Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 53 of 216
Found at i:15484272 original size:25 final size:25
Alignment explanation
Indices: 15484238--15484375 Score: 146
Period size: 25 Copynumber: 5.7 Consensus size: 25
15484228 TATTTTGATA
15484238 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
15484263 TTATTTGATGTAATAAAATAAAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
15484288 TTATTTGATGTAATAAAATA-AA-A
1 TTATTTGATGTAATAAAATAGAAGT
* ** * *
15484311 TAACTTTCGA-GT--T-ATTTTG-ATT
1 TTA-TTT-GATGTAATAAAATAGAAGT
15484333 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
15484358 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
15484376 ACTCTAACCT
Statistics
Matches: 92, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
20 2 0.02
21 8 0.09
22 3 0.03
23 3 0.03
24 10 0.11
25 66 0.72
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:15484412 original size:29 final size:29
Alignment explanation
Indices: 15484379--15485137 Score: 624
Period size: 29 Copynumber: 26.1 Consensus size: 29
15484369 AATAAAAACT
15484379 CTAACCTAATTTAATTAAAAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
*
15484408 CTAACCTAATTTAATTAAAAACCCTAATC
1 CTAACCTAATTTAATTAAAAACCCTAACC
15484437 CTAACCTAATTTAATTAAAAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
* *
15484466 CTAACCTAATTTAACTAAAAACCATAACCC
1 CTAACCTAATTTAATTAAAAACCCTAA-CC
* *
15484496 CTAACCTAAATTAACTAAAAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
*
15484525 TCTAACCTAATTTAATTACAAACCCTAACC
1 -CTAACCTAATTTAATTAAAAACCCTAACC
15484555 CTAACCTAATTTAATTAAAAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
*
15484584 CTAACCTAATTTAATTAAACACCCTAACCC
1 CTAACCTAATTTAATTAAAAACCCTAA-CC
*
15484614 CTAACCTAATTTAATTACAAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
*
15484643 TTAACCTAATTTAATTAAAAACCCT-A--
1 CTAACCTAATTTAATTAAAAACCCTAACC
*
15484669 --AA-CT--CTTAACTTAAAAACCCTAA--
1 CTAACCTAATTTAA-TTAAAAACCCTAACC
15484692 ----CCTAATTTAATTAAAAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
*
15484717 CTAACTTAATTTAATTAAAAACCCTAAACC
1 CTAACCTAATTTAATTAAAAACCCT-AACC
* * * **
15484747 CTTAACTTAGAAACCCTAACATTAACCTAATTTA-ATTAAAAACC
1 C-TAACCT---AA--TTTA-ATTAA---AA---ACCCT---AACC
*
15484791 CTAACCCAATTTAATTAAAAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
15484820 CTAACCTAATTTAATTAAAAACCCTAAACC
1 CTAACCTAATTTAATTAAAAACCCT-AACC
* *
15484850 CT----T-A---ACTTAAAAACCCTAACA
1 CTAACCTAATTTAATTAAAAACCCTAACC
*
15484871 TTAACCTAATTTAATT--AAA----AACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
15484894 CTAACCTAATTTAATTAAAAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
15484923 CTAACCTAATTTAATTAAAAACCCTAAACC
1 CTAACCTAATTTAATTAAAAACCCT-AACC
*
15484953 CTTAA-CT--TTAAATT--AAA----AACC
1 C-TAACCTAATTTAATTAAAAACCCTAACC
*
15484974 CTAACCTGATTTAATTAAAAACCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
15485003 CTAACCTAATTTAATTAAAAACCCTAAACC
1 CTAACCTAATTTAATTAAAAACCCT-AACC
* * **
15485033 CTTAACTTAAAAATCCTAACCTTAACCTAATTTA-ATTAAAAACC
1 C-TAACCT---AAT-TTAA--TTAA---AA---ACCCT---AACC
*
15485077 CTAACCTAATTTAATTAAAAGCCCTAACC
1 CTAACCTAATTTAATTAAAAACCCTAACC
15485106 CTAACCTAATTTAATTAAAAACCCTAAACC
1 CTAACCTAATTTAATTAAAAACCCT-AACC
15485136 CT
1 CT
15485138 TAACTTAAAA
Statistics
Matches: 607, Mismatches: 48, Indels: 149
0.75 0.06 0.19
Matches are distributed among these distances:
20 3 0.00
21 15 0.02
22 25 0.04
23 40 0.07
24 6 0.01
25 8 0.01
26 5 0.01
27 3 0.00
28 7 0.01
29 298 0.49
30 109 0.18
31 15 0.02
32 2 0.00
34 9 0.01
35 3 0.00
36 2 0.00
37 18 0.03
38 2 0.00
39 3 0.00
40 9 0.01
42 2 0.00
43 11 0.02
44 12 0.02
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (29 bp):
CTAACCTAATTTAATTAAAAACCCTAACC
Found at i:15484787 original size:103 final size:102
Alignment explanation
Indices: 15484462--15485034 Score: 577
Period size: 103 Copynumber: 5.3 Consensus size: 102
15484452 TAAAAACCCT
* * * *
15484462 AACCCTAACCTAATTTAACTAAAAACCATAACCCCTAACCTAAATTAACTAAAAACCCT-AACCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCCTAACCTAATTTAATTAAAAACCCTAAACC-
* **
15484526 CTAACCTAATTTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAA
64 CT----T-A---ACTTA-AAACCCTAACATTAACCTAATTTAATT--AAA
* *
15484576 CCCTAACCCTAACCTAATTTAATTAAACACCCTAACCCCTAACCTAATTTAATTACAAACCCT-A
1 ----AACCCTAACCTAATTTAATTAAAAACCCTAA-CCCTAACCTAATTTAATTAAAAACCCTAA
* *
15484640 A-CCTTAACCTAATTTAA--TTAA-A--AACCCTAAACTCTTAACTTAAA
61 ACCCTTAACTTAA---AACCCTAACATTAA-CCT-AA-T-TTAA-TTAAA
*
15484684 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
15484749 TAACTTAGAAACCCTAACATTAACCTAATTTAATTAAA
66 TAACTTA-AAACCCTAACATTAACCTAATTTAATTAAA
*
15484787 AACCCTAACCCAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
15484852 TAACTTAAAAACCCTAACATTAACCTAATTTAATTAAA
66 TAACTT-AAAACCCTAACATTAACCTAATTTAATTAAA
15484890 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
***** ** *
15484955 TAACTTTAAATTAAAAACCCTAACCTGATTTAATTAAAAA
66 TAAC-TTAAAACCCTAACATTAACCTAATTTAATT--AAA
15484995 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 ----AACCCTAACCTAATTTAATTAAAAACCCT-AACCCT
15485035 TAACTTAAAA
Statistics
Matches: 404, Mismatches: 26, Indels: 58
0.83 0.05 0.12
Matches are distributed among these distances:
103 219 0.54
104 39 0.10
105 18 0.04
106 7 0.02
107 6 0.01
108 12 0.03
109 33 0.08
110 10 0.02
111 1 0.00
112 1 0.00
116 2 0.00
117 1 0.00
118 55 0.14
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (102 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
TAACTTAAAACCCTAACATTAACCTAATTTAATTAAA
Found at i:15484920 original size:18 final size:20
Alignment explanation
Indices: 15484874--15484916 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
15484864 CCTAACATTA
15484874 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
15484895 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
15484917 CTAACCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:15484969 original size:183 final size:184
Alignment explanation
Indices: 15484404--15485141 Score: 873
Period size: 183 Copynumber: 3.9 Consensus size: 184
15484394 TAAAAACCCT
*
15484404 AACCCTAACCTAATTTAATTAAAAACCCTAATCCTAACCTAATTTAATTAAAAACCCT-AACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
* * * * *
15484468 AACCTAATTTAACTAAAAACCATAACCCCTAACCTAAATTAACTAAAAACCCTAACCTCTAACCT
66 ----TAA-CT---TAAAAACCCTAA-CCTTAACCTAATTTAA-T-TAAA----AACC-CTAACCT
*
15484533 AATTTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCC-TAACCTAATTTA
115 AATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTTAACCT-ATTTA
15484597 ATTAAACA
179 ATT-AA-A
* *
15484605 CCCTAACCCCTAACCTAATTTAATTACAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAA
1 ----AA-CCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
* *
15484670 ACTCTTAACTTAAAAA--C---CC-TAACCTAATTTAATTAAAAACCCTAACCCTAACTTAATTT
61 ACCCTTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTAA-TT
* * *
15484729 AATTAAA----AACCCTAAACC---CTTAACTTAGAAACCCTAA-CATTAACCTAATTTAATTAA
124 AA--AAACCCTAACCCT-AACCTAATTTAA-TTAAAAACCCTAACCCTTAACCT-ATTTAATTAA
15484786 A
184 A
*
15484787 AACCCTAACCCAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
*
15484852 TAACTTAAAAACCCTAACATTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACC
66 TAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACC
*
15484917 CTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-CT-TTAAATTAAA
131 CTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTTAACCTATTTAATTAAA
*
15484970 AACCCTAACCTGATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
* *
15485035 TAACTTAAAAATCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAGCC
66 TAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACC
15485100 CTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAAC
131 CTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTTAAC
15485142 TTAAAAACCC
Statistics
Matches: 480, Mismatches: 28, Indels: 71
0.83 0.05 0.12
Matches are distributed among these distances:
177 70 0.15
178 2 0.00
179 4 0.01
181 4 0.01
182 15 0.03
183 214 0.45
184 37 0.08
185 18 0.04
186 22 0.05
187 3 0.01
189 3 0.01
190 3 0.01
191 1 0.00
192 12 0.03
193 2 0.00
199 6 0.01
202 1 0.00
203 3 0.01
205 2 0.00
206 53 0.11
207 5 0.01
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (184 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
TAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACC
CTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTTAACCTATTTAATTAAA
Found at i:15485053 original size:21 final size:21
Alignment explanation
Indices: 15485013--15485058 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
15485003 CTAACCTAAT
15485013 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAA-CC
*
15485034 TTAACTTAAAAATCCT-AACC
1 TTAACTTAAAAACCCTAAACC
15485054 TTAAC
1 TTAAC
15485059 CTAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 6 0.26
22 10 0.43
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
TTAACTTAAAAACCCTAAACC
Found at i:15485070 original size:103 final size:104
Alignment explanation
Indices: 15484959--15485166 Score: 373
Period size: 103 Copynumber: 2.0 Consensus size: 104
15484949 AACCCTTAAC
*
15484959 TTTAAATTAAAAACCCTAACCTGATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 TTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
15485024 CCCTAAACCCTTAACTTAAAAATCCTAACCTTAACCTAA
66 CCCTAAACCCTTAACTTAAAAATCCTAACCTTAACCTAA
*
15485063 TTT-AATTAAAAACCCTAACCTAATTTAATTAAAAGCCCTAACCCTAACCTAATTTAATTAAAAA
1 TTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
* *
15485127 CCCTAAACCCTTAACTTAAAAACCCTAACCTTAACGTAA
66 CCCTAAACCCTTAACTTAAAAATCCTAACCTTAACCTAA
15485166 T
1 T
15485167 GTTAGATTTG
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 97 0.97
104 3 0.03
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (104 bp):
TTTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
CCCTAAACCCTTAACTTAAAAATCCTAACCTTAACCTAA
Found at i:15485148 original size:22 final size:20
Alignment explanation
Indices: 15485116--15485161 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
15485106 CTAACCTAAT
15485116 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
15485137 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
15485157 TTAAC
1 TTAAC
15485162 GTAATGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:15485298 original size:116 final size:116
Alignment explanation
Indices: 15485163--15485496 Score: 632
Period size: 116 Copynumber: 2.9 Consensus size: 116
15485153 AACCTTAACG
* * *
15485163 TAATGTTAGATTTGGAAAAATGTGTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
15485228 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
*
15485279 TAATGTTAGATTTGGAAAAATGTTTTGAATGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
15485344 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
15485395 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
15485460 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
15485497 CAATTTATCA
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 213 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:15485513 original size:17 final size:18
Alignment explanation
Indices: 15485472--15485513 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
15485462 TTTACTAACC
