Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold648
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: 536246
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 2 of 4
Found at i:145880 original size:15 final size:15
Alignment explanation
Indices: 145857--145928 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 15
145847 TTTAAAAATA
*
145857 TTATTTAATAATA-T
1 TTATATAATAATATT
145871 TT-TAT-ATAATA--
1 TTATATAATAATATT
*
145882 TTATTTAATAATATT
1 TTATATAATAATATT
*
145897 TTATATAATATTATT
1 TTATATAATAATATT
* *
145912 CATATATAAAAATATT
1 -TTATATAATAATATT
145928 T
1 T
145929 AAATAAATTA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
11 2 0.04
12 8 0.18
13 8 0.18
14 2 0.04
15 13 0.29
16 12 0.27
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATATAATAATATT
Found at i:145881 original size:25 final size:25
Alignment explanation
Indices: 145853--145911 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
145843 TAGGTTTAAA
145853 AATATTATTTAATAATATTTTATAT
1 AATATTATTTAATAATATTTTATAT
145878 AATATTATTTAATAATATTTTATAT
1 AATATTATTTAATAATATTTTATAT
145903 AATATTATT
1 AATATTATT
145912 CATATATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
AATATTATTTAATAATATTTTATAT
Found at i:146163 original size:16 final size:17
Alignment explanation
Indices: 146134--146169 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
146124 TTTAATATTT
146134 ATAACATAACATTTTAA
1 ATAACATAACATTTTAA
*
146151 ATAA-ATAATATTTTAA
1 ATAACATAACATTTTAA
146167 ATA
1 ATA
146170 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAACATAACATTTTAA
Found at i:146178 original size:13 final size:12
Alignment explanation
Indices: 146152--146193 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
146142 ACATTTTAAA
*
146152 TAAATAATATTT
1 TAAATATTATTT
146164 TAAATATTAATTT
1 TAAATATT-ATTT
146177 TAAAATATT-TTT
1 T-AAATATTATTT
146189 TAAAT
1 TAAAT
146194 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 4 0.15
12 11 0.41
13 5 0.19
14 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAATATTATTT
Found at i:151489 original size:2 final size:2
Alignment explanation
Indices: 151484--151509 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
151474 TGATTAAAAA
151484 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
151510 TGTGGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:154637 original size:105 final size:105
Alignment explanation
Indices: 154455--154664 Score: 393
Period size: 105 Copynumber: 2.0 Consensus size: 105
154445 AAGCAAGTCT
154455 TTTAGATCTTCCACCAGATTCCAGGAACTAGGAGGCAATGCTGCTACAATTATTTTGAAGTTTTA
1 TTTAGATCTTCCACCAGATTCCAGGAACTAGGAGGCAATGCTGCTACAATTATTTTGAAGTTTTA
* *
154520 AGGCTTAGTTAGGCAAGTATAAAGTATAGTGTTGAATTGC
66 AGGCTTAGTTAGGCAAGTAGAAAGTATAGCGTTGAATTGC
*
154560 TTTAGATCTTCCACCAGATTCCAGGAACTGGGAGGCAATGCTGCTACAATTATTTTGAAGTTTTA
1 TTTAGATCTTCCACCAGATTCCAGGAACTAGGAGGCAATGCTGCTACAATTATTTTGAAGTTTTA
154625 AGGCTTAGTTAGGCAAGTAGAAAGTATAGCGTTGAATTGC
66 AGGCTTAGTTAGGCAAGTAGAAAGTATAGCGTTGAATTGC
154665 ATTGCCTTGT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 102 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (105 bp):
TTTAGATCTTCCACCAGATTCCAGGAACTAGGAGGCAATGCTGCTACAATTATTTTGAAGTTTTA
AGGCTTAGTTAGGCAAGTAGAAAGTATAGCGTTGAATTGC
Found at i:156485 original size:26 final size:26
Alignment explanation
Indices: 156434--156485 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
156424 GTTAATAATT
*
156434 TATATAAAATAAAATTTATAACATTA
1 TATATAAAATAAAATTTACAACATTA
* * *
156460 TATATAACATAAAATTTGCAATATTA
1 TATATAAAATAAAATTTACAACATTA
156486 CGCTTTCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (26 bp):
TATATAAAATAAAATTTACAACATTA
Found at i:157107 original size:2 final size:2
Alignment explanation
Indices: 157061--157090 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
157051 CAGATAAAAT
157061 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
157091 AGATTATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:161048 original size:31 final size:31
Alignment explanation
Indices: 160998--161064 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
160988 AATTTGATTT
* *
160998 AAAAAATTTTAACTTAAAAAGCTTAAATCTG
1 AAAAAATTTGAACTTAAAAAACTTAAATCTG
* *
161029 AAAAAATTTGAA-TTAAAAAAATTTAAGTCTG
1 AAAAAATTTGAACTT-AAAAAACTTAAATCTG
161060 AAAAA
1 AAAAA
161065 GTTCAAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (31 bp):
AAAAAATTTGAACTTAAAAAACTTAAATCTG
Found at i:162901 original size:19 final size:18
Alignment explanation
Indices: 162877--162916 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
162867 ACAATAAAAA
162877 CAAATCTACTAATGGATTT
1 CAAATCT-CTAATGGATTT
* *
162896 CAAATCTTTAGTGGATTT
1 CAAATCTCTAATGGATTT
162914 CAA
1 CAA
162917 TTTGCATCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
CAAATCTCTAATGGATTT
Found at i:164409 original size:97 final size:97
Alignment explanation
Indices: 164168--164398 Score: 336
Period size: 97 Copynumber: 2.4 Consensus size: 97
164158 GGGGTTAGAG
* * *
164168 TATCTCCTCGGAGGAATGGGGTTGGAGTGTCCCCAATGATGAGAATTTAAGTGAGAATAAAATTT
1 TATCCCCTCGGAGGAATAGGGTTGGAGTGTCCCCAATGATGAAAATTTAAGTGAGAATAAAATTT
* *
164233 AAACTTTGATGCGTTTAAAAGCGGGGTTGTAG
66 AAACTTTGATGCGTTTAAAAGCGGGGTTGAAA
* * * * * * *
164265 CATCCCGTCGAAGGAATAGGGTTGAAGTGTCCCCGATGATGACAATTTAAGTGAGAATAAGATTT
1 TATCCCCTCGGAGGAATAGGGTTGGAGTGTCCCCAATGATGAAAATTTAAGTGAGAATAAAATTT
*
164330 AAACTTTGATGTGTTTAAAAGCGGGGTTGAAA
66 AAACTTTGATGCGTTTAAAAGCGGGGTTGAAA
*
164362 TATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCAAT
1 TATCCCCTCGGAGGAATAGGGTTGGAGTGTCCCCAAT
164399 AAATAAAATT
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
97 116 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (97 bp):
TATCCCCTCGGAGGAATAGGGTTGGAGTGTCCCCAATGATGAAAATTTAAGTGAGAATAAAATTT
AAACTTTGATGCGTTTAAAAGCGGGGTTGAAA
Found at i:166706 original size:20 final size:20
Alignment explanation
Indices: 166674--166724 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
166664 AAAAAGACAG
*
166674 AATGTAT-GATACATTCATA
1 AATGTATCGATACATTCAAA
* *
166693 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
166713 AATGTATCGATA
1 AATGTATCGATA
166725 TATCTAGGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:166710 original size:70 final size:71
Alignment explanation
Indices: 166573--166738 Score: 262
Period size: 70 Copynumber: 2.4 Consensus size: 71
166563 AAATTATTCC
* *
166573 ATATATCGATAGATTTGGGTAAAAAGATAGAATGTATCGATACATTCATACATGTATCGATACAT
1 ATATATCGATACATTTGGGTAAAAAGACAGAATGTATCGATACATTCATACATGTATCGATACAT
166638 TGAAAA
66 TGAAAA
*
166644 ATATGTCGATACATTTGGGTAAAAAGACAGAATGTAT-GATACATTCATACATGTATCGATACAT
1 ATATATCGATACATTTGGGTAAAAAGACAGAATGTATCGATACATTCATACATGTATCGATACAT
166708 TGAAAA
66 TGAAAA
* * * *
166714 ATGTATCGATATATCTAGGTAAAAA
1 ATATATCGATACATTTGGGTAAAAA
166739 TGTAACTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
70 53 0.61
71 34 0.39
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (71 bp):
ATATATCGATACATTTGGGTAAAAAGACAGAATGTATCGATACATTCATACATGTATCGATACAT
TGAAAA
Found at i:167588 original size:28 final size:28
Alignment explanation
Indices: 167510--168118 Score: 699
Period size: 28 Copynumber: 21.6 Consensus size: 28
167500 CACCAACTTG
* *
167510 TGTGGGCTTTAGAGAAAGTTACCACTGACTTT
1 TGTGGGCTTT-GA-AAAGATGCCACTGAC--T
167542 TGTGGGCTTT-AAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
** * * *
167570 TGTGGATTTTGAGAAGATGCCTCTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
167598 TGTGGGCTTTGAAGAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
167626 TGTGGGCTTT-AAAAGGATGCCACGGACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
** * *
167654 CATGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
167682 TGTGGGCTTTGAAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
167710 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
167738 CGTGGGCTTTGAAAAG-TGCCATTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
167765 TGTGGGCTTGGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
167793 TGTGGGCTTTAAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
167821 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* *
167850 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
167878 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
167906 TGTGGGCTTAGAAAAAGATGCCACTAACT
1 TGTGGGCTTTG-AAAAGATGCCACTGACT
* * *
167935 TGTAGACTTTGAAAAGATGCCACTGGCT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* * *
167963 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
* *
167991 TGTGGGCTTT-AAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
* *
168019 TGTGGGCTTT-AAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAA-GATGCCACTGACT
168047 TGTGGGC-TTGTAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAAAGATGCCACTGACT
**
168075 TGTGGGCTTTGAAAAGATGCCACCAACT
1 TGTGGGCTTTGAAAAGATGCCACTGACT
*
168103 TGGGGGCTTTGAAAAG
1 TGTGGGCTTTGAAAAG
168119 GATGGTGTTA
Statistics
Matches: 501, Mismatches: 65, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
27 32 0.06
28 385 0.77
29 63 0.13
30 11 0.02
32 10 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGATGCCACTGACT
Found at i:168453 original size:13 final size:13
Alignment explanation
Indices: 168435--168459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
168425 ATGTTGCACA
168435 GTATCGATACATT
1 GTATCGATACATT
168448 GTATCGATACAT
1 GTATCGATACAT
168460 GTTGCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:168454 original size:33 final size:33
Alignment explanation
Indices: 168412--168477 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
168402 TACACATTTA
168412 ATTGTATCGATACATGTTGCACAGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
**
168445 ATTGTATCGATACATGTTGCATTGTATCGATAC
1 ATTGTATCGATACATGTTGCACAGTATCGATAC
168478 TTGAAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACATGTTGCACAGTATCGATAC
Found at i:174754 original size:13 final size:13
Alignment explanation
Indices: 174736--174761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
174726 ACAGAATTCT
174736 TTGTATCGATACA
1 TTGTATCGATACA
174749 TTGTATCGATACA
1 TTGTATCGATACA
174762 GGGGGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:174928 original size:20 final size:20
Alignment explanation
Indices: 174893--174933 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
174883 CAAATTTCTT
174893 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
174915 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
174934 TTCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:177191 original size:13 final size:13
Alignment explanation
Indices: 177173--177197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
177163 ATGTTGCACA
177173 GTATCGATACATT
1 GTATCGATACATT
177186 GTATCGATACAT
1 GTATCGATACAT
177198 GTTGCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:177192 original size:33 final size:32
Alignment explanation
Indices: 177148--177218 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 32
177138 GATACACATT
177148 TAATTGTATCGATACATGTTGCACAGTATCGA
1 TAATTGTATCGATACATGTTGCACAGTATCGA
**
177180 TACATTGTATCGATACATGTTGCATTGTATCGA
1 TA-ATTGTATCGATACATGTTGCACAGTATCGA
177213 TAATTG
1 TAATTG
177219 AAAAAGATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (32 bp):
TAATTGTATCGATACATGTTGCACAGTATCGA
Found at i:177306 original size:13 final size:13
Alignment explanation
Indices: 177288--177313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
177278 TACACAAAGT
177288 ATGTATCGATACA
1 ATGTATCGATACA
177301 ATGTATCGATACA
1 ATGTATCGATACA
177314 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:177330 original size:33 final size:32
Alignment explanation
Indices: 177270--177333 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
177260 TAGCCAAACT
*
177270 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGAATGTATCGATACAA
177302 TGTATCGATACACCATAA-AATGTATCGATACA
1 TGTATCGATACA-CA-AAGAATGTATCGATACA
177334 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 15 0.52
34 2 0.07
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGAATGTATCGATACAA
Found at i:178109 original size:28 final size:28
Alignment explanation
Indices: 178077--179177 Score: 829
Period size: 28 Copynumber: 39.5 Consensus size: 28
178067 CAGATGGCAT
* * *
178077 TGACTTATGGACTTTGAAAGAATGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * * *
178105 TGACTTGTTGTCTTTGAAAGGGTGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * * **
178133 TGATTTGTGGGCTTGGAAAA-GATATCAC
1 TGACTTGTGGACTT-TAAAAGGATGCCAC
*
178161 TGACTTGTGGGCTTTGAAAA-GATGCCAC
1 TGACTTGTGGACTTT-AAAAGGATGCCAC
*
178189 CGACTTGTGGACTTTAAAAAGGATGCCAC
1 TGACTTGTGGACTTT-AAAAGGATGCCAC
* *
178218 CGACTTGTGGATTTTAAAAGGATGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * *
178246 TGACTTGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * * * *
178274 TAACTTATGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * *
178302 TGAGTTGTGGAC-TTAAAAGGTTGCTAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * *
178329 GGAGC-TGTGGACTTAAAAAGGATACCAC
1 TGA-CTTGTGGACTTTAAAAGGATGCCAC
* * * *
178357 AGAGTTGTAGACTTTAAAAGGATGCCAT
