Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008129.1 Hibiscus syriacus cultivar Beakdansim tig00110684_pilon, whole genome shotgun sequence
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: 2577775
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 10
Found at i:1753059 original size:58 final size:56
Alignment explanation
Indices: 1752874--1753063 Score: 166
Period size: 58 Copynumber: 3.3 Consensus size: 56
1752864 TAAAAATAAT
* * *
1752874 ATTTTGATATATTACAATAAA-GACCAAAACTTTTATAAATTACAAACAAATGCCAAA
1 ATTTTTATAAATTACAAAAAATG-CCAAAACTTTTATAAATTAC-AACAAATGCCAAA
* *
1752931 CTTTTTATAAATTACAAAAAATGCCAAAACTTTTTATAAATTACAACAAATGCAAAAA
1 ATTTTTATAAATTACAAAAAATGCCAAAAC-TTTTATAAATTACAACAAATGC-CAAA
*** * ** * ** * *
1752989 AAAATTAAAAATTACAACTAATTCCAATTGCTTTTATAAATTACAACAAATTCCAATT
1 ATTTTTATAAATTACAAAAAATGCCAA-AACTTTTATAAATTACAACAAATGCCAA-A
*
1753047 GTTTTTATAAATTACAA
1 ATTTTTATAAATTACAA
1753064 TCAAAGAAAA
Statistics
Matches: 105, Mismatches: 23, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
57 35 0.33
58 69 0.66
59 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (56 bp):
ATTTTTATAAATTACAAAAAATGCCAAAACTTTTATAAATTACAACAAATGCCAAA
Found at i:1760582 original size:30 final size:30
Alignment explanation
Indices: 1760548--1760606 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
1760538 TCACAAGTTA
* *
1760548 AGTCGATTTGTTTCGGAGTTTCTTTCGATG
1 AGTCGATTTGCTTCAGAGTTTCTTTCGATG
1760578 AGTCGATTTGCTTCAGAGTTTCTTTCGAT
1 AGTCGATTTGCTTCAGAGTTTCTTTCGAT
1760607 TGAGAAATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (30 bp):
AGTCGATTTGCTTCAGAGTTTCTTTCGATG
Found at i:1765072 original size:31 final size:31
Alignment explanation
Indices: 1765031--1765089 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1765021 TGACTTAAGG
* *
1765031 AAGATGATAAGGTTGAGGT-TTCTTGGTTGGA
1 AAGATAATAAGGATGAGGTGTT-TTGGTTGGA
1765062 AAGATAATAAGGATGAGGTGTTTTGGTT
1 AAGATAATAAGGATGAGGTGTTTTGGTT
1765090 TAATGGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.34, T:0.36
Consensus pattern (31 bp):
AAGATAATAAGGATGAGGTGTTTTGGTTGGA
Found at i:1766376 original size:24 final size:24
Alignment explanation
Indices: 1766347--1766392 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
1766337 ACATGACATG
1766347 GTACATAGATGTTTTATACATCGT
1 GTACATAGATGTTTTATACATCGT
1766371 GTACATAGATGTTTTATACATC
1 GTACATAGATGTTTTATACATC
1766393 ATCAGGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
GTACATAGATGTTTTATACATCGT
Found at i:1770655 original size:24 final size:24
Alignment explanation
Indices: 1770620--1770669 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
1770610 ATGCTTAGAA
*
1770620 AAGATTTAACTGGTGGAAAAAGGT
1 AAGATTTAACTGATGGAAAAAGGT
*
1770644 AAGATTTCACTGATGGAAAAAGGT
1 AAGATTTAACTGATGGAAAAAGGT
1770668 AA
1 AA
1770670 AACTAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (24 bp):
AAGATTTAACTGATGGAAAAAGGT
Found at i:1771961 original size:29 final size:31
Alignment explanation
Indices: 1771912--1771970 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
1771902 ATTTTAAATA
*
1771912 GTGACCAAAATAGAAAGTTT-GAA-AGTTTG
1 GTGACCAAAATAGAAACTTTGGAATAGTTTG
* *
1771941 GTGACCAAAGTATAAACTTTGGAATAGTTT
1 GTGACCAAAATAGAAACTTTGGAATAGTTT
1771971 AGGCACCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.68
30 3 0.12
31 5 0.20
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (31 bp):
GTGACCAAAATAGAAACTTTGGAATAGTTTG
Found at i:1786351 original size:11 final size:11
Alignment explanation
Indices: 1786337--1786387 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
1786327 AAATTTTGAC
1786337 TTTTTTGTTTT
1 TTTTTTGTTTT
1786348 TTTTTTGTTTT
1 TTTTTTGTTTT
*
1786359 TTTTTT-TCCTT
1 TTTTTTGT-TTT
1786370 TTTTTTGTTTT
1 TTTTTTGTTTT
*
1786381 TGTTTTG
1 TTTTTTG
1786388 AAAACAGTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 1 0.03
11 33 0.94
12 1 0.03
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:1786352 original size:12 final size:12
Alignment explanation
Indices: 1786337--1786375 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1786327 AAATTTTGAC
1786337 TTTTTTG-TTTT
1 TTTTTTGTTTTT
1786348 TTTTTTGTTTTT
1 TTTTTTGTTTTT
*
1786360 TTTTTTCCTTTTT
1 TTTTTT-GTTTTT
1786373 TTT
1 TTT
1786376 GTTTTTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 7 0.28
12 10 0.40
13 8 0.32
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.90
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:1798129 original size:23 final size:23
Alignment explanation
Indices: 1798081--1798130 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1798071 TATATTATTC
*
1798081 TAAATCCTTAAAAATTATGAACA
1 TAAATCCTTAAAAATTATAAACA
*
1798104 TAAATCC-TAAAAATTACTAAAGA
1 TAAATCCTTAAAAATTA-TAAACA
1798127 TAAA
1 TAAA
1798131 ACTTGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAATCCTTAAAAATTATAAACA
Found at i:1798408 original size:20 final size:20
Alignment explanation
Indices: 1798383--1798432 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1798373 CCGTCCGTCT
1798383 CGGCTCGGCTCGACAAGGCA
1 CGGCTCGGCTCGACAAGGCA
1798403 CGGCTCGGCTCGACAAGGCA
1 CGGCTCGGCTCGACAAGGCA
*
1798423 TGGCTCGGCT
1 CGGCTCGGCT
1798433 TGTGGTCGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.34, G:0.36, T:0.14
Consensus pattern (20 bp):
CGGCTCGGCTCGACAAGGCA
Found at i:1804183 original size:6 final size:6
Alignment explanation
Indices: 1804172--1804197 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1804162 ACGGCTCGGC
1804172 TCGTGG TCGTGG TCGTGG TCGTGG TC
1 TCGTGG TCGTGG TCGTGG TCGTGG TC
1804198 TTTGTAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.46, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:1813290 original size:21 final size:21
Alignment explanation
Indices: 1813266--1813309 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1813256 GTTGATGTGT
*
1813266 AATGTTTAAATGGAATGTTAG
1 AATGCTTAAATGGAATGTTAG
* * *
1813287 AATGCTTGAATGTATTGTTAG
1 AATGCTTAAATGGAATGTTAG
1813308 AA
1 AA
1813310 GTTGGAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (21 bp):
AATGCTTAAATGGAATGTTAG
Found at i:1813784 original size:42 final size:42
Alignment explanation
Indices: 1813713--1813935 Score: 257
Period size: 43 Copynumber: 5.2 Consensus size: 42
1813703 TGTGAAATAA
* * * *
1813713 AAACGTCGCAAAAAGTTAAGATCTATAGCGGCATTTTTGAAAC
1 AAACGCCGC-AAAAGGTCAGATCTATAGCGGCGTTTTTGAAAC
* *
1813756 AAACGCCGCAAAATGTCAGATCTATAGCGGCGTTTTTGTAGAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTG-AAAC
* * *
1813799 AAACGCCGCAAAAGGTCGAGATATATAGCGGCGCTTTTGTAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGAAAC
* * * * *
1813842 AAACGCTGCAAAAGGTCAAATCTGTAGCAGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTT-GAAAC
* * *
1813885 AAACGCCGCAAAAGGTCATATCTGTAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGAAAC
1813927 AAACGCCGC
1 AAACGCCGC
1813936 TAATTACCAT
Statistics
Matches: 153, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
42 52 0.34
43 82 0.54
44 19 0.12
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGAAAC
Found at i:1814065 original size:18 final size:19
Alignment explanation
Indices: 1814031--1814066 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1814021 TTTATATAAA
*
1814031 TAACAACAACCATAAATTT
1 TAACAACAACAATAAATTT
1814050 TAACAACAA-AATAAATT
1 TAACAACAACAATAAATT
1814067 AAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (19 bp):
TAACAACAACAATAAATTT
Found at i:1817947 original size:41 final size:41
Alignment explanation
Indices: 1817873--1818193 Score: 340
Period size: 41 Copynumber: 7.7 Consensus size: 41
1817863 GAAGCAACTT
* *
1817873 GCGGCGTTTGTAAAAAAAGGCCACTAAAG-ACAAGTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
* * *
1817913 GCGGCGTTTGTACAAAAACGCCACTAAAGTACAAGCCTATT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
* * *
1817954 GCGGCGTTTGTAAACACAAACGCCACTAAAGTACAAGCCTATT
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACAAGTCTATA
* * * * *
1817997 GTGGCATTTGTAAACACAAACACCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACAAGTCTATA
* * * *
1818040 GTGGCATTTGTATAAAAATGCCACTAAAGTAGGAA-TCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTA-CAAGTCTATA
* **
1818081 ACGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
**
1818122 GCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
* * * *
1818163 GTGGCTTTTTTTATAAAAACGCCGCTAAAGT
1 GCGGC-GTTTGTATAAAAACGCCACTAAAGT
1818194 TACCATTTTG
Statistics
Matches: 248, Mismatches: 27, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
40 28 0.11
41 119 0.48
42 25 0.10
43 76 0.31
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
Found at i:1828835 original size:28 final size:28
Alignment explanation
Indices: 1828804--1828870 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
1828794 TACTCACTGC
*
1828804 TGCCTGATATATCAA-TTGCACTCGAAAG
1 TGCCTGATATAT-AATTTACACTCGAAAG
*
1828832 TGCCTCG-TAAATAATTTACACTCGAAAG
1 TGCCT-GATATATAATTTACACTCGAAAG
* *
1828860 TGTCTCATATA
1 TGCCTGATATA
1828871 ACTTGTACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 2 0.06
28 28 0.90
29 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (28 bp):
TGCCTGATATATAATTTACACTCGAAAG
Found at i:1852783 original size:117 final size:116
Alignment explanation
Indices: 1852535--1852786 Score: 387
Period size: 116 Copynumber: 2.2 Consensus size: 116
1852525 AATGCAAGGT
* * * *** * *
1852535 ACCCAATAAGCACCTAATTGCCACTATGACGTATAGGTGTTATAGTATACAACGACACTATACTA
1 ACCCAATAAGCACCTAAGTGCCACAAAGACGTATAGGCACTATAATATACAACGACACTACACTA
*
1852600 ACAATTTCGGAGTGTAATTCATTATGAATACCATCCTTGCACACAAAGTGG
66 ACAATTTCGGAGTGTAATTCATTATGAATACCATCCTTGCACACAAAGTGC
*
1852651 ACCCAATAAGCACCTAAGTGCCACAAAGACGTATAGGCACTATAATATACAGCGACACTACACTA
1 ACCCAATAAGCACCTAAGTGCCACAAAGACGTATAGGCACTATAATATACAACGACACTACACTA
*
1852716 ACAATTTCGGAGTGGTATTTCATTATGAATACCATCCTTGCACACAAAGTGC
66 ACAATTTCGGAGT-GTAATTCATTATGAATACCATCCTTGCACACAAAGTGC
*
1852768 ACCCAGTAAGCACCTAAGT
1 ACCCAATAAGCACCTAAGT
1852787 TGCATAGTAC
Statistics
Matches: 123, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
116 69 0.56
117 54 0.44
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (116 bp):
ACCCAATAAGCACCTAAGTGCCACAAAGACGTATAGGCACTATAATATACAACGACACTACACTA
ACAATTTCGGAGTGTAATTCATTATGAATACCATCCTTGCACACAAAGTGC
Found at i:1854212 original size:19 final size:20
Alignment explanation
