Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 91 of 135
Found at i:30681190 original size:23 final size:23
Alignment explanation
Indices: 30681147--30681191 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
30681137 TTAAAGAATA
* *
30681147 AATTTAACCCAATTTAATTAATT
1 AATTCAACCCAAATTAATTAATT
*
30681170 AATTCAACCCAAATTATTTAAT
1 AATTCAACCCAAATTAATTAAT
30681192 GAAATATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTCAACCCAAATTAATTAATT
Found at i:30691239 original size:23 final size:23
Alignment explanation
Indices: 30691213--30691257 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
30691203 GGTTAGAATA
* *
30691213 AATTTAACCCAATTTAATTAATT
1 AATTCAACCCAAATTAATTAATT
*
30691236 AATTCAACCCAAATTATTTAAT
1 AATTCAACCCAAATTAATTAAT
30691258 GAAATATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTCAACCCAAATTAATTAATT
Found at i:30694862 original size:13 final size:13
Alignment explanation
Indices: 30694844--30694882 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
30694834 ACCCAAATTC
*
30694844 ATTTTTATTTTTA
1 ATTTTTAATTTTA
30694857 ATTTTTAATTTTA
1 ATTTTTAATTTTA
**
30694870 AAGTTTAATTTTA
1 ATTTTTAATTTTA
30694883 GTTGAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (13 bp):
ATTTTTAATTTTA
Found at i:30700599 original size:42 final size:42
Alignment explanation
Indices: 30700552--30700870 Score: 333
Period size: 42 Copynumber: 7.9 Consensus size: 42
30700542 ACGGTAGAGC
*
30700552 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCGGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* *
30700594 AAGACATCATCCAATCTCTTACCTCGATCATGGGGCAGATTT
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* * * * *
30700636 TAG-C-T-GTCCAATCTCTTACCCCAATCATGAGGTAGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* *
30700675 AAG-CATC-T--AATCTCTTACCCCAATCATGGGGCAGATTA
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* *
30700713 AAGACATCATCCAATCTCTTACCCTGGTCAT-GGGCAGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* * * * *
30700754 AAG----CATCCAATCTTTTATCCC-AGTTA-GAGGGTAGACTG
1 AAGACATCATCCAATCTCTTACCCCGA-TCATG-GGGCAGATTG
* *
30700792 AAGACATCATCCAATCTCTTATCCTGATCATGGGGCAGATTG
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
* *
30700834 AAGACATCATCCAATCTCTTACTCCGATCATGAGGCA
1 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCA
30700871 AATTATCCGA
Statistics
Matches: 228, Mismatches: 34, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
37 17 0.07
38 41 0.18
39 35 0.15
40 4 0.02
41 13 0.06
42 116 0.51
43 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (42 bp):
AAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATTG
Found at i:30700796 original size:79 final size:79
Alignment explanation
Indices: 30700552--30700870 Score: 286
Period size: 79 Copynumber: 3.9 Consensus size: 79
30700542 ACGGTAGAGC
* *
30700552 AAGACATCATCCAATCTCTTACCCCGATCATGGGGCGGATTGAAGACATCATCCAATCTCTTACC
1 AAGACATCATCCAATCTCTTACCCTGATCAT-GGGCAGATTGAAG----CATCCAATCTCTTACC
* * * *
30700617 TCGATCATGGGGCAGATTT
61 CCAATCATGGGGCAGACTA
* * ** * *
30700636 TAG-C-T-GTCCAATCTCTTACCCCAATCATGAGGTAGATTGAAGCATCTAATCTCTTACCCCAA
1 AAGACATCATCCAATCTCTTACCCTGATCATG-GGCAGATTGAAGCATCCAATCTCTTACCCCAA
*
30700698 TCATGGGGCAGATTA
65 TCATGGGGCAGACTA
* * * *
30700713 AAGACATCATCCAATCTCTTACCCTGGTCATGGGCAGATTGAAGCATCCAATCTTTTATCCCAGT
1 AAGACATCATCCAATCTCTTACCCTGATCATGGGCAGATTGAAGCATCCAATCTCTTACCCCAAT
* * *
30700778 TA-GAGGGTAGACTG
66 CATG-GGGCAGACTA
* *
30700792 AAGACATCATCCAATCTCTTATCCTGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACT
1 AAGACATCATCCAATCTCTTACCCTGATCAT-GGGCAGATTGAAG----CATCCAATCTCTTACC
* *
30700857 CCGATCATGAGGCA
61 CCAATCATGGGGCA
30700871 AATTATCCGA
Statistics
Matches: 191, Mismatches: 33, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
77 33 0.17
78 2 0.01
79 66 0.35
80 34 0.18
81 31 0.16
82 1 0.01
83 1 0.01
84 22 0.12
85 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (79 bp):
AAGACATCATCCAATCTCTTACCCTGATCATGGGCAGATTGAAGCATCCAATCTCTTACCCCAAT
CATGGGGCAGACTA
Found at i:30700881 original size:20 final size:20
Alignment explanation
Indices: 30700856--30700894 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
30700846 AATCTCTTAC
30700856 TCCGATCATGAGGCAAATTA
1 TCCGATCATGAGGCAAATTA
30700876 TCCGATCATGAGGCAAATT
1 TCCGATCATGAGGCAAATT
30700895 GAAGACATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
TCCGATCATGAGGCAAATTA
Found at i:30700896 original size:62 final size:63
Alignment explanation
Indices: 30700810--30700932 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 63
30700800 ATCCAATCTC
* * *
30700810 TTATCCTGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACTCCGATCATGAGGCAAA
1 TTATCCTGATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCAAA
30700873 TTATCC-GATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCA
1 TTATCCTGATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCA
30700933 GATTGAAGAC
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
62 51 0.89
63 6 0.11
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (63 bp):
TTATCCTGATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCAAA
Found at i:30700925 original size:42 final size:42
Alignment explanation
Indices: 30700877--30701105 Score: 308
Period size: 42 Copynumber: 5.6 Consensus size: 42
30700867 GGCAAATTAT
*
30700877 CCGATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACC
1 CCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACC
30700919 CCGATCATGAGGCAGATTGAAGACATCATCCAAATCTCTTACC
1 CCGATCATGAGGCAGATTGAAGACATCATCC-AATCTCTTACC
* *
30700962 CCGATCATGAGCCAGATTGAAGGCA-CA-CCAATCTCTTACC
1 CCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACC
* * *
30701002 CCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTACT
1 CCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACC
* * *
30701044 CTGATCATGGGGCAGATTGAAG----CATCCAATCTCTTACT
1 CCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACC
* *
30701082 CCAATCATGGGGCAGATTGAAGAC
1 CCGATCATGAGGCAGATTGAAGAC
30701106 GGCGAATCTT
Statistics
Matches: 170, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
38 36 0.21
40 32 0.19
41 4 0.02
42 64 0.38
43 34 0.20
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
CCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACC
Found at i:30700996 original size:83 final size:82
Alignment explanation
Indices: 30700877--30701105 Score: 318
Period size: 83 Copynumber: 2.8 Consensus size: 82
30700867 GGCAAATTAT
* * *
30700877 CCGATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGA
1 CCGATCATGAGGCAGATTGAAGGCA-CA-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGA
30700942 CATCATCCAAATCTCTTACC
64 CATCATCC-AATCTCTTACC
* *
30700962 CCGATCATGAGCCAGATTGAAGGCACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACA
1 CCGATCATGAGGCAGATTGAAGGCACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
*
30701027 TCATCCAATCTCTTACT
66 TCATCCAATCTCTTACC
* * * * *
30701044 CTGATCATGGGGCAGATTGAA-GCA-TCCAATCTCTTACTCCAATCATGGGGCAGATTGAAGAC
1 CCGATCATGAGGCAGATTGAAGGCACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC
30701106 GGCGAATCTT
Statistics
Matches: 131, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
80 34 0.26
81 3 0.02
82 28 0.21
83 42 0.32
84 2 0.02
85 22 0.17
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (82 bp):
CCGATCATGAGGCAGATTGAAGGCACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
TCATCCAATCTCTTACC
Found at i:30701024 original size:187 final size:183
Alignment explanation
Indices: 30700697--30701057 Score: 469
Period size: 187 Copynumber: 2.0 Consensus size: 183
30700687 TCTTACCCCA
* * * *
30700697 ATCATGGGGCAGATTAAAGACATCATCCAATCTCTTACCCTGGTCATGGGCAGATTGAAGCATCC
1 ATCATGAGGCAAATTAAAGACATCATCCAATCTCTTACCCCGATCATGGGCAGATTGAAGCATCC
* * * ** * *
30700762 AATCTTTTATCCCAGTTAGAGGGTAGACTGAAGACATCATCCAATCTCTTATCCTGATCATGGGG
66 AATCTCTTACCCCAGTCAGAGGCCAGACTGAAGACATCATCCAATCTCTTACCCCGATCATGGGG
30700827 CAGATTGAAGACATCATCCAATCTCTTACTCCGATCATGAGGCAAATTATCCG
131 CAGATTGAAGACATCATCCAATCTCTTACTCCGATCATGAGGCAAATTATCCG
*
30700880 ATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACAT
1 ATCATGAGGCAAATTAAAGACATCATCCAATCTCTTACCCCGATCATG-GGCAGATTGAAG----
* *
30700945 CATCCAAATCTCTTACCCC-GATCATGA-GCCAGATTGAAGGCA-CA-CCAATCTCTTACCCCGA
61 CATCC-AATCTCTTACCCCAG-TCA-GAGGCCAGACTGAAGACATCATCCAATCTCTTACCCCGA
* * *
30701006 TCATGGGGTAGATTGAAGACATCATCCAATCTCTTACTCTGATCATGGGGCA
123 TCATGGGGCAGATTGAAGACATCATCCAATCTCTTACTCCGATCATGAGGCA
30701058 GATTGAAGCA
Statistics
Matches: 153, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
183 43 0.28
184 12 0.08
187 64 0.42
188 8 0.05
189 24 0.16
190 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (183 bp):
ATCATGAGGCAAATTAAAGACATCATCCAATCTCTTACCCCGATCATGGGCAGATTGAAGCATCC
AATCTCTTACCCCAGTCAGAGGCCAGACTGAAGACATCATCCAATCTCTTACCCCGATCATGGGG
CAGATTGAAGACATCATCCAATCTCTTACTCCGATCATGAGGCAAATTATCCG
Found at i:30701050 original size:125 final size:120
Alignment explanation
Indices: 30700877--30701103 Score: 319
Period size: 125 Copynumber: 1.9 Consensus size: 120
30700867 GGCAAATTAT
30700877 CCGATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGA
1 CCGATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG-
*
30700942 CATCATCCAAATCTCTTACCCCGATCATGAGCCAGATTGAAGGCACACCAATCTCTTACC
65 ---CATCC-AATCTCTTACCCCAATCATGAGCCAGATTGAAGGCACACCAATCTCTTACC
* * * * * *
30701002 CCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTACTCTGATCATGGGGCAGATTGAAGC
1 CCGATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGC
* * *
30701067 ATCCAATCTCTTACTCCAATCATGGGGCAGATTGAAG
66 ATCCAATCTCTTACCCCAATCATGAGCCAGATTGAAG
30701104 ACGGCGAATC
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
120 29 0.32
121 5 0.05
125 58 0.63
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (120 bp):
CCGATCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGC
ATCCAATCTCTTACCCCAATCATGAGCCAGATTGAAGGCACACCAATCTCTTACC
Found at i:30702875 original size:17 final size:17
Alignment explanation
Indices: 30702843--30702876 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30702833 AAACTGCCCC
* *
30702843 TTTAATTTATTTCTTTT
1 TTTAATTTAGTCCTTTT
30702860 TTTAATTTAGTCCTTTT
1 TTTAATTTAGTCCTTTT
30702877 ACTTTTGGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTAATTTAGTCCTTTT
Found at i:30703015 original size:30 final size:30
Alignment explanation
Indices: 30702949--30703148 Score: 134
Period size: 30 Copynumber: 6.7 Consensus size: 30
30702939 TGTTTTATCT
* * ** * *
30702949 AAAAATTAAATTTTGACCCTAAAATTTTTC
1 AAAAATTACATTTTAACCCCCAAACTTTCC
* *
30702979 ATAAATTATATTTTAACCCCCAAACTTTCC
1 AAAAATTACATTTTAACCCCCAAACTTTCC
*
30703009 AAAAATTACATTTTAAACCCCCAAACATTCC
1 AAAAATTACATTTT-AACCCCCAAACTTTCC
* ***
30703040 AAAAATTACATTTTGACCCTTGAAC-TTCC
1 AAAAATTACATTTTAACCCCCAAACTTTCC
* * *** *
30703069 AAAAATTGCATTTTTACCCTTGAACTTTTC
1 AAAAATTACATTTTAACCCCCAAACTTTCC
* * * * *
30703099 AAAAGTTACGTTTTGACCCCTAAAATTCTCC
1 AAAAATTACATTTTAACCCCCAAACTT-TCC
* *
30703130 AAAACTTA-ATTTTGACCCC
1 AAAAATTACATTTTAACCCC
30703149 TTTTTTTCCT
Statistics