* *
15485472 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
15485490 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
15485507 ATTAATA
1 ATTAATA
15485514 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:15488753 original size:122 final size:123
Alignment explanation
Indices: 15488527--15488902 Score: 526
Period size: 126 Copynumber: 3.0 Consensus size: 123
15488517 CCCAAACATG
* *
15488527 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
15488592 TAGAAGCGATTTTATATTATTTCTCAGAAACGTCAAAAA-AATTATTTCTTAC-ATGAC
66 TAGAAGCGATTTTATACTATTTCTCAGAAACGTCAAAAACAATTATTTCTT-CTATGAC
* * * *
15488649 CTACTGTAGCAGAAGCTCG-CTGACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* *
15488713 CTAGAAGCGATTTTATACTATTTGCTCAGAAACTTCAAAAAACTAATTATTTCTTCTGTGAC
65 CTAGAAGCGATTTTATACTATTT-CTCAGAAACGTC-AAAAAC-AATTATTTCTTCTATGAC
15488775 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * * *
15488840 AAGAAGCGATTTTATACTATTTTATCCGAAACGTCAACTCAA-AATTATTTCTTCTAGGAC
66 TAGAAGCGATTTTATACTA-TTTCTCAGAAACGTCAA--AAACAATTATTTCTTCTATGAC
15488900 CTA
1 CTA
15488903 AAAACCCTTA
Statistics
Matches: 224, Mismatches: 20, Indels: 17
0.86 0.08 0.07
Matches are distributed among these distances:
121 1 0.00
122 78 0.35
123 11 0.05
124 5 0.02
125 22 0.10
126 101 0.45
127 6 0.03
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTCTCAGAAACGTCAAAAACAATTATTTCTTCTATGAC
Found at i:15493435 original size:31 final size:30
Alignment explanation
Indices: 15493400--15493459 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15493390 TGGGATGGGA
*
15493400 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGGGAATAAAAATTTTAGGGGAAAAG
* * *
15493431 TGGGATGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGGGAATAAAAATTTTAGGGGAAAA
15493460 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (30 bp):
TGGGAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:15493691 original size:9 final size:9
Alignment explanation
Indices: 15493673--15493718 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
15493663 TATAGTTTGA
15493673 TATTCGAAT
1 TATTCGAAT
*
15493682 TATTCAAAT
1 TATTCGAAT
15493691 TATTCGAAT
1 TATTCGAAT
*
15493700 TATTCGAGT
1 TATTCGAAT
15493709 TATTCGAAT
1 TATTCGAAT
15493718 T
1 T
15493719 CAAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:15515438 original size:24 final size:24
Alignment explanation
Indices: 15515406--15515451 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
15515396 ATGACAGTAA
15515406 AACTTAATGTTTGATTCAAATGTC
1 AACTTAATGTTTGATTCAAATGTC
*
15515430 AACTTAATGTTTGGTTCAAATG
1 AACTTAATGTTTGATTCAAATG
15515452 GTTGGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (24 bp):
AACTTAATGTTTGATTCAAATGTC
Found at i:15520045 original size:76 final size:76
Alignment explanation
Indices: 15519826--15520074 Score: 284
Period size: 76 Copynumber: 3.3 Consensus size: 76
15519816 AACCAAACCT
* * * * *
15519826 AGCCTTTGTGGCGAGTTATCTGAAAGGCCTATGTGGCGTAGTATTTGAAAAACCTTAGTGGCAAA
1 AGCCCTTGTGGCGAATTATCTAAAAGGCCTATGTGGCGTATTATTCGAAAAACCTTAGTGGCAAA
15519891 GTTATCTAGGA
66 GTTATCTAGGA
* * * * * * * * **
15519902 AGCCCTTGTGGTGAATTCTCTAAAAGGCCTATGTTGTGTATTATTCAAAAAACCATATTAGTGAA
1 AGCCCTTGTGGCGAATTATCTAAAAGGCCTATGTGGCGTATTATTCGAAAAACCTTAGTGGCAAA
15519967 GTTATCTAGGA
66 GTTATCTAGGA
* * *
15519978 AGCCCTTGTGGCAAATTATCTAAAAGGCTTATGTGGCATATTATTCGAAAAACCTTAGTGGCAAA
1 AGCCCTTGTGGCGAATTATCTAAAAGGCCTATGTGGCGTATTATTCGAAAAACCTTAGTGGCAAA
*
15520043 GTTAT-TTGAGA
66 GTTATCTAG-GA
** *
15520054 AGATCTTGTGGCGAGTTATCT
1 AGCCCTTGTGGCGAATTATCT
15520075 GGAAAGTCTG
Statistics
Matches: 139, Mismatches: 33, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
75 2 0.01
76 137 0.99
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (76 bp):
AGCCCTTGTGGCGAATTATCTAAAAGGCCTATGTGGCGTATTATTCGAAAAACCTTAGTGGCAAA
GTTATCTAGGA
Found at i:15520047 original size:26 final size:25
Alignment explanation
Indices: 15519981--15520048 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
15519971 TCTAGGAAGC
* *
15519981 CCTT-GTGGCAAATTA-TCTAAAAG
1 CCTTAGTGGCAAATTATTCGAAAAA
* *
15520004 GCTTATGTGGCATATTATTCGAAAAA
1 CCTTA-GTGGCAAATTATTCGAAAAA
15520030 CCTTAGTGGCAAAGTTATT
1 CCTTAGTGGCAAA-TTATT
15520049 TGAGAAGATC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.09
25 17 0.49
26 15 0.43
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (25 bp):
CCTTAGTGGCAAATTATTCGAAAAA
Found at i:15521495 original size:31 final size:31
Alignment explanation
Indices: 15521460--15521526 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
15521450 GAAAACCCTA
** *
15521460 AAGTTAAAGCCTTAATGTGGAAACAATTGTC
1 AAGTTAAAGCCCCAATGTGGAAACAATTGCC
* * *
15521491 AAGTTTAGGCCCCAATGTGGGAACAATTGCC
1 AAGTTAAAGCCCCAATGTGGAAACAATTGCC
15521522 AAGTT
1 AAGTT
15521527 CAAGGCCTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (31 bp):
AAGTTAAAGCCCCAATGTGGAAACAATTGCC
Found at i:15521778 original size:3 final size:3
Alignment explanation
Indices: 15521770--15521794 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15521760 GAGCCTAACA
15521770 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
15521795 GACTCCCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15524996 original size:21 final size:21
Alignment explanation
Indices: 15524975--15525167 Score: 122
Period size: 21 Copynumber: 9.2 Consensus size: 21
15524965 CTTTCCGTTT
* * *
15524975 AGCTCTTACGAGCTTCTATTT
1 AGCTCTTATGAGCTTCTGTTC
* * * *
15524996 AACTCATATGAGTTTCCGTTC
1 AGCTCTTATGAGCTTCTGTTC
* *
15525017 AGGTCTT-TCGAGCTTCTATTC
1 AGCTCTTAT-GAGCTTCTGTTC
* *
15525038 AACTCTTATGAGTTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
15525059 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTC
* * *
15525080 AACTCATATGAG-TTTTCGTTC
1 AGCTCTTATGAGCTTCT-GTTC
* *
15525101 AGCTCTTACGAGCTTCTATTC
1 AGCTCTTATGAGCTTCTGTTC
* * * *
15525122 AACCCTTATGGGTTTCTGATT-
1 AGCTCTTATGAGCTTCTG-TTC
* * *
15525143 ATCTCTCATGAACTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
15525164 AGCT
1 AGCT
15525168 TTCGAGCTTT
Statistics
Matches: 124, Mismatches: 42, Indels: 12
0.70 0.24 0.07
Matches are distributed among these distances:
20 6 0.05
21 112 0.90
22 6 0.05
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:15525013 original size:42 final size:42
Alignment explanation
Indices: 15524966--15525120 Score: 229
Period size: 42 Copynumber: 3.7 Consensus size: 42
15524956 CGTGTTTTAC
*
15524966 TTTCCGTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
* * * *
15525008 TTTCCGTTCAGGTCTTTCGAGCTTCTATTCAACTCTTATGAG
1 TTTCCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
* * *
15525050 TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
*
15525092 TTTTCGTTCAGCTCTTACGAGCTTCTATT
1 TTTCCGTTCAGCTCTTACGAGCTTCTATT
15525121 CAACCCTTAT
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 97 1.00
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
Found at i:15525116 original size:84 final size:83
Alignment explanation
Indices: 15524973--15525162 Score: 272
Period size: 84 Copynumber: 2.3 Consensus size: 83
15524963 TACTTTCCGT
* * * *
15524973 TTAGCTCTTACGAGCTTCTATTTAACTCATATGAGTTTCCGTTCAGGTCTTTCGAGCTTCTATTC
1 TTAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTACGAGCTTCTATTC
*
15525038 AACTCTTATGAGTTTCTG
66 AACCCTTATGAGTTTCTG
*
15525056 TTCAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCTCTTACGAGCTTCTATT
1 TT-AGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTACGAGCTTCTATT
*
15525121 CAACCCTTATGGGTTTCTG
65 CAACCCTTATGAGTTTCTG
* * *
15525140 ATTATCTCTCATGAACTTCTGTT
1 -TTAGCTCTTATGAGCTTCTGTT
15525163 CAGCTTTCGA
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
83 2 0.02
84 91 0.96
85 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (83 bp):
TTAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTACGAGCTTCTATTC
AACCCTTATGAGTTTCTG
Found at i:15528756 original size:20 final size:20
Alignment explanation
Indices: 15528714--15528763 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
15528704 TACATATTAT
* * *
15528714 CACTGTTAATGATTTGACTC
1 CACTGTTCATGATTTAACCC
15528734 CACTGTTCATGATTTAACCC
1 CACTGTTCATGATTTAACCC
*
15528754 CACTATTCAT
1 CACTGTTCAT
15528764 AGGGCTGACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (20 bp):
CACTGTTCATGATTTAACCC
Found at i:15532108 original size:70 final size:68
Alignment explanation
Indices: 15532007--15532488 Score: 368
Period size: 70 Copynumber: 7.0 Consensus size: 68
15531997 TAAACTTGAG
* * * * * *
15532007 AGCCTTAGGATCACAGCTAGCAG-CTTGAGCTCTCGCTAATTGATTTAGAGGTTGCGATATTAAA
1 AGCCTTAAGATCACAACTGGGAGCCTT-AGCTCTCGCTAACT-ATTTAGAGGTTGCG-TATTGAA
15532071 CCTGCA
63 CCTGCA
* * * *
15532077 AGCCTTAAGATCACAACTGGGAGCCTTAGCTCTCTCTCCAACTCTTTTTAGGGGCTGCGATATTG
1 AGCCTTAAGATCACAACTGGGAGCCTTAGCTCTCGCT--AA--CTATTTAGAGGTTGCG-TATTG
*
15532142 AACCTACA
61 AACCTGCA
* * * **
15532150 AGTCTTAAGGTCACAATTGGGAGCCTTAGCTCTTTCTAACTATTTAGAGGTTGCGGTATTGAACC
1 AGCCTTAAGATCACAACTGGGAGCCTTAGCTCTCGCTAACTATTTAGAGGTTGC-GTATTGAACC
*
15532215 TGCG
65 TGCA
* * * * *
15532219 AGCCCTAAGATCATATCTAGGAGCCTTAGCTCTCGCTAACTATTTTAGA-GTCTGTTGTATTGAA
1 AGCCTTAAGATCACAACTGGGAGCCTTAGCTCTCGCTAACTA-TTTAGAGGT-TG-CGTATTGAA
15532283 CCTGCA
63 CCTGCA
* * * ** * * * *
15532289 AGCCCTACGATCACAGCTTAGAGACTTAGCTCTCACTAACTATTTAGA----G-GTACTGAACTT
1 AGCCTTAAGATCACAACTGGGAGCCTTAGCTCTCGCTAACTATTTAGAGGTTGCGTATTGAACCT
**
15532349 GTG
66 GCA
* * * * * *
15532352 AGCCCTAAGATCATAACGGGGAGCTTTAACTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAAC
1 AGCCTTAAGATCACAACTGGGAGCCTTAGCTCTCGCTAACTA-TTTAGAGGTTGC-GTATTGAAC
*
15532417 CTGCG
64 CTGCA
* **
15532422 AGCCTTAAGATCATAGTTGGGAGCCTTAGCTCTCGCTAACTATTTTAGAGGTTATG-GTATTGAA
1 AGCCTTAAGATCACAACTGGGAGCCTTAGCTCTCGCTAACTA-TTTAGAGG-T-TGCGTATTGAA
15532486 CCT
63 CCT
15532489 ACGAACCTTA
Statistics
Matches: 332, Mismatches: 62, Indels: 36
0.77 0.14 0.08
Matches are distributed among these distances:
63 42 0.13
64 6 0.02
65 1 0.00
68 1 0.00
69 64 0.19
70 152 0.46
71 5 0.02
72 4 0.01
73 56 0.17
74 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (68 bp):
AGCCTTAAGATCACAACTGGGAGCCTTAGCTCTCGCTAACTATTTAGAGGTTGCGTATTGAACCT
GCA
Found at i:15532400 original size:133 final size:134
Alignment explanation
Indices: 15532069--15532473 Score: 368
Period size: 133 Copynumber: 3.0 Consensus size: 134
15532059 TGCGATATTA
* * * * * * *
15532069 AACCTGCAAGCCTTAAGATCACAACTG-GGAGCCTTAGCTCTCTCTCCAACTCTTTTTAGGGGCT
1 AACCTGCGAGCCCTAAGATCATAAC-GAGGAGCCTTAACTCTCGCT--AACT-ATTTTAGAGGCT
* * * * * * * * **
15532133 GCGATATTGAACCTACAAGTCTTAAGGTCACAATTGGGAGCCTTAGCTCTTTCTAACTA-TTTAG
62 GCGGTATTGAACCTGCAAGCCCTAAGATCACAGTTGAGAGACTTAGCTCTCACTAACTATTTTAG
*
15532197 AGGTTGCGGTATTG
127 A------GGTACTG
* * * * **
15532211 AACCTGCGAGCCCTAAGATCATATCTAGGAGCCTTAGCTCTCGCTAACTATTTTAGAGTCTGTTG
1 AACCTGCGAGCCCTAAGATCATAACGAGGAGCCTTAACTCTCGCTAACTATTTTAGAGGCTGCGG
*
15532276 TATTGAACCTGCAAGCCCTACGATCACAGCTT-AGAGACTTAGCTCTCACTAACTA-TTTAGAGG
66 TATTGAACCTGCAAGCCCTAAGATCACAG-TTGAGAGACTTAGCTCTCACTAACTATTTTAGAGG
15532339 TACTG
130 TACTG
* * * *
15532344 AACTTGTGAGCCCTAAGATCATAACGGGGAGCTTTAACTCTCGCTAACTATTTTAGAGGCTGCGG
1 AACCTGCGAGCCCTAAGATCATAACGAGGAGCCTTAACTCTCGCTAACTATTTTAGAGGCTGCGG
* * * * * *
15532409 TATTGAACCTGCGAGCCTTAAGATCATAGTTGGGAGCCTTAGCTCTCGCTAACTATTTTAGAGGT