Indices: 1854188--1854233 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1854178 TAAAGTGACC
1854188 CAATTTC-ACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
1854207 CAATTTCAACATTCTAACAT
1 CAATTTCAACACTCTAACAT
*
1854227 TAATTTC
1 CAATTTC
1854234 CAGCATAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:1854427 original size:21 final size:22
Alignment explanation
Indices: 1854403--1854448 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1854393 ATAGCAAAGC
*
1854403 TTTCATG-AAATTTCTCCTTAA
1 TTTCATGTAAATTTATCCTTAA
* *
1854424 TTTCATGTCAATTTATCCTTTA
1 TTTCATGTAAATTTATCCTTAA
1854446 TTT
1 TTT
1854449 AAAATTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.24, C:0.17, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTCATGTAAATTTATCCTTAA
Found at i:1855251 original size:59 final size:59
Alignment explanation
Indices: 1855179--1855331 Score: 252
Period size: 59 Copynumber: 2.6 Consensus size: 59
1855169 TACCAGTATG
*
1855179 ATACAAACTTTATGTTGCATGATATGATTATTTCATATCTTCATATTTTCATATGTTAT
1 ATACAAACTTTATGTTGCATGATATGATTATTTCATATCTTCATATTTTCATATATTAT
*
1855238 ATACAAACTTTATGTTGCATGATATGTTTATTTCATATCTTCATATTTTCATATATTAT
1 ATACAAACTTTATGTTGCATGATATGATTATTTCATATCTTCATATTTTCATATATTAT
* ** *
1855297 ATATAAACCATATGTTGTATGATATGATTATTTCA
1 ATACAAACTTTATGTTGCATGATATGATTATTTCA
1855332 AGTTTATATT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 87 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.48
Consensus pattern (59 bp):
ATACAAACTTTATGTTGCATGATATGATTATTTCATATCTTCATATTTTCATATATTAT
Found at i:1856802 original size:14 final size:15
Alignment explanation
Indices: 1856785--1856813 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1856775 GCAACAAAAG
1856785 CAAAAGAAAA-ATAA
1 CAAAAGAAAATATAA
1856799 CAAAAGAAAATATAA
1 CAAAAGAAAATATAA
1856814 AACAAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (15 bp):
CAAAAGAAAATATAA
Found at i:1857833 original size:16 final size:16
Alignment explanation
Indices: 1857795--1857838 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
1857785 GGCCATTGCT
1857795 TGAAGAAAATAATTTGG
1 TGAAGAAAA-AATTTGG
*
1857812 TAAAGAAAAAATTTGAG
1 TGAAGAAAAAATTTG-G
1857829 -GAAGAAAAAA
1 TGAAGAAAAAA
1857839 AATCATGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.20
Consensus pattern (16 bp):
TGAAGAAAAAATTTGG
Found at i:1858658 original size:46 final size:45
Alignment explanation
Indices: 1858571--1858820 Score: 272
Period size: 46 Copynumber: 5.4 Consensus size: 45
1858561 TTAATTTCAT
* * * *
1858571 TTATGGTATCATTTCATGCCTTTAATGCGA-CCTTTCATGCATTTCAT
1 TTATGGAATC-TTTCATGCC-TTAATGC-ATTCTTTCATGCATTTTAG
*
1858618 TTATGGAATCTGTTCATACCTTAATGCATTCTTTCATGCATTTTAG
1 TTATGGAATCT-TTCATGCCTTAATGCATTCTTTCATGCATTTTAG
** * *
1858664 TTATGGAATCCTTTCATGCCTTAATAAATCCTTTCATGTATTTTAG
1 TTATGGAAT-CTTTCATGCCTTAATGCATTCTTTCATGCATTTTAG
*
1858710 TTATGGAATCCATTCATGCCTTAATG-ATTCATTTCATGCATTTTAG
1 TTATGGAAT-CTTTCATGCCTTAATGCATTC-TTTCATGCATTTTAG
* *
1858756 TTATGGCTACCTTTCATGCCTTAATGCA-TCTTTTCATGCATTTTAG
1 TTATGG-AATCTTTCATGCCTTAATGCATTC-TTTCATGCATTTTAG
*
1858802 TTATGGCATCCTTTCATGC
1 TTATGGAAT-CTTTCATGC
1858821 ATTTTAGTTA
Statistics
Matches: 176, Mismatches: 20, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
45 5 0.03
46 151 0.86
47 20 0.11
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.45
Consensus pattern (45 bp):
TTATGGAATCTTTCATGCCTTAATGCATTCTTTCATGCATTTTAG
Found at i:1858770 original size:26 final size:26
Alignment explanation
Indices: 1858741--1858892 Score: 168
Period size: 26 Copynumber: 6.3 Consensus size: 26
1858731 TAATGATTCA
1858741 TTTCATGCATTTTAGTTATGGC-TACC
1 TTTCATGCATTTTAGTTATGGCAT-CC
* *
1858767 TTTCATGC--CTTA---AT-GCATCT
1 TTTCATGCATTTTAGTTATGGCATCC
1858787 TTTCATGCATTTTAGTTATGGCATCC
1 TTTCATGCATTTTAGTTATGGCATCC
*
1858813 TTTCATGCATTTTAGTTATCGCATCC
1 TTTCATGCATTTTAGTTATGGCATCC
*
1858839 TTTCATGC--CTTA---AT-GCATCC
1 TTTCATGCATTTTAGTTATGGCATCC
1858859 TTTCATGCATTTTAGTTATGGCATCC
1 TTTCATGCATTTTAGTTATGGCATCC
1858885 TTTCATGC
1 TTTCATGC
1858893 CTTAATGCAT
Statistics
Matches: 106, Mismatches: 7, Indels: 26
0.76 0.05 0.19
Matches are distributed among these distances:
20 25 0.24
21 5 0.05
22 6 0.06
24 6 0.06
25 4 0.04
26 60 0.57
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.45
Consensus pattern (26 bp):
TTTCATGCATTTTAGTTATGGCATCC
Found at i:1858818 original size:164 final size:164
Alignment explanation
Indices: 1858643--1858970 Score: 498
Period size: 164 Copynumber: 2.0 Consensus size: 164
1858633 ATACCTTAAT
* * *
1858643 GCATTCTTTCATGCATTTTAGTTATGGAATCCTTTCATGCCTTAATAAATCCTTTCATGTATTTT
1 GCATCCTTTCATGCATTTTAGTTATCGAATCCTTTCATGCCTTAATAAATCCTTTCATGCATTTT
* **
1858708 AGTTATGGAATCCATTCATGCCTTAATG-ATTCATTTCATGCATTTTAGTTATG-GCTACCTTTC
66 AGTTATGGAATCCATTCATGCCTTAATGCA-TCATTTCATCCATTTTAGTTATGAAAT-CCTTTC
* *
1858771 ATGCCTTAATGCATCTTTTCATGCATTTTAGTTATG
129 ATGCCTTAATCCATCATTTCATGCATTTTAGTTATG
* **
1858807 GCATCCTTTCATGCATTTTAGTTATCGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
1 GCATCCTTTCATGCATTTTAGTTATCGAATCCTTTCATGCCTTAATAAATCCTTTCATGCATTTT
* * *
1858872 AGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCTTCCATTTTAGTTATGAAATCCTTTCAT
66 AGTTATGGAATCCATTCATGCCTTAATGCATCATTTCATCCATTTTAGTTATGAAATCCTTTCAT
1858937 GCCTTAATCCATCATTTCATGCATTTTAGTTATG
131 GCCTTAATCCATCATTTCATGCATTTTAGTTATG
1858971 CATTATTGTA
Statistics
Matches: 148, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
164 146 0.99
165 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (164 bp):
GCATCCTTTCATGCATTTTAGTTATCGAATCCTTTCATGCCTTAATAAATCCTTTCATGCATTTT
AGTTATGGAATCCATTCATGCCTTAATGCATCATTTCATCCATTTTAGTTATGAAATCCTTTCAT
GCCTTAATCCATCATTTCATGCATTTTAGTTATG
Found at i:1858819 original size:92 final size:92
Alignment explanation
Indices: 1858571--1858820 Score: 319
Period size: 92 Copynumber: 2.7 Consensus size: 92
1858561 TTAATTTCAT
* * * *
1858571 TTATGGTATCATTTCATGCCTTTAATGCGA-CCTTTCATGCATTTCATTTATGGAAT-CTGTTCA
1 TTATGGAATCCTTTCATGCC-TTAATGC-ATCCTTTCATGCATTTTAGTTATGGAATCCT-TTCA
*
1858634 TACCTTAATGCATTCTTTCATGCATTTTAG
63 TGCCTTAATGCATTCTTTCATGCATTTTAG
** * *
1858664 TTATGGAATCCTTTCATGCCTTAATAAATCCTTTCATGTATTTTAGTTATGGAATCCATTCATGC
1 TTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATGC
1858729 CTTAATG-ATTCATTTCATGCATTTTAG
66 CTTAATGCATTC-TTTCATGCATTTTAG
* * *
1858756 TTATGG-CTACCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATG
1 TTATGGAAT-CCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATG
1858820 C
65 C
1858821 ATTTTAGTTA
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
91 6 0.04
92 112 0.82
93 19 0.14
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.45
Consensus pattern (92 bp):
TTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATGC
CTTAATGCATTCTTTCATGCATTTTAG
Found at i:1858821 original size:72 final size:72
Alignment explanation
Indices: 1858741--1858892 Score: 270
Period size: 72 Copynumber: 2.1 Consensus size: 72
1858731 TAATGATTCA
* *
1858741 TTTCATGCATTTTAGTTATGGC-TACCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAGTTA
1 TTTCATGCATTTTAGTTATCGCAT-CCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTA
1858805 TGGCATCC
65 TGGCATCC
1858813 TTTCATGCATTTTAGTTATCGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT
1 TTTCATGCATTTTAGTTATCGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT
1858878 GGCATCC
66 GGCATCC
1858885 TTTCATGC
1 TTTCATGC
1858893 CTTAATGCAT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
72 76 0.99
73 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.45
Consensus pattern (72 bp):
TTTCATGCATTTTAGTTATCGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT
GGCATCC
Found at i:1858828 original size:118 final size:118
Alignment explanation
Indices: 1858689--1858938 Score: 378
Period size: 118 Copynumber: 2.1 Consensus size: 118
1858679 ATGCCTTAAT
* *
1858689 AAATCCTTTCATGTATTTTAGTTATGGAATCCATTCATGCCTTAATG-ATTCATTTCATGCATTT
1 AAATCCTTTCATGCATTTTAGTTATCGAATCCATTCATGCCTTAATGCA-TCATTTCATGCATTT
* *
1858753 TAGTTATGGC-TACCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAGTTATG
65 TAGTTATGGCAT-CCTTTCATGCCTTAATGCATCATTTCATCCATTTTAGTTATG
** * * *
1858807 GCATCCTTTCATGCATTTTAGTTATCGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
1 AAATCCTTTCATGCATTTTAGTTATCGAATCCATTCATGCCTTAATGCATCATTTCATGCATTTT
*
1858872 AGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCTTCCATTTTAGTTATG
66 AGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATCCATTTTAGTTATG
1858925 AAATCCTTTCATGC
1 AAATCCTTTCATGC
1858939 CTTAATCCAT
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
118 116 0.98
119 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (118 bp):
AAATCCTTTCATGCATTTTAGTTATCGAATCCATTCATGCCTTAATGCATCATTTCATGCATTTT
AGTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATCCATTTTAGTTATG
Found at i:1858857 original size:46 final size:45
Alignment explanation
Indices: 1858807--1858973 Score: 253
Period size: 46 Copynumber: 3.6 Consensus size: 45
1858797 TTTAGTTATG
*
1858807 GCATCCTTTCATGCATTTTAGTTATCGCATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCATTTTAGTTAT-GCATCCTTTCATGCCTTAAT
*
1858853 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCATTTTAGTTAT-GCATCCTTTCATGCCTTAAT
* * *
1858899 GCATCATTTCTTCCATTTTAGTTATGAAATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCATTTTAGTTATG-CATCCTTTCATGCCTTAAT
*
1858945 CCATCATTTCATGCATTTTAGTTATGCAT
1 GCATCATTTCATGCATTTTAGTTATGCAT
1858974 TATTGTACAT
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
45 3 0.03
46 108 0.97
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.44
Consensus pattern (45 bp):
GCATCATTTCATGCATTTTAGTTATGCATCCTTTCATGCCTTAAT
Found at i:1859281 original size:68 final size:68
Alignment explanation
Indices: 1859170--1859422 Score: 346
Period size: 68 Copynumber: 3.7 Consensus size: 68
1859160 TTAACGGTTA
* * * * *
1859170 ATCTAACTGGTATAATTGACACCTTCATGCCAATTGCATAGTTAGGCCTCAAAGGCAGTTAGCCT
1 ATCTAACTGGCATAAATGACACCTTCATGCCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
1859235 TTC
66 TTC
* * *
1859238 ATCTAACTGGCATAATTGACACCTTCCTGCCAATTGCACAGTTAGGCCTCAAAGGCACTTAGCCT
1 ATCTAACTGGCATAAATGACACCTTCATGCCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
1859303 TTC
66 TTC
* **
1859306 ATCTAACTGGCATAAATGACATCTTTC-TTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