Matches: 140, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
29 27 0.19
30 75 0.54
31 38 0.27
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAAATTACATTTTAACCCCCAAACTTTCC
Found at i:30703031 original size:31 final size:30
Alignment explanation
Indices: 30702981--30703087 Score: 126
Period size: 31 Copynumber: 3.6 Consensus size: 30
30702971 AATTTTTCAT
* *
30702981 AAATTATATTTTAACCCCCAAACTTTCCAA
1 AAATTACATTTTAACCCCCAAACATTCCAA
30703011 AAATTACATTTTAAACCCCCAAACATTCCAA
1 AAATTACATTTT-AACCCCCAAACATTCCAA
* ***
30703042 AAATTACATTTTGACCCTTGAAC-TTCCAA
1 AAATTACATTTTAACCCCCAAACATTCCAA
* *
30703071 AAATTGCATTTTTACCC
1 AAATTACATTTTAACCC
30703088 TTGAACTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
29 21 0.31
30 18 0.26
31 29 0.43
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (30 bp):
AAATTACATTTTAACCCCCAAACATTCCAA
Found at i:30703080 original size:29 final size:29
Alignment explanation
Indices: 30703005--30703117 Score: 118
Period size: 29 Copynumber: 3.8 Consensus size: 29
30702995 CCCCCAAACT
* ***
30703005 TTCCAAAAATTACATTTTAAACCCCCAAAC
1 TTCCAAAAATTACATTTT-GACCCTTGAAC
30703035 ATTCCAAAAATTACATTTTGACCCTTGAAC
1 -TTCCAAAAATTACATTTTGACCCTTGAAC
* *
30703065 TTCCAAAAATTGCATTTTTACCCTTGAAC
1 TTCCAAAAATTACATTTTGACCCTTGAAC
* * *
30703094 TTTTCAAAAGTTACGTTTTGACCC
1 -TTCCAAAAATTACATTTTGACCC
30703118 CTAAAATTCT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
29 27 0.39
30 25 0.36
31 18 0.26
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.35
Consensus pattern (29 bp):
TTCCAAAAATTACATTTTGACCCTTGAAC
Found at i:30708773 original size:24 final size:24
Alignment explanation
Indices: 30708744--30708792 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
30708734 CTCACCCTCT
* *
30708744 TCTTTGTGCTTCTT-CTTCTTTTTA
1 TCTTTGCGCCTCTTCCTT-TTTTTA
30708768 TCTTTGCGCCTCTTCCTTTTTTTA
1 TCTTTGCGCCTCTTCCTTTTTTTA
30708792 T
1 T
30708793 TCGTCGAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.04, C:0.24, G:0.08, T:0.63
Consensus pattern (24 bp):
TCTTTGCGCCTCTTCCTTTTTTTA
Found at i:30709116 original size:18 final size:18
Alignment explanation
Indices: 30709084--30709119 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
30709074 GGTTCCTTTA
30709084 TTTCATTCTTTTCTTCTT
1 TTTCATTCTTTTCTTCTT
30709102 TTTC-TTCTTTGTCTTCTT
1 TTTCATTCTTT-TCTTCTT
30709120 CTTCCTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTCATTCTTTTCTTCTT
Found at i:30711545 original size:172 final size:172
Alignment explanation
Indices: 30711259--30711604 Score: 640
Period size: 172 Copynumber: 2.0 Consensus size: 172
30711249 GGCTAAATTA
30711259 TCGACGCAAGATGATATTATCGTGCTATCTCCTTATCTTTTCCTTGTAAATTACGACATTCTCAT
1 TCGACGCAAGATGATATTATCGTGCTATCTCCTTATCTTTTCCTTGTAAATTACGACATTCTCAT
*
30711324 AAGCATGTCGGTGTATTTCTTCCAGTTTAGTGATGTCCAACAATCTTTTTTTTTCGACAGCATCA
66 AAGCATGTCGGTGTATTTCTTCCAGTTTAGTGATGTCCAACAATCTTTTTCTTTCGACAGCATCA
30711389 TAATCCATATTCACCTACTTGATTACCCACATGGCATTATGT
131 TAATCCATATTCACCTACTTGATTACCCACATGGCATTATGT
* *
30711431 TCGACGCAAGATGATATTATCGTGCTATCT-CTTGGTCTTTTCCTTGTATATTACGACATTCTCA
1 TCGACGCAAGATGATATTATCGTGCTATCTCCTT-ATCTTTTCCTTGTAAATTACGACATTCTCA
*
30711495 TAAGCATGTCGGTGTATTTCTTCCAGTTTAGTGATGTCCAACAATCTTTTTCTTTCGGCAGCATC
65 TAAGCATGTCGGTGTATTTCTTCCAGTTTAGTGATGTCCAACAATCTTTTTCTTTCGACAGCATC
30711560 ATAATCCATATTCACCTACTTGATTACCCACATGGCATTATGT
130 ATAATCCATATTCACCTACTTGATTACCCACATGGCATTATGT
30711603 TC
1 TC
30711605 AAGCTCAACT
Statistics
Matches: 169, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
171 3 0.02
172 166 0.98
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (172 bp):
TCGACGCAAGATGATATTATCGTGCTATCTCCTTATCTTTTCCTTGTAAATTACGACATTCTCAT
AAGCATGTCGGTGTATTTCTTCCAGTTTAGTGATGTCCAACAATCTTTTTCTTTCGACAGCATCA
TAATCCATATTCACCTACTTGATTACCCACATGGCATTATGT
Found at i:30725394 original size:28 final size:28
Alignment explanation
Indices: 30725362--30725469 Score: 128
Period size: 28 Copynumber: 3.9 Consensus size: 28
30725352 TAAAAGGTAG
*
30725362 GACCTTTGGGTCCACAGGGAGTAAACAT
1 GACCTTTGGGTCAACAGGGAGTAAACAT
* * *
30725390 GACCTTTGGGTCAATAAGGAGTAAGCAT
1 GACCTTTGGGTCAACAGGGAGTAAACAT
* * *
30725418 GACC-TTCGGTCAATAGGGAGTAAGCAT
1 GACCTTTGGGTCAACAGGGAGTAAACAT
* *
30725445 GACCTTTAGGTCAACAGGAAGTAAA
1 GACCTTTGGGTCAACAGGGAGTAAA
30725470 TCAGATACCG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
27 25 0.36
28 44 0.64
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (28 bp):
GACCTTTGGGTCAACAGGGAGTAAACAT
Found at i:30726123 original size:24 final size:24
Alignment explanation
Indices: 30726089--30726149 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
30726079 TTGCATAATA
*
30726089 AGTATCAGTAGTTCTGCCTATAGG
1 AGTATCGGTAGTTCTGCCTATAGG
30726113 AGTATCGGTAGTTCTGCCTATAGG
1 AGTATCGGTAGTTCTGCCTATAGG
30726137 AGTATCGGTAGTT
1 AGTATCGGTAGTT
30726150 TATGTACTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (24 bp):
AGTATCGGTAGTTCTGCCTATAGG
Found at i:30726238 original size:21 final size:21
Alignment explanation
Indices: 30726214--30726262 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
30726204 TTTTGGTACT
* * *
30726214 GGTAGAAGCATGATTTGTTTC
1 GGTAGAAGCATCACTTGTATC
*
30726235 GGTAGAAGCTTCACTTGTATC
1 GGTAGAAGCATCACTTGTATC
30726256 GGTAGAA
1 GGTAGAA
30726263 CTGTCATAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (21 bp):
GGTAGAAGCATCACTTGTATC
Found at i:30730043 original size:28 final size:28
Alignment explanation
Indices: 30730003--30730062 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
30729993 GTTGGAAATG
*
30730003 AGAAACAACGATTAGAAACGTTAAAGAT
1 AGAAACAACGATTAGAAACGTGAAAGAT
*
30730031 AGAAACAACGATTGGAAACGTGAAAGAT
1 AGAAACAACGATTAGAAACGTGAAAGAT
30730059 AGAA
1 AGAA
30730063 TTTCTTGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.53, C:0.10, G:0.22, T:0.15
Consensus pattern (28 bp):
AGAAACAACGATTAGAAACGTGAAAGAT
Found at i:30730388 original size:28 final size:28
Alignment explanation
Indices: 30730345--30730455 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 28
30730335 GGCAACAGGA
30730345 ATGACC-TTTGGTTCAACAGGGAGTAAAC
1 ATGACCTTTTGG-TCAACAGGGAGTAAAC
* * *
30730373 ATGACCTTTTGGTCAATAAGGAGTAAGC
1 ATGACCTTTTGGTCAACAGGGAGTAAAC
* * *
30730401 ATGACCTTTGGGTCAACGGGGAGTAAGC
1 ATGACCTTTTGGTCAACAGGGAGTAAAC
* *
30730429 ATGACCTTTAGGTCAATAGGGAGTAAA
1 ATGACCTTTTGGTCAACAGGGAGTAAA
30730456 TTGGATCTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 66 0.93
29 5 0.07
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (28 bp):
ATGACCTTTTGGTCAACAGGGAGTAAAC
Found at i:30730432 original size:56 final size:56
Alignment explanation
Indices: 30730345--30730454 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 56
30730335 GGCAACAGGA
* *
30730345 ATGACCTTTGGTTCAACAGGGAGTAAACATGACCTTTTGGTCAATAAGGAGTAAGC
1 ATGACCTTTGGGTCAACAGGGAGTAAACATGACCTTTAGGTCAATAAGGAGTAAGC
* * *
30730401 ATGACCTTTGGGTCAACGGGGAGTAAGCATGACCTTTAGGTCAATAGGGAGTAA
1 ATGACCTTTGGGTCAACAGGGAGTAAACATGACCTTTAGGTCAATAAGGAGTAA
30730455 ATTGGATCTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (56 bp):
ATGACCTTTGGGTCAACAGGGAGTAAACATGACCTTTAGGTCAATAAGGAGTAAGC
Found at i:30731206 original size:21 final size:20
Alignment explanation
Indices: 30731166--30731232 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
30731156 GAAGAATGAT
*
30731166 TTGTTTCGGTAGAAGCTTCA
1 TTGTATCGGTAGAAGCTTCA
30731186 CTTGTATCGGTAGAA-CTTTCA
1 -TTGTATCGGTAGAAGC-TTCA
* *
30731207 TAGGTATCGGTAGAAGTCTGCA
1 T-TGTATCGGTAGAAG-CTTCA
30731229 TTGT
1 TTGT
30731233 TTCTTGAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.05
21 31 0.82
22 4 0.11
23 1 0.03
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGTATCGGTAGAAGCTTCA
Found at i:30733648 original size:17 final size:18
Alignment explanation
Indices: 30733609--30733649 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
30733599 AATGATTTAT
30733609 GGAAATGCAATGACAATA
1 GGAAATGCAATGACAATA
*
30733627 -TAAATGCAATGACAA-A
1 GGAAATGCAATGACAATA
30733643 GGAAATG
1 GGAAATG
30733650 TGATGACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.17
Consensus pattern (18 bp):
GGAAATGCAATGACAATA
Found at i:30738633 original size:67 final size:63
Alignment explanation
Indices: 30738561--30738701 Score: 219
Period size: 67 Copynumber: 2.2 Consensus size: 63
30738551 TTTTATGAAT
*
30738561 ATAAATAAATATAAAATAATTTTAATTTTGTTTTATTATTTATTCATTATTGTATGAATATAAAT
1 ATAAATAAATATAAAATAATATTAATTTTGTTTTATTATTTATT-A-T-TT-TATGAATATAAAT
30738626 AA
62 AA
* *
30738628 ATAAATAAATGTAAAATAATATTAATTTTGTTTTATTATTTATTATTTTATGAATATAGATAA
1 ATAAATAAATATAAAATAATATTAATTTTGTTTTATTATTTATTATTTTATGAATATAAATAA
30738691 ATAAATAAATA
1 ATAAATAAATA
30738702 AATAACAAAC
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
63 24 0.34
64 2 0.03
65 1 0.01
66 1 0.01
67 42 0.60
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.48
Consensus pattern (63 bp):
ATAAATAAATATAAAATAATATTAATTTTGTTTTATTATTTATTATTTTATGAATATAAATAA
Found at i:30741354 original size:55 final size:58
Alignment explanation
Indices: 30741280--30741395 Score: 184
Period size: 58 Copynumber: 2.0 Consensus size: 58
30741270 TCCATTTTTC
* *
30741280 TTATTATTTTTATGAATATAAATAAAT-A-TAAAATAATTTTAATTTTGTTTTATTAT
1 TTATTATTTGTATGAATATAAATAAATAAGTAAAATAATATTAATTTTGTTTTATTAT
30741336 TTATTA-TTGTATGAATATAAATAAATAATGTAAAATAATATTAATTTTGTTTTATTAT
1 TTATTATTTGTATGAATATAAATAAATAA-GTAAAATAATATTAATTTTGTTTTATTAT
30741394 TT
1 TT
30741396 TATGAAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
55 19 0.35
56 7 0.13
58 29 0.53
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (58 bp):
TTATTATTTGTATGAATATAAATAAATAAGTAAAATAATATTAATTTTGTTTTATTAT
Found at i:30745028 original size:23 final size:24
Alignment explanation
Indices: 30744970--30745031 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
30744960 AGAAATAATC
*
30744970 TTTCAGAT-AAACTCTGTTTATTTG
1 TTTCA-ATCAAACTCTGTTTATTTA
*
30744994 TTTCAATTAAACTCTG-TTATTTA
1 TTTCAATCAAACTCTGTTTATTTA
* *
30745017 TTTGAGTCAAACTCT
1 TTTCAATCAAACTCT
30745032 TATTACTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 20 0.61
24 13 0.39
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (24 bp):
TTTCAATCAAACTCTGTTTATTTA
Found at i:30746987 original size:24 final size:24
Alignment explanation
Indices: 30746960--30747021 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
30746950 GAAATAATCC
*
30746960 TTCAGTTAAACTCTGTTTATTTGT
1 TTCAGTTAAACTCTATTTATTTGT
*
30746984 TTCAATTAAACTCTATTTATTTGT
1 TTCAGTTAAACTCTATTTATTTGT
* *
30747008 TTGAGTCAAACTCT
1 TTCAGTTAAACTCT
30747022 TATTACTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.50
Consensus pattern (24 bp):
TTCAGTTAAACTCTATTTATTTGT
Found at i:30748977 original size:24 final size:24
Alignment explanation
Indices: 30748949--30748999 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
30748939 AGAAATAATC
*
30748949 TTTCAATTAAACCCTGTTTATTTG
1 TTTCAATTAAACCCTATTTATTTG
*
30748973 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACCCTATTTATTTG
30748997 TTT
1 TTT
30749000 GAGTGAAACT
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:0.25, C:0.14, G:0.06, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACCCTATTTATTTG
Found at i:30749008 original size:24 final size:24
Alignment explanation
Indices: 30748949--30749011 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
30748939 AGAAATAATC
* * *
30748949 TTTCAATTAAACCCTGTTTATTTG
1 TTTCAATGAAACTCTATTTATTTG
*
30748973 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATGAAACTCTATTTATTTG
* *
30748997 TTTGAGTGAAACTCT
1 TTTCAATGAAACTCT
30749012 TATTACTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (24 bp):
TTTCAATGAAACTCTATTTATTTG
Found at i:30750999 original size:24 final size:24
Alignment explanation
Indices: 30750956--30751002 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
30750946 TTAAACCCTG
* *
30750956 TTTATTTGTTTTAATTAAACTCTA
1 TTTATTTGTTTGAATCAAACTCTA
*
30750980 TTTATTTGTTTGAGTCAAACTCT
1 TTTATTTGTTTGAATCAAACTCT
30751003 TATTACTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (24 bp):
TTTATTTGTTTGAATCAAACTCTA
Found at i:30751910 original size:24 final size:24
Alignment explanation
Indices: 30751882--30751944 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
30751872 AGAAATAATC
*
30751882 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
*
30751906 TTTCAATTAAACTCTATTTATTTG
1 TTTCAGTTAAACTCTATTTATTTG
* *
30751930 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
30751945 TATTACTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTATTTATTTG
Found at i:30757100 original size:19 final size:19
Alignment explanation
Indices: 30757076--30757112 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
30757066 CTTTTTCTTT
30757076 TTCTCTTGCTT-CTCCTCTC
1 TTCTCTT-CTTCCTCCTCTC
30757095 TTCTCTTCTTCCTCCTCT
1 TTCTCTTCTTCCTCCTCT
30757113 TCCTCAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.00, C:0.43, G:0.03, T:0.54
Consensus pattern (19 bp):
TTCTCTTCTTCCTCCTCTC
Found at i:30790117 original size:52 final size:52
Alignment explanation
Indices: 30790035--30790222 Score: 236
Period size: 52 Copynumber: 3.6 Consensus size: 52
30790025 CACATCATTA
* * * *
30790035 ATATACTCACGATAACACATAGCCACCGGACC-TTATAATCCAT-GAGAGATTC
1 ATATACTCACGATGACACATAGTCATCGGACCTTTA-AATCCATAAAG-GATTC
* * * *
30790087 ATATACTCACGATGACACAGAGTCATCGGACCTTTGAATCCGTAAAGGATCC
1 ATATACTCACGATGACACATAGTCATCGGACCTTTAAATCCATAAAGGATTC
* *
30790139 ATATACTCACGATGGCACTTAGTCATCGGACCTTTAAATCCATAAAGGATTC
1 ATATACTCACGATGACACATAGTCATCGGACCTTTAAATCCATAAAGGATTC
* *
30790191 ATTTACTCACGATGACACTTAGTCATCGGACC
1 ATATACTCACGATGACACATAGTCATCGGACC
30790223 CTTTTTCATT
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
52 114 0.97
53 4 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (52 bp):
ATATACTCACGATGACACATAGTCATCGGACCTTTAAATCCATAAAGGATTC
Found at i:30790215 original size:104 final size:104
Alignment explanation
Indices: 30790035--30790222 Score: 263
Period size: 104 Copynumber: 1.8 Consensus size: 104
30790025 CACATCATTA
*
30790035 ATATACTCACGATAACACATAGCCACCGGACCTTATAATCCATGAGAGATTCATATACTCACGAT
1 ATATACTCACGATAACACATAGCCACCGGACCTTATAATCCATAAGAGATTCATATACTCACGAT
30790100 GACACAGAGTCATCGGACCTTTGAATCCGTAAAGGATCC
66 GACACAGAGTCATCGGACCTTTGAATCCGTAAAGGATCC
** * * * *
30790139 ATATACTCACGATGGCACTTAGTCATCGGACCTT-TAAATCCATAA-AGGATTCATTTACTCACG
1 ATATACTCACGATAACACATAGCCACCGGACCTTAT-AATCCATAAGA-GATTCATATACTCACG
**
30790202 ATGACACTTAGTCATCGGACC
64 ATGACACAGAGTCATCGGACC
30790223 CTTTTTCATT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
103 2 0.03
104 71 0.97
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (104 bp):
ATATACTCACGATAACACATAGCCACCGGACCTTATAATCCATAAGAGATTCATATACTCACGAT
GACACAGAGTCATCGGACCTTTGAATCCGTAAAGGATCC
Found at i:30796605 original size:30 final size:31
Alignment explanation
Indices: 30796571--30796644 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 31
30796561 TAAATAATTT
30796571 TAAAATTATTAAAATTA-TTTTTTAAGAAT-A
1 TAAAATTATTAAAATTATTTTTTTAA-AATAA
30796601 TAAAATTATTAAAATTATTTTTTTAAAATAA
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
30796632 TAAAATTATTAAA
1 TAAAATTATTAAA
30796645 TAATTTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
30 20 0.48
31 22 0.52
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTTTTTAAAATAA
Found at i:30796651 original size:30 final size:30
Alignment explanation
Indices: 30796571--30796651 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
30796561 TAAATAATTT
*
30796571 TAAAATTATTAAA-ATTATTTTTTAAGAATA
1 TAAAATTATTAAATAAT-TTTTTTAAGAATA
*
30796601 TAAAATTATTAAAATTATTTTTTTAA-AATAA
1 TAAAATTATT-AAATAATTTTTTTAAGAAT-A
30796632 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATAATTTT
30796652 AATTTTTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 22 0.49
31 22 0.49
32 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (30 bp):
TAAAATTATTAAATAATTTTTTTAAGAATA
Found at i:30797529 original size:18 final size:18
Alignment explanation
Indices: 30797490--30797532 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
30797480 TTGTTAACTG
* *
30797490 TTTTTTTAATTTTAATTA
1 TTTTTTTAATGTTAAATA
30797508 TTTTTTTAA-GTTAAATA
1 TTTTTTTAATGTTAAATA
*
30797525 CTTTTTTA
1 TTTTTTTA
30797533 CTGACGTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTTTAATGTTAAATA
Found at i:30800626 original size:17 final size:17
Alignment explanation
Indices: 30800606--30800644 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
30800596 ACTACAATGC
*
30800606 AAATGCATCGACAAATA
1 AAATGCAGCGACAAATA
* *
30800623 AAATGCAGGGACAATTA
1 AAATGCAGCGACAAATA
30800640 AAATG
1 AAATG
30800645 TGATGACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.13, G:0.18, T:0.18
Consensus pattern (17 bp):
AAATGCAGCGACAAATA
Found at i:30801111 original size:28 final size:27
Alignment explanation
Indices: 30801077--30801131 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
30801067 TCTTCCTTCT
*
30801077 CTCCTTCTTTTCCATCTTCCTTTTCCTC
1 CTCCTTCTCTT-CATCTTCCTTTTCCTC
* *
30801105 CTCCTTCTCTTCTTCTTTCTTTTCCTC
1 CTCCTTCTCTTCATCTTCCTTTTCCTC
30801132 AATACCCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (27 bp):
CTCCTTCTCTTCATCTTCCTTTTCCTC
Found at i:30815806 original size:18 final size:18
Alignment explanation
Indices: 30815785--30815830 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
30815775 TTGGAACCTA
30815785 AGGAGAAGAAGGAA-AATG
1 AGGAGAAGAAGGAATAA-G
30815803 AGGA-AGAGAAGGAATAAG
1 AGGAGA-AGAAGGAATAAG
30815821 AGGAGAAGAA
1 AGGAGAAGAA
30815831 TAAGGAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.39, T:0.04
Consensus pattern (18 bp):
AGGAGAAGAAGGAATAAG
Found at i:30816814 original size:9 final size:9
Alignment explanation
Indices: 30816797--30816848 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
30816787 GTCATTTATA
30816797 AAAAAAAAG
1 AAAAAAAAG
*
30816806 AAAAGAAAG
1 AAAAAAAAG
*
30816815 AAAAAGAAG
1 AAAAAAAAG
**
30816824 AAGGAAAAG
1 AAAAAAAAG
*
30816833 AGAAAAGAAG
1 A-AAAAAAAG
30816843 AAAAAA
1 AAAAAA
30816849 GAAATATATA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
9 26 0.81
10 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:30816831 original size:22 final size:20
Alignment explanation
Indices: 30816803--30816852 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
30816793 TATAAAAAAA
30816803 AAGAAAAGAAAGAAAAAGAAG
1 AAGAAAAGAAAG-AAAAGAAG
30816824 AAGGAAAAG--AGAAAAGAAG
1 AA-GAAAAGAAAGAAAAGAAG
30816843 AA-AAAAGAAA
1 AAGAAAAGAAA
30816853 TATATACTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 5 0.19
19 11 0.42
20 2 0.08
21 2 0.08
22 6 0.23
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (20 bp):
AAGAAAAGAAAGAAAAGAAG
Found at i:30831754 original size:25 final size:25
Alignment explanation
Indices: 30831720--30831771 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
30831710 TCCACGATGT
*
30831720 AATGGATCCATCAAGTAAACTAAGA
1 AATGGATCCATCAAGCAAACTAAGA
30831745 AATGGATCCATCAAGCAAACTAAGA
1 AATGGATCCATCAAGCAAACTAAGA
30831770 AA
1 AA
30831772 CCATGTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (25 bp):
AATGGATCCATCAAGCAAACTAAGA
Found at i:30863367 original size:15 final size:15
Alignment explanation
Indices: 30863347--30863381 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
30863337 GAAAATAGTG
*
30863347 CAGATTTTTAGAAAA
1 CAGATTTTCAGAAAA
30863362 CAGATTTTCAGAAAA
1 CAGATTTTCAGAAAA
30863377 CAGAT
1 CAGAT
30863382 CCTACGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (15 bp):
CAGATTTTCAGAAAA
Found at i:30872651 original size:24 final size:25
Alignment explanation
Indices: 30872624--30872670 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
30872614 TGGCACAAAA
30872624 TCTT-CTTCATTTTTC-CTTTTCTTC
1 TCTTCCTTC-TTTTTCTCTTTTCTTC
30872648 TCTTCCTTCTTTTTCTCTTTTCT
1 TCTTCCTTCTTTTTCTCTTTTCT
30872671 CTTTTTCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (25 bp):
TCTTCCTTCTTTTTCTCTTTTCTTC
Found at i:30880015 original size:21 final size:20
Alignment explanation
Indices: 30879978--30880019 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
30879968 AAAACGCATA
* *
30879978 AAAAATAACATCCAAACAAC
1 AAAAATAACAGCAAAACAAC
30879998 AAAAATAACAGCAAAAACAAC
1 AAAAATAACAGC-AAAACAAC
30880019 A
1 A
30880020 CGAAAACAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.69, C:0.21, G:0.02, T:0.07
Consensus pattern (20 bp):
AAAAATAACAGCAAAACAAC
Found at i:30880033 original size:20 final size:20
Alignment explanation
Indices: 30880004--30880110 Score: 92
Period size: 20 Copynumber: 5.2 Consensus size: 20
30879994 CAACAAAAAT
* *
30880004 AACAGCAAAAACAACACGAA
1 AACAGTAAAAACAACACCAA
*
30880024 AACAGTAAAAA-AGCACCAA
1 AACAGTAAAAACAACACCAA
30880043 AACAGTAAAAAACAACA-CAA
1 AACAGT-AAAAACAACACCAA
* * *
30880063 AATAGCAAAAAACAGCAACCAA
1 AACAG-TAAAAACAAC-ACCAA
*
30880085 AACAGTAAAAAAATAGCACCAA
1 AACAGTAAAAACA-A-CACCAA
30880107 AACA
1 AACA
30880111 ACAATATAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
19 12 0.17
20 30 0.43
21 10 0.14
22 16 0.23
23 1 0.01
ACGTcount: A:0.65, C:0.21, G:0.08, T:0.05
Consensus pattern (20 bp):
AACAGTAAAAACAACACCAA
Found at i:30880087 original size:61 final size:62
Alignment explanation
Indices: 30879991--30880110 Score: 156
Period size: 61 Copynumber: 1.9 Consensus size: 62
30879981 AATAACATCC
*
30879991 AAACAACAAAAATAACAGCAAAAACAACACGAAAACAGT-AAAAA-AGCACCAAAACAGTAAA
1 AAACAACAAAAATAACA-CAAAAACAACACCAAAACAGTAAAAAATAGCACCAAAACAGTAAA
* *
30880052 AAACAACACAAAATAGCA-AAAAACAGCAACCAAAACAGTAAAAAAATAGCACCAAAACA
1 AAACAACA-AAAATAACACAAAAACAAC-ACCAAAACAGT-AAAAAATAGCACCAAAACA
30880111 ACAATATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
60 8 0.16
61 18 0.35
62 8 0.16
63 5 0.10
64 12 0.24
ACGTcount: A:0.67, C:0.21, G:0.07, T:0.05
Consensus pattern (62 bp):
AAACAACAAAAATAACACAAAAACAACACCAAAACAGTAAAAAATAGCACCAAAACAGTAAA
Found at i:30880095 original size:42 final size:40
Alignment explanation
Indices: 30880010--30880096 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 40
30880000 AAATAACAGC
*
30880010 AAAAACAACACGAAAACAGTAAAAAAGCACCAAAACAGTA
1 AAAAACAACACGAAAACAGAAAAAAAGCACCAAAACAGTA
*
30880050 AAAAACAACAC-AAAATAGCAAAAAACAGCAACCAAAACAGTA
1 AAAAACAACACGAAAACAG-AAAAAA-AGC-ACCAAAACAGTA
30880092 AAAAA
1 AAAAA