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * *
178385 TGACTTGTGGGCTTTGAAAGGGTGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * *
178413 TAAGTTGTGGAC-TTAAAAGGTTGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* *
178440 GGAGC-TGTGGACTTAAAAAGGATGCCAC
1 TGA-CTTGTGGACTTTAAAAGGATGCCAC
* *
178468 AGAGTTGTGGACTTTAAAAGGATGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* *
178496 GGAGTTGTGGACTTTAAAAGGATGCCA-
1 TGACTTGTGGACTTTAAAAGGATGCCAC
*
178523 TGGAGTTGTGGACTTTAAAAGGATGCCAC
1 T-GACTTGTGGACTTTAAAAGGATGCCAC
* * *
178552 GGAGTTGTGGACTTTAAAAGGTTGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * * *
178580 AGAGTTGTGGAC-TTAAAAGGTTTCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* ** *
178607 GGAGC-TGCAGACTTAAAAAGGATGCCAC
1 TGA-CTTGTGGACTTTAAAAGGATGCCAC
* *
178635 GGAGTTGTGGACTTTAAAAAGGATGCCA-
1 TGACTTGTGGACTTT-AAAAGGATGCCAC
* *
178663 TGGAGTTGTGGACTTTAAAAGGTTGCCAC
1 T-GACTTGTGGACTTTAAAAGGATGCCAC
* * * *
178692 AGAGTTATGGAC-TTAAAAGGTTGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* *
178719 GGAGC-TGTGGAC-TTGAAAGGATGCCAC
1 TGA-CTTGTGGACTTTAAAAGGATGCCAC
* *
178746 GGAGTTGTGGACTTTAAAAGGATGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* *
178774 AGAATTGTGGAC-TTAAAAGGATGCCA-
1 TGACTTGTGGACTTTAAAAGGATGCCAC
*
178800 TGGAGTTGTGGACTTTAAAAGGATGCCAC
1 T-GACTTGTGGACTTTAAAAGGATGCCAC
* * *
178829 -GCAGTTGTGAAC-TTAAAAGGTTGCCA-
1 TG-ACTTGTGGACTTTAAAAGGATGCCAC
* * *
178855 TGGAGTTGTAGAC-TTAAAA-GATTACCA-
1 T-GACTTGTGGACTTTAAAAGGA-TGCCAC
* *
178882 TGGAGTTGTAGACTTTAAAAGGATGCCA-
1 T-GACTTGTGGACTTTAAAAGGATGCCAC
*
178910 TGGAGTTGTGGACTTTAAAAGGATGCCA-
1 T-GACTTGTGGACTTTAAAAGGATGCCAC
*
178938 TGGAGTTGTGGACTTTAAAAGGATGCCAC
1 T-GACTTGTGGACTTTAAAAGGATGCCAC
* *
178967 AGAGTTGTGGACTTTAAAAGGATGCCA-
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * * *
178994 TGGAGTTGTTGAATTTAAAAGGTTGCCA-
1 T-GACTTGTGGACTTTAAAAGGATGCCAC
* * *
179022 TGGAGTTGTGGAATTTAAAAGGTTGCCA-
1 T-GACTTGTGGACTTTAAAAGGATGCCAC
* * *
179050 TGGAGTTGTGGACTTTAAAAGGTTTCCAC
1 T-GACTTGTGGACTTTAAAAGGATGCCAC
* * *
179079 GGAGTTGTGGAC-TTAAAAGGGTGCCAC
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* * * * *
179106 GGAGTTGTGGAC-TTAAAGGGTTTCCA-
1 TGACTTGTGGACTTTAAAAGGATGCCAC
* *
179132 TGGAGTTGTGGACTTTGAAAAGAAATGCCAC
1 T-GACTTGTGGACTTT-AAAAG-GATGCCAC
* *
179163 TGAATCGTGGACTTT
1 TGACTTGTGGACTTT
179178 GAAGAGGTCA
Statistics
Matches: 908, Mismatches: 128, Indels: 72
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.00
27 225 0.25
28 608 0.67
29 57 0.06
30 16 0.02
31 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.28
Consensus pattern (28 bp):
TGACTTGTGGACTTTAAAAGGATGCCAC
Found at i:178394 original size:139 final size:139
Alignment explanation
Indices: 178183--179146 Score: 1133
Period size: 139 Copynumber: 6.9 Consensus size: 139
178173 TTTGAAAAGA
* * * * *
178183 TGCCACCGACTTGTGGACTTTAAAAAGGATGCCACCGACTTGTGGATTTTAAAAGGATGCCACT-
1 TGCCACGGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCA-TG
* * * * * * * * *
178247 GACTTGTGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCACTGAGTTGTGG
64 GAGTTGTGGACTTTAAAAGGATGCCACTAAGTTGTGGACTTTAAAAGGTTGCCACTGAGTTGTGG
178312 ACTTAAAAGGT
129 ACTTAAAAGGT
* * * * * * *
178323 TGCTACGGAGCTGTGGACTTAAAAAGGATACCACAGAGTTGTAGACTTTAAAAGGATGCCATTGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGA
* * * * * *
178388 CTTGTGGGCTTTGAAAGGGTGCCACTAAGTTGTGGAC-TTAAAAGGTTGCCACGGAGCTGTGGAC
66 GTTGTGGACTTTAAAAGGATGCCACTAAGTTGTGGACTTTAAAAGGTTGCCACTGAGTTGTGGAC
*
178452 TTAAAAAGGA
131 TT-AAAAGGT
*
178462 TGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGA
** *
178527 GTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGTTGCCACAGAGTTGTGGAC
66 GTTGTGGACTTTAAAAGGATGCCACTAAGTTGTGGACTTTAAAAGGTTGCCACTGAGTTGTGGAC
178592 TTAAAAGGT
131 TTAAAAGGT
* * ** *
178601 TTCCACGGAGCTGCAGACTTAAAAAGGATGCCACGGAGTTGTGGACTTTAAAAAGGATGCCATGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTT-AAAAGGATGCCATGG
* * * *
178666 AGTTGTGGACTTTAAAAGGTTGCCAC-AGAGTTATGGAC-TTAAAAGGTTGCCACGGAGCTGTGG
65 AGTTGTGGACTTTAAAAGGATGCCACTA-AGTTGTGGACTTTAAAAGGTTGCCACTGAGTTGTGG
* *
178729 ACTTGAAAGGA
129 ACTTAAAAGGT
* *
178740 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAATTGTGGAC-TTAAAAGGATGCCATGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGA
** * *
178804 GTTGTGGACTTTAAAAGGATGCCACGCAGTTGTGAAC-TTAAAAGGTTGCCA-TGGAGTTGTAGA
66 GTTGTGGACTTTAAAAGGATGCCACTAAGTTGTGGACTTTAAAAGGTTGCCACT-GAGTTGTGGA
*
178867 CTTAAAAGAT
130 CTTAAAAGGT
* * * *
178877 TACCATGGAGTTGTAGACTTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGATGCCATGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGA
*
178942 GTTGTGGACTTTAAAAGGATGCCAC-AGAGTTGTGGACTTTAAAAGGATGCCA-TGGAGTTGTTG
66 GTTGTGGACTTTAAAAGGATGCCACTA-AGTTGTGGACTTTAAAAGGTTGCCACT-GAGTTG-TG
* *
179005 AATTTAAAAGGT
128 GACTTAAAAGGT
* * * * * * *
179017 TGCCATGGAGTTGTGGAATTTAAAAGGTTGCCATGGAGTTGTGGACTTTAAAAGGTTTCCACGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGA
* ** * *
179082 GTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGGGTTTCCA-TGGAGTTGTGGA
66 GTTGTGGACTTTAAAAGGATGCCACTAAGTTGTGGACTTTAAAAGGTTGCCACT-GAGTTGTGGA
179144 CTT
130 CTT
179147 TGAAAAGAAA
Statistics
Matches: 720, Mismatches: 92, Indels: 27
0.86 0.11 0.03
Matches are distributed among these distances:
137 122 0.17
138 99 0.14
139 330 0.46
140 169 0.23
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (139 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGA
GTTGTGGACTTTAAAAGGATGCCACTAAGTTGTGGACTTTAAAAGGTTGCCACTGAGTTGTGGAC
TTAAAAGGT
Found at i:178590 original size:56 final size:56
Alignment explanation
Indices: 178084--179177 Score: 1107
Period size: 56 Copynumber: 19.6 Consensus size: 56
178074 CATTGACTTA
* * * * * * * * * *
178084 TGGACTTTGAAAGAATGCCACTGACTTGTTGTCTTTGAAAGGGTGCCACTGATTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * ** * * * * *
178140 TGGGCTTGGAAAA-GATATCACTGACTTGTGGGCTTTGAAAA-GATGCCACCGACTTG
1 TGGACTT-TAAAAGGATGCCACGGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTG
* * * * *
178196 TGGACTTTAAAAAGGATGCCACCGACTTGTGGATTTTAAAAGGATGCCACTGACTTG
1 TGGACTTT-AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * ** * * * * * *
178253 TGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCACTGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * * * *
178309 TGGAC-TTAAAAGGTTGCTACGGAGCTGTGGACTTAAAAAGGATACCACAGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* ** * * * * **
178364 TAGACTTTAAAAGGATGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTAAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * *
178420 TGGAC-TTAAAAGGTTGCCACGGAGCTGTGGACTTAAAAAGGATGCCACAGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
*
178475 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* *
178531 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGTTGCCACAGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * ** *
178587 TGGAC-TTAAAAGGTTTCCACGGAGCTGCAGACTTAAAAAGGATGCCACGGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * *
178642 TGGACTTTAAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGTTGCCACAGAGTTA
1 TGGACTTT-AAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * *
178699 TGGAC-TTAAAAGGTTGCCACGGAGCTGTGGAC-TTGAAAGGATGCCACGGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * *
178753 TGGACTTTAAAAGGATGCCACAGAATTGTGGAC-TTAAAAGGATGCCATGGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * *
178808 TGGACTTTAAAAGGATGCCACGCAGTTGTGAAC-TTAAAAGGTTGCCATGGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * * *
178863 TAGAC-TTAAAA-GATTACCATGGAGTTGTAGACTTTAAAAGGATGCCATGGAGTTG
1 TGGACTTTAAAAGGA-TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* *
178918 TGGACTTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * * *
178974 TGGACTTTAAAAGGATGCCATGGAGTTGTTGAATTTAAAAGGTTGCCATGGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * * *
179030 TGGAATTTAAAAGGTTGCCATGGAGTTGTGGACTTTAAAAGGTTTCCACGGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * * *
179086 TGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGGGTTTCCATGGAGTTG
1 TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
* * * *
179140 TGGACTTTGAAAAGAAATGCCACTGAATCGTGGACTTT
1 TGGACTTT-AAAAG-GATGCCACGGAGTTGTGGACTTT
179178 GAAGAGGTCA
Statistics
Matches: 871, Mismatches: 149, Indels: 34
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.00
54 67 0.08
55 302 0.35
56 393 0.45
57 105 0.12
58 2 0.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (56 bp):
TGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTG
Found at i:180470 original size:19 final size:18
Alignment explanation
Indices: 180417--180471 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
180407 GTCTTTTTTT
* *
180417 TTTTATTTTTGTTGTTCCC
1 TTTT-TTTTTGTTTTTCAC
*
180436 TTTTTATTTTGCTTTTGCAC
1 TTTTT-TTTTG-TTTTTCAC
180456 TTTTTTTTTGTTTTTC
1 TTTTTTTTTGTTTTTC
180472 TTTTCATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.20
19 14 0.47
20 10 0.33
ACGTcount: A:0.05, C:0.13, G:0.09, T:0.73
Consensus pattern (18 bp):
TTTTTTTTTGTTTTTCAC
Found at i:185183 original size:20 final size:20
Alignment explanation
Indices: 185160--185197 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
185150 AAAGTACCTA
185160 AATGTATCAATACATTCTTC
1 AATGTATCAATACATTCTTC
*
185180 AATGTATCGATACATTCT
1 AATGTATCAATACATTCT
185198 GTGTTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (20 bp):
AATGTATCAATACATTCTTC
Found at i:196670 original size:33 final size:33
Alignment explanation
Indices: 196633--196699 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
196623 TTCAACGATT
196633 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
196666 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
196699 T
1 T
196700 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:196671 original size:13 final size:13
Alignment explanation
Indices: 196653--196677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
196643 CATAAAATGT
196653 TGTATCGATACAA
1 TGTATCGATACAA
196666 TGTATCGATACA
1 TGTATCGATACA
196678 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:196758 original size:13 final size:13
Alignment explanation
Indices: 196740--196764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
196730 ATTACTCAAA
196740 TGTATCGATACAT
1 TGTATCGATACAT
196753 TGTATCGATACA
1 TGTATCGATACA
196765 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:196866 original size:52 final size:52
Alignment explanation
Indices: 196773--196900 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
196763 CACTGATCTT
*
196773 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
196824 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
196876 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
196901 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:202755 original size:14 final size:14
Alignment explanation
Indices: 202736--202815 Score: 81
Period size: 14 Copynumber: 5.6 Consensus size: 14
202726 CCTTTACACC
*
202736 CAAAAAAAAAACAA
1 CAAAAAAAAAAAAA
202750 CAAAAAAAAACAAAA
1 CAAAAAAAAA-AAAA
*
202765 -AAAAAACAAAAAA
1 CAAAAAAAAAAAAA
202778 CAAAAAACAAAAAAA
1 CAAAAAA-AAAAAAA
* * *
202793 CCAAGAAAAAAATAG
1 -CAAAAAAAAAAAAA
202808 CAAAAAAA
1 CAAAAAAA
202816 TAGAAAGGGG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
13 4 0.07
14 31 0.56
15 14 0.25
16 6 0.11
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (14 bp):
CAAAAAAAAAAAAA
Found at i:202756 original size:10 final size:10
Alignment explanation
Indices: 202741--202803 Score: 62
Period size: 10 Copynumber: 6.6 Consensus size: 10
202731 ACACCCAAAA
202741 AAAAAACAAC
1 AAAAAACAAC
*
202751 AAAAAAAAAC
1 AAAAAACAAC
202761 AAAAAA-AA-
1 AAAAAACAAC
202769 AACAAAA-AAC
1 AA-AAAACAAC
202779 AAAAAACAA-
1 AAAAAACAAC
* *
202788 AAAAACCAAG
1 AAAAAACAAC
202798 AAAAAA
1 AAAAAA
202804 ATAGCAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
8 2 0.04
9 20 0.43
10 24 0.52
ACGTcount: A:0.86, C:0.13, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAACAAC
Found at i:202756 original size:11 final size:11
Alignment explanation
Indices: 202736--202815 Score: 81
Period size: 11 Copynumber: 6.7 Consensus size: 11
202726 CCTTTACACC
202736 CAAAAAAAAAA
1 CAAAAAAAAAA
202747 CAACAAAAAAAAA
1 C-A-AAAAAAAAA
202760 CAAAAAAAAAA
1 CAAAAAAAAAA
202771 CAAAAAACAAAA
1 CAAAAAA-AAAA
*
202783 -AACAAAAAAAC
1 CAA-AAAAAAAA
202794 CAAGAAAAAAATA
1 CAA-AAAAAAA-A
202807 GCAAAAAAA
1 -CAAAAAAA
202816 TAGAAAGGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
11 22 0.37
12 19 0.32
13 15 0.25
14 3 0.05
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:202766 original size:7 final size:7
Alignment explanation
Indices: 202736--202791 Score: 71
Period size: 7 Copynumber: 8.0 Consensus size: 7
202726 CCTTTACACC
202736 CAAAAAA
1 CAAAAAA
202743 -AAAACAA
1 CAAAA-AA
202750 CAAAAAA
1 CAAAAAA
202757 -AAACAAA
1 CAAA-AAA
*
202764 AAAAAAA
1 CAAAAAA
202771 CAAAAAA
1 CAAAAAA
202778 CAAAAAA
1 CAAAAAA
202785 CAAAAAA
1 CAAAAAA
202792 ACCAAGAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
6 7 0.16
7 30 0.68
