Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 75 of 89
Found at i:17860770 original size:19 final size:21
Alignment explanation
Indices: 17860737--17860775 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
17860727 TGGAAATTAA
*
17860737 TGTTAGAGTGATG-AATTTGG
1 TGTTAGAATGATGAAATTTGG
17860757 TGTTAGAATG-TGAAATTTG
1 TGTTAGAATGATGAAATTTG
17860776 ACTATATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (21 bp):
TGTTAGAATGATGAAATTTGG
Found at i:17862575 original size:18 final size:19
Alignment explanation
Indices: 17862534--17862598 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
17862524 GAAAATAAAC
* *
17862534 TATGAATCTGAAATTAAGT
1 TATGAATCTAAAAATAAGT
*
17862553 CATGAATC-AAAAATAAGT
1 TATGAATCTAAAAATAAGT
* * * *
17862571 TATGAGTCCAGAAACAAGT
1 TATGAATCTAAAAATAAGT
*
17862590 TCTGAATCT
1 TATGAATCT
17862599 GAGAATGAAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
18 14 0.40
19 21 0.60
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (19 bp):
TATGAATCTAAAAATAAGT
Found at i:17862674 original size:13 final size:13
Alignment explanation
Indices: 17862631--17862676 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
17862621 AAATACGGAC
17862631 TATGAAAATGAAA
1 TATGAAAATGAAA
* *
17862644 TGTGAAAGTGAAA
1 TATGAAAATGAAA
* *
17862657 GATGAAAATGAGA
1 TATGAAAATGAAA
17862670 TATGAAA
1 TATGAAA
17862677 GTTTTGTATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (13 bp):
TATGAAAATGAAA
Found at i:17863051 original size:12 final size:12
Alignment explanation
Indices: 17863034--17863059 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17863024 AAGAATAGAA
17863034 AGTGAAGTAAGG
1 AGTGAAGTAAGG
17863046 AGTGAAGTAAGG
1 AGTGAAGTAAGG
17863058 AG
1 AG
17863060 CTGAGTGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.15
Consensus pattern (12 bp):
AGTGAAGTAAGG
Found at i:17864863 original size:25 final size:25
Alignment explanation
Indices: 17864825--17864883 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
17864815 TGTACAACAT
* * *
17864825 TTTCAATCTTTTACATAACACACTCC
1 TTTC-ATCTCTTACACAACACACTCA
17864851 TTTCATCTCTTACACAACACACTCA
1 TTTCATCTCTTACACAACACACTCA
17864876 TTTCATCT
1 TTTCATCT
17864884 TCAATCTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (25 bp):
TTTCATCTCTTACACAACACACTCA
Found at i:17868714 original size:18 final size:18
Alignment explanation
Indices: 17868691--17868729 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17868681 GGAAACATAA
* *
17868691 GATGAAGATGTTGATGTT
1 GATGAAGATGATGATGAT
17868709 GATGAAGATGATGATGAT
1 GATGAAGATGATGATGAT
17868727 GAT
1 GAT
17868730 TTTTTTTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (18 bp):
GATGAAGATGATGATGAT
Found at i:17869572 original size:19 final size:17
Alignment explanation
Indices: 17869548--17869595 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 17
17869538 AAATAGCCTG
17869548 ATGCATCGATGCATGGAGA
1 ATGCATCGATGCAT-GA-A
17869567 ATGCATCGATGCATGAA
1 ATGCATCGATGCATGAA
17869584 ATGCATTCGATG
1 ATGCA-TCGATG
17869596 TTCAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.21
18 8 0.29
19 14 0.50
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (17 bp):
ATGCATCGATGCATGAA
Found at i:17869617 original size:64 final size:63
Alignment explanation
Indices: 17869503--17869628 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 63
17869493 TGCACTAAGG
* *
17869503 ATGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGGAGA
1 ATGCATCGATGCATAAAATGCATTCGATGTTTCAAAAATA-CATGATGCATCGATGCATGGAGA
* *
17869567 ATGCATCGATGCATGAAATGCATTCGATG-TTCAATTAAAT-CATAGGTGCATCGATGCATGGA
1 ATGCATCGATGCATAAAATGCATTCGATGTTTCAA--AAATACAT-GATGCATCGATGCATGGA
17869629 CTGATGCATC
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
63 6 0.11
64 45 0.82
65 4 0.07
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (63 bp):
ATGCATCGATGCATAAAATGCATTCGATGTTTCAAAAATACATGATGCATCGATGCATGGAGA
Found at i:17872296 original size:44 final size:42
Alignment explanation
Indices: 17872182--17872304 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 42
17872172 AAAACCCGAC
* * * *
17872182 GGATGCATCGGTGCATGGTCTTATGCATCGATCCATATTCAAG
1 GGATGCATCGGTGCATTGT-TAATGCATCGATGCACATTCAAG
* **
17872225 GCATGCATCGGTGCATCATGTGGATGCATCGATGCACATTCAAAG
1 GGATGCATCGGTGCAT--TGTTAATGCATCGATGCACATTC-AAG
* *
17872270 GGATGCATCGATGCATTGTTAAATGCATCGGTGCA
1 GGATGCATCGGTGCATTGTT-AATGCATCGATGCA
17872305 TTAAGCACAA
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
43 18 0.28
44 28 0.43
45 19 0.29