30880097 ATAGCACCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 6 0.14
40 16 0.38
41 3 0.07
42 17 0.40
ACGTcount: A:0.68, C:0.20, G:0.08, T:0.05
Consensus pattern (40 bp):
AAAAACAACACGAAAACAGAAAAAAAGCACCAAAACAGTA
Found at i:30880105 original size:22 final size:21
Alignment explanation
Indices: 30880004--30880110 Score: 98
Period size: 22 Copynumber: 5.2 Consensus size: 21
30879994 CAACAAAAAT
* * *
30880004 AACAGCAAAAACAA-CACGAA
1 AACAGTAAAAAAAAGCACCAA
30880024 AACAGT--AAAAAAGCACCAA
1 AACAGTAAAAAAAAGCACCAA
30880043 AACAGTAAAAAACAA-CA-CAA
1 AACAGTAAAAAA-AAGCACCAA
* * *
30880063 AATAGCAAAAAACAGCAACCAA
1 AACAGTAAAAAAAAGC-ACCAA
30880085 AACAGTAAAAAAATAGCACCAA
1 AACAGTAAAAAAA-AGCACCAA
30880107 AACA
1 AACA
30880111 ACAATATAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
18 5 0.07
19 12 0.17
20 19 0.27
21 7 0.10
22 24 0.34
23 3 0.04
ACGTcount: A:0.65, C:0.21, G:0.08, T:0.05
Consensus pattern (21 bp):
AACAGTAAAAAAAAGCACCAA
Found at i:30882954 original size:16 final size:16
Alignment explanation
Indices: 30882933--30882967 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30882923 GTATCATTTC
* *
30882933 CTATAGTTTTCAGAAT
1 CTATAGGTTTCAAAAT
30882949 CTATAGGTTTCAAAAT
1 CTATAGGTTTCAAAAT
30882965 CTA
1 CTA
30882968 AGCCATCTTA
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:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (16 bp):
CTATAGGTTTCAAAAT
Found at i:30885213 original size:26 final size:28
Alignment explanation
Indices: 30885184--30885242 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 28
30885174 GCATAGGAAT
* *
30885184 TTAATTTAGTTTAGCTTTA-AC-TTAGA
1 TTAATTTAGTTTAGATTAATACTTTAGA
30885210 TTAATTTAGTTTAGATTAATACTTTAGA
1 TTAATTTAGTTTAGATTAATACTTTAGA
30885238 TTAAT
1 TTAAT
30885243 ATCCGTCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 17 0.59
27 2 0.07
28 10 0.34
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (28 bp):
TTAATTTAGTTTAGATTAATACTTTAGA
Found at i:30885237 original size:13 final size:13
Alignment explanation
Indices: 30885205--30885243 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
30885195 TAGCTTTAAC
*
30885205 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
30885220 TTAGATTAATACT
1 TTAGATTAATACT
30885233 TTAGATTAATA
1 TTAGATTAATA
30885244 TCCGTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:30905364 original size:16 final size:17
Alignment explanation
Indices: 30905340--30905372 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
30905330 CATGCATGAG
*
30905340 CAAAGTTTGA-AAAATT
1 CAAACTTTGATAAAATT
30905356 CAAACTTTGATAAAATT
1 CAAACTTTGATAAAATT
30905373 AGCTTGGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (17 bp):
CAAACTTTGATAAAATT
Found at i:30912875 original size:71 final size:71
Alignment explanation
Indices: 30912751--30912883 Score: 169
Period size: 71 Copynumber: 1.9 Consensus size: 71
30912741 TCGGCTAGGT
* * *
30912751 AAAGTACCATGGAAGTCATTGTATTAGAGGTTAGAATGTAGTTGGCCCCTTTTACTTAAAAAGGA
1 AAAGTACCATGGAAGTCATTGTATTAGAGGTTAGAATGCAGTTGACCCCTTTTACTAAAAAAGGA
30912816 TAGATA
66 TAGATA
* * * * * *
30912822 AAAGTATCAT-GAAGATCATTGTATTAGGGGTTGGAATGCATTTGACTCTTTTTACTAAAAAA
1 AAAGTACCATGGAAG-TCATTGTATTAGAGGTTAGAATGCAGTTGACCCCTTTTACTAAAAAA
30912884 AATGGACAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 4 0.08
71 48 0.92
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (71 bp):
AAAGTACCATGGAAGTCATTGTATTAGAGGTTAGAATGCAGTTGACCCCTTTTACTAAAAAAGGA
TAGATA
Found at i:30923981 original size:18 final size:20
Alignment explanation
Indices: 30923958--30923994 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30923948 ACACATAGTT
30923958 TTTCTT-TTC-CTTTTTTTC
1 TTTCTTCTTCTCTTTTTTTC
30923976 TTTCTTCTTCTCTTTTTTT
1 TTTCTTCTTCTCTTTTTTT
30923995 ATGTGACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTCTTCTTCTCTTTTTTTC
Found at i:30928245 original size:18 final size:18
Alignment explanation
Indices: 30928222--30928261 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
30928212 CTCGTCAGGA
30928222 AATGCATTGACAATTTGG
1 AATGCATTGACAATTTGG
30928240 AATGCATTGACAATTTGG
1 AATGCATTGACAATTTGG
30928258 AATG
1 AATG
30928262 TATTTCCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (18 bp):
AATGCATTGACAATTTGG
Found at i:30942627 original size:21 final size:23
Alignment explanation
Indices: 30942579--30942635 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
30942569 CAAGTACACA
* *
30942579 AACTACCGATACTTCTAAGTATAG
1 AACTACCGATAC-TCTAACTATAC
30942603 AACTACCGATAC-CT-ACTATAC
1 AACTACCGATACTCTAACTATAC
30942624 AACTACCGATAC
1 AACTACCGATAC
30942636 AGCCCAAGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 17 0.55
22 2 0.06
24 12 0.39
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.25
Consensus pattern (23 bp):
AACTACCGATACTCTAACTATAC
Found at i:30947453 original size:18 final size:17
Alignment explanation
Indices: 30947430--30947472 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
30947420 CGTTTTAAAG
30947430 ATTTATTTTAAAGATTAA
1 ATTTATTTTAAA-ATTAA
* *
30947448 ATTTATTTTGAATTTAA
1 ATTTATTTTAAAATTAA
30947465 ATTTATTT
1 ATTTATTT
30947473 GAATTCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
ATTTATTTTAAAATTAA
Found at i:30947475 original size:16 final size:17
Alignment explanation
Indices: 30947430--30947477 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
30947420 CGTTTTAAAG
* *
30947430 ATTTATTTTAAAGATTAA
1 ATTTATTTTGAA-TTTAA
30947448 ATTTATTTTGAATTTAA
1 ATTTATTTTGAATTTAA
30947465 ATTTA-TTTGAATT
1 ATTTATTTTGAATT
30947478 CATATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.29
17 9 0.32
18 11 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
ATTTATTTTGAATTTAA
Found at i:30947484 original size:16 final size:17
Alignment explanation
Indices: 30947446--30947485 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
30947436 TTTAAAGATT
*
30947446 AAATTTATTTTGAATTT
1 AAATTTATTTTGAATTC
30947463 AAATTTA-TTTGAATTC
1 AAATTTATTTTGAATTC
*
30947479 ATATTTA
1 AAATTTA
30947486 AATTTAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (17 bp):
AAATTTATTTTGAATTC
Found at i:30948589 original size:10 final size:10
Alignment explanation
Indices: 30948560--30948598 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
30948550 TTTAGAAAAT
*
30948560 GAAAATGAAA
1 GAAAAAGAAA
30948570 GAACAAAGAAA
1 GAA-AAAGAAA
30948581 GAAAAAGAAA
1 GAAAAAGAAA
*
30948591 GAATAAGA
1 GAAAAAGA
30948599 GGCAAAGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:30949387 original size:58 final size:57
Alignment explanation
Indices: 30949265--30949560 Score: 371
Period size: 59 Copynumber: 5.1 Consensus size: 57
30949255 GCTCTTTAGT
30949265 CCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTTA
1 CCCCAAACTTTCTAAAATTCCA-TTTTAACCTCGATTTCACCCAAAATTACCATTTTA
* * * *
30949323 CCCCCAAACTCTCTAAAATTCCATTTAAACC-CTGATTTTACCCAAAATTACCATTTGA
1 -CCCCAAACTTTCTAAAATTCCATTTTAACCTC-GATTTCACCCAAAATTACCATTTTA
* *
30949381 CACCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACAATTTTA
1 C-CCCAAACTTTCTAAAATTCCA-TTTTAACCTCGATTTCACCCAAAATTACCATTTTA
* * *
30949440 GCCCTAAACTTTCTAAAATTCCATTTTAACCTCGATTTTACCCAAAATTACCATCTTA
1 -CCCCAAACTTTCTAAAATTCCATTTTAACCTCGATTTCACCCAAAATTACCATTTTA
* * * * *
30949498 CCCCTAAACTTTCCAAAATCCCATTTTTGACCTCGATTTCATCAAAAATTA-CATTTTTA
1 CCCC-AAACTTTCTAAAATTCCA-TTTTAACCTCGATTTCACCCAAAATTACCA-TTTTA
30949557 CCCC
1 CCCC
30949561 CGGAAGTCAA
Statistics
Matches: 207, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
57 5 0.02
58 99 0.48
59 101 0.49
60 2 0.01
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (57 bp):
CCCCAAACTTTCTAAAATTCCATTTTAACCTCGATTTCACCCAAAATTACCATTTTA
Found at i:30949449 original size:59 final size:59
Alignment explanation
Indices: 30949265--30949561 Score: 395
Period size: 58 Copynumber: 5.1 Consensus size: 59
30949255 GCTCTTTAGT
30949265 CCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTTAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTTAC
* * * *
30949324 CCCCAAACTCTCTAAAATTCCA-TTTAAACC-CTGATTTTACCCAAAATTACCATTTGAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCTC-GATTTCACCCAAAATTACCATTTTAC
* * * *
30949382 ACCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACAATTTTAG
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTTAC
* * *
30949441 CCCTAAACTTTCTAAAATTCCA-TTTTAACCTCGATTTTACCCAAAATTACCATCTTAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTTAC
* * * * * *
30949499 CCCTAAACTTTCCAAAATCCCATTTTTGACCTCGATTTCATCAAAAATTA-CATTTTTAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCA-TTTTAC
30949558 CCCC
1 CCCC
30949562 GGAAGTCAAA
Statistics
Matches: 207, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
57 1 0.00
58 104 0.50
59 101 0.49
60 1 0.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
CCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTTAC
Found at i:30949477 original size:117 final size:116
Alignment explanation
Indices: 30949265--30949561 Score: 436
Period size: 117 Copynumber: 2.5 Consensus size: 116
30949255 GCTCTTTAGT
*
30949265 CCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTTACCCCCAA
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACAATTTTACCCCCAA
30949330 ACTCTCTAAAATTCCATTTAAACCCTGATTTTACCCAAAATTACCAT-TTGA
66 ACTCTCTAAAATTCCATTTAAACCCTGATTTTACCCAAAATTACCATCTT-A
* * *
30949381 CACCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACAATTTTAGCCCTA
1 C-CCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACAATTTTACCCCCA
* *
30949446 AACTTTCTAAAATTCCATTTTAA-CCTCGATTTTACCCAAAATTACCATCTTA
65 AACTCTCTAAAATTCCATTTAAACCCT-GATTTTACCCAAAATTACCATCTTA
* * * * * *
30949498 CCCCTAAACTTTCCAAAATCCCATTTTTGACCTCGATTTCATCAAAAATTACATTTTTACCCCC
1 CCCC-AAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACAATTTTACCCCC
30949562 GGAAGTCAAA
Statistics
Matches: 162, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
116 7 0.04
117 153 0.94
118 2 0.01
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (116 bp):
CCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACAATTTTACCCCCAA
ACTCTCTAAAATTCCATTTAAACCCTGATTTTACCCAAAATTACCATCTTA
Found at i:30949513 original size:29 final size:28
Alignment explanation
Indices: 30949306--30949524 Score: 92
Period size: 29 Copynumber: 7.6 Consensus size: 28
30949296 TCGATTTCAC
* *
30949306 CCAAAATTACCATTTTACCCCCAAACTCT
1 CCAAAATTACCATTTTA-CCCTAAACTTT
* * * *
30949335 CTAAAATT-CCATTTAAACCCT-GATTTT
1 CCAAAATTACCATTT-TACCCTAAACTTT
* *
30949362 ACCCAAAATTACCATTTGACACCCAAACTTT
1 --CCAAAATTACCATTTTAC-CCTAAACTTT
* **
30949393 CTAAAATT-CCATTTTTAACCC-CGA-TTT
1 CCAAAATTACCA-TTTT-ACCCTAAACTTT
*
30949420 CACCCAAAATTACAATTTTAGCCCTAAACTTT
1 ---CCAAAATTACCATTTTA-CCCTAAACTTT
* * ** *
30949452 CTAAAATT-CCATTTTAACCTCGATTTT
1 CCAAAATTACCATTTTACCCTAAACTTT
*
30949479 ACCCAAAATTACCATCTTACCCCTAAACTTT
1 --CCAAAATTACCATTTTA-CCCTAAACTTT
*
30949510 CCAAAA-TCCCATTTT
1 CCAAAATTACCATTTT
30949525 TGACCTCGAT
Statistics
Matches: 138, Mismatches: 33, Indels: 39
0.66 0.16 0.19
Matches are distributed among these distances:
27 13 0.09
28 27 0.20
29 50 0.36
30 31 0.22
31 14 0.10
32 3 0.02