66 TATTGAACCTGCAAGCCCTAAGATCACAGTTGAGAGACTTAGCTCTCACTAACTATTTTAGAGGT
15532474 TATGGTATTG
Statistics
Matches: 219, Mismatches: 40, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
132 2 0.01
133 106 0.48
134 9 0.04
139 58 0.26
140 6 0.03
142 38 0.17
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (134 bp):
AACCTGCGAGCCCTAAGATCATAACGAGGAGCCTTAACTCTCGCTAACTATTTTAGAGGCTGCGG
TATTGAACCTGCAAGCCCTAAGATCACAGTTGAGAGACTTAGCTCTCACTAACTATTTTAGAGGT
ACTG
Found at i:15532604 original size:121 final size:119
Alignment explanation
Indices: 15532381--15532619 Score: 282
Period size: 121 Copynumber: 2.0 Consensus size: 119
15532371 GGAGCTTTAA
* * ** * *
15532381 CTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATCATAGTTGGGAGC
1 CTCTCGCTAACTATTTTAGAGGCTGCGGTATTAAACCTGCGAGCCTTAAGATCACAACTAGGAAC
* * * *
15532446 CTTAGCTCTCGCTAACTATTTTAGAGGTTATGGTATTGAACCTACGAACCTTAG
66 CTTAGCTCCCACTAACTATTTTAGAGGCTATGATATTGAACCTACGAACCTTAG
* *
15532500 CTCTCTCTAACTATTTTTTA-AGGGCTGCTGTATTAAACCTGCGAGCCTTAAGATCACAACTAGG
1 CTCTCGCTAACTA--TTTTAGA-GGCTGCGGTATTAAACCTGCGAGCCTTAAGATCACAACTAGG
* * * * * *
15532564 AACCTTAGCTCCCACTAATTGTTTTAGAGGCTGTTATATTGAATCTATGAACCTTA
63 AACCTTAGCTCCCACTAACTATTTTAGAGGCTATGATATTGAACCTACGAACCTTA
15532620 AGATCTTAGT
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
119 12 0.12
120 1 0.01
121 86 0.87
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (119 bp):
CTCTCGCTAACTATTTTAGAGGCTGCGGTATTAAACCTGCGAGCCTTAAGATCACAACTAGGAAC
CTTAGCTCCCACTAACTATTTTAGAGGCTATGATATTGAACCTACGAACCTTAG
Found at i:15532692 original size:70 final size:70
Alignment explanation
Indices: 15532494--15532799 Score: 201
Period size: 70 Copynumber: 4.3 Consensus size: 70
15532484 AACCTACGAA
* * * * *
15532494 CCTTAGCTCTCTCTAACTATTTTTTAAGGGCT-GCTGTATTAAACCTGCGAGCCTTAAGATCACA
1 CCTTAGCTCTCTCTAACTA-TTTTTGA-GGCTAG-AGTATTAAACCTGCAAGCCCTAAGATCATA
* * *
15532558 ACTAGGAA
63 GCTGGGAG
* * * * * * * * *
15532566 CCTTAGCTCCCACTAATTGTTTTAGAGGCT-GTTA-TATTGAATCTATG-AA-CCTTAAGATCTT
1 CCTTAGCTCTCTCTAACTATTTTTGAGGCTAG--AGTATT-AAAC-CTGCAAGCCCTAAGATCAT
*
15532627 AGTTGGGAG
62 AGCTGGGAG
** * * * ** * * *
15532636 CCTTAGCTCTCTCTATGTATTTTTGGGGCTACG-GTATTGAACTTGTGAGCCCTAAGATAACAAC
1 CCTTAGCTCTCTCTAACTATTTTTGAGGCTA-GAGTATTAAACCTGCAAGCCCTAAGATCATAGC
15532700 TGGGAG
65 TGGGAG
* * * *
15532706 CCTTAGCTCTCACTAACTGTTTTAGAGGCTAGAGTATTAAACCTGCAAGCCTTAAGATCATAGCT
1 CCTTAGCTCTCTCTAACTATTTTTGAGGCTAGAGTATTAAACCTGCAAGCCCTAAGATCATAGCT
*
15532771 AGGAG
66 GGGAG
15532776 CCTTAGCTCTCTCTAACTATTTTT
1 CCTTAGCTCTCTCTAACTATTTTT
15532800 TAAGGGAGGA
Statistics
Matches: 173, Mismatches: 52, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
68 2 0.01
69 4 0.02
70 140 0.81
71 9 0.05
72 18 0.10
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (70 bp):
CCTTAGCTCTCTCTAACTATTTTTGAGGCTAGAGTATTAAACCTGCAAGCCCTAAGATCATAGCT
GGGAG
Found at i:15532693 original size:140 final size:141
Alignment explanation
Indices: 15532494--15532805 Score: 364
Period size: 140 Copynumber: 2.2 Consensus size: 141
15532484 AACCTACGAA
* * * *
15532494 CCTTAGCTCTCTCTAACTATTTTTTAAGGGCTGCTGTATTAAACCTGCGAGCCTTAAGATCACAA
1 CCTTAGCTCTCTCTAACTA-TTTTTAAGGGCTACGGTATTAAACCTGCGAGCCCTAAGATAACAA
* *
15532559 CTAGGAACCTTAGCTCCCACTAATTGTTTTAGAGGCT-GTTA-TATTGAATCTATG-AA-CCTTA
65 CTAGGAACCTTAGCTCCCACTAACTGTTTTAGAGGCTAG--AGTATT-AAAC-ATGCAAGCCTTA
* * *
15532620 AGATCTTAGTTGGGAG
126 AGATCATAGCTAGGAG
** * * * *
15532636 CCTTAGCTCTCTCTATGTATTTTT-GGGGCTACGGTATTGAACTTGTGAGCCCTAAGATAACAAC
1 CCTTAGCTCTCTCTAACTATTTTTAAGGGCTACGGTATTAAACCTGCGAGCCCTAAGATAACAAC
* * * *
15532700 TGGGAGCCTTAGCTCTCACTAACTGTTTTAGAGGCTAGAGTATTAAACCTGCAAGCCTTAAGATC
66 TAGGAACCTTAGCTCCCACTAACTGTTTTAGAGGCTAGAGTATTAAACATGCAAGCCTTAAGATC
15532765 ATAGCTAGGAG
131 ATAGCTAGGAG
15532776 CCTTAGCTCTCTCTAACTATTTTTTAAGGG
1 CCTTAGCTCTCTCTAACTA-TTTTTAAGGG
15532806 AGGATCATAT
Statistics
Matches: 142, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
138 2 0.01
139 6 0.04
140 103 0.73
141 11 0.08
142 20 0.14
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (141 bp):
CCTTAGCTCTCTCTAACTATTTTTAAGGGCTACGGTATTAAACCTGCGAGCCCTAAGATAACAAC
TAGGAACCTTAGCTCCCACTAACTGTTTTAGAGGCTAGAGTATTAAACATGCAAGCCTTAAGATC
ATAGCTAGGAG
Found at i:15537242 original size:13 final size:12
Alignment explanation
Indices: 15537218--15537247 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
15537208 GAAAAGAACA
15537218 AAATATATATAT
1 AAATATATATAT
15537230 AAATATAATATAT
1 AAATAT-ATATAT
15537243 AAATA
1 AAATA
15537248 AACTATGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATATATATAT
Found at i:15537351 original size:18 final size:18
Alignment explanation
Indices: 15537325--15537364 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15537315 AAAATGGAAA
* *
15537325 AAAATGTATATGTATTAT
1 AAAACGTATATATATTAT
*
15537343 AAAACGTATATATGTTAT
1 AAAACGTATATATATTAT
15537361 AAAA
1 AAAA
15537365 TAATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.38
Consensus pattern (18 bp):
AAAACGTATATATATTAT
Found at i:15541924 original size:24 final size:24
Alignment explanation
Indices: 15541896--15541961 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
15541886 GAGTTTCTTT
* *
15541896 TATTATTATTTTAAGTTTTA-TATG
1 TATTATTATTTGAA-ATTTACTATG
15541920 TATTATTATTTGAAATTTACTATG
1 TATTATTATTTGAAATTTACTATG
*
15541944 TATTACTATTT-AAATTTA
1 TATTATTATTTGAAATTTA
15541962 ACATAGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.29
24 27 0.71
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (24 bp):
TATTATTATTTGAAATTTACTATG
Found at i:15545613 original size:40 final size:40
Alignment explanation
Indices: 15545558--15545638 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
15545548 TTCATAGGAC
*
15545558 TGACACTCTGAGCAGGCCTCGAGCATGTTGGACACGTGTA
1 TGACACTCTGAGCAGGCCTCGAGCATATTGGACACGTGTA
*
15545598 TGACACTCTGAGCAGGCCTCGAGCATATTGGACATGTGTA
1 TGACACTCTGAGCAGGCCTCGAGCATATTGGACACGTGTA
15545638 T
1 T
15545639 CGTTTCAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TGACACTCTGAGCAGGCCTCGAGCATATTGGACACGTGTA
Found at i:15556271 original size:14 final size:15
Alignment explanation
Indices: 15556252--15556286 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
15556242 ATTTGTATGT
15556252 TTTTGATA-ATCCGA
1 TTTTGATATATCCGA
15556266 TTTTGATATTATCCGA
1 TTTTGATA-TATCCGA
15556282 TTTTG
1 TTTTG
15556287 TAAAGGACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
16 11 0.58
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.51
Consensus pattern (15 bp):
TTTTGATATATCCGA
Found at i:15558105 original size:45 final size:45
Alignment explanation
Indices: 15558056--15558173 Score: 191
Period size: 45 Copynumber: 2.6 Consensus size: 45
15558046 CGGCAATGTG
* *
15558056 TAAGACCATAATTGAAAGATATTATGGCTTTAGATCTAATACAAA
1 TAAGACCATAGTTGAAAGATATTATGGCTTTAAATCTAATACAAA
* *
15558101 TAAGACCTTAGTTGAAAGATATTATGGCTTTAAATCTAATACGAA
1 TAAGACCATAGTTGAAAGATATTATGGCTTTAAATCTAATACAAA
*
15558146 TAAGACTATAGTTGAAAGATATTATGGC
1 TAAGACCATAGTTGAAAGATATTATGGC
15558174 ATTACTTCGG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGATATTATGGCTTTAAATCTAATACAAA
Found at i:15558199 original size:45 final size:43
Alignment explanation
Indices: 15558018--15558177 Score: 142
Period size: 45 Copynumber: 3.6 Consensus size: 43
15558008 TAAAAATACC
* * * ** *
15558018 ATAGTTGAAAGATACTATGGCACTAAATCGGCAATGTGTAAGACC
1 ATAGTTGAAAGATATTATGGCATTAAATC--TAATGCATAAGACT
* * * *
15558063 ATAATTGAAAGATATTATGGCTTTAGATCTAATACAAATAAGACCT
1 ATAGTTGAAAGATATTATGGCATTAAATCTAATGC--ATAAGA-CT
* *
15558109 -TAGTTGAAAGATATTATGGCTTTAAATCTAATACGAATAAGACT
1 ATAGTTGAAAGATATTATGGCATTAAATCTAAT--GCATAAGACT
15558153 ATAGTTGAAAGATATTATGGCATTA
1 ATAGTTGAAAGATATTATGGCATTA
15558178 CTTCGGGAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
43 3 0.03
44 2 0.02
45 88 0.94
46 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (43 bp):
ATAGTTGAAAGATATTATGGCATTAAATCTAATGCATAAGACT
Found at i:15570061 original size:58 final size:58
Alignment explanation
Indices: 15569963--15570079 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 58
15569953 CAAATCAACC
** *
15569963 TAATCAACCATTTATTCAGATTTATTATATCATGTCATCAATCAATGAAAATGTGGCA
1 TAATCAACCATTTATTCAGATTTATTATATCACATAATCAATCAATGAAAATGTGGCA
*
15570021 TAATCAACCATTTGTTCAGATTTATTATATCACATAATCAATCAATGAAAATGTGGCA
1 TAATCAACCATTTATTCAGATTTATTATATCACATAATCAATCAATGAAAATGTGGCA
15570079 T
1 T
15570080 TATTAACGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (58 bp):
TAATCAACCATTTATTCAGATTTATTATATCACATAATCAATCAATGAAAATGTGGCA
Found at i:15571998 original size:69 final size:69
Alignment explanation
Indices: 15571887--15572017 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 69
15571877 ATAGTACCTC
* * * *
15571887 CATTTCTTTGAGCCCCTCGCCGCTTTTCTGGAAACCCTGGAGGAGCTTTAACTTCACTCTCCCGT
1 CATTTCTTTCAGCCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCCCGT
15571952 CCAT
66 CCAT
* *
15571956 CATTTCTTTCA-CTCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGGTTCAACTTCAGTCTCC
1 CATTTCTTTCAGC-CCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCC
15572018 TGACCACCGG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 54 0.98
ACGTcount: A:0.17, C:0.35, G:0.18, T:0.31
Consensus pattern (69 bp):
CATTTCTTTCAGCCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCCCGT
CCAT
Found at i:15573067 original size:21 final size:19
Alignment explanation
Indices: 15573043--15573085 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
15573033 CTATATATTT
*
15573043 TATAGATGTGTTATAAAGTAA
1 TATAGATGTATT-TAAA-TAA
*
15573064 TATATATGTATTTAAATAA
1 TATAGATGTATTTAAATAA
15573083 TAT
1 TAT
15573086 TAAAATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (19 bp):
TATAGATGTATTTAAATAA
Found at i:15573920 original size:29 final size:30
Alignment explanation
Indices: 15573864--15573920 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
15573854 AGAGGGAAAA
*
15573864 AGAACAAATAAAAAAAGGACAAAAAAATTT
1 AGAACAAATAAAAAAAAGACAAAAAAATTT
*
15573894 AGAA-AAATAAAAAATAAGA-AAATAAAT
1 AGAACAAATAAAAAA-AAGACAAAAAAAT
15573921 AAATGTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.14
Consensus pattern (30 bp):
AGAACAAATAAAAAAAAGACAAAAAAATTT
Found at i:15582808 original size:11 final size:11
Alignment explanation
Indices: 15582781--15582818 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15582771 TTTTTAATAA
15582781 TTATTTTA-TT
1 TTATTTTATTT
*
15582791 TTATTTTGTTT
1 TTATTTTATTT
*
15582802 TTTTTTTATTT
1 TTATTTTATTT
15582813 TTATTT
1 TTATTT
15582819 AGTTTAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 7 0.30
11 16 0.70
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:15585930 original size:6 final size:6
Alignment explanation
Indices: 15585916--15585954 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
15585906 GAGATTTACA
15585916 CATACAT CATAAT CATAAT CATAAT CATAAT CATAAT CA
1 CATA-AT CATAAT CATAAT CATAAT CATAAT CATAAT CA
15585955 CATCAATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (6 bp):
CATAAT
Found at i:15587191 original size:12 final size:12
Alignment explanation
Indices: 15587176--15587209 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15587166 TATTTTCATT
15587176 ATTATTATTACA
1 ATTATTATTACA
**
15587188 ATTATTATTAGT
1 ATTATTATTACA
