Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 698 of 770
Found at i:220189402 original size:35 final size:35
Alignment explanation
Indices: 220189356--220189438 Score: 157
Period size: 35 Copynumber: 2.4 Consensus size: 35
220189346 TCTGCCCTAT
*
220189356 TCCAGCCACTGGTGCATCTGCCGTCGACCACCTGC
1 TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
220189391 TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
1 TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
220189426 TCCAGCCACTGGT
1 TCCAGCCACTGGT
220189439 ATGTCACGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.14, C:0.43, G:0.22, T:0.20
Consensus pattern (35 bp):
TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
Found at i:220191015 original size:13 final size:13
Alignment explanation
Indices: 220190997--220191021 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
220190987 ATAGATTGTG
220190997 TCTTAAAAATTTT
1 TCTTAAAAATTTT
220191010 TCTTAAAAATTT
1 TCTTAAAAATTT
220191022 AAAACATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
TCTTAAAAATTTT
Found at i:220193103 original size:27 final size:29
Alignment explanation
Indices: 220193073--220193187 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
220193063 ACGCAAGAGC
*
220193073 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
220193100 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
220193129 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* * ** *
220193159 ATATGTTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
220193188 GTACAATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 42 0.53
30 29 0.37
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:220193140 original size:30 final size:29
Alignment explanation
Indices: 220193085--220193187 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
220193075 ATAGTGAATC
220193085 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
220193114 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
220193144 CGCACACTTAGTGCTATATGTTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
220193173 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
220193188 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 42 0.59
30 29 0.41
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:220193177 original size:59 final size:60
Alignment explanation
Indices: 220193084--220193217 Score: 198
Period size: 59 Copynumber: 2.2 Consensus size: 60
220193074 TATAGTGAAT
* * *
220193084 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * * *
220193143 TCGCACACTTAGTGCTATATGTTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
220193203 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
220193218 CAATCTTGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 46 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:220194558 original size:17 final size:19
Alignment explanation
Indices: 220194523--220194561 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
220194513 TCCACACCCA
220194523 TTTTTTTTTCATCATTTTCT
1 TTTTTTTTTCA-CATTTTCT
220194543 TTTTTTTTTC-CA-TTTCT
1 TTTTTTTTTCACATTTTCT
220194560 TT
1 TT
220194562 ATTCTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
20 10 0.53
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTCACATTTTCT
Found at i:220200991 original size:27 final size:29
Alignment explanation
Indices: 220200961--220201075 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
220200951 ACGCAAGAGC
*
220200961 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
220200988 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
220201017 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* * ** *
220201047 ATATGTTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
220201076 GTACAATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 42 0.53
30 29 0.37
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:220201028 original size:30 final size:29
Alignment explanation
Indices: 220200973--220201075 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
220200963 ATAGTGAATC
220200973 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
220201002 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
* *
220201032 CGCACACTTAGTGCTATATGTTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
220201061 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
220201076 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 42 0.59
30 29 0.41
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:220201065 original size:59 final size:60
Alignment explanation
Indices: 220200972--220201105 Score: 198
Period size: 59 Copynumber: 2.2 Consensus size: 60
220200962 TATAGTGAAT
* * *
220200972 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * * *
220201031 TCGCACACTTAGTGCTATATGTTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
220201091 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
220201106 CAATCTTGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 46 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:220202446 original size:18 final size:20
Alignment explanation
Indices: 220202411--220202449 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
220202401 TCCACACCCA
220202411 TTTTTTTTCATCATTTTCTTT
1 TTTTTTTTCA-CATTTTCTTT
220202432 TTTTTTTTC-CA-TTTCTTT
1 TTTTTTTTCACATTTTCTTT
220202450 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
21 9 0.50
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTTCACATTTTCTTT
Found at i:220212309 original size:108 final size:106
Alignment explanation
Indices: 220212197--220212726 Score: 334
Period size: 110 Copynumber: 4.8 Consensus size: 106
220212187 TGTAAATGGG
* * *
220212197 TCTATCCCAACATTTTTAACGTTGTCTTAGATAGGTCAATCCCAACCTTTTCTAAAAGTTGCTTT
1 TCTATCCCAACATTTTTAACGTTG-CTTAGAAAGGTCTATCCCAACCTTTT-TAAAAGTTGCCTT
* * * *
220212262 AGACAAGATCTATTCCAACCTTTTGGAGGTTACCTTAGACGA-A
64 AGACAAG-TCTATCCCAACCTTTTGAAGGTTACCTTAAACAAGA
* * ** * *
220212305 TCTATCCCAACCTTTTTAAGGTTGCTTTAGACAA-GTCTATCGTAACCTTTTTTTAAGGTTGCCT
1 TCTATCCCAACATTTTTAACGTTGC-TTAGA-AAGGTCTATCCCAACC-TTTTTAAAAGTTGCCT
* * *
220212369 TAAACAAGTCTATCCCAACCCTTTTTTAAGGTTGCCTTAAACAAGA
63 TAGACAAGTCTATCCCAA-CC-TTTTGAAGGTTACCTTAAACAAGA
* * *
220212415 TCTATCCCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATCCCAACATTTTTAAAAGGTTGC
1 TCTATCCCAA-CATTTTT-AACGTTG-CTTAGA-AAGGTCTATCCCAACCTTTTTAAAA-GTTGC
* * * * * *
220212480 CTTAGATAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCCTAGACAAGG
61 CTTAGACAA-GTCTATCCCAACC--TTTTGAAGGTTACCTTAAACAAGA
* * * * * * *
220212529 TCTA-CACCAACCTATTTAAGGTTGCTTTAG-ACGATTCTAT-CCAATCTTTTTTAAAGGTTGCC
1 TCTATC-CCAACATTTTTAACGTTGC-TTAGAAAG-GTCTATCCCAA-CCTTTTTAAAAGTTGCC
* * * * * * * * * *
220212591 TTAGACAAGGTTTATCGCAACTTTTTTTAAATGTTGCCTTAGATATGG
62 TTAGACAA-GTCTATCCCAAC--CTTTTGAAGGTTACCTTAAACAAGA
* * * ** *
220212639 TCTATCCCAACTTTTTTTAAAGGTTATCTTAGACTGGTCTATCCCAACCTTTTT-AAGGTTGCCT
1 TCTATCCCAAC-ATTTTT-AACGTT-GCTTAGAAAGGTCTATCCCAACCTTTTTAAAAGTTGCCT
* *
220212703 TAGACAGGTCTATCACAACCTTTT
63 TAGACAAGTCTATCCCAACCTTTT
220212727 TCAAAGGTTG
Statistics
Matches: 342, Mismatches: 55, Indels: 50
0.77 0.12 0.11
Matches are distributed among these distances:
107 10 0.03
108 59 0.17
109 22 0.06
110 80 0.23
111 42 0.12
112 52 0.15
113 37 0.11
114 40 0.12
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (106 bp):
TCTATCCCAACATTTTTAACGTTGCTTAGAAAGGTCTATCCCAACCTTTTTAAAAGTTGCCTTAG
ACAAGTCTATCCCAACCTTTTGAAGGTTACCTTAAACAAGA
Found at i:220212589 original size:148 final size:147
Alignment explanation
Indices: 220212069--220212772 Score: 617
Period size: 148 Copynumber: 4.8 Consensus size: 147
220212059 CTATCCGACC
* * * * * * *
220212069 TTTTT-AAGTTTGCCTTAGAC-GGGTTTATCCTAACTTTTTTAAGGTTGCCTTA-ACGGGTTTAT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-GATCTAT
* * * * *
220212131 CCCAA-CTTTTTTTAA-GTTGCCTTGGAAAAGGTCTATCTCAA-CTTTTTT-AAGGTTG-TTGTA
65 -CCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCT-TA
* * *
220212191 AAT-GGGTCTATCCCAA-CA
128 GATAAGGTCTATCCCAACCT
* * * * * *
220212209 TTTTT-AACGTTGTCTTAGA-TAGGTCAATCCCAACCTTTTCTAAAAGTTGCTTTAGACAAGATC
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTT-T-AAGGTTGCCTTAGAC--GATC
** * *
220212272 TATTCCAACC--TTTTGGAGGTTACCTTAGACGAA--TCTATCCCAACC-TTTTT-AAGGTTGCT
62 TA-TCCAACCTTTTTTAAAGGTTGCCTTAGAC-AAGGTCTATCCCAACCTTTTTTAAAGGTTGCC
* **
220212331 TTAGACAA-GTCTATCGTAACCT
125 TTAGATAAGGTCTATCCCAACCT
* * *
220212353 TTTTTTAAGGTTGCCTTAAACAA-GTCTATCCCAACCCTTTTTTAAGGTTGCCTTAAACAAGATC
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAA-CC-TTTTTAAGGTTGCCTTAGAC--GATC
* * *
220212417 TATCCCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATCCCAACATTTTTAAAAGGTTGCCT
62 TAT-CCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
220212482 TAGATAAGGTCTATCCCAACCT
126 TAGATAAGGTCTATCCCAACCT
* * *
220212504 TTTTTAAAGGTTGCCCTAGACAAGGTCTA-CACCAACCTATTTAAGGTTGCTTTAGACGATTCTA
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATC-CCAACCTTTTTAAGGTTGCCTTAGACGA-TCTA
* * * * *
220212568 TCCAATCTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCGCAACTTTTTTTAAATGTTGCCTTAG
64 TCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAG
* *
220212633 ATATGGTCTATCCCAACTT
129 ATAAGGTCTATCCCAACCT
** * *
220212652 TTTTTAAAGGTTATCTTAGAC-TGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTAT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-GATCTAT
* * *
220212716 CACAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTCTATCGCAACCTTTTTTAAAGGT
65 C-CAACCTTTTTTAAAGGTT-GCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGT
220212773 GGCATTGACT
Statistics
Matches: 461, Mismatches: 71, Indels: 56
0.78 0.12 0.10
Matches are distributed among these distances:
