATGTGA
56113431 AAATATG
1 AAATATG
56113438 AAATTAGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (10 bp):
AAATATGTGA
Found at i:56119240 original size:29 final size:29
Alignment explanation
Indices: 56119208--56119274 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
56119198 CCCTAACTGT
**
56119208 CCATATTTTTCATTTATTTCACAAATTAA-
1 CCATATTTTTCA-ACATTTCACAAATTAAC
**
56119237 CCATCAAATTTCAACATTTCACAAATTAAC
1 CCAT-ATTTTTCAACATTTCACAAATTAAC
56119267 CCATATTT
1 CCATATTT
56119275 GGACATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.40
Consensus pattern (29 bp):
CCATATTTTTCAACATTTCACAAATTAAC
Found at i:56122203 original size:53 final size:54
Alignment explanation
Indices: 56122135--56122342 Score: 215
Period size: 53 Copynumber: 3.9 Consensus size: 54
56122125 TTTCCTTTTT
* * * * * *
56122135 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* **
56122188 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
56122242 GTAACTCATCAATG-CAGTGTCTTGATATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCA-TGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
56122297 GAACTTATCAATGCCACGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
56122343 ATCTTACCAA
Statistics
Matches: 129, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 43 0.33
54 39 0.30
55 43 0.33
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:56122272 original size:55 final size:52
Alignment explanation
Indices: 56122149--56122334 Score: 185
Period size: 55 Copynumber: 3.5 Consensus size: 52
56122139 TTACCATTGC
* * *
56122149 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-GAACTCACCAATG
1 CATGTCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAATG
* * *
56122201 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATG
1 -CATGTCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAATG
* * * *
56122256 CAGTGTCTTGATATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CA-TGTCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAATG
* * *
56122310 CCACGCCTTGGCATGGTCTTACATG
1 -CATGTCTTGACATGGTCTTACATG
56122335 ATATCCTTAT
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 31 0.28
54 32 0.29
55 43 0.39
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (52 bp):
CATGTCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAATG
Found at i:56122374 original size:47 final size:46
Alignment explanation
Indices: 56122321--56122489 Score: 239
Period size: 47 Copynumber: 3.6 Consensus size: 46
56122311 CACGCCTTGG
* * *
56122321 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATATTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAT-TTCCAAA
56122368 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAT-TTCCAAA
* * *
56122415 CATGGTCTTACATGGTATCTTTGTCTTACCAAATGCCATGTCTTAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATTTC-CAAA
* *
56122462 CACGGTCTTACATGGTATACTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
56122490 GTGCCAATGC
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 2 0.02
47 109 0.98
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (46 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATTTCCAAA
Found at i:56125307 original size:44 final size:42
Alignment explanation
Indices: 56125243--56125399 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 42
56125233 ATATGTGTTA
* * *
56125243 TCGTGTAAGACTACGTCTGGGATGTTGGCATC-AACTTATGATT
1 TCGTGTAAGACCATGTCTGGGATATTGGCATCGAA-TT-TGATT
* *
56125286 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTGGGATATTGGCATCGAATTTGATT
* * * * *
56125329 TTGTGTAAGACCCTGTCTGGGATAGTGGCAGCGGTATTTGATT
1 TCGTGTAAGACCATGTCTGGGATATTGGCATC-GAATTTGATT
* * * * *
56125372 ACATGTAAGACCACGTCTGCGACATTGG
1 TCGTGTAAGACCATGTCTGGGATATTGG
56125400 AATTGTACGA
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
42 26 0.28
43 37 0.40
44 29 0.31
45 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGATATTGGCATCGAATTTGATT
Found at i:56128338 original size:39 final size:39
Alignment explanation
Indices: 56128220--56128402 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
56128210 TCGTTCAAAC
* * ** * **
56128220 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
56128260 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
56128300 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
56128339 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
56128378 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
56128403 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:56135776 original size:38 final size:39
Alignment explanation
Indices: 56135684--56135796 Score: 156
Period size: 38 Copynumber: 2.9 Consensus size: 39
56135674 TATGGTAACC
** * *
56135684 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
56135724 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
56135763 CGC-CAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
56135797 TCGAACATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 30 0.46
39 20 0.31
40 15 0.23
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:56137909 original size:30 final size:31
Alignment explanation
Indices: 56137849--56137909 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
56137839 TTTTACGAGC
*
56137849 CTAGGGGCAAAATCATAATTTTTGTAAAAGT
1 CTAGGGGCAAAATCATAATTTTTGCAAAAGT
* * *
56137880 CTAGGGGCAAAATGATCA-TTTTGCCAAAGT
1 CTAGGGGCAAAATCATAATTTTTGCAAAAGT