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCTAAACTTT
Found at i:30962090 original size:86 final size:86
Alignment explanation
Indices: 30961888--30962082 Score: 286
Period size: 86 Copynumber: 2.3 Consensus size: 86
30961878 AAAAGGTTAG
* * * *
30961888 CTTCCTGATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAACGAAT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATTCATCTTCCTGAGGAAATCCAGAGAAACAAAT
30961953 TGAAACAAGCGAGGCGGTCAT
66 TGAAACAAGCGAGGCGGTCAT
** *
30961974 CTTCCTGATGAGATACAGAGAAGTAGACCAAATTTGTCTTCCTGAGGAAATCCAGAGAAGCAAAT
1 CTTCCTGATGAGATACAGAGAAGTAGACCAAATTCATCTTCCTGAGGAAATCCAGAGAAACAAAT
*
30962039 T-AAGACAA-CAGAGGTGGTCAT
66 TGAA-ACAAGC-GAGGCGGTCAT
30962060 CTTCCTGATGAGATACAGAGAAG
1 CTTCCTGATGAGATACAGAGAAG
30962083 AATACCAACC
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
85 3 0.03
86 96 0.97
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (86 bp):
CTTCCTGATGAGATACAGAGAAGTAGACCAAATTCATCTTCCTGAGGAAATCCAGAGAAACAAAT
TGAAACAAGCGAGGCGGTCAT
Found at i:30962671 original size:18 final size:18
Alignment explanation
Indices: 30962629--30962683 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
30962619 TTTAAACCCG
*
30962629 TTTAAAGATTTATTTTAAA
1 TTTAAA-ATTTATTTTGAA
**
30962648 GATAAAATTTATTTTGAA
1 TTTAAAATTTATTTTGAA
30962666 TTT-AAATTTA-TTTGAA
1 TTTAAAATTTATTTTGAA
30962682 TT
1 TT
30962684 CATATTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 8 0.26
17 7 0.23
18 12 0.39
19 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
TTTAAAATTTATTTTGAA
Found at i:30962681 original size:16 final size:17
Alignment explanation
Indices: 30962652--30962683 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
30962642 TTTAAAGATA
30962652 AAATTTATTTTGAATTT
1 AAATTTATTTTGAATTT
30962669 AAATTTA-TTTGAATT
1 AAATTTATTTTGAATT
30962684 CATATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
AAATTTATTTTGAATTT
Found at i:30962690 original size:16 final size:17
Alignment explanation
Indices: 30962652--30962691 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
30962642 TTTAAAGATA
*
30962652 AAATTTATTTTGAATTT
1 AAATTTATTTTGAATTC
30962669 AAATTTA-TTTGAATTC
1 AAATTTATTTTGAATTC
*
30962685 ATATTTA
1 AAATTTA
30962692 AATTTAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (17 bp):
AAATTTATTTTGAATTC
Found at i:30963792 original size:10 final size:10
Alignment explanation
Indices: 30963763--30963801 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
30963753 TTTAGAAAAT
*
30963763 GAAAATGAAA
1 GAAAAAGAAA
30963773 GAACAAAGAAA
1 GAA-AAAGAAA
30963784 GAAAAAGAAA
1 GAAAAAGAAA
*
30963794 GAATAAGA
1 GAAAAAGA
30963802 GGCAAGGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:30964584 original size:30 final size:29
Alignment explanation
Indices: 30964494--30964894 Score: 148
Period size: 29 Copynumber: 13.7 Consensus size: 29
30964484 CAAACTTTCT
30964494 AAAATTCCATTTTAACCCCGATTTCACCC
1 AAAATTCCATTTTAACCCCGATTTCACCC
* * *
30964523 AAAATTACCATTTGACCCCCAAACTTT---CC
1 AAAATT-CCATTTTAACCCC-GA-TTTCACCC
*
30964552 AAAATTCTATTTTTAACCCCGATTTCACCC
1 AAAATTCCA-TTTTAACCCCGATTTCACCC
* * *
30964582 AAAATTACCATTTGACCCCCAAACTTT---CC
1 AAAATT-CCATTTTAACCCC-GA-TTTCACCC
* *
30964611 AAAATTCCATTTTTGACCCCGATTTCACCT
1 AAAATTCCA-TTTTAACCCCGATTTCACCC
* *
30964641 AAAATTACCATTTT-ACCCCTAAACTTT---CT
1 AAAATT-CCATTTTAACCCC--GA-TTTCACCC
* * * *
30964670 AAAATTCCATTTTTAATCTCGATTTTACCT
1 AAAATTCCA-TTTTAACCCCGATTTCACCC
* * **
30964700 TAAATTACCATTTT-ACCCCTAAACTTT---TT
1 AAAATT-CCATTTTAACCCC--GA-TTTCACCC
30964729 AAAATTCCATTTTTAA-CCCGATTTCACCC
1 AAAATTCCA-TTTTAACCCCGATTTCACCC
* *
30964758 AAAATTACCATTTT-ACCCCTAAACTTT---CT
1 AAAATT-CCATTTTAACCCC--GA-TTTCACCC
*
30964787 AAAATTCCATTTTTAACCTCGATTTCACCC
1 AAAATTCCA-TTTTAACCCCGATTTCACCC
* *
30964817 AAAATTACCA-TTTCACCCTCAGACTTT---CT
1 AAAATT-CCATTTTAACCC-C-GA-TTTCACCC
*
30964846 AAAATTCCATTTTTAACCTCGATTTCACCC
1 AAAATTCCA-TTTTAACCCCGATTTCACCC
30964876 AAAATTACCATTTT-ACCCC
1 AAAATT-CCATTTTAACCCC
30964895 TAAACTTTCC
Statistics
Matches: 279, Mismatches: 41, Indels: 104
0.66 0.10 0.25
Matches are distributed among these distances:
26 3 0.01
27 16 0.06
28 24 0.09
29 112 0.40
30 85 0.30
31 21 0.08
32 18 0.06
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTCCATTTTAACCCCGATTTCACCC
Found at i:30964585 original size:59 final size:59
Alignment explanation
Indices: 30964481--30964953 Score: 673
Period size: 59 Copynumber: 8.1 Consensus size: 59
30964471 GCTCTTTAGT
*
30964481 CCCCAAACTTTCTAAAATTCCA-TTTTAACCCCGATTTCACCCAAAATTACCATTTGAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTAC
* * *
30964539 CCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCCAAAATTACCATTTGAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTAC
* * *
30964598 CCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCTAAAATTACCATTTTAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTAC
* * * * **
30964657 CCCTAAACTTTCTAAAATTCCATTTTTAATCTCGATTTTACCTTAAATTACCATTTTAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTAC
* *
30964716 CCCTAAACTTTTTAAAATTCCATTTTTAA-CCCGATTTCACCCAAAATTACCATTTTAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTAC
* * *
30964774 CCCTAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTCAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTAC
* * *
30964833 CCTCAGACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTTAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTAC
* * * * * *
30964892 CCCTAAACTTTCCAAAATCCCATTTTTTACCTCGATTTCACCAAAAATTA-CATTTTTAC
1 CCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCA-TTTTAC
30964951 CCC
1 CCC
30964954 AAAAGTCAAA
Statistics
Matches: 380, Mismatches: 32, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
58 75 0.20
59 305 0.80
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.36
Consensus pattern (59 bp):
CCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTAC
Found at i:30964784 original size:235 final size:234
Alignment explanation
Indices: 30964481--30964956 Score: 731
Period size: 235 Copynumber: 2.0 Consensus size: 234
30964471 GCTCTTTAGT
30964481 CCCCAAACTTTCTAAAATTCCATTTTAACCCCGATTTCACCCAAAATTACCATTTGACCCCCAAA
1 CCCCAAACTTTCTAAAATTCCATTTTAACCCCGATTTCACCCAAAATTACCATTTGACCCCCAAA
* *
30964546 CTTTCCAAAATTCTATTTTTAACCCCGATTTCACCCAAAATTACCATTTGACCCCCAAACTTTCC
66 CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTCACCCCCAAACTTTCC
* * * *
30964611 AAAATTCCATTTTTGACCCCGATTTCACCTAAAATTACCATTTTACCCCTAAACTTTCTAAAATT
131 AAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTACCCCTAAACTTTCCAAAATC
* * **
30964676 CCATTTTTAATCTCGATTTTACCTTAAATTACCA-TTTTA
196 CCATTTTTAACCTCGATTTCACCAAAAATTA-CATTTTTA
* * *
30964715 CCCCTAAACTTTTTAAAATTCCATTTTTAA-CCCGATTTCACCCAAAATTACCATTTTACCCCTA
1 CCCC-AAACTTTCTAAAATTCCA-TTTTAACCCCGATTTCACCCAAAATTACCATTTGACCCCCA
* * * *
30964779 AACTTTCTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTCACCCTCAGACTTT
64 AACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTCACCCCCAAACTTT
* *
30964844 CTAAAATTCCATTTTTAACCTCGATTTCACCCAAAATTACCATTTTACCCCTAAACTTTCCAAAA
129 CCAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTACCCCTAAACTTTCCAAAA
*
30964909 TCCCATTTTTTACCTCGATTTCACCAAAAATTACATTTTTA
194 TCCCATTTTTAACCTCGATTTCACCAAAAATTACATTTTTA
30964950 CCCCAAA
1 CCCCAAA
30964957 AGTCAAAAAT
Statistics
Matches: 219, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
234 9 0.04
235 204 0.93
236 6 0.03
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.36
Consensus pattern (234 bp):
CCCCAAACTTTCTAAAATTCCATTTTAACCCCGATTTCACCCAAAATTACCATTTGACCCCCAAA
CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTCACCCCCAAACTTTCC
AAAATTCCATTTTTAACCCCGATTTCACCCAAAATTACCATTTTACCCCTAAACTTTCCAAAATC
CCATTTTTAACCTCGATTTCACCAAAAATTACATTTTTA
Found at i:30964935 original size:29 final size:29
Alignment explanation
Indices: 30964729--30964937 Score: 105
Period size: 29 Copynumber: 7.1 Consensus size: 29
30964719 TAAACTTTTT
*
30964729 AAAATTCCATTTTTAACC-CGATTTCACCC
1 AAAATACCATTTTTAACCTCGATTTCA-CC
* ** *
30964758 AAAATTACCA-TTTTACCCCTAAACTTT--CT
1 AAAA-TACCATTTTTA-ACCTCGA-TTTCACC
*
30964787 AAAATTCCATTTTTAACCTCGATTTCACCC
1 AAAATACCATTTTTAACCTCGATTTCA-CC
* * *
30964817 AAAATTACCA-TTTCACCCTCAGACTTT--CT
1 AAAA-TACCATTTTTAACCTC-GA-TTTCACC
*
30964846 AAAATTCCATTTTTAACCTCGATTTCACCC
1 AAAATACCATTTTTAACCTCGATTTCA-CC
* **
30964876 AAAATTACCA-TTTTACCCCTAAACTTT--CC
1 AAAA-TACCATTTTTA-ACCTCGA-TTTCACC
* *
30964905 AAAATCCCATTTTTTACCTCGATTTCACC
1 AAAATACCATTTTTAACCTCGATTTCACC
30964934 AAAA
1 AAAA
30964938 ATTACATTTT
Statistics
Matches: 132, Mismatches: 27, Indels: 42
0.66 0.13 0.21
Matches are distributed among these distances:
27 9 0.07
28 22 0.17
29 48 0.36
30 29 0.22
31 15 0.11
32 9 0.07
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATACCATTTTTAACCTCGATTTCACC
Found at i:30968866 original size:34 final size:34
Alignment explanation
Indices: 30968819--30968906 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
30968809 TACACAGTTA
* *
30968819 ACCATCCAGCACACCAGATGCTTA-TATGAGCCAG
1 ACCAACCAGCACACCAGATAC-TAGTATGAGCCAG
* * *
30968853 ACCAACCAACACACAAAATACTAGTATGAGCCAG
1 ACCAACCAGCACACCAGATACTAGTATGAGCCAG
*
30968887 ACCAACCAGCATACCAGATA
1 ACCAACCAGCACACCAGATA
30968907 ACACTATAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 2 0.05
34 42 0.95
ACGTcount: A:0.41, C:0.32, G:0.14, T:0.14
Consensus pattern (34 bp):
ACCAACCAGCACACCAGATACTAGTATGAGCCAG
Found at i:30971631 original size:57 final size:57
Alignment explanation
Indices: 30971562--30971691 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 57
30971552 TTAGGTCTTT
* * *
30971562 TTCATTTTTCATTTTCATTTTGCAGAAAATCACATTCATTCCCAAATTATTCAATTTC
1 TTCA-TTTTCATTTTCATTTTGAAGAAAATCACAATCATTCCCAAATGATTCAATTTC
* * * *
30971620 TTCATTTTCATTTTCATTTTGAAGAATATCATAATCATTTCCAAATGATTCTATTTC
1 TTCATTTTCATTTTCATTTTGAAGAAAATCACAATCATTCCCAAATGATTCAATTTC
*
30971677 TGCATTTTCATTTTC
1 TTCATTTTCATTTTC
30971692 TCACCCCACA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 60 0.94
58 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (57 bp):
TTCATTTTCATTTTCATTTTGAAGAAAATCACAATCATTCCCAAATGATTCAATTTC
Found at i:30973193 original size:3 final size:3
Alignment explanation
Indices: 30973187--30973222 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
30973177 TTAGACGACG
* *
30973187 ACA ACA ATA ACA ACA TCA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
30973223 TAATAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.31, G:0.00, T:0.06
Consensus pattern (3 bp):
ACA
Found at i:30973228 original size:3 final size:3
Alignment explanation
Indices: 30973222--30973254 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
30973212 CAACAACAAC
30973222 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30973255 GTCTAGCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:30974562 original size:22 final size:22
Alignment explanation
Indices: 30974537--30974579 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30974527 TACCAATTCA
*
30974537 CTTAA-AAATTTATAAAAAAACC
1 CTTAACAAAATTA-AAAAAAACC
30974559 CTTAACAAAATTAAAAAAAAC
1 CTTAACAAAATTAAAAAAAAC