1 ATCTAACTGGCATAAATGACA-CCTTCATGCCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCC
1859370 TTTC
65 TTTC
* * * * *
1859374 ATCTAACTGGCACAAATGACATCTTTATGTCAAATGCACATTTAGGCCT
1 ATCTAACTGGCATAAATGACACCTTCATGCCAAATGCACAGTTAGGCCT
1859423 ATTAATCTTT
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
67 2 0.01
68 162 0.96
69 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (68 bp):
ATCTAACTGGCATAAATGACACCTTCATGCCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCT
TTC
Found at i:1859812 original size:59 final size:59
Alignment explanation
Indices: 1859639--1859803 Score: 206
Period size: 59 Copynumber: 2.8 Consensus size: 59
1859629 TATATTTCCC
* * * *
1859639 ATACGAAAATTCATATACTTAGTATGAGTTTTTTATC-TTTTTGCACATAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTTGCACATAAAGTGCCCA
* * * * ** *
1859697 ATATGGAAATTCATACACTTAATACGAATTTCTTATCATTTTTACACATCGAGTGCCCG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTTGCACATAAAGTGCCCA
* *
1859756 ATACGGAAATTCATACACTTAGTATGAATTTGTTAACATTTTTGCACA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTTGCACA
1859804 CTTAGTGCCA
Statistics
Matches: 89, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
58 30 0.34
59 59 0.66
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (59 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTTGCACATAAAGTGCCCA
Found at i:1864156 original size:46 final size:46
Alignment explanation
Indices: 1864068--1864407 Score: 385
Period size: 46 Copynumber: 7.1 Consensus size: 46
1864058 TTAATTTAAT
* * * *
1864068 TTATGGCATCCTTTCATTCCTTTAATG-AGTACTTTCATGCATTTCAT
1 TTATGGCATCCTTTCATGCC-TTAATGCA-TCCTTTCATGCATTTTAG
* * *
1864115 TTATGGCATCCGTTCATACCTTAATGCATCATTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* *
1864161 TTATGGTATTCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* * * * *
1864207 GTATGGCATTCTTTCATGCCTTAATGCATCATTTCATTCATTTGAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* *
1864253 TTATGGCATCCTTTCATGCATTTGAGTTATGGCATCCTTTCATGCATTTTAA
1 TTATGGCATCCTTTCATGC-CTT-A---AT-GCATCCTTTCATGCATTTTAG
*
1864305 TTATGGCATCCTTTCATGCATTTTATTTATGACATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGC--CTTA---ATG-CATCCTTTCATGCATTTTAG
*
1864357 TTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1864403 TTATG
1 TTATG
1864408 CATTATTGTA
Statistics
Matches: 256, Mismatches: 28, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
46 144 0.56
47 24 0.09
48 1 0.00
50 3 0.01
51 3 0.01
52 78 0.30
53 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.45
Consensus pattern (46 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
Found at i:1864196 original size:20 final size:20
Alignment explanation
Indices: 1864171--1864243 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
1864161 TTATGGTATT
1864171 CTTTCATGCCTTAATGCATC
1 CTTTCATGCCTTAATGCATC
* *
1864191 CTTTCATGCATTTTAGGTATGGCATT
1 CTTTCATGC--CTTA---AT-GCATC
1864217 CTTTCATGCCTTAATGCATC
1 CTTTCATGCCTTAATGCATC
*
1864237 ATTTCAT
1 CTTTCAT
1864244 TCATTTGAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
20 19 0.45
21 2 0.05
22 3 0.07
24 3 0.07
25 2 0.05
26 13 0.31
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (20 bp):
CTTTCATGCCTTAATGCATC
Found at i:1864222 original size:26 final size:26
Alignment explanation
Indices: 1864140--1864407 Score: 266
Period size: 26 Copynumber: 11.0 Consensus size: 26
1864130 ATACCTTAAT
*
1864140 GCATCATTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
* * *
1864166 GTATTCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
*
1864186 GCATCCTTTCATGCATTTTAGGTATG
1 GCATCCTTTCATGCATTTTAGTTATG
* *
1864212 GCATTCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
* * *
1864232 GCATCATTTCATTCATTTGAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
1864258 GCATCCTTTCATGCATTTGAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
1864284 GCATCCTTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
1864310 GCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
1864336 ACATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
* *
1864362 ACATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
1864382 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
1864408 CATTATTGTA
Statistics
Matches: 200, Mismatches: 24, Indels: 36
0.77 0.09 0.14
Matches are distributed among these distances:
20 36 0.18
21 6 0.03
22 8 0.04
24 9 0.05
25 6 0.03
26 135 0.68
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTAGTTATG
Found at i:1864715 original size:68 final size:68
Alignment explanation
Indices: 1864594--1864788 Score: 219
Period size: 68 Copynumber: 2.9 Consensus size: 68
1864584 TTAACGATAT
* * * * * ** * *
1864594 TTAACCATTCATCTAACTGGCATAATTGACACATTCCTGCCAATTGCACAGTTAGGCCTCAAAGG
1 TTAACCTTTCATCTAACTAGCATAAATGACACCTTTCTATCAAATACACAGTTAGGCCTCAAAGG
1864659 CAC
66 CAC
* * * * * * * *
1864662 TTAGCCTTTCATCTAACTGGCATAAATGACATCTTTTTGTCATATACATAGTTAGGCCTCAAATG
1 TTAACCTTTCATCTAACTAGCATAAATGACACCTTTCTATCAAATACACAGTTAGGCCTCAAAGG
1864727 CAC
66 CAC
* *
1864730 TTAACCTTTTATCTAACTAGCATAAATGACACCTTTCTATCAAATGCACAGTTAGGCCT
1 TTAACCTTTCATCTAACTAGCATAAATGACACCTTTCTATCAAATACACAGTTAGGCCT
1864789 ACTAATCTTT
Statistics
Matches: 105, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 105 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.32
Consensus pattern (68 bp):
TTAACCTTTCATCTAACTAGCATAAATGACACCTTTCTATCAAATACACAGTTAGGCCTCAAAGG
CAC
Found at i:1865126 original size:59 final size:58
Alignment explanation
Indices: 1865005--1865169 Score: 179
Period size: 59 Copynumber: 2.8 Consensus size: 58
1864995 TATATTTCCC
* * **
1865005 ATACGAAAATTTATTCACTTAGTATGAGTTTCTTGTC-TTTTTGCACATAAAGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGA-TTTCTTAACATTTTTGCACATAAAGTGCCCA
* * ** *
1865063 ATACGGAAATTCATACACTTAGTATGTATTTCTTAACATTTTTACACATCGAGTGCCCG
1 ATACGAAAATTCATACACTTAGTATG-ATTTCTTAACATTTTTGCACATAAAGTGCCCA
* * * *
1865122 ATACGAAAATTCATACACTTCGTATAAATTTGTTAGCATTTTTGCACA
1 ATACGAAAATTCATACACTTAGTAT-GATTTCTTAACATTTTTGCACA
1865170 CTTAGTTCCA
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
58 30 0.34
59 59 0.66
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.38
Consensus pattern (58 bp):
ATACGAAAATTCATACACTTAGTATGATTTCTTAACATTTTTGCACATAAAGTGCCCA
Found at i:1874243 original size:19 final size:19
Alignment explanation
Indices: 1874221--1874260 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1874211 TTCTTTATTC
1874221 TTTTATAAAGTTTTTACTT
1 TTTTATAAAGTTTTTACTT
* * *
1874240 TTTTTTCAAGTTTTTGCTT
1 TTTTATAAAGTTTTTACTT
1874259 TT
1 TT
1874261 GAAGTTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.68
Consensus pattern (19 bp):
TTTTATAAAGTTTTTACTT
Found at i:1875149 original size:40 final size:35
Alignment explanation
Indices: 1875069--1875144 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
1875059 AAAACAGTCC
*
1875069 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAGTAAT
* *
1875104 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAGTAAT
1875139 TCAATT
1 TCAATT
1875145 CAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAGTAAT
Found at i:1875680 original size:130 final size:130
Alignment explanation
Indices: 1875534--1875781 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
1875524 TATTTATATA
* **
1875534 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
1875599 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
1875664 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
1875729 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
1875782 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:1875812 original size:130 final size:129
Alignment explanation
Indices: 1875548--1875812 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
1875538 ATTTGGTCCT
* ** *
1875548 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
1875613 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
1875678 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
1875743 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
1875807 -A
128 CA
1875808 AAATT
1 AAATT
1875813 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:1876266 original size:16 final size:18
Alignment explanation
Indices: 1876245--1876278 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1876235 ATTTCTTATT
1876245 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1876261 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1876279 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1880780 original size:30 final size:29
Alignment explanation
Indices: 1880735--1880799 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 29
1880725 AACTAGCTAG
*
1880735 CTACCTCAGTTCCTAGCTAGCTATACCAC
1 CTACCTCAGTTCCTAGCTAGCTACACCAC
1880764 CTACCTCAGTTTCCTAGCTAGCTACACCAC
1 CTACCTCAG-TTCCTAGCTAGCTACACCAC
1880794 CTACCT
1 CTACCT
1880800 ATTTAGCTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.23, C:0.40, G:0.09, T:0.28
Consensus pattern (29 bp):
CTACCTCAGTTCCTAGCTAGCTACACCAC
Found at i:1886659 original size:16 final size:16
Alignment explanation
Indices: 1886638--1886670 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1886628 AAGGGTTATA
*
1886638 ACCATGCATGTCAAAC
1 ACCATGCATATCAAAC
1886654 ACCATGCATATCAAAC
1 ACCATGCATATCAAAC
1886670 A
1 A
1886671 TATTATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.09, T:0.18
Consensus pattern (16 bp):
ACCATGCATATCAAAC
Found at i:1887555 original size:2 final size:2
Alignment explanation
Indices: 1887548--1887579 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1887538 TTTAATATCC
1887548 AT AT 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 AT AT
1887580 TTGGGATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1891766 original size:20 final size:21
Alignment explanation
Indices: 1891727--1891766 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1891717 AGAGCTTAAT
1891727 GGAGCTAAAAGAGTAGTTGAC
1 GGAGCTAAAAGAGTAGTTGAC
*
1891748 GGAGCTAAACGAG-AGTTGA
1 GGAGCTAAAAGAGTAGTTGA
1891767 ATGTAGCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.38, C:0.10, G:0.35, T:0.17
Consensus pattern (21 bp):
GGAGCTAAAAGAGTAGTTGAC
Found at i:1891774 original size:21 final size:22
Alignment explanation
Indices: 1891724--1891774 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1891714 AAAAGAGCTT