56137910 ATGAATTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (31 bp):
CTAGGGGCAAAATCATAATTTTTGCAAAAGT
Found at i:56138485 original size:50 final size:50
Alignment explanation
Indices: 56138410--56138747 Score: 352
Period size: 50 Copynumber: 6.9 Consensus size: 50
56138400 TGATGCTAGG
* * *
56138410 GAGATATGAAAGCTAGTTTAAGACCATGTCTGGGACATGGCATCGGCCTT
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* *
56138460 GAGATATCAGAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* *
56138510 GAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGG--T-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
** * * * * *
56138557 TTGATATGTG-TC-AGTGTAAGACCATGTCAGGGACATAGCATCGACAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
* * * * *
56138605 GATAGATGAGAGCCAGTGTAAGACCATTTCTGGGACATGGCATTGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * *
56138655 GATATACGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GACT-
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
** * * *
56138703 TTGATGTGTGAGCTAGTGTAAGACCATGTCCGGGACATGGCATCG
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
56138748 ACCCTTACCC
Statistics
Matches: 236, Mismatches: 42, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
45 27 0.11
46 1 0.00
47 7 0.03
48 41 0.17
49 6 0.03
50 154 0.65
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:56138691 original size:145 final size:148
Alignment explanation
Indices: 56138420--56138750 Score: 429
Period size: 145 Copynumber: 2.3 Consensus size: 148
56138410 GAGATATGAA
* * * * * *
56138420 AGCTAGTTTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATATCAGAGCTAGTGTAAGACC
1 AGCTAGTGTAAGACCATGTCAGGGACATGGCATCGACCTCGAGAGATCAGAGCCAGTGTAAGACC
* *
56138485 ATGCCTGGGACATGGCATCGGCCTCGAGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGG
66 ATGCCTGGGACATGGCATCGGCCTCGAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGG
* *
56138550 CATTG-GTTTGATATGTG
131 CATCGACTTTGATATGTG
* * * *
56138567 -TC-AGTGTAAGACCATGTCAGGGACATAGCATCGACAC-CGATAGATGAGAGCCAGTGTAAGAC
1 AGCTAGTGTAAGACCATGTCAGGGACATGGCATCGAC-CTCGAGAGATCAGAGCCAGTGTAAGAC
** * *
56138629 CATTTCTGGGACATGGCATTGGCCTCGATATACGAGAG-TCAGTGTAAGACCATGTCTGGGACAT
65 CATGCCTGGGACATGGCATCGGCCTCGAGATACGAGAGCT-AGTGTAAGACCATGTCTGGGACAT
*
56138693 GGCATCGACTTTGATGTGTG
129 GGCATCGACTTTGATATGTG
*
56138713 AGCTAGTGTAAGACCATGTCCGGGACATGGCATCGACC
1 AGCTAGTGTAAGACCATGTCAGGGACATGGCATCGACC
56138751 CTTACCCTAT
Statistics
Matches: 157, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
144 1 0.01
145 111 0.71
146 12 0.08
147 2 0.01
148 31 0.20
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (148 bp):
AGCTAGTGTAAGACCATGTCAGGGACATGGCATCGACCTCGAGAGATCAGAGCCAGTGTAAGACC
ATGCCTGGGACATGGCATCGGCCTCGAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGG
CATCGACTTTGATATGTG
Found at i:56147769 original size:19 final size:20
Alignment explanation
Indices: 56147732--56147770 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
56147722 GAATTTATAG
56147732 CATATATTTTCCATAAATTT
1 CATATATTTTCCATAAATTT
* *
56147752 CATA-ATTTTTCATTAATTT
1 CATATATTTTCCATAAATTT
56147771 TCACAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (20 bp):
CATATATTTTCCATAAATTT
Found at i:56160220 original size:7 final size:6
Alignment explanation
Indices: 56160197--56160258 Score: 79
Period size: 6 Copynumber: 9.8 Consensus size: 6
56160187 TAACAAGAAG
*
56160197 AATAAA AATAAA AATAAA AGATAAA AGATAAA AGATAAA AATAAA CATAAA
1 AATAAA AATAAA AATAAA A-ATAAA A-ATAAA A-ATAAA AATAAA AATAAA
*
56160248 CATAAA AATAA
1 AATAAA AATAA
56160259 TCAGACTCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
6 33 0.62
7 20 0.38
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:56162238 original size:40 final size:39
Alignment explanation
Indices: 56162115--56162238 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
56162105 TGTGTATGAA
*
56162115 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
56162154 TGTGCGATTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56162193 GGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
56162233 TGTGCG
1 TGTGCG
56162239 GGTTACCATA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 62 0.79
40 16 0.21
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56162254 original size:79 final size:79
Alignment explanation
Indices: 56162116--56162269 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
56162106 GTGTATGAAT
* *** *
56162116 GTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGATTTGTGATATCCGGGCTAAG
1 GTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAG
56162181 -CCCGAAGGCAATG
66 TCCCGAAGGCAATG
* * * * *
56162194 GTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTAT
1 GTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAA
56162259 GTCCCGAAGGC
65 GTCCCGAAGGC
56162270 GTTTGAACGA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 24 0.38
79 31 0.48
80 9 0.14
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
GTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAG
TCCCGAAGGCAATG
Found at i:56165997 original size:79 final size:81
Alignment explanation
Indices: 56165896--56166080 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
56165886 ACGACTCGCT
** * *
56165896 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
56165959 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