30974580 AAAACAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.23
Consensus pattern (22 bp):
CTTAACAAAATTAAAAAAAACC
Found at i:30986240 original size:20 final size:20
Alignment explanation
Indices: 30986190--30986263 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
30986180 GAAAAGTTTG
*
30986190 AAATAATTTTAAAATCAAGTTA
1 AAATAATTTT-AAA-CAAGTAA
* *
30986212 AAATGATTTTAAACATGTAA
1 AAATAATTTTAAACAAGTAA
*
30986232 AAATAA-TTTAAACTAAGTCA
1 AAATAATTTTAAAC-AAGTAA
*
30986252 AAATCATTTTAA
1 AAATAATTTTAA
30986264 CTCTTCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
19 7 0.16
20 19 0.44
21 8 0.19
22 9 0.21
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (20 bp):
AAATAATTTTAAACAAGTAA
Found at i:30996535 original size:14 final size:15
Alignment explanation
Indices: 30996506--30996535 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30996496 ATGGTTGTTG
30996506 TAACTCCCTTGTCTA
1 TAACTCCCTTGTCTA
30996521 TAACTCCCTTG-CTA
1 TAACTCCCTTGTCTA
30996535 T
1 T
30996536 GAAGAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (15 bp):
TAACTCCCTTGTCTA
Found at i:31003382 original size:25 final size:27
Alignment explanation
Indices: 31003339--31003390 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
31003329 CATAGCAAAC
31003339 ATTTTTCTTCCTTTCTTTTCTC-TTTT
1 ATTTTTCTTCCTTTCTTTTCTCATTTT
31003365 ATTTTT-TT-CTTTCGTTTTCTCATTTT
1 ATTTTTCTTCCTTTC-TTTTCTCATTTT
31003391 CCTTTTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.21
25 9 0.38
26 10 0.42
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.73
Consensus pattern (27 bp):
ATTTTTCTTCCTTTCTTTTCTCATTTT
Found at i:31006326 original size:20 final size:21
Alignment explanation
Indices: 31006301--31006340 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31006291 GCAAGGAATT
31006301 TGAAAC-AACAAAAGTAAAAG
1 TGAAACAAACAAAAGTAAAAG
*
31006321 TGAAACAAATAAAAGTAAAA
1 TGAAACAAACAAAAGTAAAA
31006341 AACGAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAAAG
Found at i:31020076 original size:30 final size:30
Alignment explanation
Indices: 31020012--31020076 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
31020002 TTTGCAATAT
* * * *
31020012 CAGTGTTCGTAACGTGAGTGCTTGCAGCAT
1 CAGTGTTCGTAACATGAGTGCTCGCAACAC
*
31020042 CAGTGTTCGTAGCATGAGTGCTCGCAACAC
1 CAGTGTTCGTAACATGAGTGCTCGCAACAC
31020072 CAGTG
1 CAGTG
31020077 CTCGCATCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (30 bp):
CAGTGTTCGTAACATGAGTGCTCGCAACAC
Found at i:31026557 original size:30 final size:30
Alignment explanation
Indices: 31026485--31026590 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 30
31026475 TCGTCCATGC
** *
31026485 TCGCAACACAAGTGTTCGCAACATCAGTGT
1 TCGCAACATGAGTGCTCGCAACATCAGTGT
* ** *
31026515 TCGTAATGTGAGTGCTCGCAACATCATTGT
1 TCGCAACATGAGTGCTCGCAACATCAGTGT
* * * * *
31026545 TCGCAGCATGAGTGCTCGTAACACCAATGC
1 TCGCAACATGAGTGCTCGCAACATCAGTGT
31026575 TCGCAACACT-AGTGCT
1 TCGCAACA-TGAGTGCT
31026591 TGCATCTTCC
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
30 58 0.98
31 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (30 bp):
TCGCAACATGAGTGCTCGCAACATCAGTGT
Found at i:31026590 original size:15 final size:15
Alignment explanation
Indices: 31026482--31026582 Score: 69
Period size: 15 Copynumber: 6.7 Consensus size: 15
31026472 CTTTCGTCCA
31026482 TGCTCGCAACA-CAAG
1 TGCTCGCAACATC-AG
*
31026497 TGTTCGCAACATCAG
1 TGCTCGCAACATCAG
* * ** *
31026512 TGTTCGTAATGTGAG
1 TGCTCGCAACATCAG
*
31026527 TGCTCGCAACATCAT
1 TGCTCGCAACATCAG
* * *
31026542 TGTTCGCAGCATGAG
1 TGCTCGCAACATCAG
* * *
31026557 TGCTCGTAACACCAA
1 TGCTCGCAACATCAG
31026572 TGCTCGCAACA
1 TGCTCGCAACA
31026583 CTAGTGCTTG
Statistics
Matches: 63, Mismatches: 22, Indels: 2
0.72 0.25 0.02
Matches are distributed among these distances:
15 62 0.98
16 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (15 bp):
TGCTCGCAACATCAG
Found at i:31027485 original size:18 final size:19
Alignment explanation
Indices: 31027462--31027501 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
31027452 TTGTCTTTGG
31027462 TTTTATGTTT-TTGA-ATTT
1 TTTTAT-TTTCTTGACATTT
31027480 TTTTATTTTCTTGACATTT
1 TTTTATTTTCTTGACATTT
31027499 TTT
1 TTT
31027502 AATTCAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.15
18 10 0.50
19 7 0.35
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTATTTTCTTGACATTT
Found at i:31030535 original size:29 final size:29
Alignment explanation
Indices: 31030502--31030583 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 29
31030492 TTAATAACAC
*
31030502 AATAAAAATATAATTATAGTATTAAAT-AA
1 AATAAAAATATAATTATAGTAAT-AATGAA
* * * *
31030531 AATAACAATACAATCATTGTAATAATGAA
1 AATAAAAATATAATTATAGTAATAATGAA
* *
31030560 AATAAATAT-TAATTA-ATTAATAAT
1 AATAAAAATATAATTATAGTAATAAT
31030584 ATAAACAACA
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
27 7 0.17
28 7 0.17
29 27 0.66
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (29 bp):
AATAAAAATATAATTATAGTAATAATGAA
Found at i:31030916 original size:9 final size:9
Alignment explanation
Indices: 31030828--31030933 Score: 55
Period size: 9 Copynumber: 11.8 Consensus size: 9
31030818 CAAATAAGAG
31030828 AATAACAATA
1 AATAA-AATA
31030838 AATGAAAATTA
1 AAT-AAAA-TA
31030849 AATAAAA-A
1 AATAAAATA
*
31030857 TAATAAAAGA
1 -AATAAAATA
*
31030867 AAT--AA-C
1 AATAAAATA
31030873 AATAAAATGA
1 AATAAAAT-A
*
31030883 CATGAAAATA
1 AAT-AAAATA
31030893 AA-AAAA-A
1 AATAAAATA
31030900 AGAT-AAATA
1 A-ATAAAATA
*
31030909 AACAAAATA
1 AATAAAATA
*
31030918 AATAAATTA
1 AATAAAATA
31030927 AATAAAA
1 AATAAAA
31030934 AATTAAATAC
Statistics
Matches: 75, Mismatches: 8, Indels: 27
0.68 0.07 0.25
Matches are distributed among these distances:
6 3 0.04
7 4 0.05
8 12 0.16
9 30 0.40
10 14 0.19
11 12 0.16
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.19
Consensus pattern (9 bp):
AATAAAATA
Found at i:31030917 original size:47 final size:47
Alignment explanation
Indices: 31030808--31030918 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 47
31030798 AAAATTTAAT
* * *
31030808 GATAAATAAAC-AAATAAGAGAATAACAATAAATGAAAATTAAATAAAA
1 GATAAATAAACAAAAT-A-ACAATAACAATAAATGAAAATAAAAAAAAA
*
31030856 -AT-AATAAA-AGAAATAACAATAA-AATGACATGAAAATAAAAAAAAA
1 GATAAATAAACA-AAATAACAATAACAAT-AAATGAAAATAAAAAAAAA
31030901 GATAAATAAACAAAATAA
1 GATAAATAAACAAAATAA
31030919 ATAAATTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
44 3 0.06
45 22 0.42
46 9 0.17
47 18 0.34
48 1 0.02
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (47 bp):
GATAAATAAACAAAATAACAATAACAATAAATGAAAATAAAAAAAAA
Found at i:31030938 original size:12 final size:13
Alignment explanation
Indices: 31030902--31030942 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
31030892 AAAAAAAAAG
**
31030902 ATAAATAAACAAA
1 ATAAATAAATTAA
31030915 ATAAATAAATTAA
1 ATAAATAAATTAA
31030928 ATAAA-AAATTAA
1 ATAAATAAATTAA
31030940 ATA
1 ATA
31030943 CTAAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAAATAAATTAA
Found at i:31031351 original size:23 final size:23
Alignment explanation
Indices: 31031315--31031373 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
31031305 ATCTTATTTT
31031315 TAAAAAAAGTTCCTCTCTGAACAAA
1 TAAAAAAA--TCCTCTCTGAACAAA
*
31031340 TAAAAAAATCCTCTCTTAACAAA
1 TAAAAAAATCCTCTCTGAACAAA
31031363 TAAAAAAATCC
1 TAAAAAAATCC
31031374 CCTTCTTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 25 0.76
25 8 0.24
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.24
Consensus pattern (23 bp):
TAAAAAAATCCTCTCTGAACAAA
Found at i:31032122 original size:45 final size:45
Alignment explanation
Indices: 31031964--31032405 Score: 542
Period size: 45 Copynumber: 9.5 Consensus size: 45
31031954 GTGTTGTGAT
* *
31031964 TTCAATTTGCCCCTCTGGATTAGGGGTAAAAGATTGGATTTGGTGTTGTGAC
1 TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGA--T-G-G-TG-G-C
*
31032016 TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATTTGGTGAC
1 TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGA--TGGTGGC
** *
31032063 TTCAATCTAACCCTCTAGATTAGGGGTAAAAGACTGGATGGTGGC
1 TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTGGC
*
31032108 TTCAATCTTCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTGGC
1 TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTGGC
** * *
31032153 TTCAATCTATCCCTCAAGATTAGGGGTAAAAAATTGGATGGTGGC
1 TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTGGC
* *
31032198 TTCAATCTGCCCCTCTAGATTAAGGGTAAAAGATTGGATGGTGGT
1 TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTGGC
* * *
31032243 TTCAATCTGCCCTTCTAGATTAGGGGTAAAAGATTGAATGTGGTGAC
1 TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGA--TGGTGGC
* * *
31032290 TCCAATCTGCCCCTCTAGATTATGGGTAAAAGACTGGATGGTGGC
1 TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTGGC
* * *
31032335 TTCAATCTGCCCCTCTGGATTAGGGGCAAAAGATTGGATATGGTGAC
1 TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGG--ATGGTGGC
* * *
31032382 TTCAATCTACCCCACTGGATTAGG
1 TTCAATCTGCCCCTCTAGATTAGG
31032406 TTTAAAAAAT
Statistics
Matches: 347, Mismatches: 39, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
45 201 0.58
47 103 0.30
49 2 0.01
50 1 0.00
51 1 0.00
52 39 0.11
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (45 bp):
TTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGATGGTGGC
Found at i:31032331 original size:92 final size:90
Alignment explanation
Indices: 31031964--31032405 Score: 537
Period size: 92 Copynumber: 4.8 Consensus size: 90
31031954 GTGTTGTGAT
* *
31031964 TTCAATTTGCCCCTCTGGATTAGGGGTAAAAGATTGGATTTGGTGTTGTGACTTCAATCTGCCCC
1 TTCAATCTG-CCCTCTAGATTAGGGGTAAAAGATTGGA--T--TG--GTGACTTCAATCTGCCCC
*
31032029 TCTAGATTAGGGGTAAAAGATTGGATTTGGTGAC
59 TCTAGATTAGGGGTAAAAGATTGGA--TGGTGGC
* * * *
31032063 TTCAATCTAACCCTCTAGATTAGGGGTAAAAGACTGGA-TGGTGGCTTCAATCTTCCCCTCTAGA
1 TTCAATCT-GCCCTCTAGATTAGGGGTAAAAGATTGGATTGGTGACTTCAATCTGCCCCTCTAGA
31032127 TTAGGGGTAAAAGATTGGATGGTGGC
65 TTAGGGGTAAAAGATTGGATGGTGGC
* * * *
31032153 TTCAATCTATCCCTCAAGATTAGGGGTAAAAAATTGGA-TGGTGGCTTCAATCTGCCCCTCTAGA
1 TTCAATCT-GCCCTCTAGATTAGGGGTAAAAGATTGGATTGGTGACTTCAATCTGCCCCTCTAGA
* *
31032217 TTAAGGGTAAAAGATTGGATGGTGGT
65 TTAGGGGTAAAAGATTGGATGGTGGC
* *
31032243 TTCAATCTGCCCTTCTAGATTAGGGGTAAAAGATTGAATGTGGTGACTCCAATCTGCCCCTCTAG
1 TTCAATCTGCCC-TCTAGATTAGGGGTAAAAGATTGGAT-TGGTGACTTCAATCTGCCCCTCTAG
* *
31032308 ATTATGGGTAAAAGACTGGATGGTGGC
64 ATTAGGGGTAAAAGATTGGATGGTGGC
* * * * *
31032335 TTCAATCTGCCCCTCTGGATTAGGGGCAAAAGATTGGATATGGTGACTTCAATCTACCCCACTGG
1 TTCAATCTG-CCCTCTAGATTAGGGGTAAAAGATTGGAT-TGGTGACTTCAATCTGCCCCTCTAG
31032400 ATTAGG
64 ATTAGG
31032406 TTTAAAAAAT
Statistics
Matches: 306, Mismatches: 32, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
89 3 0.01
90 119 0.39
92 146 0.48
93 3 0.01
94 2 0.01
99 33 0.11
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (90 bp):
TTCAATCTGCCCTCTAGATTAGGGGTAAAAGATTGGATTGGTGACTTCAATCTGCCCCTCTAGAT
TAGGGGTAAAAGATTGGATGGTGGC
Found at i:31032373 original size:227 final size:231
Alignment explanation
Indices: 31031964--31032440 Score: 656
Period size: 227 Copynumber: 2.1 Consensus size: 231
31031954 GTGTTGTGAT
* * *
31031964 TTCAATTTGCCCCTCTGGATTAGGGGTAAAAGATTGGATTTGGTGTTGTGACTTCAATCTGCCCC