140 30 0.07
141 1 0.00
142 10 0.02
143 40 0.09
144 27 0.06
145 51 0.11
146 6 0.01
147 56 0.12
148 150 0.33
149 14 0.03
150 32 0.07
151 35 0.08
152 9 0.02
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (147 bp):
TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGATCTATC
CAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAT
AAGGTCTATCCCAACCT
Found at i:220212783 original size:37 final size:38
Alignment explanation
Indices: 220212069--220212772 Score: 560
Period size: 38 Copynumber: 19.3 Consensus size: 38
220212059 CTATCCGACC
* * * *
220212069 TTTTT-AAGTTTGCCTTAGAC-GGGTTTATCCTAA-CT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
* *
220212104 TTTTT-AAGGTTGCCTTA-AC-GGGTTTATCCCAA-CT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
* * ** *
220212138 TTTTTTAA-GTTGCCTTGGAAAAGGTCTATCTCAA-CT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
* * * *
220212174 TTTTT-AAGGTTG-TTGTA-AATGGGTCTATCCCAA-CA
1 TTTTTAAAGGTTGCCT-TAGACTAGGTCTATCCCAACCT
* * *
220212209 TTTTT-AACGTTGTCTTAGA-TAGGTCAATCCCAACCT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
* * * * * *
220212245 TTTCTAAAAGTTGCTTTAGACAAGATCTATTCCAACC-
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
** * * *
220212282 -TTTTGGAGGTTACCTTAGACGA-ATCTATCCCAACC-
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
* * **
220212317 TTTTT-AAGGTTGCTTTAGAC-AAGTCTATCGTAACCT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
* * *
220212353 TTTTTTAAGGTTGCCTTAAAC-AAGTCTATCCCAACCCT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAA-CCT
* * *
220212391 TTTTT-AAGGTTGCCTTAAACAAGATCTATCCCAACCT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
* * *
220212428 TTTTTAAATGTTGCCTTAGACAAGGTCTATCCCAACAT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
*
220212466 TTTTAAAAGGTTGCCTTAGA-TAAGGTCTATCCCAACCT
1 TTTTTAAAGGTTGCCTTAGACT-AGGTCTATCCCAACCT
* *
220212504 TTTTTAAAGGTTGCCCTAGACAAGGTCTA-CACCAACC-
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATC-CCAACCT
* * * * *
220212541 TATTT-AAGGTTGCTTTAGACGA-TTCTAT-CCAATCT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
* * * *
220212576 TTTTTAAAGGTTGCCTTAGACAAGGTTTATCGCAACTT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
* *
220212614 TTTTTAAATGTTGCCTTAGA-TATGGTCTATCCCAACTT
1 TTTTTAAAGGTTGCCTTAGACTA-GGTCTATCCCAACCT
**
220212652 TTTTTAAAGGTTATCTTAGACT-GGTCTATCCCAACC-
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
*
220212688 TTTTT-AAGGTTGCCTTAGAC-AGGTCTATCACAACCT
1 TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
* *
220212724 TTTTCAAAGGTTGGCCTT-GACTAGGTCTATCGCAACCT
1 TTTTTAAAGGTT-GCCTTAGACTAGGTCTATCCCAACCT
220212762 TTTTTAAAGGT
1 TTTTTAAAGGT
220212773 GGCATTGACT
Statistics
Matches: 552, Mismatches: 85, Indels: 61
0.79 0.12 0.09
Matches are distributed among these distances:
34 35 0.06
35 129 0.23
36 91 0.16
37 90 0.16
38 206 0.37
39 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (38 bp):
TTTTTAAAGGTTGCCTTAGACTAGGTCTATCCCAACCT
Found at i:220212794 original size:37 final size:38
Alignment explanation
Indices: 220212712--220212797 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 38
220212702 TTAGACAGGT
* * * *
220212712 CTATCACAACCTTTTTCAAAGGTTGGCCTTGACTAGGT
1 CTATCGCAACCTTTTTCAAAGGTTGGCATTGACTAAGC
*
220212750 CTATCGCAACCTTTTTTAAAGG-TGGCATTGACTAAGC
1 CTATCGCAACCTTTTTCAAAGGTTGGCATTGACTAAGC
*
220212787 CTTTCGCAACC
1 CTATCGCAACC
220212798 CTTCAATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 22 0.52
38 20 0.48
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (38 bp):
CTATCGCAACCTTTTTCAAAGGTTGGCATTGACTAAGC
Found at i:220217408 original size:40 final size:40
Alignment explanation
Indices: 220217364--220217619 Score: 442
Period size: 40 Copynumber: 6.7 Consensus size: 40
220217354 TTGCACAAAG
220217364 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220217404 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220217444 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220217484 GCCTTCGGGTCTTAGCCCGGATATATC-A-TCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220217522 G-CTTC-GGTCTTAGCCCGGATATAT---CTCGCACG-AT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220217556 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA--AAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220217594 GCCTTCGGGTCTTAGCCCGGATATAT
1 GCCTTCGGGTCTTAGCCCGGATATAT
220217620 TCAATGTTCT
Statistics
Matches: 209, Mismatches: 0, Indels: 16
0.93 0.00 0.07
Matches are distributed among these distances:
34 3 0.01
35 11 0.05
36 38 0.18
37 4 0.02
38 39 0.19
39 7 0.03
40 107 0.51
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
Found at i:220217641 original size:17 final size:17
Alignment explanation
Indices: 220217616--220217654 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
220217606 TAGCCCGGAT
*
220217616 ATATTCAATGTTC-TTAC
1 ATATACAAT-TTCATTAC
220217633 ATATACAATTTCATTAC
1 ATATACAATTTCATTAC
220217650 ATATA
1 ATATA
220217655 TATCAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (17 bp):
ATATACAATTTCATTAC
Found at i:220217658 original size:112 final size:108
Alignment explanation
Indices: 220217364--220217619 Score: 309
Period size: 112 Copynumber: 2.2 Consensus size: 108
220217354 TTGCACAAAG
*
220217364 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATATC-A-TCGCACGAAT-ACTT---GTCTTA--CC--ATATA
*
220217429 TCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
56 T-ATCTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC-AAT
* **
220217484 GCCTTCGGGTCTTAGCCCGGATATATCATCGCACGAATGCTTCGGTCTTAGCCCGGATATATCTC
1 GCCTTCGGGTCTTAGCCCGGATATATCATCGCACGAATACTT--GTCTTA--CCATATATATCTC
220217549 GCACG-ATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA-AAT
62 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAT
220217594 GCCTTCGGGTCTTAGCCCGGATATAT
1 GCCTTCGGGTCTTAGCCCGGATATAT
220217620 TCAATGTTCT
Statistics
Matches: 131, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
110 29 0.22
112 37 0.28
113 9 0.07
114 4 0.03
116 11 0.08
117 3 0.02
118 10 0.08
119 1 0.01
120 27 0.21
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (108 bp):
GCCTTCGGGTCTTAGCCCGGATATATCATCGCACGAATACTTGTCTTACCATATATATCTCGCAC
GAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAT
Found at i:220225629 original size:40 final size:40
Alignment explanation
Indices: 220225609--220225871 Score: 505
Period size: 40 Copynumber: 6.7 Consensus size: 40
220225599 TTGCACAAAG
220225609 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220225649 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220225689 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220225729 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220225769 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220225809 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC---T
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
220225846 GCCTTCGGGTCTTAGCCCGGATATAT
1 GCCTTCGGGTCTTAGCCCGGATATAT
220225872 TCGCAAATGC
Statistics
Matches: 223, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
37 27 0.12
40 196 0.88
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
Found at i:220230044 original size:21 final size:21
Alignment explanation
Indices: 220230008--220230053 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
220229998 TTCTCGGCAG
* *
220230008 GTGGATATCGCAATACGAAAA
1 GTGGATATCACAATACCAAAA
* *
220230029 GTGGATATCACGATACCCAAA
1 GTGGATATCACAATACCAAAA
220230050 GTGG
1 GTGG
220230054 CCTCCATTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (21 bp):
GTGGATATCACAATACCAAAA
Found at i:220230126 original size:5 final size:5
Alignment explanation
Indices: 220230116--220230180 Score: 71
Period size: 5 Copynumber: 12.4 Consensus size: 5
220230106 ACCCCAAAGT
220230116 AAATA AAATA AAATA AAATA AAGA-A GATAATA AAAT- AAATAA TAAATA
1 AAATA AAATA AAATA AAATA AA-ATA -A-AATA AAATA AAAT-A -AAATA
220230164 AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AA
220230181 TTTAATTACC
Statistics
Matches: 53, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.08
5 38 0.72
6 5 0.09
7 6 0.11
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:220230149 original size:17 final size:16
Alignment explanation
Indices: 220230126--220230170 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
220230116 AAATAAAATA
220230126 AAATAAAATAAAGAAG
1 AAATAAAATAAAGAAG
* *
220230142 ATAATAAAATAAATAAT
1 A-AATAAAATAAAGAAG
220230159 AAATAAAATAAA
1 AAATAAAATAAA
220230171 ATAAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AAATAAAATAAAGAAG
Found at i:220231852 original size:40 final size:40
Alignment explanation
Indices: 220231708--220231874 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
220231698 CGGAATATAA
* ** * *
220231708 CCGGATATAATCACGTGCGCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
*
220231748 CCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
*** * *
220231788 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
220231828 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
220231867 CCGGATAT
1 CCGGATAT
220231875 CATTCAATTT
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 15 0.14
40 88 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:220240288 original size:28 final size:28
Alignment explanation
Indices: 220240256--220240354 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
220240246 GCAATAAGCC
*
220240256 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
220240284 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
220240312 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
220240341 CGCACACTTAGTGC
1 CGCACACTTAGTGC