56165976 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
56166040 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
56166056 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56166081 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:56166080 original size:40 final size:39
Alignment explanation
Indices: 56165889--56166080 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
56165879 GGATATAACG
* ** * *
56165889 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56165929 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
56165969 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56166008 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
56166048 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
56166081 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:56173217 original size:47 final size:46
Alignment explanation
Indices: 56173100--56173272 Score: 196
Period size: 45 Copynumber: 3.8 Consensus size: 46
56173090 GGATAGTTGA
*
56173100 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
56173147 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
* *
56173190 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
*
56173240 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
56173273 TATGGGCGGG
Statistics
Matches: 109, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 30 0.28
46 30 0.28
47 30 0.28
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:56173268 original size:46 final size:45
Alignment explanation
Indices: 56173104--56173277 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 45
56173094 AGTTGAGCAT
* *
56173104 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * *
56173149 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
56173194 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
56173242 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56173278 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
42 6 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:56177812 original size:45 final size:45
Alignment explanation
Indices: 56177761--56177934 Score: 212
Period size: 45 Copynumber: 3.8 Consensus size: 45
56177751 TAGTTGAGCA
56177761 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
* * *
56177806 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAT--ATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T--G
*
56177851 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
* *
56177898 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56177935 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 5 0.05
43 1 0.01
44 3 0.03
45 58 0.52
46 6 0.05
47 33 0.30
49 3 0.03
50 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
Found at i:56177915 original size:92 final size:92
Alignment explanation
Indices: 56177758--56177926 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
56177748 GGATAGTTGA
* *
56177758 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGCCCGAACTCGTTGAGTT
56177823 GAGTCCGAGTTCGTGATATGTAACTAG
66 GAGTCCGAGTTCGTGATATGTAACTAG
*
56177850 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGCCCGAACTCGTTGAGT
56177914 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
56177927 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 10 0.14
92 63 0.86
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGATATGTAACTAG
Found at i:56180922 original size:46 final size:46
Alignment explanation
Indices: 56180869--56181044 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
56180859 ATATTGAGCA
56180869 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56180915 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56180960 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
56181008 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56181045 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56181025 original size:93 final size:93
Alignment explanation
Indices: 56180866--56181036 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
56180856 AGGATATTGA
* *
56180866 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56180931 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56180959 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56181024 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56181037 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56189564 original size:79 final size:81
Alignment explanation
Indices: 56189463--56189647 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
56189453 ACGACTCGCT
** * *
56189463 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
56189526 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
56189543 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
56189607 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
56189623 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56189648 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:56189647 original size:40 final size:39
Alignment explanation
Indices: 56189456--56189647 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
56189446 GGATATAACG
* ** * *
56189456 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56189496 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
56189536 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
56189575 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