8 7 0.16
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAA
Found at i:202767 original size:23 final size:23
Alignment explanation
Indices: 202738--202815 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 23
202728 TTTACACCCA
*
202738 AAAAAAAAACAACAAAAAAAAAC
1 AAAAAAAAACAAAAAAAAAAAAC
202761 AAAAAAAAAACAAAAAACAAAAAAC
1 -AAAAAAAAACAAAAAA-AAAAAAC
* * *
202786 -AAAAAAACCAAGAAAAAAATAGC
1 AAAAAAAAACAA-AAAAAAAAAAC
202809 AAAAAAA
1 AAAAAAA
202816 TAGAAAGGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 15 0.32
24 25 0.53
25 7 0.15
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.01
Consensus pattern (23 bp):
AAAAAAAAACAAAAAAAAAAAAC
Found at i:202768 original size:24 final size:25
Alignment explanation
Indices: 202736--202792 Score: 98
Period size: 24 Copynumber: 2.3 Consensus size: 25
202726 CCTTTACACC
*
202736 CAAAAAAAAAACAACAAA-AAAAAA
1 CAAAAAAAAAACAAAAAACAAAAAA
202760 CAAAAAAAAAACAAAAAACAAAAAA
1 CAAAAAAAAAACAAAAAACAAAAAA
202785 CAAAAAAA
1 CAAAAAAA
202793 CCAAGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 17 0.55
25 14 0.45
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (25 bp):
CAAAAAAAAAACAAAAAACAAAAAA
Found at i:202782 original size:25 final size:24
Alignment explanation
Indices: 202737--202815 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 24
202727 CTTTACACCC
*
202737 AAAAAAAAAACAACAAAAAAAA-AC
1 AAAAAAAAAACAA-AAAAAAAACAA
*
202761 AAAAAAAAAACAAAAAACAAA-AA
1 AAAAAAAAAACAAAAAAAAAACAA
* *
202784 ACAAAAAAACCAAGAAAAAAATAGCAA
1 AAAAAAAAAACAA-AAAAAAA-A-CAA
202811 AAAAA
1 AAAAA
202816 TAGAAAGGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
23 19 0.42
24 19 0.42
25 1 0.02
27 6 0.13
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (24 bp):
AAAAAAAAAACAAAAAAAAAACAA
Found at i:202804 original size:1 final size:1
Alignment explanation
Indices: 202737--202792 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
202727 CTTTACACCC
* * * * * *
202737 AAAAAAAAAACAACAAAAAAAAACAAAAAAAAAACAAAAAACAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
202793 CCAAGAAAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:204078 original size:28 final size:29
Alignment explanation
Indices: 204036--204930 Score: 1106
Period size: 28 Copynumber: 30.8 Consensus size: 29
204026 CGTTCATCTC
* * *
204036 TTCAAAGCCCGCAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
204064 TTCAAAACCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
204093 TTCAAAACCCACAAATCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
204122 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
204151 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
204183 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
** *
204212 TTCAAAGCCCACACGAGTTGGTGGCAACTTTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
* *
204244 TTCAAAGCCCACAAGTTAGTGACACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
204273 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
204301 TTCAAAACCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
204329 TTCAAAGCCCACAAGTCAGTGGCACTCTC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
204358 TTCAAAGCCCACACGAGTCGGTGGCAACTTTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
*
204390 TTCAAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTC-AAAGCCCACAAGTCAGTGGCACTCTT
*
204419 TTCAAAGCCCACAA-TTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
204447 TTCAAAGCCCACAAGTCAGTGGCACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
204475 TTCAAAGCCCACAAGTCAGTGGCA--C--
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
204500 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
204528 TTCAAAGCCAACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
204557 TTCAAAGCCCACACGAGTC-GATGGTAACTTTT
1 TTCAAAGCCCACA--AGTCAG-TGG-CACTCTT
*
204589 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
204618 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
204646 TTCAAAGCCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
204674 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
204703 TTCAAAGCCCACACGAGTCGGTTGCAACTTTT
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCTT
*
204735 TTCAAAACCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
204764 TTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
204792 TTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
204820 TTCAAAGCCCATAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
204848 TTCAAAGCCCATGCAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACTCTT
204878 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
204907 TTCAAAGCCCACAAGTTAGTGGCA
1 TTCAAAGCCCACAAGTCAGTGGCA
204931 TCCTTTTTGA
Statistics
Matches: 771, Mismatches: 65, Indels: 61
0.86 0.07 0.07
Matches are distributed among these distances:
25 24 0.03
26 2 0.00
27 9 0.01
28 281 0.36
29 255 0.33
30 60 0.08
31 51 0.07
32 79 0.10
33 10 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:204375 original size:146 final size:145
Alignment explanation
Indices: 204036--204930 Score: 1099
Period size: 146 Copynumber: 6.2 Consensus size: 145
204026 CGTTCATCTC
* * * * * *
204036 TTCAAAGCCCGCAAGTTAGTGGCACCCT-TTCAAAACCCACAAGTCAGTGGCACTCTTTTCAAAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
*
204100 CCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAC
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA-
*
204165 GAGTCGGTGGCAACTCTT
130 -AGTCAGTGGC-ACTCTT
* ** **
204183 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCAACTTTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAAGCCCACA--AGTCAGTGGC-ACTCCTTTCA
* * * *
204248 AAGCCCACAAGTTAGTGACACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAACCCA
63 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA
* *
204312 CAAGTTAGTGGCAC-CCT
128 CAAGTCAGTGGCACTCTT
* **
204329 TTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAAGCCCACACGAGTCGGTGGCAACTTTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAAGCCCACA--AGTCAGTGGC-ACTCCTTTC-
* *
204394 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAA-TTAGTGGCACTCTTTTCAAAGCCC
62 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCC
204457 ACAAGTCAGTGGCACTC-T
127 ACAAGTCAGTGGCACTCTT
204475 TTCAAAGCCCACAAGTCAGTGGCA----CTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
* * * *
204535 CCAACAAGTCAATGGCACTCTTTTCAAAGCCCACACGAGTC-GATGGTAACTTTTTTCAAAGCCC
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAG-TGG-CACTCTTTTCAAAGCCC
*
204599 ACAAGTTAGTGGCACTCTT
127 ACAAGTCAGTGGCACTCTT
* *
204618 TTCAAAGCCCACAAGTCAGTGGCACCCT-TTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
* * * * *
204681 CCCATAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTTGCAACTTTTTTCAAAACCCA
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCA
204746 CAAGTCAGTGGCACTCTT
128 CAAGTCAGTGGCACTCTT
* *
204764 TTCAAAGCCCACAAGTTAGTGGCA-TC-CTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTC-TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
* * *
204826 GCCCATAAGTCAGTGGCAC-CCTTTCAAAGCCCATGCAAGTCAGTGGCAC-CCTTTCAAAGCCCA
65 GCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCACTCTTTTCAAAGCCCA
204889 CAAGTCAGTGGCACTCTT
128 CAAGTCAGTGGCACTCTT
*
204907 TTCAAAGCCCACAAGTTAGTGGCA
1 TTCAAAGCCCACAAGTCAGTGGCA
204931 TCCTTTTTGA
Statistics
Matches: 672, Mismatches: 51, Indels: 54
0.86 0.07 0.07
Matches are distributed among these distances:
137 20 0.03
138 19 0.03
139 2 0.00
140 11 0.02
141 4 0.01
142 45 0.07
143 78 0.12
144 2 0.00
145 31 0.05
146 312 0.46
147 51 0.08
148 20 0.03
150 22 0.03
151 55 0.08
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (145 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG
CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAA
GTCAGTGGCACTCTT
Found at i:204721 original size:345 final size:348
Alignment explanation
Indices: 204039--204919 Score: 1414
Period size: 345 Copynumber: 2.5 Consensus size: 348
204029 TCATCTCTTC
* * * * *
204039 AAAGCCCGCAAGTTAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCACTCTTTTCAAAACCCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCA
*
204104 CAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGT
66 CAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCAC-C-TTTCAAAGCCCACA--AGT
* * * *
204169 CGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGT
126 CAGTGGC-AC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGAT
204234 GGCAACTTTTTTCAAAGCCCACAAGTTAGTGACACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
189 GGCAACTTTTTTCAAAGCCCACAAGTTAGTGACACTCTTTTCAAAGCCCACAAGTCAGTGGCACC
204299 CTTTCAAAACCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAA
254 CTTTCAAAACCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAA
204364 GCCCACACGAGTCGGTGGCAACTTTTTTCA
319 GCCCACACGAGTCGGTGGCAACTTTTTTCA
204394 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA-TTAGTGGCACTCTTTTCAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCA
204458 CAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-C-TTCAAAGCCCACAAGTCAGTG
66 CAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTCAGTG
* * *
204521 GCACCCTTTCAAAGCCAACAAGTCAATGGCACTCTTTTCAAAGCCCACACGAGTCGATGGTAACT
131 GCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGATGGCAACT
*
204586 TTTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
196 TTTTTCAAAGCCCACAAGTTAGTGACACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* * *
204651 AGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCCCACA
261 AACCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAAGCCCACA
*
204716 CGAGTCGGTTGCAACTTTTTTCA
326 CGAGTCGGTGGCAACTTTTTTCA
* *
204739 AAA-CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCC
1 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCC
* *
204802 ACAAGTTAGTGGCA-TCCTTTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCATGCAAGT
65 ACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCA--CAAGT
204866 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA
126 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA
204920 AGTTAGTGGC
Statistics
Matches: 494, Mismatches: 24, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
344 19 0.04
345 273 0.55
346 11 0.02
347 10 0.02
348 11 0.02
349 13 0.03
350 57 0.12
351 1 0.00
353 25 0.05
354 38 0.08
355 36 0.07
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (348 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCA
CAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTCAGTG
GCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGATGGCAACT
TTTTTCAAAGCCCACAAGTTAGTGACACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
AACCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTCTTCAAAGCCCACA
CGAGTCGGTGGCAACTTTTTTCA
Found at i:205709 original size:13 final size:13
Alignment explanation
Indices: 205691--205716 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
205681 AATTTTTTTG
205691 TGTATCGATACAT
1 TGTATCGATACAT
205704 TGTATCGATACAT
1 TGTATCGATACAT
205717 ACTTGGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:206457 original size:21 final size:21
Alignment explanation
Indices: 206416--206459 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
206406 TCCCCTTTTA
* *
206416 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
206437 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
206458 TC
1 TC
206460 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:208281 original size:13 final size:13
Alignment explanation
Indices: 208263--208301 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
208253 ATAATCACCC
208263 TGTATCGATACAA
1 TGTATCGATACAA
208276 TGTATCGATACAA
1 TGTATCGATACAA
208289 TGTATCGATACAA
1 TGTATCGATACAA
208302 AGAAGAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:210400 original size:15 final size:15
Alignment explanation
Indices: 210380--210410 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
210370 ATTTCGTTTG
*
210380 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
210395 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
210410 G
1 G
210411 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:211038 original size:13 final size:13
Alignment explanation
Indices: 211020--211049 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
211010 AACCTTTTTC
211020 ATTTTGGTAAATT
1 ATTTTGGTAAATT
211033 ATTTTGGTAAATT
1 ATTTTGGTAAATT
211046 ATTT
1 ATTT
211050 ACCAAAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (13 bp):
ATTTTGGTAAATT
Found at i:211272 original size:276 final size:276
Alignment explanation
Indices: 210779--211301 Score: 1046
Period size: 276 Copynumber: 1.9 Consensus size: 276
210769 TTTAAAACAT
210779 AACACGCTGTATTAATAGCTTCCGCCCAAAAATATCTTGGTAAATTATTTTCACAAAGCATGGTT
1 AACACGCTGTATTAATAGCTTCCGCCCAAAAATATCTTGGTAAATTATTTTCACAAAGCATGGTT
210844 CTAGCCATTTCTTCTAAAGTCCGATTTTTCCTCTCAACGACTCCGTTTTGTTGAGGAGTTCTAGG
66 CTAGCCATTTCTTCTAAAGTCCGATTTTTCCTCTCAACGACTCCGTTTTGTTGAGGAGTTCTAGG
210909 GGCAGAGAAGTTATGGCTAATACCGTTTTCATTACAAAATTTATCAAAACCAAGATTTTCAAATT
131 GGCAGAGAAGTTATGGCTAATACCGTTTTCATTACAAAATTTATCAAAACCAAGATTTTCAAATT