220240355 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:220247923 original size:28 final size:28
Alignment explanation
Indices: 220247891--220247989 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
220247881 GCAATAAGCC
*
220247891 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
220247919 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
220247947 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
220247976 CGCACACTTAGTGC
1 CGCACACTTAGTGC
220247990 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:220250180 original size:63 final size:64
Alignment explanation
Indices: 220250100--220250227 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 64
220250090 ATAACATGAA
220250100 AGGATTTTATGGAACGTAATGTATAACCATCAACCTTTCTATGAAATTCTACACCTCTCAATTT
1 AGGATTTTATGGAACGTAATGTATAACCATCAACCTTTCTATGAAATTCTACACCTCTCAATTT
220250164 AGGA-TTTATGGAACGTAATGTATAACCATCAACCTTTCTATGAAATTCTACACCTCTCAATTT
1 AGGATTTTATGGAACGTAATGTATAACCATCAACCTTTCTATGAAATTCTACACCTCTCAATTT
220250227 A
1 A
220250228 CTTACTTTCC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 60 0.94
64 4 0.06
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (64 bp):
AGGATTTTATGGAACGTAATGTATAACCATCAACCTTTCTATGAAATTCTACACCTCTCAATTT
Found at i:220256041 original size:28 final size:27
Alignment explanation
Indices: 220255978--220256047 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
220255968 ATAGTGAGTC
220255978 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
220256005 AGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
220256033 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
220256048 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:220263827 original size:28 final size:27
Alignment explanation
Indices: 220263764--220263833 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
220263754 ATAGTGAGTC
220263764 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
220263791 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
220263819 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
220263834 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:220267850 original size:80 final size:80
Alignment explanation
Indices: 220267766--220267914 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
220267756 TATGGTAACC
* * * *
220267766 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
220267830 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
220267846 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
220267911 CCGG
66 CCGG
220267915 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:220267856 original size:40 final size:38
Alignment explanation
Indices: 220267807--220267914 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
220267797 ATCACGATTT
*
220267807 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
220267847 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
220267887 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
220267915 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:220275968 original size:80 final size:80
Alignment explanation
Indices: 220275884--220276032 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
220275874 TATGGTAACC
* * * *
220275884 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
220275948 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
220275964 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
220276029 CCGG
66 CCGG
220276033 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:220275974 original size:40 final size:38
Alignment explanation
Indices: 220275925--220276032 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
220275915 ATCACGATTT
*
220275925 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
220275965 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
220276005 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
220276033 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:220281569 original size:39 final size:40
Alignment explanation
Indices: 220281468--220281670 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
220281458 TCGAATGATG
* *
220281468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* *
220281508 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
220281547 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
220281587 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * **
220281626 ACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
220281666 TCCGG
1 TCCGG
220281671 TTAAACTCCG
Statistics
Matches: 140, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
39 72 0.51
40 61 0.44
41 7 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:220286474 original size:40 final size:40
Alignment explanation
Indices: 220286421--220286739 Score: 512
Period size: 40 Copynumber: 8.0 Consensus size: 40
220286411 TTGAGAGTTA
220286421 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
220286461 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
220286501 TATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
220286541 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
220286581 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
220286621 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
220286661 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
220286701 TATATCCGGGCTAGGTCCCGAAGAGAAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
220286740 ATGTGTATTC
Statistics
Matches: 257, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 257 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:220286953 original size:25 final size:25
Alignment explanation
Indices: 220286903--220286953 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
220286893 TGTGTAACAA
* *
220286903 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
220286928 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
220286953 C
1 C
220286954 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:220294005 original size:40 final size:40
Alignment explanation
Indices: 220293909--220294092 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
220293899 TCGAATGATG
* * *
220293909 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
220293948 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
220293988 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
220294028 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
220294068 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
220294093 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
38 8 0.06
39 49 0.40
40 57 0.46
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:220294099 original size:79 final size:78
Alignment explanation
Indices: 220293961--220294125 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 78
220293951 GGACTAAGAT
* **
220293961 CCGAAGGCATTTGTGTGAGTTACTAAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAA-TCCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCT
* *
220294025 AAATCGGGTTAAGTC
64 AAATCCGGTTAAATC
* * *
220294040 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCTGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTAGCT
* *
220294104 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
220294119 CCGAAGG
1 CCGAAGG
220294126 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 11 0.15
79 60 0.82
80 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:220301749 original size:77 final size:79
Alignment explanation
Indices: 220301616--220301795 Score: 226
Period size: 77 Copynumber: 2.3 Consensus size: 79
220301606 TCGAATGATG
* *
220301616 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACAAATCCGGACTAAGATCCGAAGGCATTTG
220301681 TG-GAGTTACTA-A
66 TGCGAGTTACTATA
* * **
220301693 TTCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGAC-AAATCCGGACTAAGAT-CCGAAGGCAT
220301755 TTGTGCGAGTTACTATA
63 TTGTGCGAGTTACTATA
* *
220301772 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
220301796 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
76 6 0.07
77 41 0.46
78 29 0.33
79 13 0.15
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:220301768 original size:40 final size:40
Alignment explanation
Indices: 220301616--220301797 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
220301606 TCGAATGATG
* * *
220301616 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
220301655 TCCGGACTAAGAT-CCGAAGGCATTTGTG-GAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
220301694 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
220301732 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
220301773 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
220301798 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
37 5 0.04
38 34 0.27
39 39 0.31
40 45 0.36
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:220301811 original size:40 final size:38
Alignment explanation
Indices: 220301617--220301797 Score: 165
Period size: 39 Copynumber: 4.7 Consensus size: 38
220301607 CGAATGATGT
* * * *
220301617 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAC-ATAT
1 CCGGGCTAAGTCCCGAAGGCATT-TGC-GAGTTACTATAA
* * *
220301656 CCGGACTAAGAT-CCGAAGGCATTTGTGGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTG-CGAGTTACTATA-A
220301695 CCGGGCTAAG-CCCGAAGGCATTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATT-TGCGAGTTACTATAA
*
220301732 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCA-TT-TGCGAGTTACTATAA
*
220301773 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
220301798 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 11, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
38 40 0.33
39 44 0.36
40 35 0.29
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGAGTTACTATAA
Found at i:220301819 original size:79 final size:77