15587200 ATTATTATTA
1 ATTATTATTA
15587210 TATATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (12 bp):
ATTATTATTACA
Found at i:15600656 original size:18 final size:17
Alignment explanation
Indices: 15600620--15600667 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
15600610 ATTATTTTTC
*
15600620 TTATTTATTTCTTTTTCA
1 TTATTTATTT-TTTCTCA
15600638 TTATTTATTTTTATCTCA
1 TTATTTATTTTT-TCTCA
*
15600656 TCAATTTATTTT
1 T-TATTTATTTT
15600668 ATGGTTCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 2 0.08
18 15 0.58
19 9 0.35
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTATTTTTTCTCA
Found at i:15611722 original size:29 final size:31
Alignment explanation
Indices: 15611686--15611743 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
15611676 AACAGTATGT
15611686 AATATCATTAATCAATGCAG-TA-GCAGTAC
1 AATATCATTAATCAATGCAGATATGCAGTAC
*
15611715 AATATCATTAATCAGTGCAGATATGCAGT
1 AATATCATTAATCAATGCAGATATGCAGT
15611744 TAGAAATCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 19 0.73
30 2 0.08
31 5 0.19
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (31 bp):
AATATCATTAATCAATGCAGATATGCAGTAC
Found at i:15612147 original size:27 final size:27
Alignment explanation
Indices: 15612095--15612150 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
15612085 ACATAAGGCC
* *
15612095 ATAACAGTCATTTCATCTTCTAGGGGT
1 ATAACAGTCATTTCATCCTATAGGGGT
* *
15612122 ATAACAGTCATTTTATCCTATGGGGGT
1 ATAACAGTCATTTCATCCTATAGGGGT
15612149 AT
1 AT
15612151 TTTGGTTATT
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:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (27 bp):
ATAACAGTCATTTCATCCTATAGGGGT
Found at i:15612161 original size:27 final size:27
Alignment explanation
Indices: 15612131--15612301 Score: 207
Period size: 27 Copynumber: 6.3 Consensus size: 27
15612121 TATAACAGTC
*
15612131 ATTTTATCCTATGGGGGTATTTTGGTT
1 ATTTTACCCTATGGGGGTATTTTGGTT
15612158 ATTTTACCCTATGAGGGGTATTTTGGTT
1 ATTTTACCCTATG-GGGGTATTTTGGTT
* * ** *
15612186 ACTCTACCCTATCAGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTT
* *
15612213 ATTTTACCCTATGGGGGTATTTCGATT
1 ATTTTACCCTATGGGGGTATTTTGGTT
* *
15612240 ATTTTACCCTATGGAGGTATTTTGATT
1 ATTTTACCCTATGGGGGTATTTTGGTT
* * * *
15612267 ATTTTACACTATAGGGGTATTTTAGTC
1 ATTTTACCCTATGGGGGTATTTTGGTT
15612294 ATTTTACC
1 ATTTTACC
15612302 TATTTTGGGG
Statistics
Matches: 121, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
27 97 0.80
28 24 0.20
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTTGGTT
Found at i:15612312 original size:82 final size:82
Alignment explanation
Indices: 15612127--15612301 Score: 246
Period size: 81 Copynumber: 2.1 Consensus size: 82
15612117 GGGGTATAAC
* * * * *
15612127 AGTCATTTTATCCTATGGGGGTATTTTGGTTATTTTACCCTATGAGGGGTATTTTGGTTACTCTA
1 AGTCATTTTACCCTATGGGGGTATTTCGATTATTTTACCCTATGAGAGGTATTTTGATTACTCTA
*
15612192 CCCTATCAGGGTATTTT
66 CACTATCAGGGTATTTT
* * *
15612209 GGTCATTTTACCCTATGGGGGTATTTCGATTATTTTACCCTATG-GAGGTATTTTGATTATTTTA
1 AGTCATTTTACCCTATGGGGGTATTTCGATTATTTTACCCTATGAGAGGTATTTTGATTACTCTA
15612273 CACTAT-AGGGGTATTTT
66 CACTATCA-GGGTATTTT
15612290 AGTCATTTTACC
1 AGTCATTTTACC
15612302 TATTTTGGGG
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 41 0.50
82 40 0.49
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.45
Consensus pattern (82 bp):
AGTCATTTTACCCTATGGGGGTATTTCGATTATTTTACCCTATGAGAGGTATTTTGATTACTCTA
CACTATCAGGGTATTTT
Found at i:15614423 original size:33 final size:33
Alignment explanation
Indices: 15614381--15614462 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
15614371 GGCCTACATG
* *
15614381 CCCGTGTGGCCTCACCCACCCAAATTCACCTTA
1 CCCGTGTGGCCCCACACACCCAAATTCACCTTA
* * *
15614414 CCCGTGTGGCCCCACACGCCCAAATTGACCTTG
1 CCCGTGTGGCCCCACACACCCAAATTCACCTTA
* *
15614447 CTCGTGT-GACCCACAC
1 CCCGTGTGGCCCCACAC
15614463 GGCCTTGCCC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 8 0.19
33 34 0.81
ACGTcount: A:0.20, C:0.44, G:0.17, T:0.20
Consensus pattern (33 bp):
CCCGTGTGGCCCCACACACCCAAATTCACCTTA
Found at i:15619157 original size:29 final size:29
Alignment explanation
Indices: 15619124--15619179 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
15619114 TCGTCGCGAA
*
15619124 GCAAAGAAACTACACCCTTTAGTTTCTAC
1 GCAAAGAAACTACACCCTTCAGTTTCTAC
15619153 GCAAAGAAACTACACCCTTCAGTTTCT
1 GCAAAGAAACTACACCCTTCAGTTTCT
15619180 GCTTAGGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.27
Consensus pattern (29 bp):
GCAAAGAAACTACACCCTTCAGTTTCTAC
Found at i:15623447 original size:57 final size:57
Alignment explanation
Indices: 15623372--15623553 Score: 238
Period size: 57 Copynumber: 3.1 Consensus size: 57
15623362 CATTTTCAGA
* *
15623372 TCATTTTCATTTTTGAGAAAACTACATTCATTTCCAAATGTTTTCATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGTTTTCATTTCTCCATTT
* *
15623429 TCATTTTCATTTTGGAGAAAACCAAATTCATTTCCAAATATTTTCATTTCTCTATTTTCATTT
1 TCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGTTTTCATTTCTC------CATTT
* *
15623492 TCATTTTCATTTTGGAGAAAACCACAGTTCATTTCCAAATGTTTCCCATTTCTTCATTT
1 TCATTTTCATTTTGGAGAAAACCACA-TTCATTTCCAAATGTTT-TCATTTCTCCATTT
15623551 TCA
1 TCA
15623554 CTATTTCTAT
Statistics
Matches: 109, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
57 48 0.44
59 8 0.07
63 30 0.28
64 16 0.15
65 7 0.06
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (57 bp):
TCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGTTTTCATTTCTCCATTT
Found at i:15623491 original size:6 final size:6
Alignment explanation
Indices: 15623468--15623504 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
15623458 ATTTCCAAAT
15623468 ATTTTC ATTTCTC TATTTTC ATTTTC ATTTTC ATTTT
1 ATTTTC ATTT-TC -ATTTTC ATTTTC ATTTTC ATTTT
15623505 GGAGAAAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 21 0.72
7 4 0.14
8 4 0.14
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTC
Found at i:15623491 original size:63 final size:65
Alignment explanation
Indices: 15623414--15623553 Score: 205
Period size: 63 Copynumber: 2.2 Consensus size: 65
15623404 TCCAAATGTT
*
15623414 TTCATTTCTCCATTTTCATTTTCATTTTGGAGAAAACCA-AATTCATTTCCAAATATTT-TCATT
1 TTCATTT-T-CATTTTCATTTTCATTTTGGAGAAAACCACAATTCATTTCCAAATATTTCCCATT
15623477 TC
64 TC
* *
15623479 -TCTATTTTCATTTTCATTTTCATTTTGGAGAAAACCACAGTTCATTTCCAAATGTTTCCCATTT
1 TTC-ATTTTCATTTTCATTTTCATTTTGGAGAAAACCACAATTCATTTCCAAATATTTCCCATTT
15623543 C
65 C
15623544 TTCATTTTCA
1 TTCATTTTCA
15623554 CTATTTCTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
63 29 0.43
64 20 0.29
65 17 0.25
66 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.48
Consensus pattern (65 bp):
TTCATTTTCATTTTCATTTTCATTTTGGAGAAAACCACAATTCATTTCCAAATATTTCCCATTTC
Found at i:15624680 original size:37 final size:37
Alignment explanation
Indices: 15624635--15624766 Score: 142
Period size: 37 Copynumber: 3.6 Consensus size: 37
15624625 CTTAGTGTCG
* *
15624635 TGGCGTGTTATTGGTTGGATTAGATCTTATGAGAGTT
1 TGGCGTGTTATCGGTTGGATTAGATCTTATAAGAGTT
* * *
15624672 TGGTGTGTTATCGGTTGGATTAGCTCTTATAAGTGTT
1 TGGCGTGTTATCGGTTGGATTAGATCTTATAAGAGTT
* * * * *
15624709 TGGCATGTTATCGGGTGGATTA-ACTATTATAAGCGAT
1 TGGCGTGTTATCGGTTGGATTAGA-TCTTATAAGAGTT
*
15624746 TGGCATGTT-TCGGTTGGATTA
1 TGGCGTGTTATCGGTTGGATTA
15624767 CTTGTGTACT
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
36 11 0.14
37 70 0.86
ACGTcount: A:0.20, C:0.08, G:0.30, T:0.42
Consensus pattern (37 bp):
TGGCGTGTTATCGGTTGGATTAGATCTTATAAGAGTT
Found at i:15629119 original size:27 final size:27
Alignment explanation
Indices: 15629037--15629121 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
15629027 AAATCAGTTA
* **
15629037 TTTACCCTCGAGGGGCAAAACAGTC-T
1 TTTACCCTCTAGGGGCATTACAGTCTT
*
15629063 TTTACCCTCTAGGGGCATTACGGT-TAT
1 TTTACCCTCTAGGGGCATTACAGTCT-T
* *
15629090 TTTACCTTAC-AGGGGTATTACAGTCTT
1 TTTACCCT-CTAGGGGCATTACAGTCTT
15629117 TTTAC
1 TTTAC
15629122 AACCTTTCCG
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
26 20 0.42
27 26 0.54
28 2 0.04
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
TTTACCCTCTAGGGGCATTACAGTCTT
Found at i:15633121 original size:43 final size:43
Alignment explanation
Indices: 15633073--15633157 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
15633063 AGGGTAAATC
* ** *
15633073 CAACAACCTAAGTTTATCTTCTCCT-TTTCTTAATTTCTTTTTG
1 CAACAACCCAAGACTATCTTCTCCTCTTT-TTAAATTCTTTTTG
*
15633116 CAACAACCCGAGACTATCTTCTCCTCTTTTTAAATTCTTTTT
1 CAACAACCCAAGACTATCTTCTCCTCTTTTTAAATTCTTTTT
15633158 TCAAGGATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 33 0.92
44 3 0.08
ACGTcount: A:0.22, C:0.26, G:0.05, T:0.47
Consensus pattern (43 bp):
CAACAACCCAAGACTATCTTCTCCTCTTTTTAAATTCTTTTTG
Found at i:15637753 original size:15 final size:15
Alignment explanation
Indices: 15637733--15637765 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15637723 AATTTTGTAA
*
15637733 AAGTTAAATATAACT
1 AAGTTAAATACAACT
15637748 AAGTTAAATACAACT
1 AAGTTAAATACAACT
15637763 AAG
1 AAG
15637766 AAAACTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (15 bp):
AAGTTAAATACAACT
Found at i:15638996 original size:42 final size:43
Alignment explanation
Indices: 15638949--15639036 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 43
15638939 AGGGTAAATC
* *
15638949 CAACAACCCAAG-TATATCTTCTCCT-TTTTTAATTTCTTTTTT
1 CAACAACCCAAGAT-TATCTTCTCCTCTTTTTAAATTATTTTTT
15638991 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTTTT
15639034 CAA
1 CAA
15639037 TGATAAAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
42 23 0.55
43 19 0.45
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTTTT
Found at i:15648482 original size:104 final size:105
Alignment explanation
Indices: 15648374--15648599 Score: 280
Period size: 105 Copynumber: 2.2 Consensus size: 105
15648364 TTTAATCGTT
* * * * * *
15648374 AGCTAGGAATGTAGGTCCGCTTA-TTGTTT-AGAGTTGTGAGCTTAACTTAGCTAACTTAAATAT
1 AGCTAGGAACGTAGGTCCAC-AAGTTGTTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATAT
** *
15648437 CTAGAGGCTGCAATTTTAAACTGGAAAGCC-TTTATAATATC
65 CTAGAGGCTGCAATTTTAAA-TCAAAAACCTTTTATAATATC
*
15648478 AGCTAGGAGCGTAGGTCCACAAGTTGTTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATC
1 AGCTAGGAACGTAGGTCCACAAGTTGTTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATC
* *
15648543 TAGAGGTTGCGATTTTAAATCAAAAACCTTTTATAATATC
66 TAGAGGCTGCAATTTTAAATCAAAAACCTTTTATAATATC
*
15648583 AG-TTGGAAGCGTAGGTC
1 AGCTAGGAA-CGTAGGTC
15648600 TGTGGCTATT
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
103 1 0.01
104 33 0.32
105 70 0.67
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (105 bp):
AGCTAGGAACGTAGGTCCACAAGTTGTTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATC
TAGAGGCTGCAATTTTAAATCAAAAACCTTTTATAATATC
Found at i:15648533 original size:105 final size:104
Alignment explanation
Indices: 15648397--15648599 Score: 284
Period size: 105 Copynumber: 1.9 Consensus size: 104
15648387 GGTCCGCTTA
* * * **
15648397 TTGTTTAGAGTTGTGAGCTTAACTTAGCTAACTTAAATATCTAGAGGCTGCAATTTTAAACTGGA
1 TTGTTTAGAGTTGCGAGCTTAACTTAACTAACTCAAATATCTAGAGGCTGCAATTTTAAA-TCAA
*
15648462 AAGCC-TTTATAATATCAGCTAGG-AGCGTAGGTCCACAAG
65 AAACCTTTTATAATATCAG-TAGGAAGCGTAGGTCCACAAG
* *
15648501 TTGTTTCAGAGTTGCGAGCTTAACTTAACTAACTCAAATATCTAGAGGTTGCGATTTTAAATCAA
1 TTGTTT-AGAGTTGCGAGCTTAACTTAACTAACTCAAATATCTAGAGGCTGCAATTTTAAATCAA
*