1 TTCAATCTGCCCCTCTAGATTAAGGGTAAAAGATTGGA-TTGGTG-TGT-A-TTCAATCTGCCCC
* * *
31032029 TCTAGATTAGGGGTAAAAGATTGGATTTGGTGACTTCAATCTAACCCTCTAGATTAGGGGTAAAA
62 TCTAGATTAGGGGTAAAAGATTGAATGTGGTGACTCCAATCTAACCCTCTAGATTAGGGGTAAAA
* * *
31032094 GACTGGATGGTGGCTTCAATCTTCCCCTCTAGATTAGGGGTAAAAGATTGG-ATGGTGGCTTCAA
127 GACTGGATGGTGGCTTCAATCTGCCCCTCTAGATTAGGGGCAAAAGATTGGAATGGTGACTTCAA
* * * *
31032158 TCTATCCCTCAAGATTAGGGGTAAAAAATTGGATGGTGGC
192 TCTACCCCACAAGATTAGGGGTAAAAAATTAGATGGTAGC
*
31032198 TTCAATCTGCCCCTCTAGATTAAGGGTAAAAGATTGGA-TGGTG-GT-TTCAATCTGCCCTTCTA
1 TTCAATCTGCCCCTCTAGATTAAGGGTAAAAGATTGGATTGGTGTGTATTCAATCTGCCCCTCTA
** *
31032260 GATTAGGGGTAAAAGATTGAATGTGGTGACTCCAATCTGCCCCTCTAGATTATGGGTAAAAGACT
66 GATTAGGGGTAAAAGATTGAATGTGGTGACTCCAATCTAACCCTCTAGATTAGGGGTAAAAGACT
*
31032325 GGATGGTGGCTTCAATCTGCCCCTCTGGATTAGGGGCAAAAGATTGGATATGGTGACTTCAATCT
131 GGATGGTGGCTTCAATCTGCCCCTCTAGATTAGGGGCAAAAGATTGGA-ATGGTGACTTCAATCT
** ** * *
31032390 ACCCCACTGGATTAGGTTTAAAAAATTATATTGTAGC
195 ACCCCACAAGATTAGGGGTAAAAAATTAGATGGTAGC
*
31032427 TTCAATCTGTCCCT
1 TTCAATCTGCCCCT
31032441 TTTTGGTTTT
Statistics
Matches: 216, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
227 119 0.55
229 55 0.25
230 2 0.01
232 5 0.02
234 35 0.16
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (231 bp):
TTCAATCTGCCCCTCTAGATTAAGGGTAAAAGATTGGATTGGTGTGTATTCAATCTGCCCCTCTA
GATTAGGGGTAAAAGATTGAATGTGGTGACTCCAATCTAACCCTCTAGATTAGGGGTAAAAGACT
GGATGGTGGCTTCAATCTGCCCCTCTAGATTAGGGGCAAAAGATTGGAATGGTGACTTCAATCTA
CCCCACAAGATTAGGGGTAAAAAATTAGATGGTAGC
Found at i:31032656 original size:49 final size:49
Alignment explanation
Indices: 31032572--31032993 Score: 362
Period size: 49 Copynumber: 8.6 Consensus size: 49
31032562 GTAAGATTCG
* * * *
31032572 TCGTTATGGCTTCAATCTGTTCCCTCTTCAATTTTAGGGTGTTAGATCCG
1 TCGTTACGGCTTCAATCT-ATCCCTCTTCAATTTTAAGGTGTTAGATCCA
* * * * *
31032622 TCATTATGGCTTCAATCTATCCCTCTTCGATTTTATGGTGTTAGGTCCA
1 TCGTTACGGCTTCAATCTATCCCTCTTCAATTTTAAGGTGTTAGATCCA
* * * * * *
31032671 CCGTTACGGCTTCAACCTATCCCTCTTCAGTTTTAAGTTGTAAGATTCA
1 TCGTTACGGCTTCAATCTATCCCTCTTCAATTTTAAGGTGTTAGATCCA
* * * * * * *
31032720 CCGTTACAGCTTCAATCTTTCACTCTTCGATTTTAGGGTGTTAGGTCCA
1 TCGTTACGGCTTCAATCTATCCCTCTTCAATTTTAAGGTGTTAGATCCA
* * * * * *
31032769 TCATTATGGGTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCG
1 TCGTTACGGCTTCAATCTATCCCTCTTCAATTTTAAGGTGTTAGATCCA
* * * *
31032818 TCGTTGCGACTTCAATCTTTCCCTCTTCAATTTT-AGGTGTTAGGTCCA
1 TCGTTACGGCTTCAATCTATCCCTCTTCAATTTTAAGGTGTTAGATCCA
* * * * * *
31032866 CCGTTGCGGCTTCAACCTATCCATCTTCAATTTTAACGTG-TAGGCTCCA
1 TCGTTACGGCTTCAATCTATCCCTCTTCAATTTTAAGGTGTTA-GATCCA
** * * * ** *
31032915 TCGTTGTGGCTTAAATCTTTCCCTCTTCCATTTTTGGGTGTTAGGTCCA
1 TCGTTACGGCTTCAATCTATCCCTCTTCAATTTTAAGGTGTTAGATCCA
* * * *
31032964 CCGTTGCGGCTTCAACCTATCCCTTTTCAA
1 TCGTTACGGCTTCAATCTATCCCTCTTCAA
31032994 CTATAGGATT
Statistics
Matches: 293, Mismatches: 76, Indels: 7
0.78 0.20 0.02
Matches are distributed among these distances:
48 42 0.14
49 232 0.79
50 19 0.06
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.39
Consensus pattern (49 bp):
TCGTTACGGCTTCAATCTATCCCTCTTCAATTTTAAGGTGTTAGATCCA
Found at i:31032732 original size:98 final size:96
Alignment explanation
Indices: 31032573--31032993 Score: 461
Period size: 98 Copynumber: 4.3 Consensus size: 96
31032563 TAAGATTCGT
* * * * * * *
31032573 CGTTATGGCTTCAATCTGTTCCCTCTTCAATTTTAGGGTGTTAGATCCGTCATTATG-GCTTCAA
1 CGTTACGGCTTCAACCT-ATCCCTCTTCAATTTTA-AGTGTAAGATCCATC-GT-TGCGCTTCAA
*
31032637 TCTATCCCTCTTCGATTTTATGGTGTTAGGTCCAC
62 TCTTTCCCTCTTCGATTTTATGGTGTTAGGTCCAC
* * * *
31032672 CGTTACGGCTTCAACCTATCCCTCTTCAGTTTTAAGTTGTAAGATTCACCGTTACAGCTTCAATC
1 CGTTACGGCTTCAACCTATCCCTCTTCAATTTTAAG-TGTAAGATCCATCGTTGC-GCTTCAATC
* * *
31032737 TTTCACTCTTCGATTTTAGGGTGTTAGGTCCAT
64 TTTCCCTCTTCGATTTTATGGTGTTAGGTCCAC
* * * *
31032770 CATTATGGGTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCGTCGTTGCGACTTCAATC
1 CGTTACGGCTTCAACCTATCCCTCTTCAATTTTAA-GTGTAAGATCCATCGTTGCG-CTTCAATC
*
31032835 TTTCCCTCTTCAATTTTA-GGTGTTAGGTCCAC
64 TTTCCCTCTTCGATTTTATGGTGTTAGGTCCAC
* * * * * *
31032867 CGTTGCGGCTTCAACCTATCCATCTTCAATTTTAACGTGTAGGCTCCATCGTTGTGGCTTAAATC
1 CGTTACGGCTTCAACCTATCCCTCTTCAATTTTAA-GTGTAAGATCCATCGTTG-CGCTTCAATC
*
31032932 TTTCCCTCTTCCATTTT-TGGGTGTTAGGTCCAC
64 TTTCCCTCTTCGATTTTAT-GGTGTTAGGTCCAC
* *
31032965 CGTTGCGGCTTCAACCTATCCCTTTTCAA
1 CGTTACGGCTTCAACCTATCCCTCTTCAA
31032994 CTATAGGATT
Statistics
Matches: 274, Mismatches: 40, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
96 1 0.00
97 84 0.31
98 173 0.63
99 16 0.06
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (96 bp):
CGTTACGGCTTCAACCTATCCCTCTTCAATTTTAAGTGTAAGATCCATCGTTGCGCTTCAATCTT
TCCCTCTTCGATTTTATGGTGTTAGGTCCAC
Found at i:31032956 original size:195 final size:196
Alignment explanation
Indices: 31032592--31032993 Score: 529
Period size: 195 Copynumber: 2.1 Consensus size: 196
31032582 TTCAATCTGT
* * * * *
31032592 TCCCTCTTCAATTTTAGGGTGTTAGATCCGTCATTATGGCTTCAATCTATCCCTCTTCGATTTTA
1 TCCCTCTTCAATTTTAAGGTGTAAGATCCGTCATTACGACTTCAATCTATCCCTCTTCAATTTTA
* * *
31032657 TGGTGTTAGGTCCACCGTTACGGCTTCAACCTATCCCTCTTCAGTTTTAAGTTGTAAGATTCACC
66 TGGTGTTAGGTCCACCGTTACGGCTTCAACCTATCCATCTTCAATTTTAAGTTGTAAGATCCACC
* * * * *
31032722 GTTACAGCTTCAATCTTTCACTCTTCGATTTTAGGGTGTTAGGTCCATCATTATGGGTTCAACCT
131 GTTACAGCTTAAATCTTTCACTCTTCCATTTTAGGGTGTTAGGTCCACCATTACGGCTTCAACCT
31032787 A
196 A
* * *
31032788 TCCCTCTTCAATTTTAAGGTGTAAGATCCGTCGTTGCGACTTCAATCTTTCCCTCTTCAATTTTA
1 TCCCTCTTCAATTTTAAGGTGTAAGATCCGTCATTACGACTTCAATCTATCCCTCTTCAATTTTA
* * * *
31032853 -GGTGTTAGGTCCACCGTTGCGGCTTCAACCTATCCATCTTCAATTTTAACG-TGTAGGCTCCAT
66 TGGTGTTAGGTCCACCGTTACGGCTTCAACCTATCCATCTTCAATTTTAA-GTTGTAAGATCCAC
*** * * * *
31032916 CGTTGTGGCTTAAATCTTTCCCTCTTCCATTTTTGGGTGTTAGGTCCACCGTTGCGGCTTCAACC
130 CGTTACAGCTTAAATCTTTCACTCTTCCATTTTAGGGTGTTAGGTCCACCATTACGGCTTCAACC
31032981 TA
195 TA
*
31032983 TCCCTTTTCAA
1 TCCCTCTTCAA
31032994 CTATAGGATT
Statistics
Matches: 177, Mismatches: 28, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
195 119 0.67
196 58 0.33
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.39
Consensus pattern (196 bp):
TCCCTCTTCAATTTTAAGGTGTAAGATCCGTCATTACGACTTCAATCTATCCCTCTTCAATTTTA
TGGTGTTAGGTCCACCGTTACGGCTTCAACCTATCCATCTTCAATTTTAAGTTGTAAGATCCACC
GTTACAGCTTAAATCTTTCACTCTTCCATTTTAGGGTGTTAGGTCCACCATTACGGCTTCAACCT
A
Found at i:31043903 original size:542 final size:542
Alignment explanation
Indices: 31042881--31043960 Score: 2097
Period size: 542 Copynumber: 2.0 Consensus size: 542
31042871 GTGTGCAGCT
31042881 ACTTTTGACGAGGAGTGCTTGGTGTTGGGTAATAGGAACAATTAGGGAGTAGGCCTAGTAGCCTA
1 ACTTTTGACGAGGAGTGCTTGGTGTTGGGTAATAGGAACAATTAGGGAGTAGGCCTAGTAGCCTA
31042946 GAGATAGTAAGCTTCATTGTACTCTTTAATTCTTCTTAAACGATGATGGATTTTGATGATATTAA
66 GAGATAGTAAGCTTCATTGTACTCTTTAATTCTTCTTAAACGATGATGGATTTTGATGATATTAA
31043011 ATGAATACGAGTTATCTTTTGATGTTAGATCATTTTGATTCTTACTTTACACTACTTATCCGTTT
131 ATGAATACGAGTTATCTTTTGATGTTAGATCATTTTGATTCTTACTTTACACTACTTATCCGTTT
31043076 ATTATTGGATATAAGTGCTCTAAACACAAAAGTGAAATTGCAGTACACTGACATCGAGAGATGCG
196 ATTATTGGATATAAGTGCTCTAAACACAAAAGTGAAATTGCAGTACACTGACATCGAGAGATGCG
* *
31043141 GTGATAGTTTAGATTAACAACTAGTTTAGGTGAGAGCTGCTCGGGACTGGGACAGACTCCAGTTA
261 GTGATAGTTTAGATTAACAACTAGTTTAGGCGAGAGCTGCTCGGGACTAGGACAGACTCCAGTTA
31043206 CTTGTTCATGGATACACGTCGTTATTCGCACCAAGAGGTGGAGTGATTGTATTTGAGTCCGGATT
326 CTTGTTCATGGATACACGTCGTTATTCGCACCAAGAGGTGGAGTGATTGTATTTGAGTCCGGATT
31043271 AAGTAGAGAGCTATTGTTGGTAAGAACTCAAAGAGACTTCATTACAGCGACATTCCATATATATT
391 AAGTAGAGAGCTATTGTTGGTAAGAACTCAAAGAGACTTCATTACAGCGACATTCCATATATATT
31043336 TTACCTTGTCGGCTCATCCAACGTTACTACTTAGTGATGTCAATGATCCACTCCAATTCTTCACA
456 TTACCTTGTCGGCTCATCCAACGTTACTACTTAGTGATGTCAATGATCCACTCCAATTCTTCACA
31043401 CTTGATCACACCTTTACTCGAG
521 CTTGATCACACCTTTACTCGAG
*
31043423 ACTTTTGACGAGGAGTGCTTGGTGTTGGGTAATAGGAACAATTAGGGAGTAGGCCTAGTAGTCTA
1 ACTTTTGACGAGGAGTGCTTGGTGTTGGGTAATAGGAACAATTAGGGAGTAGGCCTAGTAGCCTA
*
31043488 GAGATAGTGAGCTTCATTGTACTCTTTAATTCTTCTTAAACGATGATGGATTTTGATGATATTAA
66 GAGATAGTAAGCTTCATTGTACTCTTTAATTCTTCTTAAACGATGATGGATTTTGATGATATTAA
31043553 ATGAATACGAGTTATCTTTTGATGTTAGATCATTTTGATTCTTACTTTACACTACTTATCCGTTT
131 ATGAATACGAGTTATCTTTTGATGTTAGATCATTTTGATTCTTACTTTACACTACTTATCCGTTT
31043618 ATTATTGGATATAAGTGCTCTAAACACAAAAGTGAAATTGCAGTACACTGACATCGAGAGATGCG
196 ATTATTGGATATAAGTGCTCTAAACACAAAAGTGAAATTGCAGTACACTGACATCGAGAGATGCG
*
31043683 GTGATAGTTTAGATTAACAACTGGTTTAGGCGAGAGCTGCTCGGGACTAGGACAGACTCCAGTTA
261 GTGATAGTTTAGATTAACAACTAGTTTAGGCGAGAGCTGCTCGGGACTAGGACAGACTCCAGTTA
31043748 CTTGTTCATGGATACACGTCGTTATTCGCACCAAGAGGTGGAGTGATTGTATTTGAGTCCGGATT
326 CTTGTTCATGGATACACGTCGTTATTCGCACCAAGAGGTGGAGTGATTGTATTTGAGTCCGGATT
* *
31043813 AAGTAGAGAGCTGTTGTTGGTAAGAACTCAAAGAGACTTCATTATAGCGACATTCCATATATATT
391 AAGTAGAGAGCTATTGTTGGTAAGAACTCAAAGAGACTTCATTACAGCGACATTCCATATATATT
31043878 TTACCTTGTCGGCTCATCCAACGTTACTACTTAGTGATGTCAATGATCCACTCCAATTCTTCACA
456 TTACCTTGTCGGCTCATCCAACGTTACTACTTAGTGATGTCAATGATCCACTCCAATTCTTCACA
31043943 CTTGATCACACCTTTACT
521 CTTGATCACACCTTTACT
31043961 TTTATGCATT
Statistics
Matches: 531, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
542 531 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (542 bp):
ACTTTTGACGAGGAGTGCTTGGTGTTGGGTAATAGGAACAATTAGGGAGTAGGCCTAGTAGCCTA
GAGATAGTAAGCTTCATTGTACTCTTTAATTCTTCTTAAACGATGATGGATTTTGATGATATTAA
ATGAATACGAGTTATCTTTTGATGTTAGATCATTTTGATTCTTACTTTACACTACTTATCCGTTT
ATTATTGGATATAAGTGCTCTAAACACAAAAGTGAAATTGCAGTACACTGACATCGAGAGATGCG
GTGATAGTTTAGATTAACAACTAGTTTAGGCGAGAGCTGCTCGGGACTAGGACAGACTCCAGTTA
CTTGTTCATGGATACACGTCGTTATTCGCACCAAGAGGTGGAGTGATTGTATTTGAGTCCGGATT
AAGTAGAGAGCTATTGTTGGTAAGAACTCAAAGAGACTTCATTACAGCGACATTCCATATATATT
TTACCTTGTCGGCTCATCCAACGTTACTACTTAGTGATGTCAATGATCCACTCCAATTCTTCACA
CTTGATCACACCTTTACTCGAG
Found at i:31047377 original size:16 final size:16
Alignment explanation
Indices: 31047356--31047388 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
31047346 TTTAATGTTA
*
31047356 TTTTTTATT-TTTATT
1 TTTTTTTTTGTTTATT
31047371 TTTTTTTTTGTTTATT
1 TTTTTTTTTGTTTATT
31047387 TT
1 TT
31047389 ATTTCGGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTGTTTATT
Found at i:31050719 original size:17 final size:17
Alignment explanation
Indices: 31050688--31050747 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
31050678 CTAAAATACC
*
31050688 ATGACAAATGGAAATGCA
1 ATGAC-AATGAAAATGCA
*
31050706 ATGACAATGCAAATGCA
1 ATGACAATGAAAATGCA
* * *
31050723 ATGACAGTTAAAATGTA
1 ATGACAATGAAAATGCA
31050740 ATGACAAT
1 ATGACAAT
31050748 AGGAATGCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
17 31 0.86
18 5 0.14
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (17 bp):
ATGACAATGAAAATGCA
Found at i:31062633 original size:17 final size:18
Alignment explanation
Indices: 31062611--31062650 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
31062601 AGATTGCATA
31062611 CATTTT-TATTGTCATCG
1 CATTTTATATTGTCATCG
* *
31062628 CATTTTATTTTGTCATTG
1 CATTTTATATTGTCATCG
31062646 CATTT
1 CATTT
31062651 CTTTTGTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.17, C:0.15, G:0.10, T:0.57