1891724 AATGGAGCTAAAAGAGTAGTTG
1 AATGGAGCTAAAAGAGTAGTTG
* *
1891746 -ACGGAGCTAAACGAG-AGTTG
1 AATGGAGCTAAAAGAGTAGTTG
*
1891766 AATGTAGCT
1 AATGGAGCT
1891775 GGAGAGGAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.37, C:0.10, G:0.31, T:0.22
Consensus pattern (22 bp):
AATGGAGCTAAAAGAGTAGTTG
Found at i:1900956 original size:30 final size:29
Alignment explanation
Indices: 1900920--1900984 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
1900910 GAGAGTTTTG
* * *
1900920 AAAGTTTTGTGACCAAAGTATAAATTTGGA
1 AAAGTTTAGTAACCAAAAT-TAAATTTGGA
**
1900950 AAAGTTTAGTAACCAAAATTAAATTTTTA
1 AAAGTTTAGTAACCAAAATTAAATTTGGA
1900979 AAAGTT
1 AAAGTT
1900985 ATATATTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (29 bp):
AAAGTTTAGTAACCAAAATTAAATTTGGA
Found at i:1905236 original size:26 final size:25
Alignment explanation
Indices: 1905198--1905260 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
1905188 ATCAAAGTGC
**
1905198 TAATACACATAAGGTTGTGCCTACCA
1 TAATACAC-TAAGGGAGTGCCTACCA
*
1905224 TAATACACGTAAGGGAGTGTCTACCA
1 TAATACAC-TAAGGGAGTGCCTACCA
1905250 T-ATACACTAAG
1 TAATACACTAAG
1905261 TGTCCTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 4 0.12
25 6 0.18
26 23 0.70
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (25 bp):
TAATACACTAAGGGAGTGCCTACCA
Found at i:1930353 original size:46 final size:46
Alignment explanation
Indices: 1930296--1930629 Score: 429
Period size: 46 Copynumber: 7.3 Consensus size: 46
1930286 AAATGAATGA
* * *
1930296 ATAAATAAAAATGCATAACGGTGCATTATCGGCATGAAATGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
* * * *
1930342 ATAAATGAAAATGCATAATGATGCATTATAGGCATGAAAGGATACA
1 ATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
*
1930388 ATAAATAAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
* * * *
1930434 ATAAAT-AAACATGCATAATGGTGGATTATCA-GCATGAATGGATTCC
1 ATAAATGAAA-ATGCATAACGGTGCATTAT-AGGCATGAAAGGATGCC
* * * *
1930480 ATAAATGAAAATGCATAACAGTGTATTATTGGAATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
* * *
1930526 ATAAATGAAAATGCATAACGGTACATTATCGGCATGAAAGGATTCC
1 ATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
* * * *
1930572 ATAAATGAAAATGCAGAACGGTGCATTTTAGGCATGAAAAGATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
1930618 ATAAATGAAAAT
1 ATAAATGAAAAT
1930630 AAAGAATAAT
Statistics
Matches: 248, Mismatches: 36, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
45 3 0.01
46 241 0.97
47 4 0.02
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
Found at i:1937375 original size:46 final size:46
Alignment explanation
Indices: 1937319--1937559 Score: 349
Period size: 46 Copynumber: 5.2 Consensus size: 46
1937309 AATGAATGAG
* *
1937319 TAAATAAAAATGCATAATGGTGCATTATCA-GCATGAAATGATGCCA
1 TAAATAAAAATGCATAACGGTGCATTAT-AGGCATGAAAGGATGCCA
*
1937365 TAAATGAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCCA
1 TAAATAAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCCA
* * *
1937411 TAAATAAAAATGCATAAGGGTGCATTATAGGCATGAAAGGATGTCG
1 TAAATAAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCCA
*
1937457 TAAATAAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCA
1 TAAATAAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCCA
** * **
1937503 TAAATGGAAATGGATAACAATGCATTATAGGCATGAAAGGATGCCA
1 TAAATAAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCCA
*
1937549 TAAATGAAAAT
1 TAAATAAAAAT
1937560 AAAGAATAAT
Statistics
Matches: 176, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 175 0.99
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAATAAAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCCA
Found at i:1942443 original size:26 final size:26
Alignment explanation
Indices: 1942414--1942465 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1942404 CAGATTTTGT
1942414 TTCTTCATTTAGTTTGTTGAATGTAG
1 TTCTTCATTTAGTTTGTTGAATGTAG
1942440 TTCTTCATTTAGTTTGTTGAATGTAG
1 TTCTTCATTTAGTTTGTTGAATGTAG
1942466 GTGTTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.08, G:0.19, T:0.54
Consensus pattern (26 bp):
TTCTTCATTTAGTTTGTTGAATGTAG
Found at i:1944164 original size:23 final size:23
Alignment explanation
Indices: 1944129--1944173 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1944119 AAAGGTAGAA
* *
1944129 ATAAACGTGCAACGCAGGCAAAG
1 ATAAACGTACAACACAGGCAAAG
* *
1944152 ATAAATGTACAACACATGCAAA
1 ATAAACGTACAACACAGGCAAA
1944174 ATTATTCTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.13
Consensus pattern (23 bp):
ATAAACGTACAACACAGGCAAAG
Found at i:1953048 original size:18 final size:17
Alignment explanation
Indices: 1953025--1953064 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1953015 CTATAGAAAG
1953025 AAAAAATAGCAGTTCGAA
1 AAAAAAT-GCAGTTCGAA
**
1953043 AAAAAATGTTGTTCGAA
1 AAAAAATGCAGTTCGAA
1953060 AAAAA
1 AAAAA
1953065 GAGAGAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (17 bp):
AAAAAATGCAGTTCGAA
Found at i:1962145 original size:16 final size:16
Alignment explanation
Indices: 1962121--1962157 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
1962111 ATGGTACTCA
*
1962121 GTGGTGATCGTCGAAC
1 GTGGCGATCGTCGAAC
1962137 GTGGCGATCGTCGAAC
1 GTGGCGATCGTCGAAC
1962153 GTGGC
1 GTGGC
1962158 AGACTCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.41, T:0.22
Consensus pattern (16 bp):
GTGGCGATCGTCGAAC
Found at i:1963258 original size:17 final size:18
Alignment explanation
Indices: 1963236--1963269 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1963226 CCCCTAAAAT
*
1963236 TTTATTGCATT-TTTTTG
1 TTTATTGAATTCTTTTTG
1963253 TTTATTGAATTCTTTTT
1 TTTATTGAATTCTTTTT
1963270 ATATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTATTGAATTCTTTTTG
Found at i:1969807 original size:30 final size:30
Alignment explanation
Indices: 1969772--1969839 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
1969762 CAAATGTCAT
1969772 TTTTAATCCTTACTTAAGTGTAAAATTAAA
1 TTTTAATCCTTACTTAAGTGTAAAATTAAA
* *
1969802 TTTTAATCCTTACTTACGTGTAATATTAAA
1 TTTTAATCCTTACTTAAGTGTAAAATTAAA
1969832 TTTTAATC
1 TTTTAATC
1969840 TTAAAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (30 bp):
TTTTAATCCTTACTTAAGTGTAAAATTAAA
Found at i:1973247 original size:30 final size:30
Alignment explanation
Indices: 1973212--1973279 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
1973202 CAAGTGTCAT
1973212 TTTTAATCCTTACTTAAGTGTAAAATTAAA
1 TTTTAATCCTTACTTAAGTGTAAAATTAAA
*
1973242 TTTTAATCCTTATTTAAGTGTAAAATTAAA
1 TTTTAATCCTTACTTAAGTGTAAAATTAAA
1973272 TTTTAATC
1 TTTTAATC
1973280 TAAAAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (30 bp):
TTTTAATCCTTACTTAAGTGTAAAATTAAA
Found at i:1975496 original size:25 final size:25
Alignment explanation
Indices: 1975468--1975516 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1975458 GAATATGAAC
1975468 AGCCCTTGGTTTGAATGATTAAATT
1 AGCCCTTGGTTTGAATGATTAAATT
*
1975493 AGCCCTTGGTTTGGATGATTAAAT
1 AGCCCTTGGTTTGAATGATTAAAT
1975517 CATCCTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (25 bp):
AGCCCTTGGTTTGAATGATTAAATT
Found at i:1975976 original size:18 final size:18
Alignment explanation
Indices: 1975934--1975979 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1975924 TAGTTTGATT
*
1975934 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
1975952 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
1975970 AATGAACTAA
1 AATGAACTAA
1975980 ATGCATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:1976057 original size:17 final size:17
Alignment explanation
Indices: 1976037--1976072 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1976027 TACTTCCCTA
1976037 AATGAAATACATGCTTT
1 AATGAAATACATGCTTT
* *
1976054 AATGCAATGCATGCTTT
1 AATGAAATACATGCTTT
1976071 AA
1 AA
1976073 AGGACAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (17 bp):
AATGAAATACATGCTTT
Found at i:1978023 original size:11 final size:11
Alignment explanation
Indices: 1978007--1978035 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
1977997 TATATAAAAC
1978007 TTTTTTTTTGT
1 TTTTTTTTTGT
1978018 TTTTTTTTTGT
1 TTTTTTTTTGT
1978029 TTTTTTT
1 TTTTTTT
1978036 ATTTTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:1986983 original size:14 final size:14
Alignment explanation
Indices: 1986972--1987014 Score: 86
Period size: 14 Copynumber: 3.1 Consensus size: 14
1986962 CTCTTGATTC
1986972 TAGTTGCTTGATGT
1 TAGTTGCTTGATGT
1986986 TAGTTGCTTGATGT
1 TAGTTGCTTGATGT
1987000 TAGTTGCTTGATGT
1 TAGTTGCTTGATGT
1987014 T
1 T
1987015 TCTTGTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.14, C:0.07, G:0.28, T:0.51
Consensus pattern (14 bp):
TAGTTGCTTGATGT
Found at i:1987914 original size:2 final size:2
Alignment explanation
Indices: 1987907--1987933 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1987897 AATTGATTCA
1987907 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1987934 GCTTAAGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1996062 original size:65 final size:65
Alignment explanation
Indices: 1995914--1996073 Score: 184
Period size: 65 Copynumber: 2.5 Consensus size: 65
1995904 TGCACTAAGA
* *
1995914 GTGCATCGATGCATCAAGTGCATTCGATG-TTCCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * * *
1995978 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTTCATC-AGTGCATGG-
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCCA-AAATAGCCACAGTGCATCGA-TGCATGGC
*
1996040 TAT
64 T-G
* *
1996043 GTGCATCGATGCATGAAATGCATTCAATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
1996074 CAATTTAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 30 0.36
65 50 0.60
66 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:1996112 original size:65 final size:63
Alignment explanation
Indices: 1995914--1996114 Score: 171
Period size: 65 Copynumber: 3.1 Consensus size: 63
1995904 TGCACTAAGA
* * * * *
1995914 GTGCATCGATGCATCAAGTGCATTCGATGTTCCA-AAATAGC-CAGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCAATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTT
1995977 G
63 G
* *
1995978 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTTCATC-AGTGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCAATG-TTTCATAAAAT-CTCAGTGCATCGA-TGCATGGT-
1996042 T-
62 TG
* **
1996043 GTGCATCGATGCATGAAATGCATTCAATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCAATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-T
1996106 TG