15648566 AAACCTTTTATAATATCAGTTGGAAGCGTAGGTC
65 AAACCTTTTATAATATCAGTAGGAAGCGTAGGTC
15648600 TGTGGCTATT
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
104 15 0.17
105 72 0.83
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (104 bp):
TTGTTTAGAGTTGCGAGCTTAACTTAACTAACTCAAATATCTAGAGGCTGCAATTTTAAATCAAA
AACCTTTTATAATATCAGTAGGAAGCGTAGGTCCACAAG
Found at i:15648713 original size:69 final size:68
Alignment explanation
Indices: 15648587--15649457 Score: 519
Period size: 69 Copynumber: 12.6 Consensus size: 68
15648577 AATATCAGTT
* * * * * *
15648587 GGAAGCGTAGGTCTG-TGGCTATTTTGGAGGCTACGATCTTAAACTG-GCAAGCTTTTGTAATAT
1 GGAA-CGTAGGTCCGCTAGCTATGTTGGAGGCTGCGATCATAAACTGTG--AGCCTTTGTAATAT
* *
15648650 TAGCTG
63 CAACTG
* * *
15648656 GGAACGTAAGTCCGCTAGCTATGCTGGAGGCTGTGATCATAAATCTGTGAGCCTTTGTAATATCA
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTGCGATCATAAA-CTGTGAGCCTTTGTAATATCA
*
15648721 GCTG
65 ACTG
* * ** * * * *
15648725 GGAACATAGGTCC-ATGAGCGGTGTTGAAGGCTACAATCATAAACTG-GAAAACCTTTGTAATAT
1 GGAACGTAGGTCCGCT-AGCTATGTTGGAGGCTGCGATCATAAACTGTG--AGCCTTTGTAATAT
*
15648788 TAACTG
63 CAACTG
* * * *
15648794 GGAACGTAGGTCCACTAGATATGTTGGAGGCTGCAATCATAAACTAGTGAGCCTTTATAATATCA
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTGCGATCATAAACT-GTGAGCCTTTGTAATATCA
*
15648859 ATTG
65 ACTG
* * ** *
15648863 GGAACGTAGGTCTG-TGAGC-A-GCTTTGGAGGCTACGATCATAAA-TCGACAAGCCTTTATAAT
1 GGAACGTAGGTCCGCT-AGCTATG--TTGGAGGCTGCGATCATAAACT-G-TGAGCCTTTGTAAT
15648924 ATCAACTG
61 ATCAACTG
* * * * * * * *
15648932 GAAACTTAGGTCCGCTAGTTGTGTTAGAGGCTGCGATCATAAACCGACT-AGCTTTTATAATATC
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTGCGATCATAAACTG--TGAGCCTTTGTAATATC
* *
15648996 AATTA
64 AACTG
* * * * * * * * ** *
15649001 AGAACGTAGGTCCGCAAGTTCTGTTGGATGCTACAATCATAAACCAGCAAG-CTTCTGTAATGTC
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTGCGATCATAAA-CTGTGAGCCTT-TGTAATATC
*
15649065 AGCTG
64 AACTG
* * * *
15649070 GGAACGTAGGTCCGCTAGCTGTGTTGGAGACTGTGATCATAAA-TCGATGAGCCTTTGTAATACC
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTGCGATCATAAACT-G-TGAGCCTTTGTAATATC
15649134 AACTG
64 AACTG
* * * * * * *
15649139 GGAACGTAAGTTCGCTAGCTATGTTGGATGTTGCAATCATAAACTAGT-ACGCCTTTGTATTACC
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTGCGATCATAAACT-GTGA-GCCTTTGTAATATC
**
15649203 AGTTG
64 AACTG
* * * * * *
15649208 GGAACATAGGTCCG-TGAGTTATGTTAGAGGCTACGATCATAAACTGGTAAGCCTTTTTAATATC
1 GGAACGTAGGTCCGCT-AGCTATGTTGGAGGCTGCGATCATAAACT-GTGAGCCTTTGTAATATC
* *
15649272 AGCTA
64 AACTG
* ** * * * * *
15649277 GGAACATAGGTATGTTAGCTTTGTTGGAGGTTGTGATCATAAACCGTCGAGCCTTTGTAATATCA
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTGCGATCATAAACTGT-GAGCCTTTGTAATATCA
*
15649342 ATTG
65 ACTG
* * * **** *
15649346 GGAACGTAGGTCCG-TGAGCTGTGTTTGAGGCTGCAATCATAAATCAACAAGCCTTTTTAATATC
1 GGAACGTAGGTCCGCT-AGCTATGTTGGAGGCTGCGATCATAAA-CTGTGAGCCTTTGTAATATC
* * *
15649410 TATTA
64 AACTG
* * * * *
15649415 GGAATGTAGGTTCGCTAGCTATATTGGGGGCTGTGATCATAAA
1 GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTGCGATCATAAA
15649458 TTGGCAAGCC
Statistics
Matches: 617, Mismatches: 152, Indels: 66
0.74 0.18 0.08
Matches are distributed among these distances:
67 2 0.00
68 24 0.04
69 571 0.93
70 17 0.03
71 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (68 bp):
GGAACGTAGGTCCGCTAGCTATGTTGGAGGCTGCGATCATAAACTGTGAGCCTTTGTAATATCAA
CTG
Found at i:15649180 original size:207 final size:207
Alignment explanation
Indices: 15648610--15649470 Score: 707
Period size: 207 Copynumber: 4.2 Consensus size: 207
15648600 TGTGGCTATT
* * * * * *
15648610 TTGGAGGCTACGATCTTAAACTGGCAAGCTTTTGTAATATTAGCTGGGAACGTAAGTCCGCTAGC
1 TTGGAGGCTACAATCATAAACTAGCAAGCCTTTGTAATATCAGCTGGGAACGTAGGTCCGCTAGC
* * * * * *
15648675 TATGCTGGAGGCTGTGATCATAAATCTGTGAGCCTTTGTAATATCAGCTGGGAACATAGGTCC-A
66 TGTGTTGGAGGCTGTGATCATAAATC-GTGAGCCTTTGTAATATCAACTGGGAACGTAAGTCCGC
* * * * * * * *
15648739 TGAGCGGTGTTGAAGGCTACAATCATAAACTGGA-AAACCTTTGTAATATTAACTGGGAACGTAG
130 TGAGCTGTGTTGGAGGCTGCAATCATAAAC-CGACAAGCCTTTGTAATATCAATTAGGAACGTAG
* * *
15648803 GTCCACTAGATATG
194 GTCCGCAAGTTATG
* ** * ** *
15648817 TTGGAGGCTGCAATCATAAACTAGTGAGCCTTTATAATATCAATTGGGAACGTAGGTCTG-TGAG
1 TTGGAGGCTACAATCATAAACTAGCAAGCCTTTGTAATATCAGCTGGGAACGTAGGTCCGCT-AG
* ** ** * * * *
15648881 CAGCT-TTGGAGGCTACGATCATAAATCGACAAGCCTTTATAATATCAACTGGAAACTTAGGTCC
65 CTG-TGTTGGAGGCTGTGATCATAAATCG-TGAGCCTTTGTAATATCAACTGGGAACGTAAGTCC
* * * * * * *
15648945 GCT-AGTTGTGTTAGAGGCTGCGATCATAAACCGACTAGCTTTTATAATATCAATTAAGAACGTA
128 GCTGAGCTGTGTTGGAGGCTGCAATCATAAACCGACAAGCCTTTGTAATATCAATTAGGAACGTA
*
15649009 GGTCCGCAAGTTCTG
193 GGTCCGCAAGTTATG
* * *
15649024 TTGGATGCTACAATCATAAACCAGCAAG-CTTCTGTAATGTCAGCTGGGAACGTAGGTCCGCTAG
1 TTGGAGGCTACAATCATAAACTAGCAAGCCTT-TGTAATATCAGCTGGGAACGTAGGTCCGCTAG
* * *
15649088 CTGTGTTGGAGACTGTGATCATAAATCGATGAGCCTTTGTAATACCAACTGGGAACGTAAGTTCG
65 CTGTGTTGGAGGCTGTGATCATAAATCG-TGAGCCTTTGTAATATCAACTGGGAACGTAAGTCCG
* * * * * * * * *
15649153 CT-AGCTATGTTGGATGTTGCAATCATAAACTAGTAC--GCCTTTGTATTACCAGTTGGGAACAT
129 CTGAGCTGTGTTGGAGGCTGCAATCATAAAC-CG-ACAAGCCTTTGTAATATCAATTAGGAACGT
**
15649215 AGGTCCGTGAGTTATG
192 AGGTCCGCAAGTTATG
* * * * * * * ** *
15649231 TTAGAGGCTACGATCATAAACTGGTAAGCCTTTTTAATATCAGCTAGGAACATAGGTATGTTAGC
1 TTGGAGGCTACAATCATAAACTAGCAAGCCTTTGTAATATCAGCTGGGAACGTAGGTCCGCTAGC
* * * * *
15649296 TTTGTTGGAGGTTGTGATCATAAACCGTCGAGCCTTTGTAATATCAATTGGGAACGTAGGTCCG-
66 TGTGTTGGAGGCTGTGATCATAAATCGT-GAGCCTTTGTAATATCAACTGGGAACGTAAGTCCGC
* * * * * *
15649360 TGAGCTGTGTTTGAGGCTGCAATCATAAATCAACAAGCCTTTTTAATATCTATTAGGAATGTAGG
130 TGAGCTGTGTTGGAGGCTGCAATCATAAACCGACAAGCCTTTGTAATATCAATTAGGAACGTAGG
* * * *
15649425 TTCGCTAGCTATA
195 TCCGCAAGTTATG
* *** * *
15649438 TTGGGGGCTGTGATCATAAATTGGCAAGCCTTT
1 TTGGAGGCTACAATCATAAACTAGCAAGCCTTT
15649471 CAAAATGACA
Statistics
Matches: 508, Mismatches: 131, Indels: 30
0.76 0.20 0.04
Matches are distributed among these distances:
205 2 0.00
206 10 0.02
207 487 0.96
208 7 0.01
209 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (207 bp):
TTGGAGGCTACAATCATAAACTAGCAAGCCTTTGTAATATCAGCTGGGAACGTAGGTCCGCTAGC
TGTGTTGGAGGCTGTGATCATAAATCGTGAGCCTTTGTAATATCAACTGGGAACGTAAGTCCGCT
GAGCTGTGTTGGAGGCTGCAATCATAAACCGACAAGCCTTTGTAATATCAATTAGGAACGTAGGT
CCGCAAGTTATG
Found at i:15660822 original size:44 final size:45
Alignment explanation
Indices: 15660742--15660832 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 45
15660732 TATACGATAG
*
15660742 ATTTTTTGCATTTATGATATACAATGGTTTTTACCACATTGAACTTTT
1 ATTTTTTGCATTTATG--A-ACAATGGTTTTTACCACATCGAACTTTT
15660790 ATTTTTTGCATTTATG-ACAATGGTTTTTACCACATCGAACTTT
1 ATTTTTTGCATTTATGAACAATGGTTTTTACCACATCGAACTTT
15660833 GCTCGGATTC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 26 0.62
48 16 0.38
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.48
Consensus pattern (45 bp):
ATTTTTTGCATTTATGAACAATGGTTTTTACCACATCGAACTTTT
Found at i:15662330 original size:91 final size:91
Alignment explanation
Indices: 15662145--15662333 Score: 249
Period size: 91 Copynumber: 2.1 Consensus size: 91
15662135 AACAGAAAAA
*
15662145 TATGTTATTTTAAGGACTATTGTTTGGTGTATTAATGCAGCAGAAAAATTCTTGTTTAGTCGTCA
1 TATGTTATTTTAAGGACTATTGTTTGGTGTATTAAAGCAGCAGAAAAATTCTTGTTTAGTCGTCA
* * *
15662210 ATTAATGTTGTCTAAGTGACTATATT
66 ATAAATGTGGTCTAAGTGACTATAAT
* * *
15662236 TATGTTGTTTTAAGGACTATTGTTTGGTGTATTAAAGCAGCAG-TAAATTGTTGTTTAGAT-GTC
1 TATGTTATTTTAAGGACTATTGTTTGGTGTATTAAAGCAGCAGAAAAATTCTTGTTTAG-TCGTC
* *
15662299 AATAAATGTGGTTTGAA-TGACTTTAAAT
65 AATAAATGTGGTCT-AAGTGACTAT-AAT
15662327 TATGTTA
1 TATGTTA
15662334 ATAATGGTCG
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
90 33 0.39
91 52 0.61
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (91 bp):
TATGTTATTTTAAGGACTATTGTTTGGTGTATTAAAGCAGCAGAAAAATTCTTGTTTAGTCGTCA
ATAAATGTGGTCTAAGTGACTATAAT
Found at i:15669192 original size:20 final size:20
Alignment explanation
Indices: 15669169--15669236 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
15669159 GGGTTATCGT
* *
15669169 AGTGCGAACAAGGACACCGA
1 AGTGCAAACAAGGACACCAA
* * **
15669189 AGTGTATACAAGGGTACCAA
1 AGTGCAAACAAGGACACCAA
* *
15669209 AGTGCAAACAGGGACACCTA
1 AGTGCAAACAAGGACACCAA
15669229 AGTGCAAA
1 AGTGCAAA
15669237 TCCCATACAA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.12
Consensus pattern (20 bp):
AGTGCAAACAAGGACACCAA
Found at i:15671874 original size:26 final size:26
Alignment explanation
Indices: 15671824--15671899 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
15671814 ACACCAATAT
* *
15671824 CGCAGTAAAGTTGCCAGTAAT-AGTAA
1 CGCAGCAAAGCTGCCAGT-ATCAGTAA
*
15671850 CGCAGCAAAGCTGCCAGTATCAGTAT
1 CGCAGCAAAGCTGCCAGTATCAGTAA
* *
15671876 CGCATCAAACCTGCCAGTA-CAGTA
1 CGCAGCAAAGCTGCCAGTATCAGTA
15671900 TACTTCCTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
25 7 0.16
26 37 0.84
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTATCAGTAA
Found at i:15680412 original size:22 final size:23
Alignment explanation
Indices: 15680386--15680431 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
15680376 TTAAATTATC
*
15680386 ATTTTTATTTTCT-TATATA-TTT
1 ATTTTCATTTT-TATATATACTTT
15680408 ATTTTCATTTTTATATATACTTT
1 ATTTTCATTTTTATATATACTTT
15680431 A
1 A
15680432 ATATTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 16 0.76
23 4 0.19
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTCATTTTTATATATACTTT
Found at i:15680422 original size:18 final size:18
Alignment explanation
Indices: 15680342--15680447 Score: 59
Period size: 21 Copynumber: 5.4 Consensus size: 18
15680332 TATGATTTTT
* *
15680342 TATAATTTCCTTTTATATA
1 TATATTTTCATTTT-TATA
* *
15680361 TATAATTTATAATTTTTAAA
1 TAT-ATTT-TCATTTTTATA
*
15680381 TTATCATTTTTATTTTCTTATA
1 -TAT-ATTTTCA-TTT-TTATA
15680403 TATTTATTTTCATTTTTATA
1 TA--TATTTTCATTTTTATA
* * *
15680423 TATACTTTAATATTTATA
1 TATATTTTCATTTTTATA
15680441 TATATTT
1 TATATTT
15680448 GATGAAAGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
18 19 0.28
19 3 0.04
20 15 0.22
21 20 0.29
22 10 0.15
23 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATTTTCATTTTTATA
Found at i:15680765 original size:9 final size:9
Alignment explanation
Indices: 15680751--15680793 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
15680741 CCTTTCTAAC
15680751 CTCTCAATT
1 CTCTCAATT
*
15680760 CTCTCAACT
1 CTCTCAATT
*
15680769 CTCTTAATT
1 CTCTCAATT
15680778 CTCTCAATT
1 CTCTCAATT
*
15680787 TTCTCAA
1 CTCTCAA
15680794 GTTTTGTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (9 bp):
CTCTCAATT
Found at i:15680772 original size:18 final size:18
Alignment explanation
Indices: 15680728--15680784 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
15680718 TACTCAAATC
* *
15680728 CAACTCTCTCAATCCTTT
1 CAACTCTCTCAATTCTCT
15680746 CTAAC-CTCTCAATTCTCT
1 C-AACTCTCTCAATTCTCT
*
15680764 CAACTCTCTTAATTCTCT
1 CAACTCTCTCAATTCTCT
15680782 CAA
1 CAA
15680785 TTTTCTCAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.09
18 28 0.82
19 3 0.09
ACGTcount: A:0.25, C:0.37, G:0.00, T:0.39
Consensus pattern (18 bp):
CAACTCTCTCAATTCTCT
Found at i:15683590 original size:43 final size:43
Alignment explanation
Indices: 15683524--15683648 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
15683514 AGCTTGTACA
* * * *
15683524 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATA-TCG