210974 CTTGTCCATGGTCACTTCTTATACTAGATAAGGAGTAACCTTTTTCATTTTGGTAAATTATTTTG
196 CTTGTCCATGGTCACTTCTTATACTAGATAAGGAGTAACCTTTTTCATTTTGGTAAATTATTTTG
211039 GTAAATTATTTACCAA
261 GTAAATTATTTACCAA
211055 AACACGCTGTATTAATAGCTTCCGCCCAAAAATATCTTGGTAAATTATTTTCACAAAGCATGGTT
1 AACACGCTGTATTAATAGCTTCCGCCCAAAAATATCTTGGTAAATTATTTTCACAAAGCATGGTT
211120 CTAGCCATTTCTTCTAAAGTCCGATTTTTCCTCTCAACGACTCCGTTTTGTTGAGGAGTTCTAGG
66 CTAGCCATTTCTTCTAAAGTCCGATTTTTCCTCTCAACGACTCCGTTTTGTTGAGGAGTTCTAGG
211185 GGCAGAGAAGTTATGGCTAATACCGTTTTCATTACAAAATTTATCAAAACCAAGATTTTCAAATT
131 GGCAGAGAAGTTATGGCTAATACCGTTTTCATTACAAAATTTATCAAAACCAAGATTTTCAAATT
211250 CTTGTCCATGGTCACTTCTTATACTAGATAAGGAGTAACCTTTTTCATTTTG
196 CTTGTCCATGGTCACTTCTTATACTAGATAAGGAGTAACCTTTTTCATTTTG
211302 AACAATTTTA
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
276 247 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (276 bp):
AACACGCTGTATTAATAGCTTCCGCCCAAAAATATCTTGGTAAATTATTTTCACAAAGCATGGTT
CTAGCCATTTCTTCTAAAGTCCGATTTTTCCTCTCAACGACTCCGTTTTGTTGAGGAGTTCTAGG
GGCAGAGAAGTTATGGCTAATACCGTTTTCATTACAAAATTTATCAAAACCAAGATTTTCAAATT
CTTGTCCATGGTCACTTCTTATACTAGATAAGGAGTAACCTTTTTCATTTTGGTAAATTATTTTG
GTAAATTATTTACCAA
Found at i:212518 original size:21 final size:21
Alignment explanation
Indices: 212489--212533 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
212479 AAGTTTTCAT
*
212489 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
212509 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
212531 TTT
1 TTT
212534 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:214770 original size:19 final size:18
Alignment explanation
Indices: 214712--214770 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 18
214702 TACAAGCCAA
*
214712 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA---TTTGG
*
214733 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
214752 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
214771 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
21 12 0.36
22 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:215157 original size:28 final size:29
Alignment explanation
Indices: 215125--215328 Score: 207
Period size: 28 Copynumber: 6.9 Consensus size: 29
215115 GATCCTAACA
215125 CTTTCAAAGCCCACAAGTCAGTGGCAC-C
1 CTTTCAAAGCCCACAAGTCAGTGGCACTC
*
215153 CTTTCAAAGCCCACGCAGGTCAGTGGCAC-C
1 CTTTCAAAGCCCA--CAAGTCAGTGGCACTC
* *
215183 CTTTCAAAGCCCATAAGTTAGTGGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCACTC
* * * *
215212 TTTTCAAAACGCACAAGTCAATGGCAC-C
1 CTTTCAAAGCCCACAAGTCAGTGGCACTC
*
215240 CTTTCAAAGCCCACAAGTTAGTGGCACTC
1 CTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
215269 TTTTCAAAGCCCACACGAGTCGGTGGTAACTC
1 CTTTCAAAGCCCACA--AGTCAGTGG-CACTC
* *
215301 TTTTCAAAGCTCACACAAGTTAGTGGCA
1 CTTTCAAAGC-C-CACAAGTCAGTGGCA
215329 TCATTTTTTA
Statistics
Matches: 145, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
28 47 0.32
29 37 0.26
30 27 0.19
31 8 0.06
32 21 0.14
33 1 0.01
34 4 0.03
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (29 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACTC
Found at i:215258 original size:57 final size:58
Alignment explanation
Indices: 215125--215328 Score: 223
Period size: 57 Copynumber: 3.4 Consensus size: 58
215115 GATCCTAACA
* * * * *
215125 CTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACGCAGGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAACCCAC-CAAGTCAATGGCACC
* *
215183 CTTTCAAAGCCCATAAGTTAGTGGCACTCTTTTCAAAACGCA-CAAGTCAATGGCACC
1 CTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAACCCACCAAGTCAATGGCACC
* * ** *
215240 CTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGTAACTC
1 CTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAACCCAC-CAAGTCAATGG-CAC-C
*
215301 TTTTCAAAGCTCACACAAGTTAGTGGCA
1 CTTTCAAAGC-C-CACAAGTTAGTGGCA
215329 TCATTTTTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
57 52 0.42
58 25 0.20
59 19 0.15
60 2 0.02
61 10 0.08
62 1 0.01
63 15 0.12
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (58 bp):
CTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAACCCACCAAGTCAATGGCACC
Found at i:216921 original size:22 final size:24
Alignment explanation
Indices: 216896--216939 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
216886 TGTCCAACAT
216896 TTCATTGAATG-TTATC-CATTAG
1 TTCATTGAATGATTATCACATTAG
*
216918 TTCATTGTATGATTATCACATT
1 TTCATTGAATGATTATCACATT
216940 TTCCATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 5 0.26
24 4 0.21
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (24 bp):
TTCATTGAATGATTATCACATTAG
Found at i:219054 original size:97 final size:94
Alignment explanation
Indices: 218941--219165 Score: 342
Period size: 94 Copynumber: 2.4 Consensus size: 94
218931 AAAAATGGGC
218941 TTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGAATA
1 TTGGAGTATCCCCTCGGAGGAAT-GGGTTGGAGTG--CCCGATGATGACAATTTAAGTGAGAATA
* *
219006 AAATTTAAACTTTGATGCGTTTAAAAGCGGGG
63 AAATTTAAAATTTGATGCGTTTAAAAGCAGGG
* * *
219038 TTGGAGTATCCCCTCGGAGGAATGGATTGAAGTGCCCGATGATGACAATTTAAGTGAGAATAAGA
1 TTGGAGTATCCCCTCGGAGGAATGGGTTGGAGTGCCCGATGATGACAATTTAAGTGAGAATAAAA
* *
219103 TTTAAAATTTGATGTGTTTAAAAGTAGGG
66 TTTAAAATTTGATGCGTTTAAAAGCAGGG
*
219132 TTGGAGTATCCCCTCGAAGGAATAGGGTTGGAGT
1 TTGGAGTATCCCCTCGGAGGAAT-GGGTTGGAGT
219166 ATCCTTGATA
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 77 0.66
95 8 0.07
96 9 0.08
97 23 0.20
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (94 bp):
TTGGAGTATCCCCTCGGAGGAATGGGTTGGAGTGCCCGATGATGACAATTTAAGTGAGAATAAAA
TTTAAAATTTGATGCGTTTAAAAGCAGGG
Found at i:221403 original size:20 final size:20
Alignment explanation
Indices: 221378--221454 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
221368 GTAAAAAGAC
221378 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
221398 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
221418 TA-CATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
* * *
221438 AAAATGTGTAGATACAT
1 AGAATGTATCGATACAT
221455 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:221473 original size:71 final size:71
Alignment explanation
Indices: 221398--221536 Score: 233
Period size: 71 Copynumber: 2.0 Consensus size: 71
221388 GATACATTGA
*
221398 AGAATGTATCGATACATTCATACATGTATCAATACATTGAAAAATGTGTAGATACATCTGGGTAA
1 AGAATGTATCGATACATTCATACATGTATCAATACATTGAAAAATGTATAGATACATCTGGGTAA
221463 AAAGAC
66 AAAGAC
* * * *
221469 AGAATGTATCGATACATTCATACGTGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAA
1 AGAATGTATCGATACATTCATACATGTATCAATACATTGAAAAATGTATAGATACATCTGGGTAA
221534 AAA
66 AAA
221537 TGTGACTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (71 bp):
AGAATGTATCGATACATTCATACATGTATCAATACATTGAAAAATGTATAGATACATCTGGGTAA
AAAGAC
Found at i:221485 original size:91 final size:91
Alignment explanation
Indices: 221357--221526 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 91
221347 TCAATGTATC
* *
221357 GATACATATGGGTAAAAAGACAGAATGTATCGATACATTGA-A-GAATGTATCGATACATTCATA
1 GATACATATGGGTAAAAAGACAGAATGTATCGATACATTCATACG--TGTATCGATACATTCAAA
*
221420 CATGTATCAATACATTGAAAAATGTGTA
64 AATGTATCAATACATTGAAAAATGTGTA
* *
221448 GATACATCTGGGTAAAAAGACAGAATGTATCGATACATTCATACGTGTATCGATACATTGAAAAA
1 GATACATATGGGTAAAAAGACAGAATGTATCGATACATTCATACGTGTATCGATACATTCAAAAA
*
221513 TGTATCGATACATT
66 TGTATCAATACATT
221527 TGGGTAAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
91 69 0.97
92 1 0.01
93 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (91 bp):
GATACATATGGGTAAAAAGACAGAATGTATCGATACATTCATACGTGTATCGATACATTCAAAAA
TGTATCAATACATTGAAAAATGTGTA
Found at i:221498 original size:20 final size:20
Alignment explanation
Indices: 221471--221526 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
221461 AAAAAGACAG
*
221471 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
** *
221491 CGTGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
221511 AATGTATCGATACATT
1 AATGTATCGATACATT
221527 TGGGTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:230616 original size:22 final size:21
Alignment explanation
Indices: 230591--230631 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
230581 TATAAAAAGG
230591 TATAATAAT-TATTATACAATTA
1 TATAA-AATGTATTAT-CAATTA
230613 TATAAAATGTATTATCAAT
1 TATAAAATGTATTATCAAT
230632 AAAAGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
TATAAAATGTATTATCAATTA
Found at i:231506 original size:27 final size:27
Alignment explanation
Indices: 231476--231543 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
231466 ATATATATCG
*
231476 ATTAAATTACTTATTATATAA-AAAATA
1 ATTAAATTA-TTATAATATAACAAAATA
* *
231503 ATTAATAGTATTATAATATAACAAAGTA
1 ATTAA-ATTATTATAATATAACAAAATA
*
231531 ATTTAAATAATTA
1 A-TTAAATTATTA
231544 AATGATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
27 15 0.45
28 14 0.42
29 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (27 bp):
ATTAAATTATTATAATATAACAAAATA
Found at i:231795 original size:17 final size:18
Alignment explanation
Indices: 231773--231810 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
231763 CTAAATAAGT
*
231773 ATTTAAGAAAT-TCATGA
1 ATTTAAAAAATATCATGA
231790 ATTTAAAAAATAATCATGA
1 ATTTAAAAAAT-ATCATGA
231809 AT
1 AT
231811 GCTATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (18 bp):
ATTTAAAAAATATCATGA
Found at i:232645 original size:16 final size:17
Alignment explanation
Indices: 232624--232660 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
232614 CTTGAATCTG
232624 AAATG-ATACAAACTTA
1 AAATGAATACAAACTTA
*
232640 AAATGAATCCAAACTTA
1 AAATGAATACAAACTTA
232657 AAAT
1 AAAT
232661 AACTCAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (17 bp):
AAATGAATACAAACTTA
Found at i:237378 original size:33 final size:33
Alignment explanation
Indices: 237319--237383 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
237309 TTAGAGTTGC
*
237319 TCATATCTTCTTCTTTCTTCTGCTCTTGCTTCT
1 TCATATCTTCTTCTTTCTTCTGCTCTTACTTCT
* * *
237352 TCATATCTT-TTTTTTCCTTTTTCTCTTACTTC
1 TCATATCTTCTTCTTT-CTTCTGCTCTTACTTC
237384 CTCTAATCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.08, C:0.28, G:0.03, T:0.62
Consensus pattern (33 bp):
TCATATCTTCTTCTTTCTTCTGCTCTTACTTCT
Found at i:242941 original size:16 final size:16
Alignment explanation
Indices: 242922--242952 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
242912 TTGAAAAATA
242922 CAAAAAAATTAAAAAG
1 CAAAAAAATTAAAAAG
242938 CAAAAAAATTAAAAA
1 CAAAAAAATTAAAAA
242953 ATTGGAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.13
Consensus pattern (16 bp):
CAAAAAAATTAAAAAG
Found at i:243217 original size:28 final size:28
Alignment explanation
Indices: 243172--243228 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
243162 CCTAGCTTTG
*
243172 GTTATGAAATGAT-AAAAATAAAGAAAAA
1 GTTATGAAATAATAAAAAATAAA-AAAAA
243200 GTTATGAAA-AATACAAAAATAAAAAAAA
1 GTTATGAAATAATA-AAAAATAAAAAAAA
243228 G
1 G
243229 ATAAAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 15 0.58
29 9 0.35
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (28 bp):
GTTATGAAATAATAAAAAATAAAAAAAA
Found at i:243243 original size:28 final size:29
Alignment explanation
Indices: 243185--243243 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
243175 ATGAAATGAT
* * *
243185 AAAAATAAAGAAAAAGTTATGAAAAATAC
1 AAAAATAAAGAAAAAGATATAAAAAAGAC
243214 AAAAATAAA-AAAAAGATA-AAAACAAGAC
1 AAAAATAAAGAAAAAGATATAAAA-AAGAC
243242 AA
1 AA
243244 CTTTCAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 3 0.12
28 14 0.54
29 9 0.35
ACGTcount: A:0.75, C:0.05, G:0.08, T:0.12
Consensus pattern (29 bp):
AAAAATAAAGAAAAAGATATAAAAAAGAC
Found at i:243379 original size:22 final size:21
Alignment explanation
Indices: 243354--243407 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
243344 TTTTTTTGGG
243354 AAGAAAAACAAAAAGTTGTTAA
1 AAGAAAAA-AAAAAGTTGTTAA
*
243376 AAG--AGAAAAAAGTTGTTAA
1 AAGAAAAAAAAAAGTTGTTAA
*
243395 AA-AAAAGAAAAAG
1 AAGAAAAAAAAAAG
243408 AGAGAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 15 0.56
20 9 0.33
22 3 0.11
ACGTcount: A:0.67, C:0.02, G:0.17, T:0.15
Consensus pattern (21 bp):
AAGAAAAAAAAAAGTTGTTAA
Found at i:243405 original size:19 final size:19
Alignment explanation
Indices: 243363--243407 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
243353 GAAGAAAAAC
*
243363 AAAAAGTTGTTAAAAGAGA
1 AAAAAGTTGTTAAAAGAAA
*
243382 AAAAAGTTGTTAAAAAAAA
1 AAAAAGTTGTTAAAAGAAA
243401 GAAAAAG
1 -AAAAAG
243408 AGAGAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (19 bp):
AAAAAGTTGTTAAAAGAAA
Found at i:243837 original size:13 final size:13
Alignment explanation
Indices: 243819--243862 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
243809 ATTGGTGAGA
243819 AAGAAGGAAGAAG
1 AAGAAGGAAGAAG
243832 AAGAAGGAAGGAAG
1 AAGAAGGAA-GAAG
* *
243846 AA-AAAGAAGATG
1 AAGAAGGAAGAAG
243858 AAGAA
1 AAGAA
243863 AAAAACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 16 0.59
14 6 0.22
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (13 bp):
AAGAAGGAAGAAG
Found at i:243841 original size:17 final size:17
Alignment explanation
Indices: 243816--243854 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