62 TG
1996108 GTGCATC
1 GTGCATC
1996115 ACTTTGAAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 23
0.78 0.07 0.16
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 48 0.42
65 55 0.48
66 5 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCAATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:2001195 original size:21 final size:19
Alignment explanation
Indices: 2001171--2001209 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
2001161 TTCTTTTGCT
2001171 TTTCTTTGAACAACTTTTTTC
1 TTTCTTTGAAC--CTTTTTTC
2001192 TTTCTTTGAACCTTTTTT
1 TTTCTTTGAACCTTTTTT
2001210 TATCTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.15, C:0.18, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTCTTTGAACCTTTTTTC
Found at i:2001210 original size:21 final size:22
Alignment explanation
Indices: 2001171--2001216 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2001161 TTCTTTTGCT
2001171 TTTCTTTGAACAACTTTTT-TC
1 TTTCTTTGAACAACTTTTTATC
***
2001192 TTTCTTTGAACCTTTTTTTATC
1 TTTCTTTGAACAACTTTTTATC
2001214 TTT
1 TTT
2001217 TGATGTTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.63
Consensus pattern (22 bp):
TTTCTTTGAACAACTTTTTATC
Found at i:2001538 original size:23 final size:23
Alignment explanation
Indices: 2001507--2001563 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
2001497 ATATATGAAT
*
2001507 GTTGGTGAAGATTGAATGATAGA
1 GTTGATGAAGATTGAATGATAGA
* *
2001530 GTTGATGAAGATTGGATGATGGA
1 GTTGATGAAGATTGAATGATAGA
2001553 GTTGATGAAGA
1 GTTGATGAAGA
2001564 CAATATCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (23 bp):
GTTGATGAAGATTGAATGATAGA
Found at i:2003460 original size:20 final size:20
Alignment explanation
Indices: 2003432--2003469 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2003422 GCCTAAATTC
*
2003432 ACATTCTAACATCAATTTTA
1 ACATCCTAACATCAATTTTA
*
2003452 ACATCCTAACATTAATTT
1 ACATCCTAACATCAATTT
2003470 CCATCATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (20 bp):
ACATCCTAACATCAATTTTA
Found at i:2008612 original size:53 final size:53
Alignment explanation
Indices: 2008549--2008824 Score: 347
Period size: 53 Copynumber: 5.2 Consensus size: 53
2008539 GATGCACCTA
* * * * *
2008549 AGTGTCGAAATTGTAATACACAAGCTCATTATGAATTCCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACAT
* * * *
2008602 AGTGTCGAAATGGTAATTCATAAACTCATTATGAATACTATGGTTGCACACGT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACAT
* * * * *
2008655 AATGTCGAAATGGTAATTCACAAGCTCATTATGAATTCCATGGATGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACAT
* * *
2008708 AGTGCCGAAATGATAATTCATAAACTCATTATGAATACCATGGTTGCACATAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACAT
* * *
2008761 AGTGCCAAAATGGCAATTCACAAACTCATTA-GAAATACCATGGGTTGCACATAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATG-AATACCAT-GGTTGCACACAT
2008815 AGTGCCGAAA
1 AGTGCCGAAA
2008825 GTACACGTAG
Statistics
Matches: 194, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
52 1 0.01
53 172 0.89
54 21 0.11
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AGTGCCGAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACAT
Found at i:2008736 original size:106 final size:106
Alignment explanation
Indices: 2008551--2008824 Score: 388
Period size: 106 Copynumber: 2.6 Consensus size: 106
2008541 TGCACCTAAG
* * * *
2008551 TGTCGAAATTGTAATACACAAGCTCATTATGAATTCCATGGTTGCACACATAGTGTCGAAATGGT
1 TGTCGAAATGGTAATTCACAAGCTCATTATGAATTCCATGGTTGCACACATAGTGCCGAAATGAT
* *
2008616 AATTCATAAACTCATTATGAATACTATGGTTGCACACGTAA
66 AATTCATAAACTCATTATGAATACCATGGTTGCACACATAA
*
2008657 TGTCGAAATGGTAATTCACAAGCTCATTATGAATTCCATGGATGCACACATAGTGCCGAAATGAT
1 TGTCGAAATGGTAATTCACAAGCTCATTATGAATTCCATGGTTGCACACATAGTGCCGAAATGAT
* *
2008722 AATTCATAAACTCATTATGAATACCATGGTTGCACATATAG
66 AATTCATAAACTCATTATGAATACCATGGTTGCACACATAA
* * * * * *
2008763 TGCCAAAATGGCAATTCACAAACTCATTA-GAAATACCATGGGTTGCACATATAGTGCCGAAA
1 TGTCGAAATGGTAATTCACAAGCTCATTATG-AATTCCAT-GGTTGCACACATAGTGCCGAAA
2008825 GTACACGTAG
Statistics
Matches: 150, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
105 1 0.01
106 129 0.86
107 20 0.13
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (106 bp):
TGTCGAAATGGTAATTCACAAGCTCATTATGAATTCCATGGTTGCACACATAGTGCCGAAATGAT
AATTCATAAACTCATTATGAATACCATGGTTGCACACATAA
Found at i:2009530 original size:20 final size:21
Alignment explanation
Indices: 2009507--2009555 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
2009497 ATTTCTCTTG
2009507 GTATTGATACCT-CTGT-ATCA
1 GTATTGATA-CTACTGTCATCA
*
2009527 GTA-TGATACTACTTTCATCA
1 GTATTGATACTACTGTCATCA
2009547 GTATTGATA
1 GTATTGATA
2009556 TTGTTCATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 8 0.32
20 10 0.40
21 5 0.20
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (21 bp):
GTATTGATACTACTGTCATCA
Found at i:2015776 original size:53 final size:53
Alignment explanation
Indices: 2015614--2015769 Score: 251
Period size: 53 Copynumber: 2.9 Consensus size: 53
2015604 CCTACGTGCT
* *
2015614 GAAATGGTAATTC-TCAAACTCATTATGAATTCCATGGATGCACACATAGTGTC
1 GAAATGGTAATTCAT-AAACTCATTATGAATACCATGGTTGCACACATAGTGTC
* * *
2015667 GAAAAGGTAATTCATAAACTTATTATGAATACCATGGTTGCACACATACTGTC
1 GAAATGGTAATTCATAAACTCATTATGAATACCATGGTTGCACACATAGTGTC
2015720 GAAATGGTAATTCATAAACTCATTATGAATACCATGGTTGCACACATAGT
1 GAAATGGTAATTCATAAACTCATTATGAATACCATGGTTGCACACATAGT
2015770 ACCGAAAGTA
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 93 0.99
54 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (53 bp):
GAAATGGTAATTCATAAACTCATTATGAATACCATGGTTGCACACATAGTGTC
Found at i:2031811 original size:27 final size:27
Alignment explanation
Indices: 2031781--2031834 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2031771 GTTGCATGTA
2031781 GGATTTTTGGATTAAGCTATTAGATAG
1 GGATTTTTGGATTAAGCTATTAGATAG
2031808 GGATTTTTGGATTAAGCTATTAGATAG
1 GGATTTTTGGATTAAGCTATTAGATAG
2031835 AGAATTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.26, T:0.41
Consensus pattern (27 bp):
GGATTTTTGGATTAAGCTATTAGATAG
Found at i:2032697 original size:16 final size:16
Alignment explanation
Indices: 2032676--2032720 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
2032666 AAGATTGGTG
*
2032676 ATGGAAATGAATATTT
1 ATGGAATTGAATATTT
2032692 ATGGAATTGAATATTT
1 ATGGAATTGAATATTT
2032708 ATGGAATTGAATA
1 ATGGAATTGAATA
2032721 ACTATTTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (16 bp):
ATGGAATTGAATATTT
Found at i:2034324 original size:54 final size:54
Alignment explanation
Indices: 2034282--2034623 Score: 452
Period size: 54 Copynumber: 6.3 Consensus size: 54
2034272 TTTCGTATGT
*
2034282 GCACTATGTGTTCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATAG
1 GCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATAG
* * * * *
2034336 GCACTATGTTTGCAGCCCAAGGAATTTATCATATGTTGATGAACGACCATATAG
1 GCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATAG
* * * *
2034390 GAACTATGTGTGCATCCCAC-GAGATTCATTATATGTTGATGAACGACCATATAG
1 GCACTATGTGTGCAACCCACGGA-ATTCATCATATGTTGATGAACGACCGTATAG
* * * *
2034444 GAACTATGTGTACAACCCACGAAATTCATCATATGTTGATAAACGACCGTATAG
1 GCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATAG
* * * * *
2034498 GCACTATGTATGCAACCCACGGAACTCATTATATGTTGATGAATGACCGAATAG
1 GCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATAG
* * *
2034552 GGACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAATGACCGTATAG
1 GCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATAG
* *
2034606 GCACTAAGTGTGTAACCC
1 GCACTATGTGTGCAACCC
2034624 CTTTTAAATG
Statistics
Matches: 249, Mismatches: 37, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
53 2 0.01
54 246 0.99
55 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (54 bp):
GCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATAG
Found at i:2034801 original size:49 final size:47
Alignment explanation
Indices: 2034664--2034803 Score: 118
Period size: 49 Copynumber: 2.8 Consensus size: 47
2034654 AGAAATGTGT
* * *
2034664 CACTAATGCAAGTTAGATGAAAATGATGCATTCTTGGTAAAAAAAAGTGC
1 CACTAATGCAAGTTAGATGAAAATGATGCATT-TTGG--CATAAAAGTAC
* ** * * *
2034714 CACTAATGCAAGTTAAATGCCTAACGGTGCAATTTTGGCATAAAGGTAC
1 CACTAATGCAAGTTAGATG-AAAATGATGC-ATTTTGGCATAAAAGTAC
* *
2034763 TACTCATGCAAGTTAGATGAAGAATGATGCATTATTGGCAT
1 CACTAATGCAAGTTAGATGAA-AATGATGCATT-TTGGCAT
2034804 GAAATGATAG
Statistics
Matches: 70, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
48 3 0.04
49 36 0.51
50 18 0.26
51 10 0.14
52 3 0.04
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (47 bp):
CACTAATGCAAGTTAGATGAAAATGATGCATTTTGGCATAAAAGTAC
Found at i:2036793 original size:2 final size:2
Alignment explanation
Indices: 2036788--2036813 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2036778 TGTCATAAAG
2036788 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
2036814 TCTGGCTAAT
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:2040286 original size:54 final size:54
Alignment explanation
Indices: 2040221--2040569 Score: 452
Period size: 54 Copynumber: 6.5 Consensus size: 54
2040211 TATGAATTTT
* * * *
2040221 CGTATGGGCACTATATGTGCAACCCACGTAATTCATCATATGTAGATGAACGAC
1 CGTATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGAC
* * * *
2040275 CGTATATGCACTATGTGTGCACCCCACGAAATT-AGTTAAATGTTGATGAACGAC
1 CGTATAGGCACTATGTGTGCAACCCACGAAATTCA-TCATATGTTGATGAACGAC
* *
2040329 CGTATAGGCACTATGTATGCAACCCAC-AGAATTCATCAAATGTTGATGAACGAC
1 CGTATAGGCACTATGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGAC
* * *
2040383 CGTATAGGCACAATGTGTGCAACCCAC-ATAATTCATCATATATTGATGAACCAC
1 CGTATAGGCACTATGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGAC
* * *
2040437 CGTATAGGTACTATGTGTGCAACCCACAAAATTCATCATATATTGATGAACGAC
1 CGTATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGAC
* * *
2040491 CGTATAGGCACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAAAGAC
1 CGTATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGAC
* * *
2040545 TGTATAGACACTAAGTGTGCAACCC
1 CGTATAGGCACTATGTGTGCAACCC
2040570 CTTTCAAATG
Statistics
Matches: 260, Mismatches: 31, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.01
54 256 0.98
55 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (54 bp):
CGTATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGAC
Found at i:2040661 original size:48 final size:48
Alignment explanation
Indices: 2040583--2040729 Score: 159