56189615 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
56189648 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:56201364 original size:13 final size:13
Alignment explanation
Indices: 56201346--56201370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56201336 GAATTGACAT
56201346 GTGTGAAAATTTA
1 GTGTGAAAATTTA
56201359 GTGTGAAAATTT
1 GTGTGAAAATTT
56201371 TATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTA
Found at i:56202557 original size:42 final size:42
Alignment explanation
Indices: 56202454--56202614 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
56202444 TGTGTTATTG
* * * *
56202454 TGTAAGACTACGTCTGGGACGTTGGCATCG-ACTTATAATTTACA
1 TGTAAGACCACATCTGGGACGTTGGCATTGTA-TT-TGA-TTACA
* * * *
56202498 TGTAAGAGCACGTCTGGGACGTTGGCATTGTATTTGATTTCG
1 TGTAAGACCACATCTGGGACGTTGGCATTGTATTTGATTACA
*
56202540 TGTAAGACC-CTATCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGAC-GTTGGCATTG-TATTTGATTACA
* *
56202583 TGTAAGACCACGTCTGGGATGTTGGCATTGTA
1 TGTAAGACCACATCTGGGACGTTGGCATTGTA
56202615 CGAGCTTTCC
Statistics
Matches: 97, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.30
43 36 0.37
44 30 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACGTTGGCATTGTATTTGATTACA
Found at i:56208509 original size:21 final size:21
Alignment explanation
Indices: 56208484--56208551 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
56208474 TGAGCTTCAA
56208484 TTAACTCATATGAGTTTCTGT
1 TTAACTCATATGAGTTTCTGT
* * *
56208505 TTAAC-CCTAATGGGTTTCCGT
1 TTAACTCAT-ATGAGTTTCTGT
* * * *
56208526 TTAGCTCTTTTGAGCTTCTGT
1 TTAACTCATATGAGTTTCTGT
56208547 TTAAC
1 TTAAC
56208552 CCTAATGGGT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (21 bp):
TTAACTCATATGAGTTTCTGT
Found at i:56208582 original size:42 final size:42
Alignment explanation
Indices: 56208486--56208584 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 42
56208476 AGCTTCAATT
* **
56208486 AACTCATATGAGTTTCTGTTTAACCCTAATGGGTTTCCGTTT
1 AACTCATATGAGCTTCTGTTTAACCCTAATGGGTTTCCGTCC
* * * **
56208528 AGCTCTTTTGAGCTTCTGTTTAACCCTAATGGGTTTTTGTCC
1 AACTCATATGAGCTTCTGTTTAACCCTAATGGGTTTCCGTCC
*
56208570 AACTCCTATGAGCTT
1 AACTCATATGAGCTT
56208585 TCATTCAACC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (42 bp):
AACTCATATGAGCTTCTGTTTAACCCTAATGGGTTTCCGTCC
Found at i:56208718 original size:20 final size:20
Alignment explanation
Indices: 56208693--56208760 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
56208683 TGACTGAGAA
56208693 GAATTAGTAAGTGCTATATG
1 GAATTAGTAAGTGCTATATG
* *
56208713 GAATTA--ATGTGCAAAATTTATG
1 GAATTAGTAAGTGC----TATATG
*
56208735 GAATTAGTAAGTGTTATATG
1 GAATTAGTAAGTGCTATATG
56208755 GAATTA
1 GAATTA
56208761 ATGTGCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
18 5 0.14
20 17 0.46
22 11 0.30
24 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (20 bp):
GAATTAGTAAGTGCTATATG
Found at i:56208736 original size:22 final size:22
Alignment explanation
Indices: 56208709--56208774 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
56208699 GTAAGTGCTA
56208709 TATGGAATTAATGTGCAAAATT
1 TATGGAATTAATGTGCAAAATT
**
56208731 TATGGAATT-A-GT--AAGTGTT
1 TATGGAATTAATGTGCAA-AATT
56208750 ATATGGAATTAATGTGCAAAATT
1 -TATGGAATTAATGTGCAAAATT
56208773 TA
1 TA
56208775 AGTTATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 11 0.32
21 2 0.06
22 13 0.38
23 2 0.06
24 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.38
Consensus pattern (22 bp):
TATGGAATTAATGTGCAAAATT
Found at i:56208753 original size:42 final size:42
Alignment explanation
Indices: 56208693--56208774 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
56208683 TGACTGAGAA
56208693 GAATTAGTAAGTGCTATATGGAATTAATGTGCAAAATTTATG
1 GAATTAGTAAGTGCTATATGGAATTAATGTGCAAAATTTATG
*
56208735 GAATTAGTAAGTGTTATATGGAATTAATGTGCAAAATTTA
1 GAATTAGTAAGTGCTATATGGAATTAATGTGCAAAATTTA
56208775 AGTTATTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.37
Consensus pattern (42 bp):
GAATTAGTAAGTGCTATATGGAATTAATGTGCAAAATTTATG
Found at i:56210903 original size:46 final size:44
Alignment explanation
Indices: 56210809--56210923 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 44
56210799 GTGCCAATGC
*
56210809 CATGTCTCAGACATGGTCTTACACTGACACATCTCATAGCCGATG
1 CATGTCTCAGACAT-GTCTTACACTGACACATCTCATAGCCGAAG
* * *
56210854 CATGTCTCAGACATGTCATACACTGGCTTACGTCTCA-AGGCCGAAG
1 CATGTCTCAGACATGTCTTACACTGAC--ACATCTCATA-GCCGAAG
* *
56210900 CATGTCCCACACATGTCTTACACT
1 CATGTCTCAGACATGTCTTACACT
56210924 AGCACTCGCC
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 11 0.18
45 15 0.25
46 34 0.57
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (44 bp):
CATGTCTCAGACATGTCTTACACTGACACATCTCATAGCCGAAG
Found at i:56210937 original size:46 final size:46
Alignment explanation
Indices: 56210809--56210969 Score: 132
Period size: 46 Copynumber: 3.5 Consensus size: 46
56210799 GTGCCAATGC
* * **
56210809 CATGTCTCAGACATGGTCTTACACT-GAC-ACATCTCATA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCCTACGCCTCA-AGGCCGATG
* * * * * *
56210854 CATGTCTCAGACATGTCATACACTGGCTTACGTCTCAAGGCCGAAG
1 CATGTCCCAGACATGTCTTACACTAGCCTACGCCTCAAGGCCGATG
* *
56210900 CATGTCCCACACATGTCTTACACTAGCACT-CGCCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-CTACGCCTCAAGGCCGATG
*
56210946 CCATGTCCTAGACATGGTCTTACA
1 -CATGTCCCAGACAT-GTCTTACA
56210970 TAATGTGGCC
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