Alignment explanation
Indices: 220301617--220301830 Score: 206
Period size: 77 Copynumber: 2.7 Consensus size: 77
220301607 CGAATGATGT
* * * * **
220301617 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAC-ATATCCGGACTAAGAT-CCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTT
*
220301680 GTGGAGTTACTAATT
63 GTGGAGTTACTAATA
*
220301695 CCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 CCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTG
220301760 CGAGTTACT-ATAA
66 -GAGTTACTAAT-A
* * *
220301773 CCGGGCTATGTCCCGAAGGCATT-TGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTGTG--CGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
220301831 TACGTGATTC
Statistics
Matches: 116, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
76 6 0.05
77 42 0.36
78 29 0.25
79 28 0.24
80 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTG
GAGTTACTAATA
Found at i:220308046 original size:40 final size:39
Alignment explanation
Indices: 220307881--220308064 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
220307871 AAATTGAATG
* * *
220307881 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
220307921 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
220307961 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
220308001 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
220308040 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
220308065 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:220308089 original size:80 final size:81
Alignment explanation
Indices: 220307921--220308109 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
220307911 GCTGGAAATT
* * * *
220307921 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
220307986 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
220308002 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
220308065 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
220308081 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
220308110 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:220316162 original size:40 final size:39
Alignment explanation
Indices: 220315997--220316180 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
220315987 AAATTGAATG
* * *
220315997 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
220316037 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
220316077 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
220316117 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
220316156 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
220316181 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:220316205 original size:80 final size:81
Alignment explanation
Indices: 220316037--220316225 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
220316027 GCTGGAAATT
* * * *
220316037 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
220316102 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
220316118 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
220316181 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
220316197 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
220316226 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:220320284 original size:66 final size:68
Alignment explanation
Indices: 220320208--220320394 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
220320198 TAGTACCACT
*
220320208 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
220320270 CACG
65 CACG
220320274 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
220320339 ATCACG
63 ATCACG
220320345 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
220320395 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:220320319 original size:71 final size:71
Alignment explanation
Indices: 220320231--220320394 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
220320221 CGATTTGTCT
220320231 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
220320296 CTTTCA
66 CTTTCA
220320302 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
220320367 CTTTCA
66 CTTTCA
220320373 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
220320395 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:220320432 original size:71 final size:70
Alignment explanation
Indices: 220320231--220320428 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
220320221 CGATTTGTCT
* * *
220320231 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
220320296 CTTTCA
65 CTTTCA
* * *
220320302 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
220320367 CTTTCA
65 CTTTCA
* *
220320373 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
220320429 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:220326973 original size:28 final size:28
Alignment explanation
Indices: 220326912--220327009 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
220326902 TCACAAATTG
** * *
220326912 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
220326941 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
220326969 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
220326997 GCACTAAGTGTGC
1 GCACTAAGTGTGC
220327010 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:220334645 original size:28 final size:28
Alignment explanation
Indices: 220334584--220334681 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
220334574 TCACAAATTG
** * *
220334584 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
220334613 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
220334641 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
220334669 GCACTAAGTGTGC
1 GCACTAAGTGTGC
220334682 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:220342265 original size:28 final size:28
Alignment explanation
Indices: 220342204--220342301 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
220342194 TCACAAATTG
** * *
220342204 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
220342233 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
220342261 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
220342289 GCACTAAGTGTGC
1 GCACTAAGTGTGC
220342302 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:220345014 original size:48 final size:48
Alignment explanation
Indices: 220344943--220345207 Score: 196
Period size: 48 Copynumber: 5.6 Consensus size: 48
220344933 GCGGATGAGC
* *
220344943 TCCCATATAAGACCATATCTGGGATATGGCTTCGGCAGT-GATATGTGA
1 TCCCATGTAAGACCATGTCTGGGATATGGCTTCGGCA-TCGATATGTGA
* * *
220344991 TCCCATGTAAAACCATGTCTGGGATATGGCTTTGGCATCGTTATGTGA
1 TCCCATGTAAGACCATGTCTGGGATATGGCTTCGGCATCGATATGTGA
* * * *
220345039 TCCCATGTAAGACCATGT-TCGGGACATGGCATT-AGCA-CCATAATGAGA
1 TCCCATGTAAGACCATGTCT-GGGATATGGC-TTCGGCATCGAT-ATGTGA
* * * * * *
220345087 -CATCGTGTAAGACCATAG-CT-GGCTATCAG-TT-TG-AT--ATGTGTGA
1 TC-CCATGTAAGACCAT-GTCTGGGATAT-GGCTTCGGCATCGATATGTGA
* *
220345130 TCCCATGTAAGACCATGTCTGGGATATGGCATT-GGCATCGTTATGTGG
1 TCCCATGTAAGACCATGTCTGGGATATGGC-TTCGGCATCGATATGTGA
* *
220345178 TCCCATGTAAGACCATATCTGGGATGTGGC
1 TCCCATGTAAGACCATGTCTGGGATATGGC
220345208 ATTGGCACCC
Statistics
Matches: 171, Mismatches: 29, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
42 1 0.01
43 19 0.11
44 8 0.05
45 4 0.02
46 5 0.03
47 9 0.05
48 121 0.71
49 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (48 bp):
TCCCATGTAAGACCATGTCTGGGATATGGCTTCGGCATCGATATGTGA
Found at i:220347198 original size:27 final size:27
Alignment explanation
Indices: 220347143--220347198 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
220347133 AGTTTGTCAG
* * *
220347143 GCCTTCTGGTGAACACTAGCTTGCCAA
1 GCCTTCTAGTGAACACCAGCTCGCCAA
*
220347170 GCCTTCTAGTGAACACCAGCTCGCTAA
1 GCCTTCTAGTGAACACCAGCTCGCCAA
220347197 GC
1 GC
220347199 ATCAAACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (27 bp):
GCCTTCTAGTGAACACCAGCTCGCCAA
Found at i:220349065 original size:14 final size:14
Alignment explanation
Indices: 220349046--220349075 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
220349036 GTTTCAACAC
220349046 ATAAATATGTGTTA
1 ATAAATATGTGTTA
*
220349060 ATAAATATGTTTTA
1 ATAAATATGTGTTA
220349074 AT
1 AT
220349076 CTGATTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATAAATATGTGTTA
Found at i:220353360 original size:31 final size:31
Alignment explanation
Indices: 220353320--220353385 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
220353310 AACCCTTCCT
*
220353320 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
*
220353351 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
220353382 GCAT
1 GCAT
220353386 AAAAAATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.23, G:0.11, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:220353685 original size:21 final size:21
Alignment explanation
Indices: 220353629--220353692 Score: 65
Period size: 27 Copynumber: 2.8 Consensus size: 21
220353619 TCTGCTGCCA
*
220353629 TCGCTGCTACCTCTGCCTCTC
1 TCGCTGCTGCCTCTGCCTCTC
220353650 TCATTGCTGCAGCTGCCTCTGCCTCTC
1 TC---GCT---GCTGCCTCTGCCTCTC
220353677 TCGCTGCTGCCTCTGC
1 TCGCTGCTGCCTCTGC
220353693 TCTAAGTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
21 13 0.36
24 6 0.17
27 17 0.47
ACGTcount: A:0.05, C:0.44, G:0.19, T:0.33
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCTC
Found at i:220354124 original size:13 final size:14
Alignment explanation
Indices: 220354098--220354126 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
220354088 ACTAACGACG
220354098 AATTAAACCATTAT
1 AATTAAACCATTAT
220354112 AATTAAA-CATTAT
1 AATTAAACCATTAT
220354125 AA
1 AA
220354127 ATATTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:220356682 original size:39 final size:39
Alignment explanation
Indices: 220356628--220356790 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