Period size: 48 Copynumber: 3.0 Consensus size: 48
2040573 TCAAATGCCT
*
2040583 AATGGTGCATTGTTGGAAGAAAGGTGCCACTAATGCAAGTTAGATGAA
1 AATGGTGCATTATTGGAAGAAAGGTGCCACTAATGCAAGTTAGATGAA
* * * * * **
2040631 AATGATGCATTATTGGCAGAAAGGTTCCACTAGTGCAAGTTAAATGCCT
1 AATGGTGCATTATTGGAAGAAAGGTGCCACTAATGCAAGTTAGATG-AA
* * * * * *
2040680 AACGGTGCATTTTTGGTAGAAAAGTGCCACTCATGCAAGTAAGATGAA
1 AATGGTGCATTATTGGAAGAAAGGTGCCACTAATGCAAGTTAGATGAA
2040728 AA
1 AA
2040730 ACGTTACATT
Statistics
Matches: 78, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
48 42 0.54
49 36 0.46
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (48 bp):
AATGGTGCATTATTGGAAGAAAGGTGCCACTAATGCAAGTTAGATGAA
Found at i:2043413 original size:12 final size:12
Alignment explanation
Indices: 2043396--2043429 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2043386 CTAGACTAGT
*
2043396 GGGCATGACTTG
1 GGGCATGACTTA
2043408 GGGCATGACTTA
1 GGGCATGACTTA
2043420 GGGCATGACT
1 GGGCATGACT
2043430 CCATTGACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.24
Consensus pattern (12 bp):
GGGCATGACTTA
Found at i:2043605 original size:22 final size:23
Alignment explanation
Indices: 2043577--2043623 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
2043567 TAATGAGGAA
* *
2043577 TTATCTTTTGTATTTTT-GGGCT
1 TTATCTTTAGCATTTTTAGGGCT
2043599 TTATCTTTAGCATTTTTAGGGCT
1 TTATCTTTAGCATTTTTAGGGCT
2043622 TT
1 TT
2043624 TAGGAAGCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.13, C:0.11, G:0.17, T:0.60
Consensus pattern (23 bp):
TTATCTTTAGCATTTTTAGGGCT
Found at i:2044791 original size:15 final size:15
Alignment explanation
Indices: 2044771--2044801 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2044761 TTTGACTATG
*
2044771 AGATATTTTAATGGA
1 AGATATTTCAATGGA
2044786 AGATATTTCAATGGA
1 AGATATTTCAATGGA
2044801 A
1 A
2044802 AATGGTAATT
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:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (15 bp):
AGATATTTCAATGGA
Found at i:2046874 original size:593 final size:592
Alignment explanation
Indices: 2045762--2046908 Score: 1729
Period size: 593 Copynumber: 1.9 Consensus size: 592
2045752 TCAAGTTTAT
* * * * *
2045762 GTATTTATTTGAGAACCAATATGTAAGATTAGAAAAGTTGGTGGTTGAATTCGAAAAGGCTAAGA
1 GTATTTATTTGAGAACCAATATGTAAGACTACAAAAGTTAGAGGTTGAATTCGAAAAGACTAAGA
*
2045827 AAATTTAGGATGAAATTGTAAGTGTTTGAATGTTAAAGTATTGGATTGGATATAATATTATATGC
66 AAATTTAGGATGAAATTGTAAGTGTTCGAATGTTAAAGTATTGGATTGGATATAATATTATATGC
* * *
2045892 TGGAAATATTTAGTATTTGATTTGAACTAAGCATATTGGTGAAGGAACATTGTGAATTAAATGGA
131 TGGAAAAAATTAGTATTTGATTTGAACTAAGCATATTGGTGAAGAAACATTGTGAATTAAATGGA
* * * *
2045957 AAAGTTGATGTGAGTTCTAAAAAGAATTAAAAAATGGTGATTTAAATGCAAATTTTCTGAGAGTT
196 AAAGTTGATGTGAATTCCAAAAAGAATTAAAAAATGGTGATTTAAATGCAAACTTTCTGAAAGTT
* * * * *
2046022 GTAGGATTGATGGTGGAAATGAACATTTATGGAATCAAATAGCTATTTTGGAAAGTTTAAAGTTG
261 GTAGGATTGATGATGAAAATGAACATTTAGGGAATCAAATAACTATTTTGGAAAGTTTAAAGTTA
* *
2046087 TGATGGAATTGTGATTTGGTTTTATATCGATTTAGTATAGATTATGCTTTATAGAATTTATTTTA
326 TGATGGAATTGTGATTTAGTTTTATATCGATTTAGTATAGATTATGCTTTATAAAATTTATTTTA
*
2046152 TCAGAATTAGATTAATTTAGTAGTGTACTAACATATAGTTTGAAAACGGTGTTAAGCATATGATG
391 TCAGAATTAGATTAATTTAGTAGTATACTAACATATAGTTTGAAAACGGTGTTAAGCATATGATG
* * *
2046217 TCGTACATATTACGACAAATCTTGTGATCCCAATGACTCGAAAGAAAAAGGAAAAGTATTTGAGT
456 TCGTACAAATTACGACAAATCTGGTGATCCCAATGACTCAAAAGAAAAAGGAAAAGTATTTGAGT
*
2046282 AAAAGAATATCATATTAAAGGTTCAATAGTGAGGATGGAAATTATTACTTGAATGCTAAATTTCA
521 AAAAGAATACCATATTAAAGGTTCAATAGTGAGGATGGAAATTATTACTTGAATGCTAAATTTCA
2046347 GGTGCAA
586 GGTGCAA
* * * * * *
2046354 GTATTTATTTGGGAACCAATTTTTAAGACTACAAAAGTTAGAGGTTGAGTTCGGAAAGACTAATA
1 GTATTTATTTGAGAACCAATATGTAAGACTACAAAAGTTAGAGGTTGAATTCGAAAAGACTAAGA
* *
2046419 AAATTTAGGATGAAATTGTAAGTGTTCGAATGTTAAAGTATTGGATTGGATATATTATTTATGTG
66 AAATTTAGGATGAAATTGTAAGTGTTCGAATGTTAAAGTATTGGATTGGATATAATA-TTATATG
* * * * * *
2046484 TTGGAAAAAATTAGTATTTTATTTGAAGTAGGCATATTGGTGAAGAAACATTGTGAATTAACTGT
130 CTGGAAAAAATTAGTATTTGATTTGAACTAAGCATATTGGTGAAGAAACATTGTGAATTAAATGG
* * * *
2046549 AAAAGTTGATGTGAATTCCAAAAAGAATTCATATATGGTGATTTAAATGCAAACTTTGTGAAAGT
195 AAAAGTTGATGTGAATTCCAAAAAGAATTAAAAAATGGTGATTTAAATGCAAACTTTCTGAAAGT
* * *
2046614 TGTAGGATTGATGATGAAAATGAACATTTAGGGAATCGAATAACTATTTTGGAATGTTTGAAGTT
260 TGTAGGATTGATGATGAAAATGAACATTTAGGGAATCAAATAACTATTTTGGAAAGTTTAAAGTT
* *
2046679 ATGATGGAATTTTGATTTAGTTTTATATCGATTTAGTATAGATTATTCTTTATAAAATTTATTTT
325 ATGATGGAATTGTGATTTAGTTTTATATCGATTTAGTATAGATTATGCTTTATAAAATTTATTTT
* * * *
2046744 ATCGGAATTAGATTAATTTAGTA-TAATACTAACATATAGTTTGAAAATGGTGTTAAGTATGTGA
390 ATCAGAATTAGATTAATTTAGTAGT-ATACTAACATATAGTTTGAAAACGGTGTTAAGCATATGA
* * * ** ** *
2046808 TTTTGTACAAATTACGACAAATCTGGTGATCTCGGTGACTCAAAAGTGAAAGGCAAAGTATTTGA
454 TGTCGTACAAATTACGACAAATCTGGTGATCCCAATGACTCAAAAGAAAAAGGAAAAGTATTTGA
2046873 GTAAAAGAATACCATATTAAAGGTTCAATAGTGAGG
519 GTAAAAGAATACCATATTAAAGGTTCAATAGTGAGG
2046909 CAAAGGTGAG
Statistics
Matches: 493, Mismatches: 60, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
592 110 0.22
593 383 0.78
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (592 bp):
GTATTTATTTGAGAACCAATATGTAAGACTACAAAAGTTAGAGGTTGAATTCGAAAAGACTAAGA
AAATTTAGGATGAAATTGTAAGTGTTCGAATGTTAAAGTATTGGATTGGATATAATATTATATGC
TGGAAAAAATTAGTATTTGATTTGAACTAAGCATATTGGTGAAGAAACATTGTGAATTAAATGGA
AAAGTTGATGTGAATTCCAAAAAGAATTAAAAAATGGTGATTTAAATGCAAACTTTCTGAAAGTT
GTAGGATTGATGATGAAAATGAACATTTAGGGAATCAAATAACTATTTTGGAAAGTTTAAAGTTA
TGATGGAATTGTGATTTAGTTTTATATCGATTTAGTATAGATTATGCTTTATAAAATTTATTTTA
TCAGAATTAGATTAATTTAGTAGTATACTAACATATAGTTTGAAAACGGTGTTAAGCATATGATG
TCGTACAAATTACGACAAATCTGGTGATCCCAATGACTCAAAAGAAAAAGGAAAAGTATTTGAGT
AAAAGAATACCATATTAAAGGTTCAATAGTGAGGATGGAAATTATTACTTGAATGCTAAATTTCA
GGTGCAA
Found at i:2047877 original size:70 final size:70
Alignment explanation
Indices: 2047764--2047982 Score: 330
Period size: 70 Copynumber: 3.1 Consensus size: 70
2047754 TATGCACCAA
* *
2047764 AGTGCTAAACCGAATATGACACATAAGGTCGTACCCACCATACACACTAAGTGTCTTGGGTATAC
1 AGTGCTAAACCGAATATGACACATAAGGTCATGCCCACCATACACACTAAGTGTCTTGGGTATAC
2047829 ACTCT
66 ACTCT
* * * * *
2047834 AGTGCTAAATCGAGTATGACACCTAAGGTCATGTCCACCATACACACTAAGAGTCTTGGGTATAC
1 AGTGCTAAACCGAATATGACACATAAGGTCATGCCCACCATACACACTAAGTGTCTTGGGTATAC
*
2047899 ACACT
66 ACTCT
* * **
2047904 AATGCTAAACCGAATATGACACATAAGGTCATGCCCACCACATGCACTAAGTGTCTTGGGTATAC
1 AGTGCTAAACCGAATATGACACATAAGGTCATGCCCACCATACACACTAAGTGTCTTGGGTATAC
2047969 ACTCT
66 ACTCT
2047974 AGTGCTAAA
1 AGTGCTAAA
2047983 TTGGATATGC
Statistics
Matches: 130, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 130 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (70 bp):
AGTGCTAAACCGAATATGACACATAAGGTCATGCCCACCATACACACTAAGTGTCTTGGGTATAC
ACTCT
Found at i:2049847 original size:15 final size:16
Alignment explanation
Indices: 2049829--2049861 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2049819 AAAATTAAAT
*
2049829 ATAAGAAAATAAA-CA
1 ATAAAAAAATAAATCA
2049844 ATAAAAAAATAAATCA
1 ATAAAAAAATAAATCA
2049860 AT
1 AT
2049862 TGAAGCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (16 bp):
ATAAAAAAATAAATCA
Found at i:2049940 original size:17 final size:17
Alignment explanation
Indices: 2049904--2049955 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
2049894 ATCAATAATA
*
2049904 AAAAATAAAAAT--ATT
1 AAAAATAAAAATAAAAT
2049919 AAAAA-AACAACATAAAAT
1 AAAAATAA-AA-ATAAAAT
2049937 AAAAATAAAAATAAAAT
1 AAAAATAAAAATAAAAT
2049954 AA
1 AA
2049956 GAGGACCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 2 0.06
15 7 0.23
16 2 0.06
17 9 0.29
18 9 0.29
19 2 0.06
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAATAAAAATAAAAT
Found at i:2050071 original size:29 final size:29
Alignment explanation
Indices: 2050016--2050072 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
2050006 GAACATGCAA
* *
2050016 TAAGGGCTAAATTAAAACAAACCAAAATG
1 TAAGGGCTAAATCAAAACAAAACAAAATG
* * *
2050045 TAAGGGCTAAATCGAAATAAAATAAAAT
1 TAAGGGCTAAATCAAAACAAAACAAAAT
2050073 AAAAATGACT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.56, C:0.11, G:0.14, T:0.19
Consensus pattern (29 bp):
TAAGGGCTAAATCAAAACAAAACAAAATG
Found at i:2050151 original size:50 final size:48
Alignment explanation
Indices: 2050064--2050165 Score: 123
Period size: 50 Copynumber: 2.1 Consensus size: 48
2050054 AATCGAAATA
*
2050064 AAATAAAATAAAAATGACTAAAATGCAAGAAAATAAAAGTTAGTAACT
1 AAATAAAATAAAAATGACCAAAATGCAAGAAAATAAAAGTTAGTAACT
* * * * * *
2050112 AAATAAAAATAAACATGGACCAAAATGTAAGAAATTAAAATTTTGTAGCT
1 AAAT-AAAATAAAAAT-GACCAAAATGCAAGAAAATAAAAGTTAGTAACT
2050162 AAAT
1 AAAT
2050166 CAAGAACAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.09
49 10 0.22
50 31 0.69
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.24
Consensus pattern (48 bp):
AAATAAAATAAAAATGACCAAAATGCAAGAAAATAAAAGTTAGTAACT
Found at i:2050673 original size:27 final size:27
Alignment explanation
Indices: 2050651--2050704 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2050641 TGCATTTTTT
2050651 GGAACGAAACCAAAGGCTACATTTTAC
1 GGAACGAAACCAAAGGCTACATTTTAC
2050678 GGAACGAAACCAAAGGCTACATTTTAC
1 GGAACGAAACCAAAGGCTACATTTTAC
2050705 TTCGAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (27 bp):
GGAACGAAACCAAAGGCTACATTTTAC
Found at i:2051616 original size:39 final size:39
Alignment explanation
Indices: 2051530--2052879 Score: 1606
Period size: 39 Copynumber: 34.7 Consensus size: 39
2051520 GTTTTAAGAA
* * * *
2051530 AAACAATCTCAAGTGAGAT-AAATTTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
2051568 AAACTATCTCAAGCGAGATAAAATATTATGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
2051607 AAACAATCTCAAGTGAGAT-AAATCTTATGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
2051645 AAAATATCTCAAGCGAGATAAAATCTTCTATTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
2051684 ATACTATTTCAAGTGAGATAAAATCTTTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
2051723 AATCTATCTCAAGTGAGATAAAATCTTCAGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
2051762 AAACTATCTTAAGCGAGACAAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
2051801 AAACTATCTCAAGCGAGATGAAGTCTTCTATTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
2051840 AAATTATCTCAAGTGAGATAAAATCTTTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * * *
2051879 AAACTATTTCAAGCGATACAAAATCTTATGTTTCTAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