44 9 0.09
45 16 0.17
46 49 0.52
47 13 0.14
48 8 0.08
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCCTACGCCTCAAGGCCGATG
Found at i:56214369 original size:26 final size:27
Alignment explanation
Indices: 56214340--56214398 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
56214330 ACTTGGAAAA
56214340 CAAGGAA-ACAACCCTTCCTTTGCCTC
1 CAAGGAATACAACCCTTCCTTTGCCTC
* *
56214366 CAAGTAATTGACTACCCTTCCTTTGCCTC
1 CAAGGAA-T-ACAACCCTTCCTTTGCCTC
56214395 CAAG
1 CAAG
56214399 TAATTGACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.21
29 22 0.79
ACGTcount: A:0.25, C:0.36, G:0.12, T:0.27
Consensus pattern (27 bp):
CAAGGAATACAACCCTTCCTTTGCCTC
Found at i:56214383 original size:29 final size:29
Alignment explanation
Indices: 56214350--56214406 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
56214340 CAAGGAAACA
56214350 ACCCTTCCTTTGCCTCCAAGTAATTGACT
1 ACCCTTCCTTTGCCTCCAAGTAATTGACT
56214379 ACCCTTCCTTTGCCTCCAAGTAATTGAC
1 ACCCTTCCTTTGCCTCCAAGTAATTGAC
56214407 CTAGTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.35, G:0.11, T:0.33
Consensus pattern (29 bp):
ACCCTTCCTTTGCCTCCAAGTAATTGACT
Found at i:56216198 original size:28 final size:29
Alignment explanation
Indices: 56216148--56216214 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
56216138 ATGAAATTAG
* *
56216148 AATTGAGTTGTGTAAATTATTTACTTAA-
1 AATTGATTTGTGTAAACTATTTACTTAAT
*
56216176 AATTGATTTGT-TAAACTATTTTATTTAAT
1 AATTGATTTGTGTAAACTA-TTTACTTAAT
*
56216205 AATTAATTTG
1 AATTGATTTG
56216215 GAGAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 6 0.18
28 18 0.55
29 9 0.27
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (29 bp):
AATTGATTTGTGTAAACTATTTACTTAAT
Found at i:56219652 original size:16 final size:16
Alignment explanation
Indices: 56219631--56219663 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56219621 ATGATTAAAT
56219631 ATGCATATAAAAATAA
1 ATGCATATAAAAATAA
*
56219647 ATGCATATGAAAATAA
1 ATGCATATAAAAATAA
56219663 A
1 A
56219664 ATTGGGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (16 bp):
ATGCATATAAAAATAA
Found at i:56219906 original size:30 final size:30
Alignment explanation
Indices: 56219872--56219931 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
56219862 TTATTATGGG
56219872 AATCACATTTTCATGTTTATGGAAAAGTAA
1 AATCACATTTTCATGTTTATGGAAAAGTAA
56219902 AATCACATTTTCATGTTTATGGAAAAGTAA
1 AATCACATTTTCATGTTTATGGAAAAGTAA
56219932 CTCTCAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (30 bp):
AATCACATTTTCATGTTTATGGAAAAGTAA
Found at i:56222536 original size:25 final size:26
Alignment explanation
Indices: 56222498--56222563 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
56222488 ATTTTTATTT
56222498 TTTTCCTTTTTTTTC-CAATTT-CTTC
1 TTTT-CTTTTTTTTCTCAATTTCCTTC
* *
56222523 TTTTCTTTTATTTTCTCTATTTCCTTT
1 TTTTCTTTT-TTTTCTCAATTTCCTTC
56222550 TTCTTCTTTTTTTT
1 TT-TTCTTTTTTTT
56222564 GCTCTAACCC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.14
25 9 0.26
26 5 0.14
27 9 0.26
28 7 0.20
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTCTTTTTTTTCTCAATTTCCTTC
Found at i:56224535 original size:42 final size:41
Alignment explanation
Indices: 56224472--56224629 Score: 169
Period size: 42 Copynumber: 3.9 Consensus size: 41
56224462 AGGGTTACTA
* *
56224472 AGACTATGTGTAAGACCATATCTAGGATATGGCATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATC-ATATG
*
56224514 AGACTACGTGTAAGACTATATCTGGGATATGG---CATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCATATG
** * * * *
56224552 AGACTTTGTGTAAGACCATAGCTGGGCTATTGGCATTGATACG
1 AGACTACGTGTAAGACCATATCTGGGATA-TGGCA-TCATATG
* *
56224595 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGACTACGTGTAAGACCATATCTGGGATATGGCAT
56224630 TGGTACGGTA
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
38 29 0.31
39 4 0.04
41 1 0.01
42 34 0.36
43 27 0.28
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (41 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCATATG
Found at i:56224616 original size:81 final size:80
Alignment explanation
Indices: 56224472--56224629 Score: 217
Period size: 81 Copynumber: 2.0 Consensus size: 80
56224462 AGGGTTACTA
* * * *
56224472 AGACTATGTGTAAGACCATATCTAGGATATGGCATCAATATGAGACTACGTGTAAGACTATATCT
1 AGACTATGTGTAAGACCATAGCTAGGATATGGCATCAATACGAGACTACATGTAAGACCATATCT
56224537 GGGATATGGCATATG
66 GGGATATGGCATATG
* * * ** *
56224552 AGACTTTGTGTAAGACCATAGCTGGGCTATTGGCATTGATACGAGATTACATGTAAGACCATATC
1 AGACTATGTGTAAGACCATAGCTAGGATA-TGGCATCAATACGAGACTACATGTAAGACCATATC
56224617 TGGGATATGGCAT
65 TGGGATATGGCAT
56224630 TGGTACGGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 25 0.37
81 42 0.63
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (80 bp):
AGACTATGTGTAAGACCATAGCTAGGATATGGCATCAATACGAGACTACATGTAAGACCATATCT
GGGATATGGCATATG
Found at i:56224826 original size:15 final size:16
Alignment explanation
Indices: 56224800--56224829 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
56224790 ATAAACCCCC
56224800 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
56224816 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
56224830 ATAAGACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:56230729 original size:39 final size:39
Alignment explanation
Indices: 56230682--56230824 Score: 232
Period size: 39 Copynumber: 3.6 Consensus size: 39
56230672 AATGTTCGAG