243806 GTTATTGGTG
* *
243816 AGAAAGAAGGAAGAAGA
1 AGAAGGAAGGAAGAAAA
243833 AGAAGGAAGGAAGAAAA
1 AGAAGGAAGGAAGAAAA
243850 AGAAG
1 AGAAG
243855 ATGAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AGAAGGAAGGAAGAAAA
Found at i:244424 original size:18 final size:16
Alignment explanation
Indices: 244394--244431 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
244384 TCTAGTTTCC
244394 ATAAAAAAAATAAAAA
1 ATAAAAAAAATAAAAA
244410 ATAAAAAAATTATAAAAA
1 ATAAAAAAA--ATAAAAA
244428 ATAA
1 ATAA
244432 TAATAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
ATAAAAAAAATAAAAA
Found at i:256080 original size:21 final size:19
Alignment explanation
Indices: 256033--256087 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
256023 TGGCAGTAGC
*
256033 TTTGTAGCGATACAATACT
1 TTTGTATCGATACAATACT
* *
256052 TATGTATCGATACATTTACT
1 TTTGTATCGATACA-ATACT
256072 GTTTGTATCGATACAA
1 -TTTGTATCGATACAA
256088 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACAATACT
Found at i:257002 original size:49 final size:49
Alignment explanation
Indices: 256938--257630 Score: 422
Period size: 48 Copynumber: 14.9 Consensus size: 49
256928 ATGTTAAAGA
* * * *
256938 TGCCAATATGATGATTCAAGGCTAACGATATCGGACTTAAGGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * * * * *
256987 TGCCAATGTGCTGATTCAAAGCCAGCGACATTGGTCTTAAA-ACTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGA-TGAAGG
* * *
257036 TGCCAATATGTTGATTCAAGGCCAGTGATATCGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * * * * *
257085 TG-CAATGTGCTGGTTTAAGGCC-GACGACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAG-CGATATCGGACTTAAAGATGAAGG
* * * *
257133 TGCC-ATATGCTGAGTCAAGGCTAGCAATATCGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * * * * * *
257181 TG-CAATGTACTGGTTCAAGGCCTGCGAAATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * *
257229 TGCCAATATGCTGATTCAAGGCCGGCGATATCGAACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * * * * * **
257278 TGCCAATGTGCTGATTCAAAGCCAGCGACATTGGTCTT-AGGAACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * * * *
257326 TGTCGATATGCTGATTCAAGGCTAGCGATATTGGGC-T-----T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * * * * *
257365 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * * *
257413 TGCCTATATGCTGATTCAAGG-CAGTGATATTGGGCTT---G-T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* ** * * * *
257453 T--CAATGTATTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
*
257499 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* * * * * *
257538 TGCCAATGTACTGAGTT-AAGGCCAGCGACATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGA-TTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
* *
257587 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTA-AAGA
257631 AGACGCCACC
Statistics
Matches: 492, Mismatches: 109, Indels: 85
0.72 0.16 0.12
Matches are distributed among these distances:
38 14 0.03
39 73 0.15
40 6 0.01
41 1 0.00
42 1 0.00
44 1 0.00
45 1 0.00
46 3 0.01
47 17 0.03
48 191 0.39
49 179 0.36
50 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGG
Found at i:257120 original size:48 final size:48
Alignment explanation
Indices: 256833--257316 Score: 243
Period size: 49 Copynumber: 9.9 Consensus size: 48
256823 TTGAAGATAC
* * * * *
256833 GAAGAATGACAATGTGCTGATTCATGGCC-AGCGACATTAGACTTGAAGAA
1 GAAG-ATG-CAATGTGCTGGTTCAAGGCCGA-CGACATTGGACTTAAAGAT
* * * *
256883 G-A-ATGCCAATGTGCTGAG-GCAAGGCCGGCGACATTGGGCTTAGGAATGTT
1 GAAGATG-CAATGTGCTG-GTTCAAGGCCGACGACATTGGACTTA--AA-GAT
* * * * ** * * *
256933 AAAGATGCCAATATGATGATTCAAGGCTAACGATATCGGACTTAAGGAT
1 GAAGATG-CAATGTGCTGGTTCAAGGCCGACGACATTGGACTTAAAGAT
* * * *
256982 GAAGGTGCCAATGTGCTGATTCAAAGCC-AGCGACATTGGTCTTAAA-ACT
1 GAAGATG-CAATGTGCTGGTTCAAGGCCGA-CGACATTGGACTTAAAGA-T
* * * * * * * *
257031 AAAGGTGCCAATATGTTGATTCAAGGCC-AGTGATATCGGACTTAAAGAT
1 GAAGATG-CAATGTGCTGGTTCAAGGCCGA-CGACATTGGACTTAAAGAT
*
257080 GAAGATGCAATGTGCTGGTTTAAGGCCGACGACATTGGACTTAAAGAT
1 GAAGATGCAATGTGCTGGTTCAAGGCCGACGACATTGGACTTAAAGAT
* * * * * * * *
257128 AAAGGTGCCATATGCTGAG-TCAAGG-CTAGCAATATCGGACTTAAAGAT
1 GAAGATGCAATGTGCTG-GTTCAAGGCCGA-CGACATTGGACTTAAAGAT
* *
257176 GAAGATGCAATGTACTGGTTCAAGGCCTG-CGAAATTGGACTTAAAGAT
1 GAAGATGCAATGTGCTGGTTCAAGGCC-GACGACATTGGACTTAAAGAT
* * * * * * * *
257224 AAAGGTGCCAATATGCTGATTCAAGGCCGGCGATATCGAACTTAAAGAT
1 GAAGATG-CAATGTGCTGGTTCAAGGCCGACGACATTGGACTTAAAGAT
* * *
257273 GAAGATGCCAATGTGCTGATTCAAAGCC-AGCGACATTGGTCTTA
1 GAAGATG-CAATGTGCTGGTTCAAGGCCGA-CGACATTGGACTTA
257317 GGAACAAGGT
Statistics
Matches: 329, Mismatches: 85, Indels: 41
0.72 0.19 0.09
Matches are distributed among these distances:
47 33 0.10
48 108 0.33
49 154 0.47
50 4 0.01
51 1 0.00
52 29 0.09
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (48 bp):
GAAGATGCAATGTGCTGGTTCAAGGCCGACGACATTGGACTTAAAGAT
Found at i:257392 original size:39 final size:39
Alignment explanation
Indices: 257334--257576 Score: 148
Period size: 39 Copynumber: 5.8 Consensus size: 39
257324 GGTGTCGATA
* * *
257334 TGCTGATTCAAGGCTAGCGATATTGGGCTTATGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTATGCCAATG
* *
257373 TGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCTATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTT-------A--TGCCAATG
* * * * *
257421 TGCTGATTCAAGG-CAGTGATATTGGGCTTGTGTCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTATGCCAATG
** *
257459 TATTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTT-------A--TGCCAATG
* * *
257507 TGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTATGCCAATG
*
257546 TACTGAGTT-AAGGCCAGCGACATTGGTCTTA
1 TGCTGA-TTCAAGGCCAGCGACATTGGTCTTA
257577 AAGATAAAGG
Statistics
Matches: 154, Mismatches: 30, Indels: 40
0.69 0.13 0.18
Matches are distributed among these distances:
38 16 0.10
39 71 0.46
40 2 0.01
46 1 0.01
47 13 0.08
48 51 0.33
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (39 bp):
TGCTGATTCAAGGCCAGCGACATTGGTCTTATGCCAATG
Found at i:257488 original size:86 final size:87
Alignment explanation
Indices: 257278--257620 Score: 494
Period size: 87 Copynumber: 3.9 Consensus size: 87
257268 AAGATGAAGA
* * * * *
257278 TGCCAATGTGCTGATTCAAAGCCAGCGACATTGGTCTT-AGGAACAAGGTGTCGATATGCTGATT
1 TGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGAA-AAGGTGCCAATATGCTGATT
* *
257342 CAAGGCTAGCGATATTGGGCTTA
65 CAAGGCCAGCGATATTGGGCTTG
* * * *
257365 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCTATATGCTGATTC
1 TGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGCTGATTC
*
257430 AAGG-CAGTGATATTGGGCTTG
66 AAGGCCAGCGATATTGGGCTTG
* *
257451 TGTCAATGTATTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGCTGATTC
1 TGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGCTGATTC
*
257516 AAGGCCAGCGATATTGGACTTG
66 AAGGCCAGCGATATTGGGCTTG
*
257538 TGCCAATGTACTGAGTT-AAGGCCAGCGACATTGGTCTTAAAGATAAAGGCGCCAATATGCTGAT
1 TGCCAATGTACTGA-TTCAAGGCCAGCGACATTGGTCTTAAAGA-AAAGGTGCCAATATGCTGAT
257602 TCAAGGCCAGCGATATTGG
64 TCAAGGCCAGCGATATTGG
257621 ACTTAGAAGA
Statistics
Matches: 232, Mismatches: 20, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
86 77 0.33
87 113 0.49
88 42 0.18
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (87 bp):
TGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTG
Found at i:257689 original size:29 final size:29
Alignment explanation
Indices: 257635--257771 Score: 154
Period size: 29 Copynumber: 4.7 Consensus size: 29
257625 AGAAGAAGAC
257635 GCCACCAACTTGTGTGGGCTTTTGAAACGGTT
1 GCCACCAAC-T-TGTGGGCTTTTGAAA-GGTT
*
257667 G-CACCAACTTGTGTGCTTTTG-AAGGTT
1 GCCACCAACTTGTGGGCTTTTGAAAGGTT
* *
257694 GCCACTAACTTGTGGGC-TTTGAAAGGGGT
1 GCCACCAACTTGTGGGCTTTTGAAA-GGTT
*
257723 GCCACCAACTTGTGGGCTTTTGAACAGGGT
1 GCCACCAACTTGTGGGCTTTTGAA-AGGTT
**
257753 GCCACTGACTTGTGGGCTT
1 GCCACCAACTTGTGGGCTT
257772 AAAAGGAGAA
Statistics
Matches: 93, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
27 9 0.10
28 17 0.18
29 30 0.32
30 28 0.30
31 8 0.09
32 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (29 bp):
GCCACCAACTTGTGGGCTTTTGAAAGGTT
Found at i:257729 original size:57 final size:58
Alignment explanation
Indices: 257647--257771 Score: 173
Period size: 57 Copynumber: 2.2 Consensus size: 58
257637 CACCAACTTG
* * *
257647 TGTGGGCTTTTGAAACGGTTGCACCAACTTGTGTGCTTTTG-A-AGGTTGCCACTAACT
1 TGTGGGC-TTTGAAACGGGTGCACCAACTTGTGGGCTTTTGAACAGGGTGCCACTAACT
* *
257704 TGTGGGCTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAACAGGGTGCCACTGACT
1 TGTGGGCTTTGAAACGGGTG-CACCAACTTGTGGGCTTTTGAACAGGGTGCCACTAACT
257763 TGTGGGCTT
1 TGTGGGCTT
257772 AAAAGGAGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
56 11 0.18
57 26 0.43
58 1 0.02
59 22 0.37
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (58 bp):
TGTGGGCTTTGAAACGGGTGCACCAACTTGTGGGCTTTTGAACAGGGTGCCACTAACT
Found at i:257799 original size:33 final size:31
Alignment explanation
Indices: 257751--258752 Score: 811
Period size: 33 Copynumber: 32.4 Consensus size: 31
257741 TTTGAACAGG
* * *
257751 GTGCCACTGACTTGTGGGCTTAAAAGGAGAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGA-AAA
*
257783 GATGCCATGGAGTTGTGGACTTAAAAGGAAAAAGA
1 G-TGCCACGGAGTTGTGGACTTAAAAGG--AAA-A
*
257818 GTGCCACGGAGTTGTGGACTTAAAAAGAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
257849 GGTGCCACGGAGTTGTGGACTTAAAAGGAACAA
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAA-AA
*
257882 GGTGTCACGGAGTTGTGGACTTAAAAGGAACAAA
1 -GTGCCACGGAGTTGTGGACTTAAAAGG-A-AAA
*
257916 GTGCCACAGAGTTGTGGACTTAAAA-G---A
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* *
257943 GTGCCACGGAGTTGTGGGCTTTAAAGGAACAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAA-AA
* **
257975 GGGGCCATAGAGTTGT-GACTTAAAAGG----
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
258002 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTAAAAGG--AAA-A
*
258036 GTGCCACGGAGTTGTGGACTTAAAAAGAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* *
258067 GGTGCCATGGAGTTGTGGAATTAAAAGGAACAA
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAA-AA
258100 GGTGCCACGGAGTTGTGGACTTAAAAGG----
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * *
258128 GTACCACGGAGTTGTGGGCTTTAAAGGAACAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGG-A-AAA
*
258161 GTGCCACAGAGTTGTGGACTTAAAAGG---A
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
258189 -TGCCACGAAGTTGTGGACTTAAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTAAAAGG--AAA-A
*
258222 GTGCCACGGAGTTGTGGACTTAAAAAGAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* *
258253 TGTGCCACAGAGTTGTGGACTTAAAATGAACAA
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAA-AA
*
258286 GGTGCCATGGAGTTGTGGACTTAAAAGG----
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* *
258314 GTG-CACGGAGTTGTGGGCTTTAAAGGAACAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAA-AA
* *
258345 GGGGCCACAGAGTTGTGGACTTAAAAGG----
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
258373 GTGCCACGGAGTTGTAGACTTAAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTAAAAGG--AAA-A
*
258407 GTGCCACGGAGTTGTGGACTTAAAAAGAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
258438 GGTGCCACGGAGTTGTGGACTTAAAAGGAACAA
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAA-AA
*
258471 GGTGCCATGGAGTTGTGGACTTAAAA-G---A
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * *
258499 GTGCCACAGA-TTGTGGGCTTTAAAGGAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGG-AAAA
* *
258530 GGAGCCACAGAGTTGTGGACTTAAAAGG----
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
258558 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTAAAAGG--AAA-A
* *
258592 GTGCCATGGAGTTGTGGGCTTTAAAAGG----
1 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAA
*
258620 GTGCCACGGAGCTGTGGACTTAAAAGG----
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * ** *
258647 GTGCCACAGAGTCGTGGACTTTGAAGAAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAG-GAAAA
* * * *
258679 GATGCCACTGAGTCGTGGACTTAGAA--AAGA
1 G-TGCCACGGAGTTGTGGACTTAAAAGGAAAA
**
258709 GATGCCACTGG-GTTGTGGACTTTGAA-GAAAA
1 G-TGCCAC-GGAGTTGTGGACTTAAAAGGAAAA
*
258740 GATGCCACTGAGT
1 G-TGCCACGGAGT
258753 CATGGACTCT
Statistics
Matches: 805, Mismatches: 86, Indels: 159
0.77 0.08 0.15
Matches are distributed among these distances:
26 44 0.05
27 172 0.21
28 19 0.02
30 25 0.03
31 19 0.02
32 146 0.18
33 247 0.31
34 121 0.15
35 12 0.01
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (31 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
Found at i:258107 original size:185 final size:186
Alignment explanation
Indices: 257812--258646 Score: 1337
Period size: 185 Copynumber: 4.5 Consensus size: 186
257802 CTTAAAAGGA
* *
257812 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAG-AAAAG-GTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
* * * *
257875 GGAACAAGGTGTCACGGAGTTGTGGACTTAAAAGGAACAAAGTGCCACAGAGTTGTGGACTTAAA
66 AGAA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAA
*
257940 AGAGTGCCACGGAGTTGTGGGCTTTAAAGGAACAAGGGGCCATAGAGTTGT-GACTT
130 AGAGTGCCACGGAGTTGTGGGCTTTAAAGGAACAAGGGGCCACAGAGTTGTGGACTT
257996 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
* *