2051918 AAACTATCTCAAGAGAGATAAAATCTTTTGTTTCCAGGA
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
2051957 AAACTATCTCAAGAGAGATAAAATCTTCTGTTTCCAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
2051996 AAACTATCTCAAGCGAGATAAAATCTTCTGTTT-GAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCG-AGGG
2052035 AAACTATCTCTAA-CGAGATAAAATCTTC-GATTTCGAGGG
1 AAACTATCTC-AAGCGAGATAAAATCTTCTG-TTTCGAGGG
2052074 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
2052113 -AACTATCTCAAGCAAGACAAAATCTTATGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
2052151 AAACTATCTCAAGTGAGATAAAATCTTTTGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
** *
2052190 AAGTTATCTCAAGCAAGATAAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
2052229 AAACTATCTCAAGCGAGACAAAATCTTATGTTTCAAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
2052268 AAACTATCTCAAGCGAGACAAAATC-TCTGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
2052306 AAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
2052345 AAACTATCTCAAGCTAGGTAAAATCTTCTGTTTCGAGAG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
2052384 AAACAATCTCAAGAGAGATAAAATCTTTTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
2052423 AAACTATCTCAAGCAAGATAAAATCTTCTGTTTTGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
** * *
2052462 AAACTATCTTTAGCAAGATAAGAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAA-AATCTTCTGTTTCGAGGG
*
2052502 AAACTAT-TACAAGCGAGATAAAATCTTCTGCTTT-GATGG
1 AAACTATCT-CAAGCGAGATAAAATCTTCTG-TTTCGAGGG
* * * * *
2052541 AAACTATCTCACGTGAGACAAAATCTTATGTTTAGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
2052580 AAACTATCTCAAGCGATATAAAATCTTCTGTTTTGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * * *
2052619 AAACTATCTCAAACGAGATAAAATATTATGTTTTGAGCG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
2052658 AAACAATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
2052696 AAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*** * * * *
2052735 AAACTATCTCAATTAAGACAAGAATCTTCTATTTTGAGTG
1 AAACTATCTCAAGCGAGATAA-AATCTTCTGTTTCGAGGG
* * *
2052775 AAACTAT-TACAAGCGAGATAAAATCTTCTATTTCGATGA
1 AAACTATCT-CAAGCGAGATAAAATCTTCTGTTTCGAGGG
** * *
2052814 AAACTATCTCAAGTAAGACAAAATATTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
2052853 AAACTATCTCAAGAGAGAGAAAATCTT
1 AAACTATCTCAAGCGAGATAAAATCTT
2052880 TTTAAAAACA
Statistics
Matches: 1136, Mismatches: 157, Indels: 37
0.85 0.12 0.03
Matches are distributed among these distances:
38 159 0.14
39 903 0.79
40 74 0.07
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (39 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
Found at i:2055566 original size:18 final size:18
Alignment explanation
Indices: 2055545--2055585 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2055535 AGAACAGCAC
*
2055545 GAGGAACAAGCTCCACCA
1 GAGGAACAAGCACCACCA
*
2055563 GAGGAACAAGCACGACCA
1 GAGGAACAAGCACCACCA
2055581 GAGGA
1 GAGGA
2055586 TCAAATGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.27, G:0.29, T:0.02
Consensus pattern (18 bp):
GAGGAACAAGCACCACCA
Found at i:2061417 original size:18 final size:18
Alignment explanation
Indices: 2061396--2061435 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
2061386 TTTTTTTAAA
2061396 TTTTGGCTTTTTTGTTTT
1 TTTTGGCTTTTTTGTTTT
* *
2061414 TTTTTGTTTTTTTGTTTT
1 TTTTGGCTTTTTTGTTTT
2061432 TTTT
1 TTTT
2061436 TTTGCCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (18 bp):
TTTTGGCTTTTTTGTTTT
Found at i:2061425 original size:12 final size:13
Alignment explanation
Indices: 2061396--2061462 Score: 77
Period size: 13 Copynumber: 5.2 Consensus size: 13
2061386 TTTTTTTAAA
*
2061396 TTTTGGCTTTTTT
1 TTTTTGCTTTTTT
2061409 GTTTTT--TTTTGTT
1 -TTTTTGCTTTT-TT
2061422 TTTTTG-TTTTTT
1 TTTTTGCTTTTTT
*
2061434 TTTTTGCCTTTTT
1 TTTTTGCTTTTTT
2061447 TTTTTGCTTTTTT
1 TTTTTGCTTTTTT
2061460 TTT
1 TTT
2061463 AAAATAGCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
12 17 0.36
13 26 0.55
14 4 0.09
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (13 bp):
TTTTTGCTTTTTT
Found at i:2061449 original size:18 final size:18
Alignment explanation
Indices: 2061396--2061451 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
2061386 TTTTTTTAAA
*
2061396 TTTTGGCTTTTTTGTTTTT
1 TTTTGCCTTTTTT-TTTTT
**
2061415 TTTTGTTTTTTTGTTTTTTT
1 TTTTG-CCTTTT-TTTTTTT
2061435 TTTTGCCTTTTTTTTTT
1 TTTTGCCTTTTTTTTTT
2061452 GCTTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 6 0.19
19 9 0.29
20 14 0.45
21 2 0.06
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (18 bp):
TTTTGCCTTTTTTTTTTT
Found at i:2067499 original size:129 final size:129
Alignment explanation
Indices: 2067263--2067508 Score: 359
Period size: 129 Copynumber: 1.9 Consensus size: 129
2067253 TCATTAATTT
* *
2067263 AAAACCCTAACATGTTTTTCATCCACCAAATTTGGGAACTAAGCATTCAAGTAAGATTAGCATGC
1 AAAACCCTAACATGTTATTCATCCACCAAATTTGAGAACTAAGCATTCAAGTAAGATTAGCATGC
*
2067328 AATATAGGTACCAAATGATATAGCTCTTCAAATAGAATAATTTTCTATTTCACGCTCTAATTCA
66 AATATAGGTACCAAATGATATAGCTCTTCAAATAGAACAATTTTCTATTTCACGCTCTAATTCA
* * *
2067392 AAAACCCTAAGATGTTATTCATCCACCTAATTTGATAACTAAGCATTCAAGTAAGATTAGCATGC
1 AAAACCCTAACATGTTATTCATCCACCAAATTTGAGAACTAAGCATTCAAGTAAGATTAGCATGC
* * * * * * *
2067457 ATTATAGGTACCAACTTATAGT-GTTCTTCGAATATACCAATTTTCTATTTCA
66 AATATAGGTACCAAATGATA-TAGCTCTTCAAATAGAACAATTTTCTATTTCA
2067509 GCTTTGATCC
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
129 102 0.99
130 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (129 bp):
AAAACCCTAACATGTTATTCATCCACCAAATTTGAGAACTAAGCATTCAAGTAAGATTAGCATGC
AATATAGGTACCAAATGATATAGCTCTTCAAATAGAACAATTTTCTATTTCACGCTCTAATTCA
Found at i:2075564 original size:30 final size:31
Alignment explanation
Indices: 2075512--2075571 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
2075502 CTTATCTTTA
**
2075512 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
2075542 TATTATGTTTGCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
2075572 GGCAGTATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:2076505 original size:19 final size:21
Alignment explanation
Indices: 2076481--2076532 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
2076471 CGGCCAAGAG
*
2076481 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
2076500 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
2076521 CATGTATTTTCA
1 CATGTATTTTCA
2076533 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:2077282 original size:34 final size:31
Alignment explanation
Indices: 2077240--2077311 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 31
2077230 GTACAAAAAG
*
2077240 AAAGAAAAGATA-AAAAGAAGAAGAAAATTCAGAA
1 AAAGAAAAGA-AGAAAAGAAAAAG-AAATTC--AA
2077274 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
1 AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
2077305 AAAGAAA
1 AAAGAAA
2077312 GCAAGCTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 9 0.25
33 7 0.19
34 20 0.56
ACGTcount: A:0.74, C:0.03, G:0.17, T:0.07
Consensus pattern (31 bp):
AAAGAAAAGAAGAAAAGAAAAAGAAATTCAA
Found at i:2078456 original size:28 final size:29
Alignment explanation
Indices: 2078425--2078487 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 29
2078415 TTTGTTTTGC
2078425 AGGACA-ATTCAAGAGA-CATATATTTTCA
1 AGGACAGATTCAAGA-ATCATATATTTTCA
* * *
2078453 AGGAGATGATTCAAGAATCATATCTTTTGA
1 AGGACA-GATTCAAGAATCATATATTTTCA
2078483 AGGAC
1 AGGAC
2078488 TAAAAGATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.18
29 1 0.04
30 22 0.79
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (29 bp):
AGGACAGATTCAAGAATCATATATTTTCA
Found at i:2079714 original size:30 final size:31
Alignment explanation
Indices: 2079662--2079721 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
2079652 CTTAGCTTTA
**
2079662 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
2079692 TATTATGTTTGCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
2079722 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:2080655 original size:19 final size:21
Alignment explanation
Indices: 2080631--2080682 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
2080621 CGGCCAAGAG
*
2080631 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
2080650 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
2080671 CATGTATTTTCA
1 CATGTATTTTCA
2080683 AAGGGGTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:2087770 original size:19 final size:21
Alignment explanation
Indices: 2087740--2087791 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
2087730 CGGCCAAGAG
* *
2087740 CATGTATCTTCA-TTACAA-T
1 CATGTATTTTCATTTAAAAGT
*
2087759 CATGTGTTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
2087780 CATGTATTTTCA
1 CATGTATTTTCA
2087792 AAGGGGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 10 0.37
20 5 0.19
21 12 0.44
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:2088547 original size:19 final size:19
Alignment explanation
Indices: 2088513--2088561 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
2088503 ATTGGAGTGC
*
2088513 AAAA-AAAAA-AA-AAAAA
1 AAAACAAAAAGAAGAAAAG
2088529 AAAGACAAAAAGAAGAAAAG
1 AAA-ACAAAAAGAAGAAAAG
*
2088549 AAAAGAAAAAGAA
1 AAAACAAAAAGAA
2088562 TTCAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.11
17 1 0.04
18 5 0.19
19 11 0.41
20 7 0.26
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAACAAAAAGAAGAAAAG
Found at i:2091872 original size:19 final size:21
Alignment explanation
Indices: 2091842--2091893 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
2091832 CGGCCAAGAG
* *
2091842 CATGTATCTTCA-TTACAA-T
1 CATGTATTTTCATTTAAAAGT
*
2091861 CATGTGTTTTCATTTAAAAGT
1 CATGTATTTTCATTTAAAAGT
2091882 CATGTATTTTCA
1 CATGTATTTTCA
2091894 AAGGGGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 10 0.37
20 5 0.19
21 12 0.44
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAGT
Found at i:2099722 original size:24 final size:25
Alignment explanation
Indices: 2099695--2099746 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
2099685 AAGAAAAATC
* *
2099695 AGAAAAG-AAAGTGAAGCACTCAAA
1 AGAAAAGAAAAATCAAGCACTCAAA
*
2099719 AG-AAAGAAAAATCCAGCACTCAAA
1 AGAAAAGAAAAATCAAGCACTCAAA
2099743 AGAA
1 AGAA
2099747 GAAAAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
23 4 0.17
24 18 0.78
25 1 0.04
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.08