220356618 TGTGAATGAA
220356628 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
220356667 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
220356706 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
220356745 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
220356785 TGTGCG
1 TGTGCG
220356791 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:220356806 original size:40 final size:39
Alignment explanation
Indices: 220356628--220356820 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
220356618 TGTGAATGAA
* *
220356628 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
220356667 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
220356706 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
220356745 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
220356785 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
220356821 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:220364640 original size:39 final size:39
Alignment explanation
Indices: 220364586--220364748 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
220364576 TGTGAATGAA
*
220364586 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAGT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
220364625 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
220364664 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
220364703 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
220364743 TGTGCG
1 TGTGCG
220364749 GGTTACCATA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 98 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:220364764 original size:40 final size:39
Alignment explanation
Indices: 220364586--220364778 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
220364576 TGTGAATGAA
* * *
220364586 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAGT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
220364625 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
220364664 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
220364703 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
220364743 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
220364779 TGTTTTGAAC
Statistics
Matches: 138, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 98 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:220371497 original size:13 final size:13
Alignment explanation
Indices: 220371479--220371504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
220371469 AAATGTTTGG
220371479 ACCAAACTTCAAT
1 ACCAAACTTCAAT
220371492 ACCAAACTTCAAT
1 ACCAAACTTCAAT
220371505 TCACCTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (13 bp):
ACCAAACTTCAAT
Found at i:220379388 original size:28 final size:28
Alignment explanation
Indices: 220379323--220379421 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
220379313 TCATGAATTG
* * *
220379323 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
220379352 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
220379380 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
220379408 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
220379422 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:220381433 original size:40 final size:40
Alignment explanation
Indices: 220381367--220381517 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
220381357 AAATTGAATG
* * *
220381367 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
220381406 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
220381446 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
220381486 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
220381518 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:220381531 original size:40 final size:40
Alignment explanation
Indices: 220381404--220381533 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
220381394 ATGCTGGAAA
* * *
220381404 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
220381444 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
220381484 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
220381524 TTATATCCGG
1 TTATATCCGG
220381534 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:220389448 original size:40 final size:40
Alignment explanation
Indices: 220389363--220389513 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
220389353 AATTGAATGA
* * * **
220389363 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
220389403 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
220389444 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
220389483 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
220389514 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:220389527 original size:40 final size:40
Alignment explanation
Indices: 220389400--220389529 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
220389390 ATGCTGGAAA
* * *
220389400 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
220389440 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
220389480 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
220389520 TTATATCCGG
1 TTATATCCGG
220389530 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:220404439 original size:29 final size:29
Alignment explanation
Indices: 220404406--220404537 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
220404396 GTGACGAGAT
220404406 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
220404435 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
220404464 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
220404493 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
220404522 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
220404538 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:220412607 original size:29 final size:29
Alignment explanation
Indices: 220412545--220412647 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
220412535 GTGACGAGAT
* * *
220412545 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
220412574 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
220412603 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
220412632 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
220412648 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:220420620 original size:29 final size:29
Alignment explanation
Indices: 220420558--220420660 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
220420548 GTGACGAGAT
* * *
220420558 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
220420587 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
220420616 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
220420645 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
220420661 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:220425130 original size:93 final size:93
Alignment explanation
Indices: 220424962--220425132 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
220424952 GGATGGTTGA
*
220424962 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
*
220425027 TAAGTTCGAGTTCGTGAGATGTAACTAG
66 TAAGTCCGAGTTCGTGAGATGTAACTAG
* * *
220425055 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCAGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCC-GAACTCGTTGAG
*
220425119 TTGAGTCCGAGTTC
65 TTAAGTCCGAGTTC
220425133 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
TAAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:220425135 original size:46 final size:45
Alignment explanation
Indices: 220424966--220425137 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
220424956 GGTTGAGCAT
* *
220424966 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
220425011 TCCGAACTCGTTGAGTTAAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
220425056 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
220425104 CCAGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
220425138 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 55 0.54
47 26 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:220431398 original size:79 final size:80
Alignment explanation
Indices: 220431262--220431445 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 80
220431252 TCGAATGATG
*
220431262 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
220431326 CGTGCGAGTTACTA-A
65 CGTGCGAGTTACTATA
* * * **
220431341 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
*
220431404 TTGTGCGAGTTACTATA
64 TCGTGCGAGTTACTATA
* * *
220431421 ACCGGGCTATGCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
220431446 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 72 0.80
80 17 0.19
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTACTATA
Found at i:220431452 original size:39 final size:40
Alignment explanation
Indices: 220431262--220431445 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
220431252 TCGAATGATG
* * *
220431262 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
220431302 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
220431341 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
220431381 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
220431422 -CCGGGCTATG-CCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
220431446 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
39 52 0.40
40 68 0.53
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:220431452 original size:79 final size:78
Alignment explanation
Indices: 220431315--220431468 Score: 195
Period size: 79 Copynumber: 2.0 Consensus size: 78
220431305 GGACTAAGAT
* * **
220431315 CCGAAGGCATTCGTGCGAGTTACTAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTA
1 CCGAAGGCATTCGTGCGAGTTACTAAACCGGACTAAGACCCGAAGGCATTTGAACGAG-TAGCTA
220431379 AATCCGGGTTAAGTC
65 AATCC-GGTTAAGTC
* * *