258061 AGAAAAGGTGCCATGGAGTTGTGGAATTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
66 AGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
258126 GGGTACCACGGAGTTGTGGGCTTTAAAGGAACAAAGTGCCACAGAGTTGTGGACTT
131 GAGTGCCACGGAGTTGTGGGCTTTAAAGGAACAAGGGGCCACAGAGTTGTGGACTT
* *
258182 AAAAGGATGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
* * * *
258247 AGAAAATGTGCCACAGAGTTGTGGACTTAAAATGAACAAGGTGCCATGGAGTTGTGGACTTAAAA
66 AGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
*
258312 GGGTG-CACGGAGTTGTGGGCTTTAAAGGAACAAGGGGCCACAGAGTTGTGGACTT
131 GAGTGCCACGGAGTTGTGGGCTTTAAAGGAACAAGGGGCCACAGAGTTGTGGACTT
*
258367 AAAAGGGTGCCACGGAGTTGTAGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
*
258432 AGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAAA
66 AGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
* * *
258497 GAGTGCCACAGA-TTGTGGGCTTTAAAGGAAAAAGGAGCCACAGAGTTGTGGACTT
131 GAGTGCCACGGAGTTGTGGGCTTTAAAGGAACAAGGGGCCACAGAGTTGTGGACTT
* * *
258552 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
*
258617 AG----GGTGCCACGGAGCTGTGGACTTAAAAGG
66 AGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
258647 GTGCCACAGA
Statistics
Matches: 608, Mismatches: 39, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
181 27 0.04
184 31 0.05
185 386 0.63
186 164 0.27
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (186 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
AGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
GAGTGCCACGGAGTTGTGGGCTTTAAAGGAACAAGGGGCCACAGAGTTGTGGACTT
Found at i:258175 original size:218 final size:218
Alignment explanation
Indices: 257785--258708 Score: 886
Period size: 218 Copynumber: 4.3 Consensus size: 218
257775 AGGAGAAAGA
*
257785 TGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAG
*
257850 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGTCACGGAGTTGTGGACTTAAAAGGAACAA
66 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGG-----
* *
257915 AGTGCCACAGAGTTGTGGACTTAAAA-G----AGTGCCACGGAGTTGTGGGCTTTAAAGGAACAA
126 -GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAA-AA
**
257975 GGGGCCATAGAGTTGT-GACTTAAAAG-GG
189 GGGGCCACGGAGTTGTGGACTTAAAAGAGG
258003 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAG
* * *
258068 GTGCCATGGAGTTGTGGAATTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTACC
66 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
* * * * *
258133 ACGGAGTTGTGGGCTTTAAAGGAACAAAGTGCCACAGAGTTGTGGACTTAAAAGG---A--TGCC
131 ACAGAGTTGTGGACTTAAAAGGAA-AAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGGGCC
*
258193 ACGAAGTTGTGGACTTAAAAGGAAAAAGAG
195 ACGGAGTTGTGGACTTAAAA-G----AG-G
* * * *
258223 TGCCACGGAGTTGTGGACTTAAAAAG-AAAA-TGTGCCACAGAGTTGTGGACTTAAAATGAACAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAA-AA
* *
258286 GGTGCCATGGAGTTGTGGACTTAAAA-G-----GGTG-CACGGAGTTGTGGGCTTTAAAGGAACA
65 GGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TT-----AA-A
*
258344 AGGG-GCCACAGAGTTGTGGACTTAAAAGG-----GTGCCACGGAGTTGTAGACTTAAAAGGAAA
123 AGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGG-AA
*
258403 AAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGG
187 AAG-GGGCCACGGAGTTGTGGACTT-AAAAG---AGG
* *
258440 TGCCACGGAGTTGTGGACTTAAAAGGAACAAG-GTGCCATGGAGTTGTGGACTT-AAAAG---A-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAG
* * * * * *
258499 GTGCCACAGA-TTGTGGGCTTTAAAGGAAAAAGGAGCCACAGAGTTGTGGACTTAAAAGGGTGCC
66 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
* * * *
258563 ACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAA-G----GGTG
131 ACAGAGTTGTGGACTTAAAAGG-AAAA-AGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAGGGG
*
258623 CCACGGAGCTGTGGACTTAAAAG-GG
193 CCACGGAGTTGTGGACTTAAAAGAGG
* * ** * * *
258648 TGCCACAGAGTCGTGGACTTTGAAGAAAAAAGA-TGCCACTGAGTCGTGGACTTAGAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTA-AAAAGA
258709 GATGCCACTG
Statistics
Matches: 600, Mismatches: 54, Indels: 111
0.78 0.07 0.15
Matches are distributed among these distances:
208 45 0.08
210 5 0.01
211 17 0.03
212 110 0.18
213 37 0.06
214 3 0.00
216 1 0.00
217 35 0.06
218 237 0.40
219 74 0.12
220 36 0.06
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (218 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAG
GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCC
ACAGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGGGCCA
CGGAGTTGTGGACTTAAAAGAGG
Found at i:258746 original size:31 final size:31
Alignment explanation
Indices: 258648--259286 Score: 844
Period size: 31 Copynumber: 20.7 Consensus size: 31
258638 CTTAAAAGGG
*
258648 TGCCACAGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--AAAAGA
* *
258681 TGCCACTGAGTCGTGGACTTAGAA-AAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
258711 TGCCACTGGGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
258742 TGCCACTGAGTCATGGACTCTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
258773 TGCCACTGAGTCGTAGACTTTG--GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAA-AGA
* * *
258803 TGCCACTAAGTCATGGACTTTG-AGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
258833 TGCCACAGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
258864 TGCCACTGAGTCATGGACTTTAAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
258895 TGCCACTGAGTCGTGGACTTTGAAGAAAATA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
** *
258926 TGCCACAAAGTCATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
258957 TGCCACAGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
258988 TGCCACAGAGTCGTGGACTTTG--GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAA-AGA
* *
259018 TGCCACTAAGTCGTGGACTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
259049 TGCCACAGAGTCATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
259080 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * *
259111 TGTCACGGAGTCGTGGACTTTG-AGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * *
259141 TTGCTACTAAGTAGTGGACTTTGAAGAAAAGA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * **
259173 TGTCACTGAGTCGTGGACTTTG-GGAAGGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
259203 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
259234 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * *
259265 TGCCACTAAATTGTGGACTTTG
1 TGCCACTGAGTCGTGGACTTTG
259287 GGAAGAGAGA
Statistics
Matches: 530, Mismatches: 66, Indels: 22
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.02
30 125 0.24
31 364 0.69
32 11 0.02
33 22 0.04
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
Found at i:259023 original size:185 final size:185
Alignment explanation
Indices: 258648--259286 Score: 855
Period size: 185 Copynumber: 3.5 Consensus size: 185
258638 CTTAAAAGGG
* *
258648 TGCCACAGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGAC-TTAGAA-AAGAGA
1 TGCCACAGAGTCGTGGACTTTGAAG--AAAAGATGCCACTGAGTCATGGACTTTA-AAGAAAAGA
* * * *
258711 TGCCACTGGGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTCTGAAGAAAAGATGC
63 TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCATGGACTTTGAAGAAAAGATGC
* * * *
258776 CACTGAGTCGTAGACTTTG--GAAAGAGATGCCACTA-AGTCATGGACTTTGAGAAA-AAA
128 CACAGAGTCGTGGACTTTGAAGAAA-AGATGCCAC-AGAGTCGTGGACTTTG-GAAAGAGA
258833 TGCCACAGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTAAAGAAAAGATGC
1 TGCCACAGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTAAAGAAAAGATGC
* *
258898 CACTGAGTCGTGGACTTTGAAGAAAATATGCCACAAAGTCATGGACTTTGAAGAAAAGATGCCAC
66 CACTGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCATGGACTTTGAAGAAAAGATGCCAC
258963 AGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCGTGGACTTTGGAAAGAGA
131 AGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCGTGGACTTTGGAAAGAGA
* * *
259018 TGCCACTA-AGTCGTGGACTTTGAAGAAAAAATGCCACAGAGTCATGGACTTTGAAGAAAAGATG
1 TGCCAC-AGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTAAAGAAAAGATG
* * * * *
259082 CCACTGAGTCGTGGACTTTGAAGAAAAGATGTCACGGAGTCGTGGACTTTG-AGAAGAGATTGCT
65 CCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCATGGACTTTGAAGAAAAGA-TGCC
* * * * *
259146 ACTA-AGTAGTGGACTTTGAAGAAAAGATGTCACTGAGTCGTGGACTTTGGGAAGGGA
129 AC-AGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCGTGGACTTTGGAAAGAGA
* * *
259203 TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGC
1 TGCCACAGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTAAAGAAAAGATGC
* * *
259268 CACTAAATTGTGGACTTTG
66 CACTGAGTCGTGGACTTTG
259287 GGAAGAGAGA
Statistics
Matches: 410, Mismatches: 34, Indels: 20
0.88 0.07 0.04
Matches are distributed among these distances:
183 25 0.06
184 96 0.23
185 283 0.69
186 6 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.23
Consensus pattern (185 bp):
TGCCACAGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTAAAGAAAAGATGC
CACTGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCATGGACTTTGAAGAAAAGATGCCAC
AGAGTCGTGGACTTTGAAGAAAAGATGCCACAGAGTCGTGGACTTTGGAAAGAGA
Found at i:260541 original size:23 final size:23
Alignment explanation
Indices: 260497--260542 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
260487 CTTTGCACTT
**
260497 TTTTGTGTGTGTGTGTTTTTTTG
1 TTTTGTGTGTGTGTGTACTTTTG
* *
260520 TTTTGTTTTTGTGTGTACTTTTG
1 TTTTGTGTGTGTGTGTACTTTTG
260543 ACTTTTTCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.02, G:0.26, T:0.70
Consensus pattern (23 bp):
TTTTGTGTGTGTGTGTACTTTTG
Found at i:265163 original size:9 final size:9
Alignment explanation
Indices: 265149--265173 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
265139 AGAAAGAAAA
265149 CGTAATGAT
1 CGTAATGAT
265158 CGTAATGAT
1 CGTAATGAT
265167 CGTAATG
1 CGTAATG
265174 TATCTCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (9 bp):
CGTAATGAT
Found at i:267623 original size:21 final size:21
Alignment explanation
Indices: 267577--267650 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
267567 TAGCGATACA
*
267577 TTGTATCGATACA---ACTCT
1 TTGTATCGATACATTTACTAT
267595 TATGTATCGATACATTTACTAT
1 T-TGTATCGATACATTTACTAT
267617 TTGTATCGATACATTTACTAT
1 TTGTATCGATACATTTACTAT
*
267638 TTGTATCAATACA
1 TTGTATCGATACA
267651 AATTGTTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
21 32 0.64
22 5 0.10
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.43
Consensus pattern (21 bp):
TTGTATCGATACATTTACTAT
Found at i:273102 original size:60 final size:59
Alignment explanation
Indices: 273026--273631 Score: 625
Period size: 60 Copynumber: 10.1 Consensus size: 59
273016 TGAAACTTAA
* * **
273026 CACCC-TTGTAGTCCTCAAAAAGCAAGA-CCTTTTTCTCTTAAAGCCCACACAAGTTGGTGG
1 CACCCGTT-TAGTCCTCAAAGAGCAGGAGCCTTTTT-T-AAAAAGCCCACACAAGTTGGTGG
* * * * *
273086 CACCCGTTCAGTCCTCAAAGAGCATGACGCCTTTTTTAAAAAGTCCACATAAGTTAGTGG
1 CACCCGTTTAGTCCTCAAAGAGCAGGA-GCCTTTTTTAAAAAGCCCACACAAGTTGGTGG
* * * * * * * *
273146 CACCCATTCAATCCTCAAAGAGTAGGGCGCCTTTTTTAAAAAGCCCATACAAGTTGGCGA
1 CACCCGTTTAGTCCTCAAAGAGCA-GGAGCCTTTTTTAAAAAGCCCACACAAGTTGGTGG
* * *
273206 CACCCGTTTAGTCCTCAAAGAGTAAGACGCCTTTTTTAAAAAGTCCACACAAGTTGGTGG
1 CACCCGTTTAGTCCTCAAAGAGCAGGA-GCCTTTTTTAAAAAGCCCACACAAGTTGGTGG
* * *
273266 CACCCATTCAGTCCTCAAAGAGTAGGACGCCTTTTTTAAAAAGCCCACACAAGTTGGTGG
1 CACCCGTTTAGTCCTCAAAGAGCAGGA-GCCTTTTTTAAAAAGCCCACACAAGTTGGTGG
* * * **
273326 CACCCATTTAGTCCTCAAAGAGCATGA-CACATTTTTTTAAAAGCCCACACAAGTTGGTAA
1 CACCCGTTTAGTCCTCAAAGAGCAGGAGC-C-TTTTTTAAAAAGCCCACACAAGTTGGTGG
* * *
273386 CACCCGTTTAGTCCTCACAGAGTAGGACGCCTTTTTT-AAAAGCTCACACAAGTTGGTGG
1 CACCCGTTTAGTCCTCAAAGAGCAGGA-GCCTTTTTTAAAAAGCCCACACAAGTTGGTGG
** * * *
273445 CACTTGTTTAGTCCTCAAAGAGCAGGATG-TTTTTTTTAAAAGCCCATACAAGTTGGTGG
1 CACCCGTTTAGTCCTCAAAGAGCAGGA-GCCTTTTTTAAAAAGCCCACACAAGTTGGTGG
* *
273504 CACTCGTTTAGTCCTCAAAGAGCAGGACGCCTTTTTAAAAAAAAAAAAGCCCACACAAGTTGGTG
1 CACCCGTTTAGTCCTCAAAGAGCAGGA-GCCTTTTT------TAAAAAGCCCACACAAGTTGGTG
273569 G
59 G
* *
273570 CACTCGTTTAGTCCTCAAAGAGCA-GATGCCTTTTTT-AAAAG-CCACACGAGTTGGTGG
1 CACCCGTTTAGTCCTCAAAGAGCAGGA-GCCTTTTTTAAAAAGCCCACACAAGTTGGTGG
273627 CACCC
1 CACCC
273632 TAGTCAAAGC
Statistics
Matches: 466, Mismatches: 63, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
57 19 0.04
58 12 0.03
59 92 0.20
60 275 0.59
61 5 0.01
62 8 0.02
65 10 0.02
66 45 0.10
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (59 bp):
CACCCGTTTAGTCCTCAAAGAGCAGGAGCCTTTTTTAAAAAGCCCACACAAGTTGGTGG
Found at i:273198 original size:120 final size:120
Alignment explanation
Indices: 273065--273631 Score: 712
Period size: 120 Copynumber: 4.7 Consensus size: 120
273055 TTTTTCTCTT
* *
273065 AAAGCCCACACAAGTTGGTGGCACCCGTTCAGTCCTCAAAGAGCATGACGCCTTTTTTAAAAAGT
1 AAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCATGACGCCTTTTTTAAAAAGC
* * * *
273130 CCACATAAGTTAGTGGCACCCATTCAATCCTCAAAGAGTAGGGCGCCTTTTTTAA
66 CCACACAAGTTGGTGGCACCCATTCAGTCCTCAAAGAGTAGGACGCCTTTTTTAA
* * * * * *
273185 AAAGCCCATACAAGTTGGCGACACCCGTTTAGTCCTCAAAGAGTAAGACGCCTTTTTTAAAAAGT
1 AAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCATGACGCCTTTTTTAAAAAGC
273250 CCACACAAGTTGGTGGCACCCATTCAGTCCTCAAAGAGTAGGACGCCTTTTTTAA
66 CCACACAAGTTGGTGGCACCCATTCAGTCCTCAAAGAGTAGGACGCCTTTTTTAA
* * * *
273305 AAAGCCCACACAAGTTGGTGGCACCCATTTAGTCCTCAAAGAGCATGACACATTTTTTTAAAAGC