1 ATGCCAATGTCCCAAACGTGGTCTTACACGTAAACACA-AGTCG
*
15683567 ATGCCACTGTCCCAAACAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCAATGTCCCAAAC-GTGGTCTTACACGTAAACACAAGTCG
* *
15683610 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAAACACA
1 ATGCCAATGTCCCAAACGTGGTCTTACACG-TAAACACA
15683649 TATCAGAGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
42 2 0.03
43 60 0.86
44 8 0.11
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACGTGGTCTTACACGTAAACACAAGTCG
Found at i:15687898 original size:14 final size:14
Alignment explanation
Indices: 15687879--15687906 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15687869 ATAGTGGTAT
15687879 AGTTGGAAGGCTTA
1 AGTTGGAAGGCTTA
15687893 AGTTGGAAGGCTTA
1 AGTTGGAAGGCTTA
15687907 GGCCTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (14 bp):
AGTTGGAAGGCTTA
Found at i:15692963 original size:19 final size:20
Alignment explanation
Indices: 15692935--15692981 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
15692925 TGAGTATTGG
* *
15692935 TTTTGATTATGTGATGG-CT
1 TTTTGTTTATGTGATGGCCA
15692954 TTTTGTTTATGTGATGGCCA
1 TTTTGTTTATGTGATGGCCA
15692974 TTTTGTTT
1 TTTTGTTT
15692982 GTATCTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.13, C:0.06, G:0.23, T:0.57
Consensus pattern (20 bp):
TTTTGTTTATGTGATGGCCA
Found at i:15693138 original size:13 final size:13
Alignment explanation
Indices: 15693120--15693144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15693110 AGCCTTGAAG
15693120 TTTTTTTTTCCTT
1 TTTTTTTTTCCTT
15693133 TTTTTTTTTCCT
1 TTTTTTTTTCCT
15693145 GTGAAGAATT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTCCTT
Found at i:15696964 original size:185 final size:184
Alignment explanation
Indices: 15696634--15696982 Score: 556
Period size: 185 Copynumber: 1.9 Consensus size: 184
15696624 ATGCCATAGC
15696634 ACATGAGAACACCAAAAAACTTAGTAGCTGGTGTTGGTATGACTTTTCCGAAAACATAGCTTAAT
1 ACATGAGAACACCAAAAAACTTAGTAGCTGGTGTTGGTATGACTTTTCCGAAAACATAGCTTAAT
* * *
15696699 GTTCAACTTAATTCATGTTTATCTCAGGAAGGCAGTGTCCAGTTTGCATTACTGCAGTCCTTTTG
66 GTTCAACTAAATGCATGTTTATCTCAGGAAGGCAGTGTCCAGTTTGCATGACTGCAGTCCTTTTG
*
15696764 TGTTGTGTAATATTTGCACTCAAACTCTTATTGTGTTATATTTTTCTGTTTTAGT
131 TCTTGTGTAATATTTGCACTCAAACT-TTATTGTGTTATATTTTTCTGTTTTAGT
* * * * **
15696819 ACATGAGAACACTAAAAAACTTTGTAGCTGGTGTTGGTATGGCTTTTCTGAAAATGTAGCTTAAT
1 ACATGAGAACACCAAAAAACTTAGTAGCTGGTGTTGGTATGACTTTTCCGAAAACATAGCTTAAT
* *
15696884 GTTCAAC-AACATGCATGTTTATCTCAGGAAGGCAGTGTCCGGTTTGCATGACTGCAGTCTTTTT
66 GTTCAACTAA-ATGCATGTTTATCTCAGGAAGGCAGTGTCCAGTTTGCATGACTGCAGTCCTTTT
*
15696948 GTCTTGTGTGATATTTGCACTCAAACTTTATTGTG
130 GTCTTGTGTAATATTTGCACTCAAACTTTATTGTG
15696983 AAATTAATAT
Statistics
Matches: 150, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
184 9 0.06
185 141 0.94
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (184 bp):
ACATGAGAACACCAAAAAACTTAGTAGCTGGTGTTGGTATGACTTTTCCGAAAACATAGCTTAAT
GTTCAACTAAATGCATGTTTATCTCAGGAAGGCAGTGTCCAGTTTGCATGACTGCAGTCCTTTTG
TCTTGTGTAATATTTGCACTCAAACTTTATTGTGTTATATTTTTCTGTTTTAGT
Found at i:15724832 original size:19 final size:19
Alignment explanation
Indices: 15724808--15724852 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
15724798 TTTTTTTTAA
*
15724808 AATTTTTATAAATATTTTG
1 AATTTTTAAAAATATTTTG
*
15724827 AATTTTAAAAAAATATTTTG
1 AATTTT-TAAAAATATTTTG
15724847 -ATTTTT
1 AATTTTT
15724853 TTAATTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
AATTTTTAAAAATATTTTG
Found at i:15728032 original size:2 final size:2
Alignment explanation
Indices: 15728027--15728055 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15728017 TTGGTGTGTT
15728027 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15728056 TATGAGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15736731 original size:9 final size:9
Alignment explanation
Indices: 15736717--15736745 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
15736707 AATTTCACAT
15736717 TTTATATTA
1 TTTATATTA
15736726 TTTATATTA
1 TTTATATTA
15736735 TTTATATTA
1 TTTATATTA
15736744 TT
1 TT
15736746 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:15739237 original size:5 final size:5
Alignment explanation
Indices: 15739227--15739252 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15739217 TGAGCATTCG
15739227 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
15739253 AATTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:15741554 original size:9 final size:9
Alignment explanation
Indices: 15741537--15741573 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15741527 TGAGTTTTCG
15741537 AATTCGAAT
1 AATTCGAAT
*
15741546 AACTCGAAT
1 AATTCGAAT
15741555 AATTCGAAT
1 AATTCGAAT
15741564 AATTCGAAT
1 AATTCGAAT
15741573 A
1 A
15741574 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15741898 original size:9 final size:9
Alignment explanation
Indices: 15741884--15741950 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
15741874 TTTGGTTAAA
15741884 AATTAACCG
1 AATTAACCG
15741893 AATTAACCG
1 AATTAACCG
*
15741902 AATTACCCG
1 AATTAACCG
*
15741911 AATTAATCG
1 AATTAACCG
* * *
15741920 GATTACCCA
1 AATTAACCG
15741929 AATTAACCG
1 AATTAACCG
15741938 AATTAACCG
1 AATTAACCG
15741947 AATT
1 AATT
15741951 GAATCACTAC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:15742069 original size:13 final size:13
Alignment explanation
Indices: 15742053--15742077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15742043 AATTTTTATG
15742053 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
15742066 ATTGGGTTGGGT
1 ATTGGGTTGGGT
15742078 TGAATACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:15746197 original size:23 final size:23
Alignment explanation
Indices: 15746148--15746201 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
15746138 CAGCTTGTAT
** * *
15746148 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGGCTCAGCTCAACA
*
15746171 GAGCTTACCGGCTCAGCTCAATA
1 GAGCTTACCGGCTCAGCTCAACA
15746194 GAGCTTAC
1 GAGCTTAC
15746202 TGTTTATCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (23 bp):
GAGCTTACCGGCTCAGCTCAACA
Found at i:15762073 original size:34 final size:34
Alignment explanation
Indices: 15762035--15762105 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
15762025 TTTATGTTTC
*
15762035 CAAATCAAAATCAACTCAAATAAATAATCTTTAA
1 CAAATCAAAATCAACTCAAAAAAATAATCTTTAA
15762069 CAAATCAAAATCAACTCAAAAAAATAATCTTTAA
1 CAAATCAAAATCAACTCAAAAAAATAATCTTTAA
15762103 CAA
1 CAA
15762106 TTATACATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (34 bp):
CAAATCAAAATCAACTCAAAAAAATAATCTTTAA
Found at i:15764867 original size:2 final size:2
Alignment explanation
Indices: 15764849--15764895 Score: 50
Period size: 2 Copynumber: 25.5 Consensus size: 2
15764839 CAAATCTAAA
15764849 AT AT AT -T AT -T AT CAT AT AT AT AT AT AT AT AT AT AT -T A- AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15764888 -T AT AT AT A
1 AT AT AT AT A
15764896 ATTATAAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
1 5 0.13
2 32 0.82
3 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:15770659 original size:120 final size:120
Alignment explanation
Indices: 15770475--15770946 Score: 892
Period size: 120 Copynumber: 3.9 Consensus size: 120
15770465 ATTTTAACAG
*
15770475 AATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
1 AATTATTATTAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
15770540 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
66 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
* *
15770595 AATTATTATTAAATATAATTTAATAAACATATATAATTTAATAAAATTCTTAATATTAAATATTC
1 AATTATTATTAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
15770660 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
66 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
15770715 AATTATTATTAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
1 AATTATTATTAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
15770780 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
66 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
*
15770835 AATTATTATAAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
1 AATTATTATTAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
*
15770900 TTATATGAATTTATTAAAATCATAATATATAATACTATAAAA-ATAAT
66 TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
15770947 ATTTTTATTT
Statistics
Matches: 347, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
119 5 0.01
120 342 0.99
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
AATTATTATTAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTC
TTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
Found at i:15773752 original size:18 final size:18
Alignment explanation
Indices: 15773729--15773768 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
15773719 AGATTTGGAA
*
15773729 AAGAAGGAAATGTAGGAG
1 AAGAAGGAAACGTAGGAG
15773747 AAGAAGGAAACGTAGGAG
1 AAGAAGGAAACGTAGGAG
15773765 AAGA
1 AAGA
15773769 TGCTGAGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.38, T:0.07
Consensus pattern (18 bp):
AAGAAGGAAACGTAGGAG
Found at i:15781565 original size:13 final size:13
Alignment explanation
Indices: 15781547--15781573 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15781537 AAGTCTCTGC
15781547 AGTTAATAAAAAA
1 AGTTAATAAAAAA
15781560 AGTTAATAAAAAA
1 AGTTAATAAAAAA
15781573 A
1 A
15781574 TTTATTAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (13 bp):
AGTTAATAAAAAA
Found at i:15781759 original size:26 final size:27
Alignment explanation
Indices: 15781724--15781782 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
15781714 AAAATTATAA
* *
15781724 AAAAATATAATATTTAT-TAAACAT-T
1 AAAAATATAAAATTCATATAAACATAT
*
15781749 AAAAATAATAAAATTCATATAAACTTAT
1 AAAAAT-ATAAAATTCATATAAACATAT
15781777 AAAAAT
1 AAAAAT
15781783 TTTAAAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.21
26 9 0.32
27 6 0.21
28 7 0.25
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAAATATAAAATTCATATAAACATAT
Found at i:15781779 original size:28 final size:29
Alignment explanation
Indices: 15781718--15781782 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 29
15781708 AATTAAAAAA
*
15781718 TTATAAAAA-AATATAATATTTATTAAAC
1 TTATAAAAATAATATAATATTCATTAAAC
*
15781746 AT-TAAAAATAATA-AA-ATTCATATAAAC
1 TTATAAAAATAATATAATATTCAT-TAAAC
15781773 TTATAAAAAT
1 TTATAAAAAT
15781783 TTTAAAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 5 0.16
27 14 0.45
28 12 0.39
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (29 bp):
TTATAAAAATAATATAATATTCATTAAAC
Found at i:15781792 original size:20 final size:20
Alignment explanation
Indices: 15781769--15781823 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
15781759 AAATTCATAT
* *
15781769 AAACTTATAAAAATTTTAAA
1 AAACATATAAAAATTATAAA
* *
15781789 AAACCTATAAATATTATAAA
1 AAACATATAAAAATTATAAA
15781809 AAACATATAATAAAT
1 AAACATATAA-AAAT
15781824 CTAATAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (20 bp):
AAACATATAAAAATTATAAA
Found at i:15781838 original size:19 final size:18
Alignment explanation
Indices: 15781816--15781868 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
15781806 AAAAAACATA
15781816 TAATAAATCTAATAAATTT
1 TAATAAAT-TAATAAATTT
*
15781835 TAATAAATTATACAAATTT
1 TAATAAATTA-ATAAATTT
15781854 T-ATAAAATTAATAAA