220431394 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATG-CCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGACTAAGACCCGAAGGCATTTGAACGAGTAGCTA
*
220431458 TATCCGGTTAA
65 AATCCGGTTAA
220431469 ACTCCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 8 0.12
79 48 0.74
80 9 0.14
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGACTAAGACCCGAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAGTC
Found at i:220438727 original size:39 final size:39
Alignment explanation
Indices: 220438680--220438862 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
220438670 AATGTTCGAG
220438680 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
220438719 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
220438758 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
220438797 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
220438837 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
220438863 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:220441582 original size:27 final size:27
Alignment explanation
Indices: 220441544--220441600 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
220441534 CAACTCGAGG
220441544 TAGGCCACCTAGAAATATGGGCAATGC
1 TAGGCCACCTAGAAATATGGGCAATGC
220441571 TAGGCCACCTAGAAATATGGGCAATGC
1 TAGGCCACCTAGAAATATGGGCAATGC
220441598 TAG
1 TAG
220441601 TGGTTTGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
TAGGCCACCTAGAAATATGGGCAATGC
Found at i:220446734 original size:39 final size:40
Alignment explanation
Indices: 220446687--220446830 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
220446677 AATGTTCGAG
220446687 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
220446726 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* ** *
220446765 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
** * *
220446805 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAGTCCCGAAGGC
220446831 GTTTGAACGA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:220452786 original size:27 final size:28
Alignment explanation
Indices: 220452756--220452825 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
220452746 ATAATAAGTC
*
220452756 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
220452783 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
220452811 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
220452826 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:220460690 original size:27 final size:28
Alignment explanation
Indices: 220460660--220460729 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
220460650 ATAATAAGTC
*
220460660 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
220460687 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
220460715 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
220460730 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:220465593 original size:29 final size:29
Alignment explanation
Indices: 220465561--220465633 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
220465551 CTTCGAGCTC
*
220465561 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
220465590 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
220465619 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
220465634 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:220467604 original size:40 final size:39
Alignment explanation
Indices: 220467436--220467606 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
220467426 AGAAATTGAA
* *
220467436 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
220467476 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
220467516 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
220467556 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
220467596 TGATATCCGGG
1 TGATATCCGGG
220467607 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:220480018 original size:46 final size:46
Alignment explanation
Indices: 220479968--220480140 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
220479958 TGGTTGAGCA
220479968 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
220480014 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
220480059 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
220480107 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
220480141 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:220480124 original size:93 final size:93
Alignment explanation
Indices: 220479965--220480135 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
220479955 GGATGGTTGA
* *
220479965 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
220480030 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
220480058 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
220480123 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
220480136 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:220480402 original size:19 final size:20
Alignment explanation
Indices: 220480365--220480402 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
220480355 ATAAGGTGGT
220480365 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
220480385 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
220480403 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:220487588 original size:46 final size:46
Alignment explanation
Indices: 220487538--220487710 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
220487528 TGGTTGAGCA
220487538 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
220487584 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
220487629 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
220487677 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
220487711 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:220487694 original size:93 final size:93
Alignment explanation
Indices: 220487535--220487705 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
220487525 GGATGGTTGA
* *
220487535 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
220487600 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
220487628 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
220487693 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
220487706 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:220487971 original size:19 final size:20
Alignment explanation
Indices: 220487934--220487971 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
220487924 ATAAGGTGGT
220487934 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
220487954 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
220487972 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:220490265 original size:40 final size:39
Alignment explanation
Indices: 220490220--220490427 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
220490210 TCGGAATACA
*
220490220 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
220490260 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
220490300 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
220490340 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
220490380 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
220490420 CCGGATAT
1 CCGGATAT
220490428 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:220490360 original size:80 final size:81
Alignment explanation
Indices: 220490220--220490425 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
220490210 TCGGAATACA
* * *
220490220 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
220490284 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
220490300 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
220490363 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
220490380 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
220490426 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:220498279 original size:40 final size:39
Alignment explanation
Indices: 220498234--220498441 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
220498224 CGGAATACAA
*
220498234 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
220498274 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
220498314 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
220498354 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
220498394 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
220498434 CCGGATAT
1 CCGGATAT
220498442 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:220498374 original size:80 final size:81
Alignment explanation
Indices: 220498234--220498439 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
220498224 CGGAATACAA
* * *
220498234 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
220498298 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
220498314 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
220498377 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
220498394 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
220498440 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:220501996 original size:20 final size:20
Alignment explanation
Indices: 220501971--220502008 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
220501961 TGGTCCTATT
220501971 TCTCCTGTTAATGGTATATA
1 TCTCCTGTTAATGGTATATA
*
220501991 TCTCCTGTTAATGTTATA
1 TCTCCTGTTAATGGTATA
220502009 CCAAATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (20 bp):
TCTCCTGTTAATGGTATATA
Found at i:220504395 original size:21 final size:21
Alignment explanation
Indices: 220504366--220504405 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
220504356 GTTTTTATAT
*
220504366 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
220504387 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
220504406 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:220510758 original size:44 final size:43