1 AAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCATGACGCCTTTTTTAAAAAGC
** * * *
273370 CCACACAAGTTGGTAACACCCGTTTAGTCCTCACAGAGTAGGACGCCTTTTTT-A
66 CCACACAAGTTGGTGGCACCCATTCAGTCCTCAAAGAGTAGGACGCCTTTTTTAA
* ** * * * *
273424 AAAGCTCACACAAGTTGGTGGCACTTGTTTAGTCCTCAAAGAGCAGGATG-TTTTTTTTAAAAGC
1 AAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCATGACGCCTTTTTTAAAAAGC
* * * * * *
273488 CCATACAAGTTGGTGGCACTCGTTTAGTCCTCAAAGAGCAGGACGCCTTTTTAAAAAAAAA
66 CCACACAAGTTGGTGGCACCCATTCAGTCCTCAAAGAGTAGGACGCCTTTTT------TAA
* *
273549 AAAGCCCACACAAGTTGGTGGCACTCGTTTAGTCCTCAAAGAGCA-GATGCCTTTTTT-AAAAG-
1 AAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCATGACGCCTTTTTTAAAAAGC
*
273611 CCACACGAGTTGGTGGCACCC
66 CCACACAAGTTGGTGGCACCC
273632 TAGTCAAAGC
Statistics
Matches: 393, Mismatches: 46, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
118 59 0.15
119 44 0.11
120 213 0.54
123 18 0.05
124 9 0.02
125 50 0.13
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (120 bp):
AAAGCCCACACAAGTTGGTGGCACCCGTTTAGTCCTCAAAGAGCATGACGCCTTTTTTAAAAAGC
CCACACAAGTTGGTGGCACCCATTCAGTCCTCAAAGAGTAGGACGCCTTTTTTAA
Found at i:273343 original size:180 final size:178
Alignment explanation
Indices: 273025--273631 Score: 727
Period size: 180 Copynumber: 3.4 Consensus size: 178
273015 TTGAAACTTA
* * * *
273025 ACACCC-TTGTAGTCCTCAAAAAGCAAGAC-CTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCA
1 ACACCCGTT-TAGTCCTCAAAGAGTAAGACGCCTTTT-T-TAAAAG-CCACACAAGTTGGTGGCA
* * * *
273088 CCCGTTCAGTCCTCAAAGAGCATGACGCCTTTTTTAAAAAGTCCACATAAGTTAGTGGCACCCAT
62 CCCGTTCAGTCCTCAAAGAGCAGGACGCCTTTTTTAAAAAGCCCACACAAGTTGGTGGCACCCAT
* * * * * *
273153 TCAATCCTCAAAGAGTAGGGCGCCTTTTTTAAAAAGCCCATACAAGTTGGCG
127 TTAGTCCTCAAAGAGCAGGACGCCTTTTTTAAAAAGCCCACACAAGTTGGTG
273205 ACACCCGTTTAGTCCTCAAAGAGTAAGACGCCTTTTTTAAAAAGTCCACACAAGTTGGTGGCACC
1 ACACCCGTTTAGTCCTCAAAGAGTAAGACGCCTTTTTT-AAAAG-CCACACAAGTTGGTGGCACC
* *
273270 CATTCAGTCCTCAAAGAGTAGGACGCCTTTTTTAAAAAGCCCACACAAGTTGGTGGCACCCATTT
64 CGTTCAGTCCTCAAAGAGCAGGACGCCTTTTTTAAAAAGCCCACACAAGTTGGTGGCACCCATTT
* * * * *
273335 AGTCCTCAAAGAGCATGACACATTTTTTTAAAAGCCCACACAAGTTGGTA
129 AGTCCTCAAAGAGCAGGACGCCTTTTTTAAAAAGCCCACACAAGTTGGTG
* * **
273385 ACACCCGTTTAGTCCTCACAGAGTAGGACGCCTTTTTTAAAAGCTCACACAAGTTGGTGGCACTT
1 ACACCCGTTTAGTCCTCAAAGAGTAAGACGCCTTTTTTAAAAGC-CACACAAGTTGGTGGCACCC
* * * * * * *
273450 GTTTAGTCCTCAAAGAGCAGGATG-TTTTTTTTAAAAGCCCATACAAGTTGGTGGCACTCGTTTA
65 GTTCAGTCCTCAAAGAGCAGGACGCCTTTTTTAAAAAGCCCACACAAGTTGGTGGCACCCATTTA
*
273514 GTCCTCAAAGAGCAGGACGCCTTTTTAAAAAAAAAAAAGCCCACACAAGTTGGTG
130 GTCCTCAAAGAGCAGGACGCCTTTTT------TAAAAAGCCCACACAAGTTGGTG
* * * * *
273569 GCACTCGTTTAGTCCTCAAAGAG-CAGATGCCTTTTTTAAAAGCCACACGAGTTGGTGGCACCC
1 ACACCCGTTTAGTCCTCAAAGAGTAAGACGCCTTTTTTAAAAGCCACACAAGTTGGTGGCACCC
273632 TAGTCAAAGC
Statistics
Matches: 367, Mismatches: 50, Indels: 18
0.84 0.11 0.04
Matches are distributed among these distances:
178 59 0.16
179 44 0.12
180 183 0.50
181 7 0.02
182 17 0.05
183 17 0.05
184 40 0.11
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (178 bp):
ACACCCGTTTAGTCCTCAAAGAGTAAGACGCCTTTTTTAAAAGCCACACAAGTTGGTGGCACCCG
TTCAGTCCTCAAAGAGCAGGACGCCTTTTTTAAAAAGCCCACACAAGTTGGTGGCACCCATTTAG
TCCTCAAAGAGCAGGACGCCTTTTTTAAAAAGCCCACACAAGTTGGTG
Found at i:273647 original size:31 final size:31
Alignment explanation
Indices: 273607--273742 Score: 177
Period size: 31 Copynumber: 4.4 Consensus size: 31
273597 GCCTTTTTTA
* *
273607 AAAG-CCACACGAGTTGGTGGCACCCTAGTC
1 AAAGCCCACACAAGTTGGCGGCACCCTAGTC
* *
273637 AAAGCCCACACGAGTTGGCAGCACCCTAGTC
1 AAAGCCCACACAAGTTGGCGGCACCCTAGTC
* * *
273668 AAAGCCTACACAAGTTGGTGGCACCCTTGTC
1 AAAGCCCACACAAGTTGGCGGCACCCTAGTC
*
273699 AAAGCCCGCACAAGTTGGCGGCA-CCTAAGTC
1 AAAGCCCACACAAGTTGGCGGCACCCT-AGTC
273730 AAAGCCCACACAA
1 AAAGCCCACACAA
273743 ATCGATGGCA
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
30 7 0.08
31 85 0.92
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.15
Consensus pattern (31 bp):
AAAGCCCACACAAGTTGGCGGCACCCTAGTC
Found at i:273752 original size:62 final size:62
Alignment explanation
Indices: 273624--273780 Score: 181
Period size: 62 Copynumber: 2.5 Consensus size: 62
273614 CACGAGTTGG
* * * * * *
273624 TGGCACCCTAGTCAAAGCCCACACGAGTTGGCAGCACCCTAGTCAAAGCCTACACAAGTTGG
1 TGGCACCCTTGTCAAAGCCCACACAAGTTGGCAGCACCCTAGTCAAAGCCCACACAAATCGA
* *
273686 TGGCACCCTTGTCAAAGCCCGCACAAGTTGGCGGCA-CCTAAGTCAAAGCCCACACAAATCGA
1 TGGCACCCTTGTCAAAGCCCACACAAGTTGGCAGCACCCT-AGTCAAAGCCCACACAAATCGA
* * *
273748 TGGCACCTCTTTTCAAAAGCCTACATAAGTTGG
1 TGGCACC-CTTGTC-AAAGCCCACACAAGTTGG
273781 TGGCATCTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
61 3 0.04
62 57 0.71
63 5 0.06
64 15 0.19
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.18
Consensus pattern (62 bp):
TGGCACCCTTGTCAAAGCCCACACAAGTTGGCAGCACCCTAGTCAAAGCCCACACAAATCGA
Found at i:273815 original size:31 final size:31
Alignment explanation
Indices: 273728--273911 Score: 102
Period size: 32 Copynumber: 5.8 Consensus size: 31
273718 GGCACCTAAG
* * *
273728 TCAAAGCCCACACAAATC-GATGGCACCTCTTT
1 TCAAAACCCACACAAGTCAG-TGGCATCT-TTT
* * **
273760 TCAAAAGCCTACATAAGTTGGTGGCATCTTTT
1 TCAAAA-CCCACACAAGTCAGTGGCATCTTTT
* * *
273792 TTAAAACCCACACAAGTCAGTGGCAACTCTT
1 TCAAAACCCACACAAGTCAGTGGCATCTTTT
** * **
273823 TCTAAAGTCCACACAAGTC-GATGGCAACCCCTT
1 TC-AAAACCCACACAAGTCAG-TGGC-ATCTTTT
* * * * * *
273856 TCAAAGCCCATATAAGTTAGTAGCATATTTT
1 TCAAAACCCACACAAGTCAGTGGCATCTTTT
*
273887 TCAAAACCCACACAAGTTAGTGGCA
1 TCAAAACCCACACAAGTCAGTGGCA
273912 ACCCTCTTCT
Statistics
Matches: 115, Mismatches: 31, Indels: 13
0.72 0.19 0.08
Matches are distributed among these distances:
31 45 0.39
32 46 0.40
33 23 0.20
34 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (31 bp):
TCAAAACCCACACAAGTCAGTGGCATCTTTT
Found at i:273836 original size:32 final size:31
Alignment explanation
Indices: 273666--273937 Score: 108
Period size: 31 Copynumber: 8.6 Consensus size: 31
273656 AGCACCCTAG
* **
273666 TCAAAGCCTACACAAGTTGGTGGC-ACCCTT
1 TCAAAGCCCACACAAGTCAGTGGCAACCCTT
* ** * *
273696 GTCAAAGCCCGCACAAGTTGGCGGC-A-CCTAAG
1 -TCAAAGCCCACACAAGTCAGTGGCAACCCT--T
*
273728 TCAAAGCCCACACAAATC-GATGGC-ACCTCTTT
1 TCAAAGCCCACACAAGTCAG-TGGCAACC-C-TT
* * ** * **
273760 TCAAAAGCCTACATAAGTTGGTGGCATCTTTT
1 TC-AAAGCCCACACAAGTCAGTGGCAACCCTT
* * *
273792 TTAAAACCCACACAAGTCAGTGGCAACTCTT
1 TCAAAGCCCACACAAGTCAGTGGCAACCCTT
*
273823 TCTAAAGTCCACACAAGTC-GATGGCAACCCCTT
1 TC-AAAGCCCACACAAGTCAG-TGGCAA-CCCTT
* * * * **
273856 TCAAAGCCCATATAAGTTAGTAGCATA-TTTT
1 TCAAAGCCCACACAAGTCAGTGGCA-ACCCTT
* *
273887 TCAAAACCCACACAAGTTAGTGGCAACCCTCT
1 TCAAAGCCCACACAAGTCAGTGGCAACCCT-T
* *
273919 TCTAAAGTCCACACCAGTC
1 TC-AAAGCCCACACAAGTC
273938 GATGGCATTT
Statistics
Matches: 179, Mismatches: 45, Indels: 32
0.70 0.18 0.12
Matches are distributed among these distances:
30 5 0.03
31 89 0.50
32 45 0.25
33 37 0.21
34 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (31 bp):
TCAAAGCCCACACAAGTCAGTGGCAACCCTT
Found at i:273930 original size:96 final size:97
Alignment explanation
Indices: 273730--273944 Score: 292
Period size: 95 Copynumber: 2.2 Consensus size: 97
273720 CACCTAAGTC
* * * * * * * *
273730 AAAGCCCACACAAATCGATGGC-ACCTCTTTTCAAAAGCCTACATAAGTTGGTGGCATCTTTTTT
1 AAAGTCCACACAAGTCGATGGCAACCTCCTTTCAAAAGCCCACATAAGTTAGTAGCATATTTTTC
*
273794 AAAACCCACACAAGTCAGTGGCAACTCTTTCT
66 AAAACCCACACAAGTCAGTGGCAACCCTTTCT
*
273826 AAAGTCCACACAAGTCGATGGCAACC-CCTTTC-AAAGCCCATATAAGTTAGTAGCATATTTTTC
1 AAAGTCCACACAAGTCGATGGCAACCTCCTTTCAAAAGCCCACATAAGTTAGTAGCATATTTTTC
*
273889 AAAACCCACACAAGTTAGTGGCAACCCTCTTCT
66 AAAACCCACACAAGTCAGTGGCAACCCT-TTCT
*
273922 AAAGTCCACACCAGTCGATGGCA
1 AAAGTCCACACAAGTCGATGGCA
273945 TTTTCTTCTA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
95 51 0.49
96 51 0.49
97 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (97 bp):
AAAGTCCACACAAGTCGATGGCAACCTCCTTTCAAAAGCCCACATAAGTTAGTAGCATATTTTTC
AAAACCCACACAAGTCAGTGGCAACCCTTTCT
Found at i:274815 original size:19 final size:18
Alignment explanation
Indices: 274785--274828 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
274775 TTTTTGGGAG
*
274785 AAAAACAAAAAGTTGTTA
1 AAAAAAAAAAAGTTGTTA
274803 AAAGAAAAAAAAGTTGTTA
1 AAA-AAAAAAAAGTTGTTA
274822 AAAAAAA
1 AAAAAAA
274829 GAGAGAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.18
Consensus pattern (18 bp):
AAAAAAAAAAAGTTGTTA
Found at i:275163 original size:17 final size:19
Alignment explanation
Indices: 275143--275177 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
275133 GGTGAGCGAT
275143 GACCGACG-G-TGGTCGAC
1 GACCGACGTGATGGTCGAC
275160 GACCGACGTGATGGTCGA
1 GACCGACGTGATGGTCGA
275178 TCATTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.20, C:0.26, G:0.40, T:0.14
Consensus pattern (19 bp):
GACCGACGTGATGGTCGAC
Found at i:275260 original size:17 final size:17
Alignment explanation
Indices: 275235--275273 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
275225 GTTATTGGTG
*
275235 AGAAAGAAGGAAAAAGA
1 AGAAGGAAGGAAAAAGA
*
275252 AGAAGGAAGGAAGAAGA
1 AGAAGGAAGGAAAAAGA
275269 AGAAG
1 AGAAG
275274 AAAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AGAAGGAAGGAAAAAGA
Found at i:275871 original size:11 final size:10
Alignment explanation
Indices: 275826--275872 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
275816 TGGTTTCCAT
275826 AAAAAAAT-A
1 AAAAAAATAA
*
275835 AAAAGAATAA
1 AAAAAAATAA
275845 ACAAAAAATAA
1 A-AAAAAATAA
275856 AAAAATAATAA
1 AAAAA-AATAA
*
275867 TAAAAA
1 AAAAAA
275873 TTATATTTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 7 0.22
10 7 0.22
11 18 0.56
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:275871 original size:20 final size:20
Alignment explanation
Indices: 275824--275873 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
275814 TCTGGTTTCC
275824 ATAAAAAAATAAAAAGAATA
1 ATAAAAAAATAAAAAGAATA
275844 A-ACAAAAAATAAAAA-AATA
1 ATA-AAAAAATAAAAAGAATA
275863 ATAATAAAAAT
1 ATAA-AAAAAT
275874 TATATTTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (20 bp):
ATAAAAAAATAAAAAGAATA
Found at i:277395 original size:12 final size:12
Alignment explanation
Indices: 277362--277397 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
277352 CCATGAAATA
277362 ATTTTGATAGTG
1 ATTTTGATAGTG
*
277374 ATTTGGGATAGTG
1 ATTT-TGATAGTG
277387 ATTTTGATAGT
1 ATTTTGATAGT
277398 CTTTGAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (12 bp):
ATTTTGATAGTG
Found at i:277659 original size:2 final size:2
Alignment explanation
Indices: 277654--277681 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
277644 TGCGACACAC
277654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
277682 TTATGTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:285459 original size:16 final size:16
Alignment explanation
Indices: 285440--285473 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
285430 AAAAATATAT
285440 ATTTAAA-ATATTAAAA
1 ATTTAAAGATA-TAAAA
285456 ATTTAAAGATATAAAA
1 ATTTAAAGATATAAAA
285472 AT
1 AT
285474 AATAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTTAAAGATATAAAA
Found at i:285850 original size:23 final size:23
Alignment explanation
Indices: 285822--285875 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
285812 ATATATAATC
*
285822 TTTAATTTATATTTAAATAAATT
1 TTTAATTTATACTTAAATAAATT
*
285845 TTTAATTTATACTTAAATATATT
1 TTTAATTTATACTTAAATAAATT
285868 TTTAATTT
1 TTTAATTT
285876 TTAATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTAATTTATACTTAAATAAATT
Found at i:285863 original size:53 final size:53
Alignment explanation
Indices: 285772--285901 Score: 136
Period size: 53 Copynumber: 2.4 Consensus size: 53
285762 AAATATTATT
* * *
285772 ATTT-TATTTAAATAAGTGTTTATATTTTGTACCTAAATAAATATATAATCTTTA
1 ATTTATATTTAAATAAAT-TTT-TAATTTATACCTAAATAAATATATAATCTTTA
* * * * *
285826 ATTTATATTTAAATAAATTTTTAATTTATACTTAAATATATTTTTAATTTTTA
1 ATTTATATTTAAATAAATTTTTAATTTATACCTAAATAAATATATAATCTTTA
* * *
285879 ATTAATACTAAAATAAATTTTTA
1 ATTTATATTTAAATAAATTTTTA
285902 TATAAATAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 45 0.70
54 7 0.11
55 12 0.19
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (53 bp):
ATTTATATTTAAATAAATTTTTAATTTATACCTAAATAAATATATAATCTTTA
Found at i:285877 original size:30 final size:30
Alignment explanation
Indices: 285841--285901 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
285831 TATTTAAATA
* * *
285841 AATTTTTAATTTATACTTAAATATATTTTT
1 AATTTTTAATTAATACTAAAATAAATTTTT
285871 AATTTTTAATTAATACTAAAATAAATTTTT
1 AATTTTTAATTAATACTAAAATAAATTTTT
285901 A
1 A
285902 TATAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (30 bp):
AATTTTTAATTAATACTAAAATAAATTTTT
Found at i:285883 original size:23 final size:23
Alignment explanation
Indices: 285822--285883 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
285812 ATATATAATC
*
285822 TTTAATTTATATTTAAATAAATT
1 TTTAATTTATAATTAAATAAATT
* *
285845 TTTAATTTATACTTAAATATATT
1 TTTAATTTATAATTAAATAAATT
*
285868 TTTAATTTTTAATTAA
1 TTTAATTTATAATTAA
285884 TACTAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAATTTATAATTAAATAAATT
Found at i:285925 original size:17 final size:17