Consensus pattern (25 bp):
AGAAAAGAAAAATCAAGCACTCAAA
Found at i:2099757 original size:14 final size:15
Alignment explanation
Indices: 2099740--2099775 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
2099730 TCCAGCACTC
2099740 AAAAGAAGAA-AAAG
1 AAAAGAAGAAGAAAG
2099754 AAAAGAA-AAGAAAG
1 AAAAGAAGAAGAAAG
2099768 AAAAGAAG
1 AAAAGAAG
2099776 TTGAAGCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAAGAAAG
Found at i:2106492 original size:23 final size:23
Alignment explanation
Indices: 2106439--2106493 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
2106429 TCAGCAAATA
2106439 AAATA-AAAGCACTCAAAAGAAG
1 AAATAGAAAGCACTCAAAAGAAG
*
2106461 AAATTGAAAGCACTCAAAAAGAAG
1 AAATAGAAAGCACTC-AAAAGAAG
2106485 AAA-AGAAAG
1 AAATAGAAAG
2106494 AAAGAAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 4 0.14
23 14 0.48
24 11 0.38
ACGTcount: A:0.64, C:0.11, G:0.16, T:0.09
Consensus pattern (23 bp):
AAATAGAAAGCACTCAAAAGAAG
Found at i:2108956 original size:11 final size:13
Alignment explanation
Indices: 2108924--2108958 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2108914 TGGCCAAAGA
2108924 TGAAAAGGTATGT
1 TGAAAAGGTATGT
2108937 TGAAAAGGTATG-
1 TGAAAAGGTATGT
2108949 TG-AAAGGTAT
1 TGAAAAGGTAT
2108959 TTAGTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 2 0.09
13 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:2110184 original size:18 final size:18
Alignment explanation
Indices: 2110141--2110178 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2110131 GTGAAGTATG
*
2110141 AATGGCGTTGTCGTGGCA
1 AATGGTGTTGTCGTGGCA
*
2110159 AATGGTGTTGTTGTGGCA
1 AATGGTGTTGTCGTGGCA
2110177 AA
1 AA
2110179 GTGTGTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.11, G:0.37, T:0.32
Consensus pattern (18 bp):
AATGGTGTTGTCGTGGCA
Found at i:2119040 original size:15 final size:16
Alignment explanation
Indices: 2119020--2119056 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
2119010 GATTAGAATA
2119020 AAATAAACAAAAGAT-
1 AAATAAACAAAAGATG
*
2119035 AAATAAACAGAAGATG
1 AAATAAACAAAAGATG
2119051 AAATAA
1 AAATAA
2119057 GATAATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (16 bp):
AAATAAACAAAAGATG
Found at i:2124203 original size:18 final size:18
Alignment explanation
Indices: 2124160--2124197 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2124150 GTGAAGTATG
2124160 AATGGTGTTGTCGTGGCA
1 AATGGTGTTGTCGTGGCA
*
2124178 AATGGTGTTGTTGTGGCA
1 AATGGTGTTGTCGTGGCA
2124196 AA
1 AA
2124198 GTGTGTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.37, T:0.34
Consensus pattern (18 bp):
AATGGTGTTGTCGTGGCA
Found at i:2126850 original size:709 final size:708
Alignment explanation
Indices: 2125493--2126907 Score: 2093
Period size: 709 Copynumber: 2.0 Consensus size: 708
2125483 GAAGGGGGGA
*
2125493 TGATATAATCACACCTACACCAGATCCGGAAGTCATGCCACATGGTCCCATTACTAGATCAAGAG
1 TGATATAATCACACCTACACCAGATCCGGAAGTCATGCCACACGGTCCCATTACTAGATCAAGAG
2125558 CCAAACAATTCAGGGAAGTTCTCTTAACTAAGTGTTTAGAAGCTTTTGATTCAATTGATAACTTA
66 CCAAACAATTCAGGGAAGTTCTCTTAACTAAGTGTTTAGAAGCTTTTGATTCAATTGATAACTTA
*
2125623 ACGCCCTCCTATGTTAAGTTATATAATGTTTTAATAGATAAAGAATAACTTAGTATGAATACATC
131 ACACCCTCCTATGTTAAGTTATATAATGTTTTAATAGATAAAGAATAACTTAGTATGAATACATC
* * *
2125688 TTACACATTGTTATCTTAATATGTTAAGCATGTTAGGATAGCTATATAATTATATTATGCATGAT
196 TTACACATTGTTATCTTAATATGTTAAGAATGTTAGAATAGCTATATAATCATATTATGCATGAT
*
2125753 AATAACATATACATCAAGGCAGCATACTTATAATGCATTTTATAAGTTCATTTGCATTCATATTA
261 AATAACATATACATCAAGGCAGCATACTTATAATGCATTTCATAAGTTCATTTGCATTCATATTA
* * *
2125818 GCTCTTAGGCTTTATATATTACCTTACACATATTAGGAGATGATATAATTAGCTCATGGCATTCA
326 ACTCTTAGGCTTTATACATTACCTTACACATATTAGGAGATGATATAATTAGCTCATGCCATTCA
* ** ** *
2125883 AACTTAGCTTACATTACCATATTCATGCATGGCAGCAAGGTATTTAGCTCATATCAGCTCAATGC
391 AACTTAGCTCACATTACCATAAACAAACATGGCAGCAAGGTATTTAGCTCATATCAGCTCAATAC
* * *
2125948 CATGGACTTACCTTGTTTCCTTGCACATGTAGGTACATTGGAGCATAATAAACATTGAGATAGCT
456 CATGAACTTACCTTGTTTCCTTGCACATATAGGTACAATGGAGCATAATAAACATTGAGATAGCT
* * * *
2126013 TGGTGAATAATTTGGACTTCATATGCACCTCACAATCAGCTTACAAAGTACAAGGCATCTCATGG
521 TGGTGAATAATTTGGACGTCATAT-CACCTCACAAACAGCTCACAAAGTACAAGGCAGCTCATGG
*
2126078 AACACTAAGGGAAGCTCGGTTCAGCTGGAGGAGCTTAAGGCTAGCTAAACTTAGCTAGTTGGACT
585 AACACTAAGGGAAGCTCGGTTCAGCTGGAGAAGCTTAAGGCTAGCTAAACTTAGCTAGTTGGACT
* * *
2126143 ATTTGGAGCTGAGTTGCCAAAAGTGATGTCAAAGGTAGGTGAATGTAGATGAACATAAT
650 ATTTGAAGCTGAGTTGCCAAAAGTGATGACAAAGGTAGCTGAATGTAGATGAACATAAT
* ** * * *
2126202 TGATATAGTCACGTCTACACCAGATCCGGAGGTCATGCCACACGGTCCCATTACTAGGTCAAGGG
1 TGATATAATCACACCTACACCAGATCCGGAAGTCATGCCACACGGTCCCATTACTAGATCAAGAG
*
2126267 CCAAACAATTCAGGGAAGTTCTCTTAACTAAGTGTCTT-GAAGCTTTTGATTCATTTGATAACTT
66 CCAAACAATTCAGGGAAGTTCTCTTAACTAAGTGT-TTAGAAGCTTTTGATTCAATTGATAACTT
* * * *
2126331 AACACTCT-CTAATGTTATGTTATATAATGTTTTAATAGCTAAA-AAGTAACTTAGTATGAATTC
130 AACACCCTCCT-ATGTTAAGTTATATAATGTTTTAATAGATAAAGAA-TAACTTAGTATGAATAC
* * * * *
2126394 ATTTTACACATTGTTATTTTAATATGTTAAGAATGTTAGAATAGTTTTATTATCATATTATGCAT
193 ATCTTACACATTGTTATCTTAATATGTTAAGAATGTTAGAATAGCTATATAATCATATTATGCAT
* * * * * *
2126459 GATTATTATATATACATCAAGGCAGCATACTTATAATGCATTTCATTAGTTTATTTGCATTCATG
258 GATAATAACATATACATCAAGGCAGCATACTTATAATGCATTTCATAAGTTCATTTGCATTCATA
* * *
2126524 TTAACTCTTAGGCTTTATACATTATCTTACACATATTAGGAGATGATGTACTTAGCTCATGACCA
323 TTAACTCTTAGGCTTTATACATTACCTTACACATATTAGGAGATGATATAATTAGCTCATG-CCA
* * * *
2126589 -TCATACTTAGCTCACATTACCATAAACAAACATGGCAGCAAGGTATTTAGCTCGTTTTAGCTCA
387 TTCAAACTTAGCTCACATTACCATAAACAAACATGGCAGCAAGGTATTTAGCTCATATCAGCTCA
* ** * ** * *
2126653 ATATCATGAACTTACCTTGTTTCCTTGCACATATAGGTACAATGGAGTGTGATGCACGTTGAGGT
452 ATACCATGAACTTACCTTGTTTCCTTGCACATATAGGTACAATGGAGCATAATAAACATTGAGAT
* *
2126718 AGCTTGGTGAATGATTTGGACGTCATGCAT-AGCTCACAAACAGCTCACAAAGTACAAGGCAGCT
517 AGCTTGGTGAATAATTTGGACGTCAT--ATCACCTCACAAACAGCTCACAAAGTACAAGGCAGCT
** * *
2126782 CATGGAATGCTAAGGGAAGCTCGGTTCAGCTGGATAAGCTTCAGGCTAGCTAAACTTAGCTAGTT
580 CATGGAACACTAAGGGAAGCTCGGTTCAGCTGGAGAAGCTTAAGGCTAGCTAAACTTAGCTAGTT
* *
2126847 GGACTATTTGAAGCTGAGTTGCTAAAAGTGATGACAAAGGTAGCTGAATGTAGCTGAACAT
645 GGACTATTTGAAGCTGAGTTGCCAAAAGTGATGACAAAGGTAGCTGAATGTAGATGAACAT
2126908 GCTGTTATGG
Statistics
Matches: 629, Mismatches: 71, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
708 4 0.01
709 619 0.98
710 4 0.01
711 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (708 bp):
TGATATAATCACACCTACACCAGATCCGGAAGTCATGCCACACGGTCCCATTACTAGATCAAGAG
CCAAACAATTCAGGGAAGTTCTCTTAACTAAGTGTTTAGAAGCTTTTGATTCAATTGATAACTTA
ACACCCTCCTATGTTAAGTTATATAATGTTTTAATAGATAAAGAATAACTTAGTATGAATACATC
TTACACATTGTTATCTTAATATGTTAAGAATGTTAGAATAGCTATATAATCATATTATGCATGAT
AATAACATATACATCAAGGCAGCATACTTATAATGCATTTCATAAGTTCATTTGCATTCATATTA
ACTCTTAGGCTTTATACATTACCTTACACATATTAGGAGATGATATAATTAGCTCATGCCATTCA
AACTTAGCTCACATTACCATAAACAAACATGGCAGCAAGGTATTTAGCTCATATCAGCTCAATAC
CATGAACTTACCTTGTTTCCTTGCACATATAGGTACAATGGAGCATAATAAACATTGAGATAGCT
TGGTGAATAATTTGGACGTCATATCACCTCACAAACAGCTCACAAAGTACAAGGCAGCTCATGGA
ACACTAAGGGAAGCTCGGTTCAGCTGGAGAAGCTTAAGGCTAGCTAAACTTAGCTAGTTGGACTA
TTTGAAGCTGAGTTGCCAAAAGTGATGACAAAGGTAGCTGAATGTAGATGAACATAAT
Found at i:2130799 original size:11 final size:13
Alignment explanation
Indices: 2130768--2130796 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2130758 GGCCAAAGAT
2130768 GAAAAGGTATGTA
1 GAAAAGGTATGTA
2130781 GAAAAGGTATGT-
1 GAAAAGGTATGTA
2130793 GAAA
1 GAAA
2130797 GGTGTTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (13 bp):
GAAAAGGTATGTA
Found at i:2133600 original size:20 final size:21
Alignment explanation
Indices: 2133577--2133619 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
2133567 GGTTTCCTAG
2133577 AACA-CCCATGTGCCTTGCAT
1 AACACCCCATGTGCCTTGCAT
2133597 AACAGCCCCCATGTGCCTTGCAT
1 AACA--CCCCATGTGCCTTGCAT
2133620 GAGGATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
23 16 0.80
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.23
Consensus pattern (21 bp):
AACACCCCATGTGCCTTGCAT
Found at i:2140024 original size:11 final size:11
Alignment explanation
Indices: 2140008--2140032 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2139998 AAATTTTGGC
2140008 TTTTTGTTTTT
1 TTTTTGTTTTT
2140019 TTTTTGTTTTT
1 TTTTTGTTTTT
2140030 TTT
1 TTT
2140033 ACCTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:2144622 original size:9 final size:9
Alignment explanation
Indices: 2144610--2144652 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
2144600 TTTTTTGAAA
2144610 TTTTGGCTT
1 TTTTGGCTT
2144619 TTTTGGCTTTT
1 TTTTGGC--TT
*
2144630 TTTTGTGTTT
1 TTTTG-GCTT
2144640 TTTTGGCTT
1 TTTTGGCTT
2144649 TTTT
1 TTTT
2144653 TGTTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 14 0.48
10 7 0.24
11 7 0.24
12 1 0.03
ACGTcount: A:0.00, C:0.07, G:0.19, T:0.74
Consensus pattern (9 bp):
TTTTGGCTT
Found at i:2144630 original size:10 final size:10
Alignment explanation
Indices: 2144610--2144654 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
2144600 TTTTTTGAAA
2144610 TTTTGGC-TT
1 TTTTGGCTTT
2144619 TTTTGGCTTTT
1 TTTTGGC-TTT
2144630 TTTTGTG-TTT
1 TTTTG-GCTTT
2144640 TTTTGGCTTT
1 TTTTGGCTTT
2144650 TTTTG
1 TTTTG
2144655 TTTTTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.25
10 16 0.50
11 7 0.22
12 1 0.03
ACGTcount: A:0.00, C:0.07, G:0.20, T:0.73
Consensus pattern (10 bp):
TTTTGGCTTT
Found at i:2144633 original size:11 final size:11
Alignment explanation
Indices: 2144617--2144653 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2144607 AAATTTTGGC
2144617 TTTTTTGGCTT
1 TTTTTTGGCTT
2144628 TTTTTT-G-TGT
1 TTTTTTGGCT-T
2144638 TTTTTTGGCTT
1 TTTTTTGGCTT
2144649 TTTTT
1 TTTTT
2144654 GTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.04
10 8 0.35
11 13 0.57
12 1 0.04
ACGTcount: A:0.00, C:0.05, G:0.16, T:0.78
Consensus pattern (11 bp):
TTTTTTGGCTT
Found at i:2144646 original size:30 final size:28
Alignment explanation
Indices: 2144610--2144672 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 28
2144600 TTTTTTGAAA
*
2144610 TTTTGGCTTTTTTGGCTTTTTTTTGTGTTT
1 TTTTGGCTTTTTTGG-TTTTTTTT-TATTT
*
2144640 TTTTGGCTTTTTTTGTTTTTTTTTATTT
1 TTTTGGCTTTTTTGGTTTTTTTTTATTT
2144668 TTTTG
1 TTTTG
2144673 AAAAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 9 0.29
29 8 0.26
30 14 0.45
ACGTcount: A:0.02, C:0.05, G:0.16, T:0.78
Consensus pattern (28 bp):
TTTTGGCTTTTTTGGTTTTTTTTTATTT
Done.