Consensus pattern (18 bp):
CATTTTATATTGTCATCG
Found at i:31063255 original size:14 final size:15
Alignment explanation
Indices: 31063231--31063265 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
31063221 TTAGTAACTT
31063231 GAAAAAGGAAAAGAA
1 GAAAAAGGAAAAGAA
31063246 GAAAAA-GAAAAGAA
1 GAAAAAGGAAAAGAA
31063260 GAAAAA
1 GAAAAA
31063266 AATGTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
GAAAAAGGAAAAGAA
Found at i:31067567 original size:19 final size:19
Alignment explanation
Indices: 31067543--31067580 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31067533 CCACCTCCAT
*
31067543 GATAGGTTGTTGGAGCATC
1 GATAGGTTGTTAGAGCATC
31067562 GATAGGTTGTTAGAGCATC
1 GATAGGTTGTTAGAGCATC
31067581 TCGTTGCGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.34, T:0.32
Consensus pattern (19 bp):
GATAGGTTGTTAGAGCATC
Found at i:31078533 original size:28 final size:28
Alignment explanation
Indices: 31078501--31078598 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 28
31078491 AAAGTAAAAC
*
31078501 CTTTGTGGTTGAATCTGTTAAAGTGAGA
1 CTTTGTGGCTGAATCTGTTAAAGTGAGA
* * *
31078529 CTTTGTGGCTGATTATGTTAAAAG-GAGC
1 CTTTGTGGCTGAATCTGTT-AAAGTGAGA
* * * * *
31078557 CTTTTTGACTAAATCTATTAAAGTGAGT
1 CTTTGTGGCTGAATCTGTTAAAGTGAGA
* *
31078585 CTTAGTGGTTGAAT
1 CTTTGTGGCTGAAT
31078599 ATATTAAAAA
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
27 4 0.08
28 44 0.85
29 4 0.08
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (28 bp):
CTTTGTGGCTGAATCTGTTAAAGTGAGA
Found at i:31078758 original size:28 final size:28
Alignment explanation
Indices: 31078719--31078789 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
31078709 TGGGAAAGCT
31078719 TTTGTGGCTATCTCTT-TGAACGGACT-CC
1 TTTGTGGCTATCT-TTATGAACGGA-TGCC
* *
31078747 TTTGTGGCTATCTTTATGAATGGATGCT
1 TTTGTGGCTATCTTTATGAACGGATGCC
31078775 TTTGTGGCTATCTTT
1 TTTGTGGCTATCTTT
31078790 TTTAAGGACG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 3 0.08
28 36 0.92
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.46
Consensus pattern (28 bp):
TTTGTGGCTATCTTTATGAACGGATGCC
Found at i:31081855 original size:16 final size:16
Alignment explanation
Indices: 31081834--31081869 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
31081824 AAATAATATC
*
31081834 AAAATTACAAGTCTCA
1 AAAATTAAAAGTCTCA
*
31081850 AAAATTAAAAGTTTCA
1 AAAATTAAAAGTCTCA
31081866 AAAA
1 AAAA
31081870 CACTTTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (16 bp):
AAAATTAAAAGTCTCA
Found at i:31115150 original size:79 final size:78
Alignment explanation
Indices: 31114951--31115166 Score: 283
Period size: 79 Copynumber: 2.7 Consensus size: 78
31114941 ACAAAAATTG
* * * * * *
31114951 AATAATTCTATTTCAGAATTTATTCTTGCCGTTCAACAGAATTCATTTAAGTTTCTGTTTCCAAA
1 AATAATTCTGTTTCAGGATTTATTCCT-CTGTTCAACAGAATTTATTTGAGTTTCTGTTTCCAAA
31115016 CAGAAATAAATTAA
65 CAGAAATAAATTAA
* * *
31115030 AATAATT-TGGTTTCAGGATTTATTCCTGTCGTTCAACAGAATTTATTCGAGTTTCTGTTTCTAA
1 AATAATTCT-GTTTCAGGATTTATTCCTCT-GTTCAACAGAATTTATTTGAGTTTCTGTTTCCAA
31115094 ACAGAAATAAATTAA
64 ACAGAAATAAATTAA
* *
31115109 AATAATTCTGTTTCAGGATTTATTCCTACTGTTTAATAGAATTTATTTGA-TTTCTGTT
1 AATAATTCTGTTTCAGGATTTATTCCT-CTGTTCAACAGAATTTATTTGAGTTTCTGTT
31115167 GTTAATGGTA
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 9 0.08
79 109 0.91
80 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (78 bp):
AATAATTCTGTTTCAGGATTTATTCCTCTGTTCAACAGAATTTATTTGAGTTTCTGTTTCCAAAC
AGAAATAAATTAA
Found at i:31115290 original size:2 final size:2
Alignment explanation
Indices: 31115283--31115315 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
31115273 GTTTAGATTT
*
31115283 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31115316 TGTTCTGTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:31115560 original size:79 final size:78
Alignment explanation
Indices: 31115466--31115681 Score: 301
Period size: 79 Copynumber: 2.7 Consensus size: 78
31115456 ACAAAAATTG
* * *
31115466 AATAATTCTATTTCAGAATTTATTCTTGCCGTTCAACAGAATTCATTTAAGTTTCTGTTTCCAAA
1 AATAATTCTGTTTCAGGATTTATTCTTGCCGTTCAACAGAATTTATTT-AGTTTCTGTTTCCAAA
31115531 CAGAAATAAATTAA
65 CAGAAATAAATTAA
* *
31115545 AATAATT-TGGTTTCAGGATTTATTCTTGTCGTTCAACAGAATTTATTCTAGTTTCTGTTTCTAA
1 AATAATTCT-GTTTCAGGATTTATTCTTGCCGTTCAACAGAATTTATT-TAGTTTCTGTTTCCAA
31115609 ACAGAAATAAATTAA
64 ACAGAAATAAATTAA
* * * *
31115624 AATAATTCTGTTTCAGGATTTATTCCTACCGTTTAATAGAATTTATTT-GATTTCTGTT
1 AATAATTCTGTTTCAGGATTTATTCTTGCCGTTCAACAGAATTTATTTAG-TTTCTGTT
31115682 GTTAATGGTA
Statistics
Matches: 123, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
77 1 0.01
78 10 0.08
79 110 0.89
80 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (78 bp):
AATAATTCTGTTTCAGGATTTATTCTTGCCGTTCAACAGAATTTATTTAGTTTCTGTTTCCAAAC
AGAAATAAATTAA
Found at i:31115685 original size:515 final size:507
Alignment explanation
Indices: 31114722--31115743 Score: 1936
Period size: 515 Copynumber: 2.0 Consensus size: 507
31114712 GCCTCAACTA
*
31114722 CCTACGAGTACAAAATTTCAGTACTGCTTATTTTCAATTTTTGTTTTTAGATTTTTTATATATAT
1 CCTACGAGTACAAAATTTCAGTACTGCTTATTTTCAATTTTTGTGTTTAGATTTTTTATATATAT
31114787 ATATTTATTTATATTGTTCTGTTCAATCTTGTGATTTAAATAAATATTTTATATTACTATTATCT
66 ATATTTATTTATATTGTTCTGTTCAATCTTGTGATTTAAATAAATATTTTATATTACTATTATCT
31114852 CACTAACGTGTTTCTAACAATCTTAAGACAAAACTTTTTATCACTTTCTAATCTGAGACAAACGA
131 CACTAACGTGTTTCTAACAATCTTAAGACAAAACTTTTTATCACTTTCTAATCTGAGACAAACGA
31114917 GGCAAATTTGTATTCTGTTCGTAAACAAAAATTGAATAATTCTATTTCAGAATTTATTCTTGCCG
196 GGCAAATTTGTATTCTGTTCGTAAACAAAAATTGAATAATTCTATTTCAGAATTTATTCTTGCCG
31114982 TTCAACAGAATTCATTTAAGTTTCTGTTTCCAAACAGAAATAAATTAAAATAATTTGGTTTCAGG
261 TTCAACAGAATTCATTTAAGTTTCTGTTTCCAAACAGAAATAAATTAAAATAATTTGGTTTCAGG
31115047 ATTTATTCCTGTCGTTCAACAGAATTTATTCGAGTTTCTGTTTCTAAACAGAAATAAATTAAAAT
326 ATTTATTCCTGTCGTTCAACAGAATTTATTCGAGTTTCTGTTTCTAAACAGAAATAAATTAAAAT
*
31115112 AATTCTGTTTCAGGATTTATTCCTACTGTTTAATAGAATTTATTTGATTTCTGTTGTTAATGGTA
391 AATTCTGTTTCAGGATTTATTCCTACCGTTTAATAGAATTTATTTGATTTCTGTTGTTAATGGTA
31115177 ATCGTTTGAGAGTAACAAATCTGTTACTAGAAAATTGATTTTGTTTCAGAAT
456 ATCGTTTGAGAGTAACAAATCTGTTACTAGAAAATTGATTTTGTTTCAGAAT
31115229 CCTACGAGTACAAAATTTCAGTACTGCTTATTTTCAATTTTTGTGTTTAGATTTTATATATATAT
1 CCTACGAGTACAAAATTTCAGTACTGCTTATTTTCAATTTTTGTGTTTAGA--TT-T-T-T-TAT
31115294 ATATATATATATATATTTATATTGTTCTGTTCAATCTTGTGATTTAAATAAATATTTTATATTAC
60 ATATATATAT-T-TATTTATATTGTTCTGTTCAATCTTGTGATTTAAATAAATATTTTATATTAC
31115359 TATTATCTCACTAACGTGTTTCTAACAATCTTAAGACAAAACTTTTTATCACTTTCTAATCTGAG
123 TATTATCTCACTAACGTGTTTCTAACAATCTTAAGACAAAACTTTTTATCACTTTCTAATCTGAG
31115424 ACAAACGAGGCAAATTTGTATTCTGTTCGTAAACAAAAATTGAATAATTCTATTTCAGAATTTAT
188 ACAAACGAGGCAAATTTGTATTCTGTTCGTAAACAAAAATTGAATAATTCTATTTCAGAATTTAT
31115489 TCTTGCCGTTCAACAGAATTCATTTAAGTTTCTGTTTCCAAACAGAAATAAATTAAAATAATTTG
253 TCTTGCCGTTCAACAGAATTCATTTAAGTTTCTGTTTCCAAACAGAAATAAATTAAAATAATTTG
* *
31115554 GTTTCAGGATTTATTCTTGTCGTTCAACAGAATTTATTCTAGTTTCTGTTTCTAAACAGAAATAA
318 GTTTCAGGATTTATTCCTGTCGTTCAACAGAATTTATTCGAGTTTCTGTTTCTAAACAGAAATAA
31115619 ATTAAAATAATTCTGTTTCAGGATTTATTCCTACCGTTTAATAGAATTTATTTGATTTCTGTTGT
383 ATTAAAATAATTCTGTTTCAGGATTTATTCCTACCGTTTAATAGAATTTATTTGATTTCTGTTGT
31115684 TAATGGTAATCGTTTGAGAGTAACAAATCTGTTACTAGAAAATTGATTTTGTTTCAGAAT
448 TAATGGTAATCGTTTGAGAGTAACAAATCTGTTACTAGAAAATTGATTTTGTTTCAGAAT
31115744 TTTAATTATG
Statistics
Matches: 503, Mismatches: 4, Indels: 8
0.98 0.01 0.02
Matches are distributed among these distances:
507 50 0.10
509 2 0.00
510 1 0.00
511 1 0.00
512 1 0.00
513 13 0.03
514 1 0.00
515 434 0.86
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (507 bp):
CCTACGAGTACAAAATTTCAGTACTGCTTATTTTCAATTTTTGTGTTTAGATTTTTTATATATAT
ATATTTATTTATATTGTTCTGTTCAATCTTGTGATTTAAATAAATATTTTATATTACTATTATCT
CACTAACGTGTTTCTAACAATCTTAAGACAAAACTTTTTATCACTTTCTAATCTGAGACAAACGA
GGCAAATTTGTATTCTGTTCGTAAACAAAAATTGAATAATTCTATTTCAGAATTTATTCTTGCCG
TTCAACAGAATTCATTTAAGTTTCTGTTTCCAAACAGAAATAAATTAAAATAATTTGGTTTCAGG
ATTTATTCCTGTCGTTCAACAGAATTTATTCGAGTTTCTGTTTCTAAACAGAAATAAATTAAAAT
AATTCTGTTTCAGGATTTATTCCTACCGTTTAATAGAATTTATTTGATTTCTGTTGTTAATGGTA
ATCGTTTGAGAGTAACAAATCTGTTACTAGAAAATTGATTTTGTTTCAGAAT
Found at i:31115817 original size:26 final size:26
Alignment explanation
Indices: 31115785--31115844 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
31115775 TAGTATAAAC
31115785 TGAAAATTAAATTTTCTGTTTATTAT
1 TGAAAATTAAATTTTCTGTTTATTAT
31115811 TGAAAATTAAATTTTCTGTTTATTAT
1 TGAAAATTAAATTTTCTGTTTATTAT
31115837 TGAAAATT
1 TGAAAATT
31115845 TGAAGCATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (26 bp):
TGAAAATTAAATTTTCTGTTTATTAT
Found at i:31119029 original size:9 final size:9
Alignment explanation
Indices: 31118990--31119142 Score: 89
Period size: 9 Copynumber: 16.3 Consensus size: 9
31118980 ACATGTGGTA
31118990 AAAAATTAT
1 AAAAATTAT
31118999 AAAAA--AT
1 AAAAATTAT
*
31119006 AAAAATCAAT
1 AAAAAT-TAT
31119016 AAAAAGTTAT
1 AAAAA-TTAT
31119026 AAAAATTATT
1 AAAAATTA-T
**
31119036 AAATTTTAAT
1 AAAAATT-AT
*
31119046 AAAAAATAT
1 AAAAATTAT
*
31119055 AAAATTTATTT
1 AAAAATTA--T
*
31119066 AAAAAATTAGA
1 -AAAAATTA-T
31119077 AAAAATTAT
1 AAAAATTAT
**
31119086 AAAAATCGT
1 AAAAATTAT
*
31119095 AAAAAATA-
1 AAAAATTAT
31119103 AAAAATGTA-
1 AAAAAT-TAT
**
31119112 AAATTTTAT
1 AAAAATTAT
31119121 AAAAATTAT
1 AAAAATTAT
31119130 AAAAAATTAT
1 -AAAAATTAT
31119140 AAA
1 AAA
31119143 CCGCATCAAA
Statistics
Matches: 110, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
7 7 0.06
8 7 0.06
9 44 0.40
10 42 0.38
11 3 0.03
12 7 0.06
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:31119057 original size:19 final size:21
Alignment explanation
Indices: 31119023--31119072 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
31119013 AATAAAAAGT
* *
31119023 TATAAAAATTATTAAATTTTA
1 TATAAAAAATATTAAAATTTA
31119044 -ATAAAAAATA-TAAAATTTA
1 TATAAAAAATATTAAAATTTA
*
31119063 TTTAAAAAAT
1 TATAAAAAAT
31119073 TAGAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATAAAAAATATTAAAATTTA
Found at i:31119112 original size:16 final size:19
Alignment explanation
Indices: 31119076--31119142 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
31119066 AAAAAATTAG
31119076 AAAAAATTATAAAAATCGT
1 AAAAAATTATAAAAATCGT
31119095 AAAAAA-TA-AAAAAT-GT
1 AAAAAATTATAAAAATCGT
** **
31119111 AAAATTTTATAAAAATTAT
1 AAAAAATTATAAAAATCGT
31119130 AAAAAATTATAAA
1 AAAAAATTATAAA
31119143 CCGCATCAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 6 0.15
17 8 0.20
18 8 0.20
19 18 0.45
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAAAATTATAAAAATCGT
Found at i:31119429 original size:19 final size:19
Alignment explanation
Indices: 31119407--31119469 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
31119397 TTTTCTATAG
*
31119407 TTTATAATTTTTTTACGTT
1 TTTATAATTTTTTTACATT
** * *
31119426 TTTATAAAATTTTAAAATT
1 TTTATAATTTTTTTACATT
31119445 TTTA-AATTTTTTTACAATT
1 TTTATAATTTTTTTAC-ATT
31119464 TTTATA
1 TTTATA
31119470 TGTTTTAAGT
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 7 0.21
19 25 0.76
20 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTATAATTTTTTTACATT
Done.