56230682 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
56230721 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
56230760 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
56230799 TGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
56230825 CTTTGTGTGG
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:56232929 original size:101 final size:101
Alignment explanation
Indices: 56232754--56232957 Score: 327
Period size: 101 Copynumber: 2.0 Consensus size: 101
56232744 ATAACCGGAT
* * * *
56232754 AATGTGATAACTTCTGCATCTATAACACCCCTTACCCGAGTCTGAGGTCGGCACTGAGCATGAGG
1 AATGTGATAACATCTGCATCTATAACACCCCTTACCCGAGTCTAAGGCCGGCACTGAGCACGAGG
56232819 CATTACTTGACTTAAACACATGCATACAATCATTTC
66 CATTACTTGACTTAAACACATGCATACAATCATTTC
* * * * *
56232855 AATGTGATGACATCTGCATCTATAACACCTCTTACTCGAGTCTAAGGCCGGGACTGAGCGCGAGG
1 AATGTGATAACATCTGCATCTATAACACCCCTTACCCGAGTCTAAGGCCGGCACTGAGCACGAGG
56232920 CATTACTTGACTTAAACACATGCATACAATCATTTC
66 CATTACTTGACTTAAACACATGCATACAATCATTTC
56232956 AA
1 AA
56232958 ACCATAAAAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
AATGTGATAACATCTGCATCTATAACACCCCTTACCCGAGTCTAAGGCCGGCACTGAGCACGAGG
CATTACTTGACTTAAACACATGCATACAATCATTTC
Found at i:56234497 original size:49 final size:50
Alignment explanation
Indices: 56234436--56234558 Score: 135
Period size: 49 Copynumber: 2.5 Consensus size: 50
56234426 GTCGATGTTG
* *
56234436 TGTCCCAAACAGGTATTACACTGACTT-TCATATATCGAG-GCCAATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTCTCATATATCG-GTGCCAATGCCA
* * * * *
56234485 TGTCCCAGACAGGTCTTACACT-AGTTCTTATCTATCGGTGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTCTCATATATCGGTGCCAATGCCA
* *
56234534 TGTCCAAGACAGGTCTTACATTGAC
1 TGTCCCAGACAGGTCTTACACTGAC
56234559 ACACAACAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
48 4 0.07
49 56 0.92
50 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (50 bp):
TGTCCCAGACAGGTCTTACACTGACTTCTCATATATCGGTGCCAATGCCA
Found at i:56234715 original size:46 final size:50
Alignment explanation
Indices: 56234616--56234744 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 50
56234606 TATATCTCGA
56234616 GGCCGATGCATGTCCCAGACATGTCTTACACT-AGCTCTCGTCTCAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGAGCTCTCGTCTCAATGT
* *
56234665 ---CGATGCATATCCTAGACATGTCTTACACTGA-C-C-C-TCAT-AATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGAGCTCTCGTC-TCAATGT
*
56234708 GGCCGATGCATGTCCCAGACACGTCTTACACTG-GCTC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGAGCTC
56234745 ACATACCACT
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
43 7 0.10
44 2 0.03
45 1 0.01
46 56 0.82
47 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (50 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGAGCTCTCGTCTCAATGT
Found at i:56236885 original size:42 final size:42
Alignment explanation
Indices: 56236774--56236933 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
56236764 AGCTCATACA
* * *
56236774 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATAT-G
* * * * *
56236817 ATGCC-ACTGTCCTAGATAGGGACTTACACGAAATCATATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATG
* * *
56236859 ATGCCAATGTCCTAGACATGGTCTTACATGTAAATCACAA-ATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AATA-TG
* * *
56236903 ATACCAACGTCCCAAATATGGTCTTACACGA
1 ATGCCAACGTCCCAGACATGGTCTTACACGA
56236934 TAACACATAT
Statistics
Matches: 92, Mismatches: 20, Indels: 10
0.75 0.16 0.08
Matches are distributed among these distances:
42 26 0.28
43 39 0.42
44 27 0.29
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATG
Found at i:56239589 original size:13 final size:13
Alignment explanation
Indices: 56239571--56239595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56239561 TAATTTATAT
56239571 GTGTGAAAATTTC
1 GTGTGAAAATTTC
56239584 GTGTGAAAATTT
1 GTGTGAAAATTT
56239596 TATCGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:56247350 original size:27 final size:27
Alignment explanation
Indices: 56247072--56247356 Score: 314
Period size: 27 Copynumber: 10.6 Consensus size: 27
56247062 CTCTAATTAA
56247072 TAAAATGAC-GTTTTGCCCTTAT-GAGG
1 TAAAATGACTGTTTTGCCCTTATAG-GG
* *
56247098 TAAAAAGACTATTTTGCCCTTAT-GAGG
1 TAAAATGACTGTTTTGCCCTTATAG-GG
*
56247125 TAAAATGACTATTTTGCCCTTAT-GGAG
1 TAAAATGACTGTTTTGCCCTTATAGG-G
* * *
56247152 TAAAATGAATGCTTTACCCTTAT-GAGG
1 TAAAATGACTGTTTTGCCCTTATAG-GG
*
56247179 TAAAATGACTATTTTGCCCTTATAGGG
1 TAAAATGACTGTTTTGCCCTTATAGGG
*
56247206 TAAAATGACTATTTTGCCCTTATAGGG
1 TAAAATGACTGTTTTGCCCTTATAGGG
56247233 TAAAATGACTGTTTTGCCCTTATAGGG
1 TAAAATGACTGTTTTGCCCTTATAGGG
*
56247260 TAAAATGACTGTTTTGCTCTTAT-GAGG
1 TAAAATGACTGTTTTGCCCTTATAG-GG
*
56247287 TAAAATGATTGTTTTGCCCTT-TATGTGG
1 TAAAATGACTGTTTTGCCCTTATA-G-GG
* * * *
56247315 TAAAATGATTGTTTTTCCCTTTTATGG
1 TAAAATGACTGTTTTGCCCTTATAGGG
* *
56247342 TAAGATGATTGTTTT
1 TAAAATGACTGTTTT
56247357 ATCCCTGTGT
Statistics
Matches: 232, Mismatches: 19, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
26 11 0.05
27 194 0.84
28 25 0.11
29 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATAGGG
Found at i:56247712 original size:18 final size:18
Alignment explanation
Indices: 56247689--56247729 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
56247679 TTGTTTTCTG
56247689 TTACTGCACTATTTACTA
1 TTACTGCACTATTTACTA
* * *
56247707 TTACTGTACTGTTTACTG
1 TTACTGCACTATTTACTA
56247725 TTACT