1 TAAT-AAATTAATAAA
15781869 ACACATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 22 0.73
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATAAATTAATAAATTT
Found at i:15782513 original size:10 final size:10
Alignment explanation
Indices: 15782498--15782602 Score: 74
Period size: 10 Copynumber: 10.7 Consensus size: 10
15782488 TAATTCAAGG
*
15782498 TTTTATGATT
1 TTTTATAATT
15782508 TTTTATAA-T
1 TTTTATAATT
*
15782517 TTTTATAAGT
1 TTTTATAATT
* *
15782527 ATATATCAA-T
1 TTTTAT-AATT
* *
15782537 TTTAAT-ATA
1 TTTTATAATT
*
15782546 TTTAATAATT
1 TTTTATAATT
15782556 TTTT-TAATT
1 TTTTATAATT
15782565 TTTTATAATT
1 TTTTATAATT
*
15782575 TTTCATAAGTT
1 TTTTATAA-TT
* *
15782586 TTTAAGAATT
1 TTTTATAATT
15782596 TTTTATA
1 TTTTATA
15782603 TGTTTTTCCT
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
8 1 0.01
9 24 0.32
10 40 0.53
11 10 0.13
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:15782519 original size:9 final size:9
Alignment explanation
Indices: 15782507--15782589 Score: 60
Period size: 9 Copynumber: 8.7 Consensus size: 9
15782497 GTTTTATGAT
15782507 TTTTTATAA
1 TTTTTATAA
15782516 TTTTTATAA
1 TTTTTATAA
* *
15782525 GTATATATCAA
1 -TTTTTAT-AA
*
15782536 TTTTAAT-A
1 TTTTTATAA
*
15782544 TATTTAATAA
1 T-TTTTATAA
*
15782554 TTTTTTTAA
1 TTTTTATAA
15782563 TTTTTTATAA
1 -TTTTTATAA
15782573 TTTTTCATAA
1 TTTTT-ATAA
15782583 GTTTTTA
1 -TTTTTA
15782590 AGAATTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
8 2 0.03
9 26 0.44
10 24 0.41
11 7 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15782595 original size:21 final size:20
Alignment explanation
Indices: 15782506--15782609 Score: 72
Period size: 19 Copynumber: 5.2 Consensus size: 20
15782496 GGTTTTATGA
*
15782506 TTTTTTATAATTTTTATAAG
1 TTTTTAATAATTTTTATAAG
* * *
15782526 TATAT-ATCAATTTTAAT-A-
1 TTTTTAAT-AATTTTTATAAG
* *
15782544 TATTTAATAATTTTTTTAA-
1 TTTTTAATAATTTTTATAAG
*
15782563 TTTTTTATAATTTTTCATAAG
1 TTTTTAATAATTTTT-ATAAG
* *
15782584 TTTTTAAGAATTTTTTATATG
1 TTTTTAATAA-TTTTTATAAG
15782605 TTTTT
1 TTTTT
15782610 CCTAAAATTT
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
18 11 0.17
19 19 0.29
20 14 0.21
21 17 0.26
22 5 0.08
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTTAATAATTTTTATAAG
Found at i:15782733 original size:30 final size:31
Alignment explanation
Indices: 15782673--15782746 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
15782663 ACTATTAGAA
*
15782673 TTTATTAGATTTTTTGATGATATTTATAAGTT
1 TTTATTA-ATTTTTTGATAATATTTATAAGTT
*
15782705 TTTATTAATTTTTT-ATAA-ATTTTGTAAGTT
1 TTTATTAATTTTTTGATAATA-TTTATAAGTT
*
15782735 TATATTAATTTT
1 TTTATTAATTTT
15782747 AATAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 1 0.03
30 23 0.61
31 7 0.18
32 7 0.18
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (31 bp):
TTTATTAATTTTTTGATAATATTTATAAGTT
Found at i:15782782 original size:20 final size:19
Alignment explanation
Indices: 15782757--15782803 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
15782747 AATAAAAAAT
15782757 TAATTTCTTTCCTATTTTTA
1 TAATTT-TTTCCTATTTTTA
*
15782777 TAATTTTTTTCTATTTTT-
1 TAATTTTTTCCTATTTTTA
*
15782795 TTATTTTTT
1 TAATTTTTT
15782804 ATCATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 11 0.44
20 6 0.24
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (19 bp):
TAATTTTTTCCTATTTTTA
Found at i:15782792 original size:19 final size:19
Alignment explanation
Indices: 15782757--15782814 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
15782747 AATAAAAAAT
*
15782757 TAATTTCTTTCCTATTTTTA
1 TAATTT-TTTTCTATTTTTA
15782777 TAATTTTTTTCTATTTTT-
1 TAATTTTTTTCTATTTTTA
*
15782795 TTATTTTTTATC-ATTTTTA
1 TAATTTTTT-TCTATTTTTA
15782814 T
1 T
15782815 GGGAAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 14 0.41
19 14 0.41
20 6 0.18
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (19 bp):
TAATTTTTTTCTATTTTTA
Found at i:15795496 original size:17 final size:17
Alignment explanation
Indices: 15795453--15795496 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
15795443 AAAATTGTCA
*
15795453 AATAAATAAAATTACATT
1 AATAAA-AAATTTACATT
15795471 -ATAAAAAATTTACATT
1 AATAAAAAATTTACATT
15795487 AATAAAAAAT
1 AATAAAAAAT
15795497 CACAAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAAAAAATTTACATT
Found at i:15795716 original size:100 final size:93
Alignment explanation
Indices: 15795466--15795949 Score: 401
Period size: 98 Copynumber: 5.0 Consensus size: 93
15795456 AAATAAAATT
*
15795466 ACATTATAAAAAATTTACATTAATAAAAAATCACAAAATACTAAACTGAACACTAACAATTTATA
1 ACATTA-AAAAAATTTACATTACTAAAAAA-CACAAAATACTAAACT--A-ACTAACAATTTATA
* **
15795531 TAACCTAATCATAAATTACTAAAAAAACTATAAAATTA
61 -AA-CTAATCATAAATTACTAACAAAA-TA-ACTA-TA
* * * ** *
15795569 TCTTTAAAAAAAATTACATTACTAAAAAATCACAAAACCCTAAACTAAACGGTAACAAATTATAA
1 ACATTAAAAAAATTTACATTACTAAAAAA-CACAAAATACTAAACT-AAC--TAACAATTTATAA
*
15795634 ACTAATCACAAATTACTAACAAAATAACTATA
62 ACTAATCATAAATTACTAACAAAATAACTATA
* * *
15795666 ACATTAAAAAAATTTTACATTACTAATAAAACACAAAATACAAAAC--ACTAACAATTTACAACC
1 ACATTAAAAAAA-TTTACATTACTAA-AAAACACAAAATACTAAACTAACTAACAATTTATAAAC
*
15795729 TAATCATAAATTACTAATAAAATAACTATAAA
64 TAATCATAAATTACTAACAAAATAACTAT--A
* * * * *
15795761 ATTATTTTAAAAAAAAATTACATTACTAAAATATCACAAAACACAAAAC--ACTAACAATTTATA
1 A-CA--TT-AAAAAAATTTACATTACTAAAA-AACACAAAATACTAAACTAACTAACAATTTATA
* *
15795824 ACCTAATCATAAATTACTAACAAAATAA-T-TC
61 AACTAATCATAAATTACTAACAAAATAACTATA
* * * * *
15795855 ACA--AAATAATTTTACATTAATAAGAAATCACAAAATACTAAACTAAACACAACAATTTAT-AA
1 ACATTAAAAAAATTTACATTACTAA-AAAACACAAAATACTAAACT-AAC-TAACAATTTATAAA
* *
15795917 CATAATCCTAAATTACTAACAAAATAATTATA
63 C-TAATCATAAATTACTAACAAAATAACTATA
15795949 A
1 A
15795950 AAAAAACTGC
Statistics
Matches: 322, Mismatches: 40, Indels: 47
0.79 0.10 0.11
Matches are distributed among these distances:
88 31 0.10
89 2 0.01
91 4 0.01
92 34 0.11
93 41 0.13
94 3 0.01
95 4 0.01
96 2 0.01
97 15 0.05
98 95 0.30
99 13 0.04
100 23 0.07
101 4 0.01
102 47 0.15
103 4 0.01
ACGTcount: A:0.57, C:0.15, G:0.01, T:0.27
Consensus pattern (93 bp):
ACATTAAAAAAATTTACATTACTAAAAAACACAAAATACTAAACTAACTAACAATTTATAAACTA
ATCATAAATTACTAACAAAATAACTATA
Found at i:15795787 original size:98 final size:98
Alignment explanation
Indices: 15795458--15795851 Score: 430
Period size: 98 Copynumber: 4.0 Consensus size: 98
15795448 TGTCAAATAA
** * * *
15795458 ATAAAATTACATTATAAAAAATTTACATTAATAAAAAATCACAAAATACTAAACTGAACACTAAC
1 ATAAAATTATTTTAAAAAAAAATTACATTACTAAAAAATCACAAAATAC--AA---AACACTAAC
15795523 AATTTATATAACCTAATCATAAATTACT-A-AAAA-AACT
61 AA-TT-TATAACCTAATCATAAATTACTAACAAAATAACT
* **
15795560 ATAAAATTATCTTT-AAAAAAAATTACATTACTAAAAAATCACAAAACCCTAAACTAAACGGTAA
1 ATAAAATTAT-TTTAAAAAAAAATTACATTACTAAAAAATCACAAAA---T--ACAAAACACTAA
* * *
15795624 CAAATTATAAACTAATCACAAATTACTAACAAAATAACT
60 CAATTTATAACCTAATCATAAATTACTAACAAAATAACT
* **
15795663 AT--AA-CA--TTAAAAAAATTTTACATTACTAATAAAA-CACAAAATACAAAACACTAACAATT
1 ATAAAATTATTTTAAAAAAAAATTACATTACTAA-AAAATCACAAAATACAAAACACTAACAATT
* *
15795722 TACAACCTAATCATAAATTACTAATAAAATAACT
65 TATAACCTAATCATAAATTACTAACAAAATAACT
* *
15795756 ATAAAATTATTTTAAAAAAAAATTACATTACTAAAATATCACAAAACACAAAACACTAACAATTT
1 ATAAAATTATTTTAAAAAAAAATTACATTACTAAAAAATCACAAAATACAAAACACTAACAATTT
15795821 ATAACCTAATCATAAATTACTAACAAAATAA
66 ATAACCTAATCATAAATTACTAACAAAATAA
15795852 TTCACAAAAT
Statistics
Matches: 246, Mismatches: 29, Indels: 38
0.79 0.09 0.12
Matches are distributed among these distances:
93 45 0.18
95 3 0.01
96 1 0.00
97 5 0.02
98 100 0.41
99 4 0.02
100 21 0.09
101 4 0.02
102 51 0.21
103 8 0.03
105 2 0.01
107 2 0.01
ACGTcount: A:0.57, C:0.15, G:0.01, T:0.27
Consensus pattern (98 bp):
ATAAAATTATTTTAAAAAAAAATTACATTACTAAAAAATCACAAAATACAAAACACTAACAATTT
ATAACCTAATCATAAATTACTAACAAAATAACT
Found at i:15795870 original size:88 final size:90
Alignment explanation
Indices: 15795778--15795945 Score: 236
Period size: 92 Copynumber: 1.9 Consensus size: 90
15795768 TAAAAAAAAA
* *
15795778 TTACATTACTAA-AATATCAC-AAA-AC-ACAAAACACTAACAATTTATAACCTAATCATAAATT
1 TTACATTAATAAGAA-ATCACAAAATACAACAAAACAC-AACAATTTATAACATAATCATAAATT
15795839 ACTAACAAAATAATTCACAAAATAATT
64 ACTAACAAAATAATTCACAAAATAATT
* *
15795866 TTACATTAATAAGAAATCACAAAATACTAAACTAAACACAACAATTTATAACATAATCCTAAATT
1 TTACATTAATAAGAAATCACAAAATAC--AACAAAACACAACAATTTATAACATAATCATAAATT
15795931 ACTAACAAAATAATT
64 ACTAACAAAATAATT
15795946 ATAAAAAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
88 16 0.23
89 5 0.07
90 2 0.03
92 39 0.56
93 8 0.11
ACGTcount: A:0.55, C:0.17, G:0.01, T:0.27
Consensus pattern (90 bp):
TTACATTAATAAGAAATCACAAAATACAACAAAACACAACAATTTATAACATAATCATAAATTAC
TAACAAAATAATTCACAAAATAATT
Found at i:15796364 original size:28 final size:28
Alignment explanation
Indices: 15796322--15796397 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
15796312 ATGGGACTAG
* *
15796322 TGTAATTTTATAAAATTAAATTCTTTGA
1 TGTAATTTAATAAAATTAAATGCTTTGA
*
15796350 TGTAATTTAACAAAATTAAATGCTTTGA
1 TGTAATTTAATAAAATTAAATGCTTTGA
15796378 TGTAATTTAATAAAATTAAA
1 TGTAATTTAATAAAATTAAA
15796398 AGCATGGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (28 bp):
TGTAATTTAATAAAATTAAATGCTTTGA
Found at i:15802350 original size:48 final size:48
Alignment explanation
Indices: 15802259--15802350 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
15802249 GTGAAAAATC
* * * ** *
15802259 TTTGAGTTAGTTAAGTTGATAAGTTTTATTTTATTGTCTTAACTTAGT
1 TTTGAGTTAGTCAAGTTGACAAGTCTTATTTTATCATCCTAACTTAGT
15802307 TTTGAGTTAGTCAAGTTGACAAGTCTTATTTTATCATCCTAACT
1 TTTGAGTTAGTCAAGTTGACAAGTCTTATTTTATCATCCTAACT
15802351 CGATGTGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (48 bp):
TTTGAGTTAGTCAAGTTGACAAGTCTTATTTTATCATCCTAACTTAGT
Found at i:15805399 original size:44 final size:44
Alignment explanation
Indices: 15805329--15805447 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 44
15805319 CTGCAAACCA
*
15805329 CTGTGAATCCACAACCAGAAGCAGATTCCATCTACAGGGTA-TTG
1 CTGTGAATCCACAGCCAGAAGCAGATTCCATCTAC-GGGTACTTG
* * * *
15805373 CTGTGAATCCACAGCCA-ATGGTAGATTCCATTTGCGGGTACTTG
1 CTGTGAATCCACAGCCAGA-AGCAGATTCCATCTACGGGTACTTG
* * *
15805417 TTGTGTATCCACAGCC-GAAAGCAAATTCCAT
1 CTGTGAATCCACAGCCAG-AAGCAGATTCCAT
15805448 TTGCAAGATT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.10
44 54 0.89
45 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (44 bp):
CTGTGAATCCACAGCCAGAAGCAGATTCCATCTACGGGTACTTG
Found at i:15809495 original size:60 final size:60
Alignment explanation
Indices: 15809423--15809606 Score: 185
Period size: 60 Copynumber: 3.1 Consensus size: 60
15809413 AGATAAGCCC
* ** *
15809423 TGAACTTGGCAATTGTTTTCACATTGAGG-CTTGAACTTTTTTTTGGTCTAAGTTAGGTCT
1 TGAACTTAGCAATTGTTCCCACATTG-GGTCTTGAACTTTTTTTTGGTCCAAGTTAGGTCT
* **
15809483 TGAACTTAGCAATTGTTCCCACATTGGGTCTTGAACTTTTTTTTTGTCCAAGTTAGACCT
1 TGAACTTAGCAATTGTTCCCACATTGGGTCTTGAACTTTTTTTTGGTCCAAGTTAGGTCT
* * * * ** * *
15809543 TGAA-TTTGACAATTCTTCACGCATTATGACTTGAACTTTTTTTTTGTCCAAGTTA-GTCAT
1 TGAACTTAG-CAATTGTTCCCACATTGGGTCTTGAACTTTTTTTTGGTCCAAGTTAGGTC-T
15809603 TGAA
1 TGAA
15809607 AACCTGAAAG
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
59 6 0.06
60 99 0.94
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.43
Consensus pattern (60 bp):
TGAACTTAGCAATTGTTCCCACATTGGGTCTTGAACTTTTTTTTGGTCCAAGTTAGGTCT