Alignment explanation
Indices: 220510701--220510903 Score: 239
Period size: 43 Copynumber: 4.7 Consensus size: 43
220510691 CTGGGCAAAT
* *
220510701 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTATA
1 TAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTACAGGTATA
* * * *
220510744 TAGTGGCAATTTTTTCTAAAAGCGCCGCTAAAAGTACAAGTCTA
1 TAGCGGC-ATTTTTTATAAAAGCGCCGCTAAAAGTACAGGTATA
* * * *
220510788 TAGCGGCCTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTAC-AGGTATA
* * *
220510831 TAGCGGCATTTTTTAAAAAAGCGCCGCTAAAAGTATAGGTATT
1 TAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTACAGGTATA
* *
220510874 TAGCGGC-GTTTTTATAAAATCGCCGCTAAA
1 TAGCGGCATTTTTTATAAAAGCGCCGCTAAA
220510904 GGTCCTAGTC
Statistics
Matches: 135, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
42 26 0.19
43 67 0.50
44 42 0.31
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
TAGCGGCATTTTTTATAAAAGCGCCGCTAAAAGTACAGGTATA
Found at i:220510843 original size:42 final size:42
Alignment explanation
Indices: 220510701--220510962 Score: 199
Period size: 42 Copynumber: 6.1 Consensus size: 42
220510691 CTGGGCAAAT
* * * *
220510701 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTATA
1 TAGCGGC-ATTTTTATAAAAGCGCCGCTAAAAGTTCAGGTCTA
* * * *
220510744 TAGTGGCAATTTTTTCTAAAAGCGCCGCTAAAAGTACAAGTCTA
1 TAGCGGC-A-TTTTTATAAAAGCGCCGCTAAAAGTTCAGGTCTA
* *
220510788 TAGCGGCCTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGG-CATTTTTATAAAAGCGCCGCTAAAAGTTC-AGGTCTA
* * *
220510831 TAGCGGCATTTTTTAAAAAAGCGCCGCTAAAAGTAT-AGGTATT
1 TAGCGGCA-TTTTTATAAAAGCGCCGCTAAAAGT-TCAGGTCTA
* * * * *
220510874 TAGCGGCGTTTTTATAAAATCGCCGCTAAAGGTCCTA-GTCTT
1 TAGCGGCATTTTTATAAAAGCGCCGCTAAAAGTTC-AGGTCTA
* * * * * * *
220510916 TGGCGGCGTTTTTATAAGACCGCCGCTAAAGGTCCA-GTCTT
1 TAGCGGCATTTTTATAAAAGCGCCGCTAAAAGTTCAGGTCTA
220510957 TAGCGG
1 TAGCGG
220510963 TGTTTTTTTT
Statistics
Matches: 183, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
41 11 0.06
42 65 0.36
43 65 0.36
44 40 0.22
45 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
TAGCGGCATTTTTATAAAAGCGCCGCTAAAAGTTCAGGTCTA
Found at i:220510970 original size:42 final size:42
Alignment explanation
Indices: 220510700--220510970 Score: 231
Period size: 43 Copynumber: 6.4 Consensus size: 42
220510690 ACTGGGCAAA
* * * *
220510700 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTAT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCA-GTCT
* * * * * *
220510743 ATAGTGGCAATTTTTTCTAAAAGCGCCGCTAAAAGTACAAGTCT
1 TTAGCGGC-GTTTTTTATAAAAGCGCCGCTAAAGGT-CCAGTCT
* * * **
220510787 ATAGCGGCCTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTC-CAGTCT
* * * * ** *
220510830 ATAGCGGCATTTTTTAAAAAAGCGCCGCTAAAAGTATAGGTAT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCA-GTCT
*
220510873 TTAGCGGCG-TTTTTATAAAATCGCCGCTAAAGGTCCTAGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCC-AGTCT
* * *
220510915 TTGGCGGCG-TTTTTATAAGACCGCCGCTAAAGGTCCAGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCAGTCT
*
220510956 TTAGCGGTGTTTTTT
1 TTAGCGGCGTTTTTT
220510971 TTTCAAAAAA
Statistics
Matches: 187, Mismatches: 35, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
41 12 0.06
42 65 0.35
43 75 0.40
44 34 0.18
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCAGTCT
Found at i:220510971 original size:85 final size:86
Alignment explanation
Indices: 220510700--220510970 Score: 244
Period size: 87 Copynumber: 3.2 Consensus size: 86
220510690 ACTGGGCAAA
* * * * * * **
220510700 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTAC-AGGTATATAGTGGCAATTTTTTCTAAA
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTA-GTCTATAGCGGC-AGTTTTTAAAAA
* * *
220510764 AGCGCCGCTAAAAGTACAAGTCT
64 ACCGCCGCTAAAAGTACAGGTAT
* * * * * * *
220510787 ATAGCGGCCTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCATTTTTTAAAAAAG
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTAGTCTATAGCGGCAGTTTTTAAAAAAC
*
220510852 CGCCGCTAAAAGTATAGGTAT
66 CGCCGCTAAAAGTACAGGTAT
* * * * *
220510873 TTAGCGGCG-TTTTTATAAAATCGCCGCTAAAGGTCCTAGTCTTTGGCGGC-GTTTTTATAAGAC
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTAGTCTATAGCGGCAGTTTTTAAAAAAC
* * *
220510936 CGCCGCTAAAGGTCCA-GTCT
66 CGCCGCTAAAAGTACAGGTAT
*
220510956 TTAGCGGTGTTTTTT
1 TTAGCGGCGTTTTTT
220510971 TTTCAAAAAA
Statistics
Matches: 150, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
83 11 0.07
84 27 0.18
85 35 0.23
86 37 0.25
87 40 0.27
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (86 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTAGTCTATAGCGGCAGTTTTTAAAAAAC
CGCCGCTAAAAGTACAGGTAT
Found at i:220511895 original size:10 final size:9
Alignment explanation
Indices: 220511871--220511906 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
220511861 GACATAAAAC
220511871 TAATAATT-
1 TAATAATTA
220511879 TAATAATTA
1 TAATAATTA
220511888 TAAATAATTA
1 T-AATAATTA
220511898 TAATAATTA
1 TAATAATTA
220511907 ACTAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.31
9 9 0.35
10 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATAATTA
Found at i:220514126 original size:27 final size:27
Alignment explanation
Indices: 220514096--220514293 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
220514086 TACTGAAATG
**
220514096 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
220514123 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
220514150 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
220514177 CCCCCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
220514204 CCCTTGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
220514231 CCCTCGATTTACAAAATTTCCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
220514258 CCCT-TAGTTTACAAAATTACCATTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
*
220514285 CCCTTGATT
1 CCCTCGATT
220514294 ATGAAATTAC
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 144 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:220514213 original size:81 final size:80
Alignment explanation
Indices: 220514100--220514293 Score: 273
Period size: 81 Copynumber: 2.4 Consensus size: 80
220514090 GAAATGCCCT
* * *
220514100 CGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAA
1 CGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTCACCCTCGATTTACAAA
*
220514165 ATTAT-CGTTTTACCCC
66 ATT-TCCATTTTA-CCC
*
220514181 CGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAA
1 CGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTCACCCTCGATTTACAAA
220514246 ATTTCCATTTTACCC
66 ATTTCCATTTTACCC
** * *
220514261 TTAGTTTACAAAATTACCATTTTACCCTTGATT
1 CGA-TTTATAGAATTACCATTTTACCCTTGATT
220514294 ATGAAATTAC
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
80 5 0.05
81 97 0.95
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (80 bp):
CGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTCACCCTCGATTTACAAA
ATTTCCATTTTACCC
Found at i:220514315 original size:27 final size:27
Alignment explanation
Indices: 220514295--220514451 Score: 167
Period size: 27 Copynumber: 5.8 Consensus size: 27
220514285 CCCTTGATTA
* **
220514295 TGAAATTACTGAAATACCCCT-GTAGG
1 TGAAATTACCGAAATACCCCTAGTTTG
*
220514321 AT-AGAATTACCAAAATACCCCTAGTTTG
1 -TGA-AATTACCGAAATACCCCTAGTTTG
*
220514349 TAAAATTACCGAAATACCCCTAGTTTG
1 TGAAATTACCGAAATACCCCTAGTTTG
* * *
220514376 TAAAATTACCGAAATACCACTGGTTTG
1 TGAAATTACCGAAATACCCCTAGTTTG
*
220514403 TGAAATTACCGAAATA-CCCTCAATTTG
1 TGAAATTACCGAAATACCCCT-AGTTTG
* *
220514430 TAAAATTACCAAAATACCCCTA
1 TGAAATTACCGAAATACCCCTA
220514452 ATTTACAAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.04
27 100 0.89
28 8 0.07
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (27 bp):
TGAAATTACCGAAATACCCCTAGTTTG
Found at i:220514366 original size:54 final size:53
Alignment explanation
Indices: 220514297--220514475 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 53
220514287 CTTGATTATG
* ** *
220514297 AAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCGAAATACCCCTGTTTG-TAAAATTACCAAAATACCCCTAGTTTGTA
* * * *
220514351 AAATTACCGAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTGTG
1 AAATTACCGAAATACCCCT-GTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
** * **
220514405 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACA
1 AAATTACCGAAATACCC-CTGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
**
220514459 AAATTACATAAATACCC
1 AAATTACCGAAATACCC
220514476 TTAACTTTTT
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
54 100 0.96
55 4 0.04
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (53 bp):
AAATTACCGAAATACCCCTGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:220514418 original size:81 final size:81
Alignment explanation
Indices: 220514325--220514474 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 81
220514315 TGTAGGATAG
* * * ** *
220514325 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCGAAATACCCCTAGTTTGTAAAATTACCGAA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAA
220514389 ATACCACTGGTTTGTGA
65 ATACCACTGGTTTGTGA
* *
220514406 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACATAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
220514471 TACC
66 TACC
220514475 CTTAACTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 59 0.98
82 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:220514454 original size:27 final size:27
Alignment explanation
Indices: 220514325--220514475 Score: 180
Period size: 27 Copynumber: 5.6 Consensus size: 27
220514315 TGTAGGATAG
220514325 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
220514352 AATTACCGAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
220514379 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