Alignment explanation
Indices: 285887--285928 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
285877 TAATTAATAC
285887 TAAAATAAATTTTTATA
1 TAAAATAAATTTTTATA
* *
285904 T-AAATAATTTTTTATT
1 TAAAATAAATTTTTATA
285920 TAAAATAAA
1 TAAAATAAA
285929 AATAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAAATAAATTTTTATA
Found at i:292836 original size:6 final size:7
Alignment explanation
Indices: 292819--292844 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
292809 AAGTTAAATA
292819 TTTTTTC
1 TTTTTTC
292826 TTTTTTC
1 TTTTTTC
292833 TTTTTTC
1 TTTTTTC
292840 TTTTT
1 TTTTT
292845 GGGTCAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:293581 original size:21 final size:22
Alignment explanation
Indices: 293552--293608 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
293542 AAAAAAAATG
293552 GATAGTTTTTAAAAAA-GTGGGT-
1 GATA-TTTTTAAAAAATG-GGGTA
*
293574 GATATTTTTAGAAAATGGGGTA
1 GATATTTTTAAAAAATGGGGTA
*
293596 GGTATTTTTAAAA
1 GATATTTTTAAAA
293609 GTAAATAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.37, C:0.00, G:0.25, T:0.39
Consensus pattern (22 bp):
GATATTTTTAAAAAATGGGGTA
Found at i:294915 original size:17 final size:17
Alignment explanation
Indices: 294871--294909 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
294861 AAGCAAATTA
*
294871 AAAAAGAAG-AGAAAAG
1 AAAAAGAAGAAAAAAAG
294887 AAAAAGAAGAAAAAAAG
1 AAAAAGAAGAAAAAAAG
294904 AAAAAG
1 AAAAAG
294910 CTGAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGAAAAAAAG
Found at i:295559 original size:14 final size:15
Alignment explanation
Indices: 295528--295569 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
295518 ATAAATTGAT
295528 TAAAAATTACAAAAA
1 TAAAAATTACAAAAA
* *
295543 TAAAAA-TACATACA
1 TAAAAATTACAAAAA
*
295557 TAATAATTACAAA
1 TAAAAATTACAAA
295570 GTAAATAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAATTACAAAAA
Found at i:296511 original size:9 final size:10
Alignment explanation
Indices: 296495--296519 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
296485 TAAAAAAATT
296495 AAATTTTTCA
1 AAATTTTTCA
296505 AAATTTTTCA
1 AAATTTTTCA
296515 AAATT
1 AAATT
296520 AATATGTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATTTTTCA
Found at i:296966 original size:17 final size:17
Alignment explanation
Indices: 296923--296963 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
296913 ATAAAAAAAT
*
296923 AAATATGATATGACACA
1 AAATATAATATGACACA
296940 AAATATAATATGA-ACA
1 AAATATAATATGACACA
*
296956 TAATATAA
1 AAATATAA
296964 ATAGATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (17 bp):
AAATATAATATGACACA
Found at i:297765 original size:12 final size:12
Alignment explanation
Indices: 297728--297766 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
297718 TTTTTTGATT
*
297728 TTTAATTTTTATA
1 TTTATTTTTTA-A
297741 TTTATTTTCTTAA
1 TTTATTTT-TTAA
297754 TTTATTTTTTAA
1 TTTATTTTTTAA
297766 T
1 T
297767 GTAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 16 0.67
14 3 0.12
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATTTTTTAA
Found at i:297862 original size:20 final size:22
Alignment explanation
Indices: 297831--297928 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 22
297821 TTTAATATAA
297831 AATATAATTTTAATTATT-TTT
1 AATATAATTTTAATTATTATTT
297852 AATAT-ATTTTAATTATTATTT
1 AATATAATTTTAATTATTATTT
* * * *
297873 AACATAAATAT-ATTTTTATTT
1 AATATAATTTTAATTATTATTT
297894 --TAT-ATTTT-ATTATTTGATATT
1 AATATAATTTTAATTA-TT-AT-TT
297915 AATATAATTTTAAT
1 AATATAATTTTAAT
297929 AATTTTAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
18 6 0.10
19 4 0.07
20 14 0.23
21 23 0.38
22 3 0.05
23 3 0.05
24 5 0.08
25 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
AATATAATTTTAATTATTATTT
Found at i:299387 original size:20 final size:20
Alignment explanation
Indices: 299364--299402 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
299354 AAACTACCCA
299364 AATGTATCAATACATTCTTC
1 AATGTATCAATACATTCTTC
*
299384 AATGTATCGATACATTCTT
1 AATGTATCAATACATTCTT
299403 TGTTTTTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
AATGTATCAATACATTCTTC
Found at i:306472 original size:17 final size:18
Alignment explanation
Indices: 306442--306493 Score: 72
Period size: 16 Copynumber: 2.9 Consensus size: 18
306432 AAAGTCGAAA
*
306442 GCAAAAGCACAAAAAAAT
1 GCAAAAGCAAAAAAAAAT
306460 G-AAAAG-AAAAAAAAAT
1 GCAAAAGCAAAAAAAAAT
306476 GCAAAAGCAAAATAAAAA
1 GCAAAAGCAAAA-AAAAA
306494 GGGAACAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 10 0.33
17 10 0.33
18 5 0.17
19 5 0.17
ACGTcount: A:0.73, C:0.10, G:0.12, T:0.06
Consensus pattern (18 bp):
GCAAAAGCAAAAAAAAAT
Found at i:307815 original size:27 final size:27
Alignment explanation
Indices: 307753--308075 Score: 432
Period size: 27 Copynumber: 11.8 Consensus size: 27
307743 TTTCTTTTCA
* *
307753 AAGTCCACAACTCCGTGGCATTCTTTTT
1 AAGTCCACAACTCCGTGGCA-ACCTTTT
* * *
307781 AAGTCCACAACTCTGTAGCACCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*
307808 AAGTCCACAACTCCGTGGCAACCTTTG
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
307835 AAGTCCACAACTCCATGGCAACCTTTG
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
307862 AAGTCCACAACTCCGTGGCAACCATCT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
307889 AAGTCCACAACTCCATGGCAACCATTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
307916 AAGTCCACAACTCCGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
307943 AAAGTCCACAACTCCGTGGCAATCCTTTTT
1 -AAGTCCACAACTCCGTGGCAA-CC-TTTT
*
307973 AAGTCCACAACTCCGTGGC-ACTTTTTT
1 AAGTCCACAACTCCGTGGCAAC-CTTTT
** *
308000 AAGTCCACAACTCTATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
308027 AAGTCCACAACTCCGTGGTATCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
308054 AAGTCCACAACTCCGTGGCAAC
1 AAGTCCACAACTCCGTGGCAAC
308076 ACCTTTTTAA
Statistics
Matches: 263, Mismatches: 27, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
27 197 0.75
28 41 0.16
29 21 0.08
30 4 0.02
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCAACCTTTT
Found at i:308178 original size:29 final size:28
Alignment explanation
Indices: 308078--309170 Score: 976
Period size: 28 Copynumber: 37.6 Consensus size: 28
308068 GTGGCAACAC
* *
308078 CTTTTTAAAGCCCACAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
308106 CATTTCAAAGCCCACAAGTTAATGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
308134 C-ATTCCAAGCCCACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
*
308162 CTTTTTAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
**
308190 CTTTTCAAAGCCCACACGAGTTGGTGGCAAGT
1 CTTTTCAAAGCCCACA--AGTCAGTGGC-A-T
*
308222 CTTTTTAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
** * *
308250 CTTTTCAAAGCCCATGAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
308278 CCTTTCAAAGCTCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
308306 CCTTTCAAAGCCCACAAGTAAGTGGCATT
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
*
308335 CTTTTCAAAGCCCACAAGTTAGTGGCATT
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
* *
308364 CTTCTCAAAACCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
308392 CCTTCTCAAAGCCCACACAAATCAGTGACAC
1 -CTTTTCAAAG-CC-CACAAGTCAGTGGCAT
* ** * *
308423 CTTTTCAAAACCCGTAAGTTAATGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
308451 CCTTTTCAAAGCCCACACAAGTCGGTGGCAT
1 -CTTTTCAAAG-CC-CACAAGTCAGTGGCAT
**
308482 CATTTT-AAAGCCCACACGAGTGGGTGGCAACT
1 C-TTTTCAAAGCCCACA--AGTCAGTGGC-A-T
* *
308514 CTTTTTAAAACCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
** * *
308542 CCTTTT-AAAGCCCATGAGTTAGTGGCAC
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
308570 CTTTTCAAAGTCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
308598 CCTTTCAAAGGCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
308626 CTTTTCAAAGCCCACAAGTTAGTGGCTTT
1 CTTTTCAAAGCCCACAAGTCAGTGGC-AT
308655 CTTTTCAAAGCCCACAAGTCAGTGGCATT
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
308684 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
308712 CCTTCTT-AAAGCCCACACAAATCAGTGGCA-
1 -CTT-TTCAAAG-CC-CACAAGTCAGTGGCAT
*
308742 CTTTTTCAAAGCCCACAAGCCAGTGGCAT
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAT
*
308771 CCTTTTCAAAGCCCACACAAGTCGGTGGCAT
1 -CTTTTCAAAG-CC-CACAAGTCAGTGGCAT
* *
308802 CCTTTCAAAGCCCACACGAGTCGGTGGCAACT
1 CTTTTCAAAGCCCACA--AGTCAGTGGC-A-T
* **
308834 CTTTTTAAAGCCCACAAGTTGGTGGCAACT
1 CTTTTCAAAGCCCACAAGTCAGTGGC-A-T
* * *
308864 CTTTTTAAAGCCCACAAGTTAGTAGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* ** *
308892 CCTTTCAAAGCCCATGAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
308920 CCTTTCAAAGCCCACAAGTCAGTGACAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
308948 CTTTTGAAAGCCCACACAAGTC-GATGGTAACC
1 CTTTTCAAAG-CC-CACAAGTCAG-TGG-CA-T
* * *
308980 CATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CTTTTCAAAG-CC-CACAAGTCAGTGGC-AT
* *
309011 CTATTTCAAAGCTCACAAGTCA-TGCCAT
1 CT-TTTCAAAGCCCACAAGTCAGTGGCAT
* * *
309039 CCTTCTCAAAGCCCACATAAATAAGTGGCAT
1 -CTTTTCAAAGCCCAC--AAGTCAGTGGCAT
*
309070 CTTTTCAAAGCCCACAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
309098 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
309126 CTTTTCAAAGCTCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
309154 CCTTCTCAAAGCTCACA
1 -CTTTTCAAAGCCCACA
309171 TAAATTAGTG
Statistics
Matches: 896, Mismatches: 119, Indels: 99
0.80 0.11 0.09
Matches are distributed among these distances:
27 26 0.03
28 365 0.41
29 202 0.23
30 155 0.17
31 72 0.08
32 75 0.08
33 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:308750 original size:320 final size:318
Alignment explanation
Indices: 308108--309141 Score: 1284
Period size: 320 Copynumber: 3.2 Consensus size: 318
308098 AGTGGCATCA
* *
308108 TTTCAAAGCCCACAAGTTAATGGCATC-ATTCCAAGCCCACAAGTCAGTGGCACTCTTTTTAAAG
1 TTTCAAAGCCCACAAGTTAATGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-TC-TTTTAAAG
* * *
308172 CCCACA--AGTCAGTGGC-A-TCTTTTCAAAGCCCACACGAGTTGGTGGCAAGTCTTTTTAAAGC
64 CCCACACGAGTCGGTGGCAACTCTTTTTAAAGCCCACA--AGTTGGTGGCAACTCTTTTTAAAGC
* * *
308233 CCACAAGTCAGTGGCATCTTTTCAAAGCCCATGAGTTAGTGGCACCCTTTCAAA-GCTCACAAGT
127 CCACAAGTTAGTGGCACCTTTTCAAAGCCCATGAGTCAGTGGCACCCTTTCAAAGGC-CACAAGT
* * * *
308297 CAGTGGCACCCTTTCAAAGCCCACAAGTAAGTGGCATTCTTTTCAAAGCCCACAAGTTAGTGGCA
191 CAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCTTTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
308362 TTCTTCTCAAAACCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGACACCT
256 TTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGCACTT
* ** *
308425 TTTCAAAACCCGTAAGTTAATGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGCATCATTTTAA
1 TTTCAAAGCCCACAAGTTAATGGCAT-CTTTTCAAAG-CC-CACAAGTCAGTGGCATC-TTTTAA
* * ** *
308490 AGCCCACACGAGTGGGTGGCAACTCTTTTTAAAACCCACAAGTCAGTGGC-A-TCCTTTTAAAGC
62 AGCCCACACGAGTCGGTGGCAACTCTTTTTAAAGCCCACAAGTTGGTGGCAACTCTTTTTAAAGC
** * **
308553 CCATGAGTTAGTGGCACCTTTTCAAAGTCCACAAGTCAGTGGCACCCTTTCAAAGGCCACAAGTC
127 CCACAAGTTAGTGGCACCTTTTCAAAGCCCATGAGTCAGTGGCACCCTTTCAAAGGCCACAAGTC
308618 AGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCTTTCTTTTCAAAGCCCACAAGTCAGTGGCAT
192 AGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCTTTCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
308683 TCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTTAAAGCCCACACAAATCAGTGGCACTT
257 TCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGCACTT
** * * *
308745 TTTCAAAGCCCACAAGCCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGCATCCTTTCAA
1 TTTCAAAGCCCACAAGTTAATGGCAT-CTTTTCAAAG-CC-CACAAGTCAGTGGCAT-CTTTTAA
308810 AGCCCACACGAGTCGGTGGCAACTCTTTTTAAAGCCCACAAGTTGGTGGCAACTCTTTTTAAAGC
62 AGCCCACACGAGTCGGTGGCAACTCTTTTTAAAGCCCACAAGTTGGTGGCAACTCTTTTTAAAGC
* *
308875 CCACAAGTTAGTAGCATCC-TTTCAAAGCCCATGAGTCAGTGGCACCCTTTCAAAGCCCACAAGT
127 CCACAAGTTAGTGGCA-CCTTTTCAAAGCCCATGAGTCAGTGGCACCCTTTCAAAGGCCACAAGT
* * * ** *
308939 CAGTGACACCTTTTGAAAGCCCACACAAG-TCGATGG-TAACCCATTTCAAAGCCCACACAAGTC
191 CAGTGGCACCTTTTCAAAG-CC-CACAAGTTAG-TGGCT--TTCTTTTCAAAG-CC-CACAAGTC
* ** * * * *
309002 GGTGGCAACCTATTTCAAAGCTCACAAGTCA-TGCCATCCTTCTCAAAGCCCACATAAATAAGTG
249 AGTGGCATTCT-TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTG
309066 GCA-TCT
313 GCACT-T
*
309072 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
1 TTTCAAAGCCCACAAGTTAATGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTT-AAAGC
*
309137 TCACA
65 CCACA
309142 AGTCAGTGGC
Statistics
Matches: 625, Mismatches: 69, Indels: 39
0.85 0.09 0.05
Matches are distributed among these distances:
317 23 0.04
318 1 0.00
319 6 0.01
320 303 0.48
321 19 0.03
322 98 0.16
323 12 0.02
324 48 0.08
325 11 0.02
326 13 0.02
327 73 0.12
328 18 0.03
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (318 bp):
TTTCAAAGCCCACAAGTTAATGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTAAAGCC
CACACGAGTCGGTGGCAACTCTTTTTAAAGCCCACAAGTTGGTGGCAACTCTTTTTAAAGCCCAC
AAGTTAGTGGCACCTTTTCAAAGCCCATGAGTCAGTGGCACCCTTTCAAAGGCCACAAGTCAGTG
GCACCTTTTCAAAGCCCACAAGTTAGTGGCTTTCTTTTCAAAGCCCACAAGTCAGTGGCATTCTT
TTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGCACTT
Done.