Found at i:15810586 original size:95 final size:95
Alignment explanation
Indices: 15810487--15810863 Score: 465
Period size: 95 Copynumber: 3.9 Consensus size: 95
15810477 TAATGTAAAA
* *
15810487 TTATTTTGTTTGTAATTTATGATTAGGTTATAAATTGTTAGTGTTCAGTGTTTTGTGATTTTTTA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTGTTTTGTGATTTTTTA
15810552 GTAATGTAATTTTTTTTAAAAAATTTATAG
66 GTAATGTAATTTTTTTTAAAAAATTTATAG
* * *
15810582 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTAGTGTTTTA-TATTTTGTGATTTATT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTG-TTTAGTGTTTTGTGATTTTTT
*
15810646 AGTAATGTAAATTTTTTTT--AAAATGTTATAT
65 AGTAATGT-AATTTTTTTTAAAAAAT-TTATAG
* * * *
15810677 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTACTGTTTAGTTTAGGATTCTGTGAGT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAG--T--G-TTTTGTGATT
*
15810742 TTTTAGTAATGTAA-TTTTTTTAAAATATTTATAG
61 TTTTAGTAATGTAATTTTTTTTAAAAAATTTATAG
*
15810776 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTATTGTTTAGTTTAATGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGG-T-TATAAATTGTTA--G--T-GTTTAGTGTTTTGTGA
* *
15810841 TTTTTTATTAATGTAAATTTTTT
59 TTTTTTAGTAATGTAATTTTTTT
15810864 ATAATGTAAT
Statistics
Matches: 242, Mismatches: 21, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
94 9 0.04
95 108 0.45
96 13 0.05
97 1 0.00
98 7 0.03
99 33 0.14
100 24 0.10
101 33 0.14
102 7 0.03
104 1 0.00
105 1 0.00
106 5 0.02
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (95 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTGTTTTGTGATTTTTTA
GTAATGTAATTTTTTTTAAAAAATTTATAG
Found at i:15810686 original size:190 final size:197
Alignment explanation
Indices: 15810487--15810863 Score: 545
Period size: 194 Copynumber: 1.9 Consensus size: 197
15810477 TAATGTAAAA
* * * *
15810487 TTATTTTGTTTGTAATTTATGATTAGGTTATAAATTGTTAGTGTTCAG-T-G-TTTTGTGATTTT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTACTGTTCAGTTAGATTCTGTGAGTTT
15810549 TTAGTAATGTAATTTTTTTTAAAAAATTTATAGTTATTTTGTTAGTAATTTATGATTAGG-T-TA
66 TTAGTAATGTAA-TTTTTTTAAAAAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATA
*
15810612 TAAATTATTA-G-T-GTTTTATATTTTGTGATTTATTAGTAATGTAAATTTTTTTTAAAATGTTA
130 TAAATTATTATGTTAGTTTAATATTTTGTGATTTATTAGTAATGTAAATTTTTTTTAAAATGTTA
15810674 TAT
195 TAT
* *
15810677 TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTACTGTTTAGTTTAGGATTCTGTGAGT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTACTGTTCAG-TTA-GATTCTGTGAGT
*
15810742 TTTTAGTAATGTAATTTTTTTAAAATATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTAT
64 TTTTAGTAATGTAATTTTTTTAAAAAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTAT
* * * *
15810807 ATAAATTGTTATTGTTTAGTTTAATGTTTTGTGATTTTTTATTAATGTAAATTTTTT
129 ATAAATTATTA-TG-TTAGTTTAATATTTTGTGATTTATTAGTAATGTAAATTTTTT
15810864 ATAATGTAAT
Statistics
Matches: 163, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
190 44 0.27
192 1 0.01
194 47 0.29
195 23 0.14
196 11 0.07
198 1 0.01
200 1 0.01
201 35 0.21
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (197 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTACTGTTCAGTTAGATTCTGTGAGTTT
TTAGTAATGTAATTTTTTTAAAAAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAT
AAATTATTATGTTAGTTTAATATTTTGTGATTTATTAGTAATGTAAATTTTTTTTAAAATGTTAT
AT
Found at i:15810838 original size:23 final size:21
Alignment explanation
Indices: 15810812--15810854 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
15810802 GTTATATAAA
*
15810812 TTGTTATTGTTTAGTTTAATGTT
1 TTGTGATTGTTTA--TTAATGTT
*
15810835 TTGTGATTTTTTATTAATGT
1 TTGTGATTGTTTATTAATGT
15810855 AAATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (21 bp):
TTGTGATTGTTTATTAATGTT
Found at i:15810868 original size:16 final size:16
Alignment explanation
Indices: 15810840--15810876 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
15810830 ATGTTTTGTG
15810840 ATTTTTTATTAATGTAA
1 ATTTTTTATTAATGT-A
15810857 ATTTTTTA-TAATGTA
1 ATTTTTTATTAATGTA
15810872 ATTTT
1 ATTTT
15810877 ATTTGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 6 0.30
17 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (16 bp):
ATTTTTTATTAATGTA
Found at i:15813280 original size:75 final size:76
Alignment explanation
Indices: 15813188--15813350 Score: 247
Period size: 75 Copynumber: 2.2 Consensus size: 76
15813178 GTAATTTAAA
* * * * *
15813188 TAACTTTATATTTATGTAATGACTTTTTTGCCATTTTAGTTATTAATTTTAGGG-GTTTTTTGCA
1 TAACTTTGTATTTATGTAATGACTTTTTTGCCACTTCAATTATTAATTTTAGGGTGTTTTTTACA
*
15813252 ATTTAAATAGT
66 ATTTAAATAAT
*
15813263 TAACTTTGTATTTATGTAATGACTTTTTTGCCACTTCAATTATTAATTTTAGGGTTTTTTTTACA
1 TAACTTTGTATTTATGTAATGACTTTTTTGCCACTTCAATTATTAATTTTAGGGTGTTTTTTACA
15813328 ATTTAAATAAT
66 ATTTAAATAAT
*
15813339 AAACTTTGTATT
1 TAACTTTGTATT
15813351 ATTTAATTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 50 0.63
76 29 0.37
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.53
Consensus pattern (76 bp):
TAACTTTGTATTTATGTAATGACTTTTTTGCCACTTCAATTATTAATTTTAGGGTGTTTTTTACA
ATTTAAATAAT
Found at i:15815592 original size:23 final size:23
Alignment explanation
Indices: 15815566--15815619 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
15815556 TACTAAATAA
* *
15815566 ATTAATAACAAT-AAAATAATAT
1 ATTAATAAAAATCAAAATAAAAT
*
15815588 CATTAA-AAAAATCAAATTAAAAT
1 -ATTAATAAAAATCAAAATAAAAT
15815611 ATTAATAAA
1 ATTAATAAA
15815620 CTAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (23 bp):
ATTAATAAAAATCAAAATAAAAT
Found at i:15818882 original size:64 final size:64
Alignment explanation
Indices: 15818798--15818974 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
15818788 ATATATATTT
*
15818798 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
15818862 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
15818926 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
15818975 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:15819429 original size:41 final size:41
Alignment explanation
Indices: 15819093--15819415 Score: 443
Period size: 41 Copynumber: 7.9 Consensus size: 41
15819083 TATATGAGAT
15819093 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
15819134 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
15819175 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
15819216 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
* *
15819257 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCGGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
* * * * *
15819298 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
* * * * * * *
15819339 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-GATTA
* * ** *
15819381 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
15819416 TTTTATATAG
Statistics
Matches: 262, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
40 2 0.01
41 253 0.97
42 7 0.03
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.33
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
Found at i:15820107 original size:14 final size:15
Alignment explanation
Indices: 15820083--15820117 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
15820073 TACTTTAATC
15820083 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
15820098 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
15820113 ATGGT
1 ATGGT
15820118 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:15822375 original size:27 final size:27
Alignment explanation
Indices: 15822289--15822376 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
15822279 GCCGCTTATG
* ** *
15822289 AGATAGGTGTCACCAGTGGTGCCTACT
1 AGATAGGAGTCACCAGTGGCACCTACC
* *
15822316 AGATAAGAGTCACCAGTGGCACCTAGC
1 AGATAGGAGTCACCAGTGGCACCTACC
*
15822343 AGATAGGAGTCACCAGTGACACCTACC
1 AGATAGGAGTCACCAGTGGCACCTACC
15822370 AGATAGG
1 AGATAGG
15822377 CACCACCTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (27 bp):
AGATAGGAGTCACCAGTGGCACCTACC
Found at i:15825588 original size:9 final size:9
Alignment explanation
Indices: 15825574--15825631 Score: 62
Period size: 9 Copynumber: 6.0 Consensus size: 9
15825564 TTGTAAATAT
15825574 ATATTAAAA
1 ATATTAAAA
15825583 ATATTAAAA
1 ATATTAAAA
15825592 ATATTAAAA
1 ATATTAAAA
*
15825601 ATTACTAAAAA
1 A-TA-TTAAAA
*
15825612 ATCTTTAAAA
1 AT-ATTAAAA
15825622 ATATATAAAA
1 ATAT-TAAAA
15825632 TGCTAAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 20 0.49
10 15 0.37
11 6 0.15
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (9 bp):
ATATTAAAA
Found at i:15825601 original size:10 final size:10
Alignment explanation
Indices: 15825574--15825631 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
15825564 TTGTAAATAT
15825574 ATATT-AAAA
1 ATATTAAAAA
15825583 ATATT-AAAA
1 ATATTAAAAA
15825592 ATATTAAAAA
1 ATATTAAAAA
* *
15825602 TTACTAAAAA
1 ATATTAAAAA
* *
15825612 ATCTTTAAAA
1 ATATTAAAAA
15825622 ATATATAAAA
1 ATAT-TAAAA
15825632 TGCTAAATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
9 14 0.36
10 21 0.54
11 4 0.10
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
ATATTAAAAA
Found at i:15827697 original size:14 final size:15
Alignment explanation
Indices: 15827673--15827701 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15827663 TTTTTCTATG
15827673 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
15827688 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
15827702 AGTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:15828898 original size:43 final size:42
Alignment explanation
Indices: 15828848--15828963 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 42
15828838 TATGTGTTTT
*
15828848 CATGTAAGACCACATCTGGGACGTCGGCATCGATATCTGATTA
1 CATGTAAGACCACGTCTGGGACGT-GGCATCGATATCTGATTA
* ** *
15828891 CGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTA
1 CATGTAAGACCACGTCTGGGAC-GTGGCATCGATATCTGATTA
*
15828934 CATGTAAGACCACGTTTGGGACGATGGCAT
1 CATGTAAGACCACGTCTGGGACG-TGGCAT
15828964 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.02
43 59 0.95
44 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGACGTGGCATCGATATCTGATTA
Found at i:15843436 original size:34 final size:34
Alignment explanation
Indices: 15843398--15843471 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
15843388 TTTAGTGCTC
* *
15843398 TTTGGTTGTGTGGGATGGATACACTTATGTGCAA
1 TTTGGTTGTGAGGGATGAATACACTTATGTGCAA
*
15843432 TTTGGTTGTGAGGGATGAATGCACTTATGTGCAA
1 TTTGGTTGTGAGGGATGAATACACTTATGTGCAA
15843466 TTTGGT
1 TTTGGT
15843472 GTATTTAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.20, C:0.08, G:0.32, T:0.39
Consensus pattern (34 bp):
TTTGGTTGTGAGGGATGAATACACTTATGTGCAA
Found at i:15845418 original size:41 final size:41
Alignment explanation
Indices: 15845348--15845476 Score: 123
Period size: 41 Copynumber: 3.1 Consensus size: 41
15845338 GCACATATCT
* * * * *
15845348 TGAAATGATACACCGGCACAAAGCTTGCTAGGCTTAAAGCC
1 TGAAATAATACACCGGCATAAAGCCTGCTAGACATAAAGCC
** * *
15845389 TGATTTAATACACCGGCATGAAGCCTGCTAGACATAAAGTC
1 TGAAATAATACACCGGCATAAAGCCTGCTAGACATAAAGCC
* * * *
15845430 TGAAATATTTCACCGGCATCAAGCCTGCTAGTCACATAGAGCC
1 TGAAATAATACACCGGCATAAAGCCTGCTAG--ACATAAAGCC
15845473 TGAA
1 TGAA
15845477 TATCTTGGAT
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 58 0.83
43 12 0.17
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (41 bp):
TGAAATAATACACCGGCATAAAGCCTGCTAGACATAAAGCC
Done.