220514406 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
220514433 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
220514460 AATTA-CATAAATACCC
1 AATTACCA-AAATACCC
220514476 TTAACTTTTT
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
26 5 0.05
27 101 0.92
28 4 0.04
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:220514476 original size:54 final size:55
Alignment explanation
Indices: 220514325--220514476 Score: 200
Period size: 54 Copynumber: 2.8 Consensus size: 55
220514315 TGTAGGATAG
*
220514325 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCTAATTTGTAA
* * * *
220514379 AATTACCGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCTAATTTGTAA
* ** **
220514433 AATTACCAAAATACCCCTAATTTACAAAATTACATAAATACCCT
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCT
220514477 TAACTTTTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 82 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (55 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCTAATTTGTAA
Found at i:220514523 original size:27 final size:27
Alignment explanation
Indices: 220514485--220514541 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
220514475 CTTAACTTTT
*
220514485 TTTAAAAAATTA-TAGGAATACCATTGG
1 TTTAAAAAATTACTA-AAATACCATTGG
*
220514512 TTTAAAAAATTACTAAAATACCCTTGG
1 TTTAAAAAATTACTAAAATACCATTGG
220514539 TTT
1 TTT
220514542 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (27 bp):
TTTAAAAAATTACTAAAATACCATTGG
Found at i:220515452 original size:25 final size:25
Alignment explanation
Indices: 220515414--220515483 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
220515404 AGGAAGTGCT
* *
220515414 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
220515439 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
220515464 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
220515484 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:220515496 original size:24 final size:24
Alignment explanation
Indices: 220515413--220515496 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
220515403 GAGGAAGTGC
* *
220515413 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
220515438 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
220515462 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
220515486 TAAAAGAGGCT
1 TAAAAG-GGCT
220515497 AGGTCTCCAG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.16
25 37 0.74
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:220515754 original size:31 final size:31
Alignment explanation
Indices: 220515703--220515816 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
220515693 CGCTTACAAT
*
220515703 AAAGGCTTCGG-CTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
220515733 AAAGGCTTCGGTCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
220515764 AAACGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
220515795 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
220515817 TCGGGACTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
30 16 0.21
31 61 0.79
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:220519185 original size:40 final size:40
Alignment explanation
Indices: 220519019--220519203 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
220519009 TTCGAATGAT
* * *
220519019 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
* * *
220519059 ATCCGGACTAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
220519099 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
220519139 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
220519180 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
220519204 TGAATGTGTA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 113 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:220531277 original size:114 final size:114
Alignment explanation
Indices: 220531077--220531301 Score: 450
Period size: 114 Copynumber: 2.0 Consensus size: 114
220531067 CTAAATAATG
220531077 CTTACTGATCCTACAGTAGGTTCACAGTCAACTTGGGCTACCCGTGTAACCTTAGCTATCAATTC
1 CTTACTGATCCTACAGTAGGTTCACAGTCAACTTGGGCTACCCGTGTAACCTTAGCTATCAATTC
220531142 AGTGAGAATGGGCTCACACATAATTTAATATAAGCCCACTGAATAAAAA
66 AGTGAGAATGGGCTCACACATAATTTAATATAAGCCCACTGAATAAAAA
220531191 CTTACTGATCCTACAGTAGGTTCACAGTCAACTTGGGCTACCCGTGTAACCTTAGCTATCAATTC
1 CTTACTGATCCTACAGTAGGTTCACAGTCAACTTGGGCTACCCGTGTAACCTTAGCTATCAATTC
220531256 AGTGAGAATGGGCTCACACATAATTTAATATAAGCCCACTGAATAA
66 AGTGAGAATGGGCTCACACATAATTTAATATAAGCCCACTGAATAA
220531302 GAATAAGGCT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (114 bp):
CTTACTGATCCTACAGTAGGTTCACAGTCAACTTGGGCTACCCGTGTAACCTTAGCTATCAATTC
AGTGAGAATGGGCTCACACATAATTTAATATAAGCCCACTGAATAAAAA
Found at i:220534266 original size:20 final size:19
Alignment explanation
Indices: 220534231--220534294 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
220534221 AATTTGTATA
220534231 AATTT-ATTTTTA-TATTT
1 AATTTAATTTTTAGTATTT
220534248 AATTTAATGTTTTAGTA-TT
1 AATTTAAT-TTTTAGTATTT
*
220534267 ATATTTATATTTTTGGTATTT
1 A-ATTTA-ATTTTTAGTATTT
*
220534288 AAATTAA
1 AATTTAA
220534295 GAATATGTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 5 0.13
18 2 0.05
19 9 0.23
20 18 0.46
21 5 0.13
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
AATTTAATTTTTAGTATTT
Found at i:220535109 original size:16 final size:17
Alignment explanation
Indices: 220535083--220535118 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
220535073 CAAAACTTAG
*
220535083 AATATAAAAATAATAAA
1 AATATAAAAATAAAAAA
220535100 AATA-AAAAATAAAAAA
1 AATATAAAAATAAAAAA
220535116 AAT
1 AAT
220535119 CAGATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AATATAAAAATAAAAAA
Found at i:220535254 original size:22 final size:23
Alignment explanation
Indices: 220535229--220535273 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
220535219 CCGGAGCTCC
220535229 CTCTCCCTCTCCCCT-TTCTTTT
1 CTCTCCCTCTCCCCTCTTCTTTT
*
220535251 CTCTCCCTCTCCTCTCTTCTTTT
1 CTCTCCCTCTCCCCTCTTCTTTT
220535274 TTTTCTTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (23 bp):
CTCTCCCTCTCCCCTCTTCTTTT
Found at i:220535285 original size:27 final size:28
Alignment explanation
Indices: 220535225--220535283 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
220535215 CCCACCGGAG
220535225 CTCCCTCTCCCTCTCCCCTTTCTTTTCT
1 CTCCCTCTCCCTCTCCCCTTTCTTTTCT
** *
220535253 CTCCCTCT-CCTCTCTTCTTTTTTTTCT
1 CTCCCTCTCCCTCTCCCCTTTCTTTTCT
220535280 -TCCC
1 CTCCC
220535284 CTTCTCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.14
27 16 0.57
28 8 0.29
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (28 bp):
CTCCCTCTCCCTCTCCCCTTTCTTTTCT
Found at i:220536074 original size:10 final size:10
Alignment explanation
Indices: 220536047--220536085 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
220536037 TATTATTATA
*
220536047 ATATATATAT
1 ATATATATTT
220536057 -TATATATTT
1 ATATATATTT
*
220536066 ATGTATATTT
1 ATATATATTT
220536076 ATATATATTT
1 ATATATATTT
220536086 TTAATGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (10 bp):
ATATATATTT
Found at i:220536105 original size:27 final size:29
Alignment explanation
Indices: 220536047--220536106 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
220536037 TATTATTATA
*
220536047 ATATATATATTATATATTTATGTATATTT
1 ATATATATATTATATATTTATGTATATGT
*
220536076 ATATATAT-TTTTA-ATGTTATGTAT-TGT
1 ATATATATATTATATAT-TTATGTATATGT
220536103 ATAT
1 ATAT
220536107 TTCTTACTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.29
28 12 0.43
29 8 0.29
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
ATATATATATTATATATTTATGTATATGT
Found at i:220536122 original size:23 final size:23
Alignment explanation
Indices: 220536079--220536122 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
220536069 TATATTTATA
*
220536079 TATATTTTTAATGTTATGTATTG
1 TATATTTTTAATGTTACGTATTG
*
220536102 TATATTTCTTACTGTT-CGTAT
1 TATATTT-TTAATGTTACGTAT
220536123 ACTCTTACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.23, C:0.07, G:0.11, T:0.59
Consensus pattern (23 bp):
TATATTTTTAATGTTACGTATTG
Found at i:220536294 original size:2 final size:2
Alignment explanation
Indices: 220536259--220536285 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
220536249 TATCTTTAAC
220536259 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
220536286 GGCATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:220548805 original size:74 final size:73
Alignment explanation
Indices: 220548730--220549110 Score: 380
Period size: 72 Copynumber: 5.0 Consensus size: 73
220548720 GATTTTCAAA
** *
220548730 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-CAGGACACGCTGAGGTGGTTTTAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
** *
220548794 TGTTCATA
66 TGTTTGTC
* * * *
220548802 AAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGT-ATTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTT-AA
220548865 TTTCTGGTTT-TC
62 TTTCT-GTTTGTC
220548877 AATTTCTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
1 -A-----------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
220548942 AATTTCAATTTCTGTTTGTC
54 AATTTTAATTTCTGTTTGTC
* *
220548962 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
220549026 TGTTTGTC
66 TGTTTGTC
* *
220549034 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGT-CTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTT-AA
*
220549097 TTTCTGTTTTTC
62 TTTCTGTTTGTC
220549109 AA
1 AA
220549111 TTTCTGTTCG
Statistics
Matches: 264, Mismatches: 19, Indels: 49
0.80 0.06 0.15
Matches are distributed among these distances:
71 1 0.00
72 81 0.31
73 65 0.25
74 20 0.08
75 28 0.11
76 4 0.02
84 5 0.02
85 21 0.08
86 4 0.02
87 33 0.12
88 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
TGTTTGTC
Done.