1 TTACT
56247730 TGAAAGGGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (18 bp):
TTACTGCACTATTTACTA
Found at i:56248143 original size:87 final size:86
Alignment explanation
Indices: 56247998--56248177 Score: 342
Period size: 87 Copynumber: 2.1 Consensus size: 86
56247988 TGATTTTTAA
56247998 TTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTATGGATTTTAACTTAAAT
1 TTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTATGGATTTTAACTTAAAT
56248063 TTGGGATTTTATTTTCTTGGG
66 TTGGGATTTTATTTTCTTGGG
*
56248084 TTTATAAGTAATTTAATTTGGGTATTTTTTTTATGTAATAAGGCCTCTATGGATTTTAACTTAAA
1 TTTATAAGTAATTTAATTTGGGTA-TTTGTTTATGTAATAAGGCCTCTATGGATTTTAACTTAAA
56248149 TTTGGGATTTTATTTTCTTGGG
65 TTTGGGATTTTATTTTCTTGGG
56248171 TTTATAA
1 TTTATAA
56248178 CTGCTAGCAA
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 24 0.26
87 68 0.74
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (86 bp):
TTTATAAGTAATTTAATTTGGGTATTTGTTTATGTAATAAGGCCTCTATGGATTTTAACTTAAAT
TTGGGATTTTATTTTCTTGGG
Found at i:56249781 original size:12 final size:12
Alignment explanation
Indices: 56249749--56249775 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56249739 TTTAGAGGGA
56249749 TTTTATTTTATT
1 TTTTATTTTATT
56249761 TTTTATTTTATT
1 TTTTATTTTATT
56249773 TTT
1 TTT
56249776 CTTTTTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:56251119 original size:27 final size:27
Alignment explanation
Indices: 56251087--56251239 Score: 200
Period size: 27 Copynumber: 5.7 Consensus size: 27
56251077 CCCTAATTAA
* *
56251087 TAAAATGATTATTTTGCCCTTGTGAGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
* * *
56251114 TAAAATGATTTTTTTACCTTTATGAGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
* *
56251141 TAAAATGACTGTTTTGGCCTTAT-AGGG
1 TAAAATGATTGTTTTGCCCTTATGA-GG
56251168 TAAAATGATTGTTTTGCCCTTATGAGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
* *
56251195 TAAAATGATTGTTTTTCCCTTATGTGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
*
56251222 TAAAATAATTGTTTTGCC
1 TAAAATGATTGTTTTGCC
56251240 TTTTTATGGT
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 107 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (27 bp):
TAAAATGATTGTTTTGCCCTTATGAGG
Found at i:56251146 original size:54 final size:54
Alignment explanation
Indices: 56251087--56251272 Score: 205
Period size: 54 Copynumber: 3.4 Consensus size: 54
56251077 CCCTAATTAA
* * * *
56251087 TAAAATGATTATTTTGCCCTTGTGAGGTAAAATGATTTTTTTACCTTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCTTTATGAGG
* * *
56251141 TAAAATGACTGTTTTGGCCTTAT-AGGGTAAAATGATTGTTTTGCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGA-GGTAAAATGATTGTTTTGCCTTTATGAGG
* * * * * *
56251195 TAAAATGATTGTTTTTCCCTTATGTGGTAAAATAATTGTTTTGCCTTT-TTATGG
1 TAAAATGACTATTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCTTTATGA-GG
* *
56251249 TAATATGACTATTTTACCCTTATG
1 TAAAATGACTATTTTGCCCTTATG
56251273 TGATGTATGT
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
53 3 0.03
54 108 0.97
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.45
Consensus pattern (54 bp):
TAAAATGACTATTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCTTTATGAGG
Found at i:56251224 original size:81 final size:80
Alignment explanation
Indices: 56251087--56251272 Score: 239
Period size: 81 Copynumber: 2.3 Consensus size: 80
56251077 CCCTAATTAA
* * *
56251087 TAAAATGATTATTTTGCCCTTGTGAGGTAAAATGATTTTTTTACCTTTATGAGGTAAAATGACTG
1 TAAAATGATTATTTTGCCCTTATGAGGTAAAATGATTTTTTTACCCTTATGAGGTAAAATAACTG
56251152 TTTTGGCCTTATAGGG
66 TTTT-GCCTTATAGGG
* * *
56251168 TAAAATGATTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTT-CCCTTATGTGGTAAAATAATT
1 TAAAATGATTATTTTGCCCTTATGAGGTAAAATGATT-TTTTTACCCTTATGAGGTAAAATAACT
* *
56251232 GTTTTGCCTTTTTATGG
65 GTTTTGCC-TTATAGGG
* * *
56251249 TAATATGACTATTTTACCCTTATG
1 TAAAATGATTATTTTGCCCTTATG
56251273 TGATGTATGT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.03
81 83 0.91
82 5 0.05
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.45
Consensus pattern (80 bp):
TAAAATGATTATTTTGCCCTTATGAGGTAAAATGATTTTTTTACCCTTATGAGGTAAAATAACTG
TTTTGCCTTATAGGG
Found at i:56252783 original size:43 final size:43
Alignment explanation
Indices: 56252724--56252807 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
56252714 GAGATATGTG
*
56252724 GCATCCAAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAA
1 GCATCCAAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGCAA
* * *
56252767 GCATCCGAGCTTGTTGAGAGGTCCGAGTTCATGGTGGATGC
1 GCATCCAAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGC
56252808 GATTCATGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.26
Consensus pattern (43 bp):
GCATCCAAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGCAA
Found at i:56260636 original size:2 final size:2
Alignment explanation
Indices: 56260629--56260653 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56260619 ACCTTATCTC
56260629 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
56260654 CATCAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56263703 original size:22 final size:22
Alignment explanation
Indices: 56263678--56263721 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
56263668 TAGTCTTATA
56263678 ATAATTTATTAATATAATAAAT
1 ATAATTTATTAATATAATAAAT
* *
56263700 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTAATATAATAAAT
56263722 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTATTAATATAATAAAT
Found at i:56263732 original size:20 final size:22
Alignment explanation
Indices: 56263678--56263733 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
56263668 TAGTCTTATA
* * *
56263678 ATAATTTATTAATATAATAAAT
1 ATAATTTAATATTTTAATAAAT
*
56263700 ATAATTTATTATTTTAATAAAT
1 ATAATTTAATATTTTAATAAAT
56263722 -T-ATTTAATATTT
1 ATAATTTAATATTT
56263734 CAATTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 10 0.32
21 1 0.03
22 20 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTAATATTTTAATAAAT
Found at i:56263773 original size:15 final size:16
Alignment explanation
Indices: 56263746--56263780 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
56263736 ATTTTATTTT
56263746 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
*
56263762 AATAAT-AATTTTAAT
1 AATAATAAATTTTAAA
56263777 AATA
1 AATA
56263781 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:56269502 original size:26 final size:26
Alignment explanation
Indices: 56269434--56269504 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 26
56269424 AGCTATATCG
*
56269434 AGAAGCTC-CGGAGAGCCATTAATCA
1 AGAAGCTCACGAAGAGCCATTAATCA
* * * *
56269459 AGAAGCTCACAAAAAGCCTTTAATTA
1 AGAAGCTCACGAAGAGCCATTAATCA
56269485 AGAAGCTCACGAAGAGCCAT
1 AGAAGCTCACGAAGAGCCAT
56269505 ATATCAGGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
25 8 0.22
26 29 0.78
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (26 bp):
AGAAGCTCACGAAGAGCCATTAATCA
Found at i:56270606 original size:29 final size:30
Alignment explanation
Indices: 56270552--56270610 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
56270542 TATTTATTTT
*
56270552 ATTTATCATCTTTTATTTATTTAATTTCCA
1 ATTTATCATCTTTTATTTATTAAATTTCCA
*
56270582 ATTTAGTCAT-TTTT-TTTCTTAAATTTCCA
1 ATTTA-TCATCTTTTATTTATTAAATTTCCA
56270611 TGGATGAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 13 0.50
30 9 0.35
31 4 0.15
ACGTcount: A:0.25, C:0.14, G:0.02, T:0.59
Consensus pattern (30 bp):
ATTTATCATCTTTTATTTATTAAATTTCCA
Found at i:56270908 original size:38 final size:38
Alignment explanation
Indices: 56270857--56271003 Score: 168
Period size: 38 Copynumber: 3.6 Consensus size: 38
56270847 CTTGAATTTT
*
56270857 TGGATATACCACGGTTAAGCATGTAACGTGGTGCTAAG
1 TGGATATACCACGGTTAAACATGTAACGTGGTGCTAAG
56270895 TGGATATACCACGGTTAAACATGTAACGTGGTGCTAAG
1 TGGATATACCACGGTTAAACATGTAACGTGGTGCTAAG
** *
56270933 TGGATATGTCACGGTTACATATATTGATTCATTAACGTGGTGCTAAG
1 TGGATATACCACGGTTA-A-ACA-TG------TAACGTGGTGCTAAG
*
56270980 TGGATATACCATGGTTAAACATGT
1 TGGATATACCACGGTTAAACATGT
56271004 TAATTTGAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
38 53 0.58
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 29 0.32
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (38 bp):
TGGATATACCACGGTTAAACATGTAACGTGGTGCTAAG
Found at i:56274328 original size:28 final size:26
Alignment explanation
Indices: 56274297--56274360 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
56274287 AATTACTTGA
* *
56274297 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCGTT
* *
56274325 ATACCCGTAGGTGCAAAATTACCGTT
1 ATACCCCTAGATGCAAAATTACCGTT
56274351 ATACCCCTAG
1 ATACCCCTAG
56274361 GATTAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.71
27 1 0.03
28 8 0.26
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCGTT
Found at i:56274504 original size:27 final size:27
Alignment explanation
Indices: 56274464--56274604 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
56274454 AGGAAGCGTC
*
56274464 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
56274491 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
56274517 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
56274545 TTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
56274572 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
56274599 CTGGTG
1 CTGGTG
56274605 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:56274617 original size:54 final size:54
Alignment explanation
Indices: 56274461--56274604 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
56274451 TGGAGGAAGC
56274461 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
56274515 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
56274569 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
56274605 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:56279886 original size:26 final size:26
Alignment explanation
Indices: 56279857--56279963 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
56279847 TGGTACAAAT
56279857 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56279883 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56279909 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56279934 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56279960 TGAT
1 TGAT
56279964 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56279929 original size:51 final size:52
Alignment explanation
Indices: 56279857--56279963 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
56279847 TGGTACAAAT
56279857 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
56279909 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
56279960 TGAT
1 TGAT
56279964 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 46 0.87
52 7 0.13
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Done.