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (42 bp):
GGATGCATCGGTGCATTGTTAATGCATCGATGCACATTCAAG
Found at i:17878173 original size:19 final size:17
Alignment explanation
Indices: 17878149--17878196 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
17878139 AAATAGCCTG
17878149 ATGCATTGATGCATGGAGA
1 ATGCATTGATGCAT-GA-A
*
17878168 ATGCATCGATGCATGAA
1 ATGCATTGATGCATGAA
17878185 ATGCATTCGATG
1 ATGCATT-GATG
17878197 TTCAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.27
18 6 0.23
19 13 0.50
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (17 bp):
ATGCATTGATGCATGAA
Found at i:17878218 original size:64 final size:63
Alignment explanation
Indices: 17878103--17878247 Score: 161
Period size: 64 Copynumber: 2.3 Consensus size: 63
17878093 GTGCACTAAG
* * * *
17878103 GATGCATCGATGCATAAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATTGATGCATGGA-
1 GATGCATCGATGCATGAAATGCATTCGATGTTTCAAAAATA-CATGATGCATCGATGCATGGAC
*
17878166 GAATGCATCGATGCATGAAATGCATTCGATG-TTCAATTAAAT-CATAGGTGCATCGATGCATGG
1 G-ATGCATCGATGCATGAAATGCATTCGATGTTTCAA--AAATACAT-GATGCATCGATGCATGG
17878229 AC
62 AC
*
17878231 TGATGCATCGGTGCATG
1 -GATGCATCGATGCATG
17878248 CCTTTGAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
63 7 0.10
64 44 0.63
65 18 0.26
66 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (63 bp):
GATGCATCGATGCATGAAATGCATTCGATGTTTCAAAAATACATGATGCATCGATGCATGGAC
Found at i:17888912 original size:18 final size:18
Alignment explanation
Indices: 17888869--17888915 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
17888859 CAACGGTCAA
* *
17888869 CGGGTCGAGTTAACAGGT
1 CGGGTCGGGTCAACAGGT
*
17888887 CGGGTCGGGTCAACCGGT
1 CGGGTCGGGTCAACAGGT
17888905 CGGGTCGGGTC
1 CGGGTCGGGTC
17888916 GGGTTAGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:17889808 original size:64 final size:64
Alignment explanation
Indices: 17889681--17889800 Score: 231
Period size: 64 Copynumber: 1.9 Consensus size: 64
17889671 GTTACAATAT
17889681 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAATAGG
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAATAGG
*
17889745 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCTCTTATATAAT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAAT
17889801 GCAATAGGTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (64 bp):
CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAATAGG
Found at i:17890449 original size:200 final size:200
Alignment explanation
Indices: 17889842--17890546 Score: 836
Period size: 200 Copynumber: 3.5 Consensus size: 200
17889832 CGAAGTAAAC
* *
17889842 CGGTATATTTATACCGG-TAACATTGCAAATTTACCTATTACATTATTATTATCGGTTTCGATGT
1 CGGTATATTTATACCGGTTAA-ATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
** * * *
17889906 TTTTTAGATCGATATAATTT--TAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTCA
65 TTTTGGGATCGATA-ATTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGG-A--C-
* * * *
17889969 TATTTCATTCTGGAAAAAAGTATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTAT
125 -A-TTCATTCTGGACAAAAGTATCGACACAAATTAAACAAGTGTCGATACATTATGTAGACCTAT
* *
17890034 TTTCGCATAAAAC
188 TTTCTCATAAAAT
* * * * * * * *
17890047 CGGTATATTTATACCGGGTACATTGTAAATTTACATATCACATTGTAATTTTC-ATTTTGATGTT
1 CGGTATATTTATACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * *
17890111 TTTGGGATCGATACTTTTAATAAATGTATCGACACTCTATGCGTGCACCCCGTTTGG-CATTCAT
66 TTTGGGATCGATAATTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCAT
* * *
17890175 TATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTATGCT-GACCTATTTTCTC
131 TCTGGACAAAA-GTATCGACACAAATTAAACAAGTGTCGATACATTATG-TAGACCTATTTTCTC
17890239 ATAAAAT
194 ATAAAAT
*
17890246 CGGTATATTTATATCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
1 CGGTATATTTATACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
17890311 TTTGGGATAGATAATTTTAATAAATGTATCGACACTTTATGCGTGCACCTTGTTTGGACATTCAT
66 TTTGGGATCGATAATTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCAT
** * *
17890376 TCTGGACAATAAGTATCGACACAAATTCCACAAGTGTCGATACATGT-TGTAGACCTATTCTCTA
131 TCTGGACAA-AAGTATCGACACAAATTAAACAAGTGTCGATACAT-TATGTAGACCTATTTTCTC
*
17890440 AT-TAAT
194 ATAAAAT
* * * *
17890446 CGGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGGTTTTGATGT
1 CGGTATATTTATACCGGTTAAATTGTAAATTTACCTATTACATTATAATTA-TCGGTTTCGATG-
* *
17890511 TTTTTGGG-TCGATACTTGTAGA-AAATGTATCGACAC
64 TTTTTGGGATCGATAATTTTA-ATAAATGTATCGACAC
17890547 ATATTTAGGT
Statistics
Matches: 432, Mismatches: 55, Indels: 30
0.84 0.11 0.06
Matches are distributed among these distances:
198 14 0.03
199 97 0.22
200 114 0.26
201 94 0.22
202 12 0.03
203 3 0.01
204 20 0.05
205 76 0.18
206 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (200 bp):
CGGTATATTTATACCGGTTAAATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
TTTGGGATCGATAATTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCAT
TCTGGACAAAAGTATCGACACAAATTAAACAAGTGTCGATACATTATGTAGACCTATTTTCTCAT
AAAAT
Found at i:17892966 original size:17 final size:17
Alignment explanation
Indices: 17892941--17892974 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17892931 TAACTTTTCT
* *
17892941 CATCTCATACATAATTA
1 CATCACATACAAAATTA
17892958 CATCACATACAAAATTA
1 CATCACATACAAAATTA
17892975 TAAATCATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CATCACATACAAAATTA
Found at i:17893927 original size:2 final size:2
Alignment explanation
Indices: 17893920--17893963 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
17893910 GTTACCGGAG
17893920 AT AT AT AT AT 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 AT AT AT AT AT
17893962 AT
1 AT
17893964 CCTTCCCCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17895109 original size:200 final size:200
Alignment explanation
Indices: 17894616--17897192 Score: 4161
Period size: 201 Copynumber: 12.8 Consensus size: 200
17894606 CGTGATATTT
*
17894616 AAAATAGTATCGACACAAAATTGAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
1 AAAA-AGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* * * *
17894681 TGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCTATGTT
65 CGGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTT
* *
17894746 TCTGGGATTGATACTTTTTATAAATGGATCGATACTTTATGGTTGCACCCTTTTTGTGCATTCAT
130 TCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTG-GCATTCAT
*
17894811 TATGGAC
194 TCTGGAC
*
17894818 AAAAAGTATCGACACAAAATTAAAAAGTGTCAATACATGTTGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * * ** *
17894883 AGTATATTTATACCAGTTACATTGAAATTTTACCTATTACATTATACTTATGGGTTTTGATGTTT
66 GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
*
17894948 CTGGGATCGATACTTTTTATAAATAGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
131 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
17895013 TGGAC
196 TGGAC
17895018 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * * * *
17895083 AGTATATTTATACCTGTTATATTGAAAAATTACCTATTATATTATACTTATGGGTTTCGATGTTT
66 GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
17895148 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGTGCATTCATT
131 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTG-GCATTCATT
*
17895213 ATGGAC
195 CTGGAC
*
17895219 AAAAAGTATCGACACAAAATTAAAAAGTGTCAATACATGTTGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * *
17895284 AGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTT
66 GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
*
17895349 CTGGGATCGATACTTTTTATAAATAGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
131 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
17895414 TGGAC
196 TGGAC
17895419 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * *
17895484 GGTATATTTATACCGGTTATATTGAAAAATTACCTATTATATTATACTTATGGGTTTCGATGTTT
66 GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
* * * * *
17895549 CTGGGATCAATACTTTTTATAAATGTATCGACACATTATGGGTACACCCTTTTTGGCATTCATTC
131 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
*
17895614 TAGAC
196 TGGAC
* * * *
17895619 CAAAAGTATCGACACAAAATTAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTTATAAAATC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
*
17895684 GGTATATCTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTT
66 GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
* * * * *
17895749 CTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGTACCCTTTTTGTCATTCATTA
131 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
17895814 TGGAC
196 TGGAC
*
17895819 CAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAAGTGTCGATACATGTTGTAGA
1 AAAAAGTATCGACAC-------AAAA-T-T--A-A-A------AAGTGTCGATACATGTTGTAGA
17895884 CCTATTCTCTCATAAAACCGGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATA
47 CCTATTCTCTCATAAAACCGGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATA
* *
17895949 CTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCAATACTTTATGGTTGCA
112 CTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCA
17896014 CCCTTTTTGGCATTCATTCTGGAC
177 CCCTTTTTGGCATTCATTCTGGAC
* * *
17896038 CAAAAGTATCGACACAAAAATAAAAAAGTGTCAATACATGTTGTAGACCTATTCTCTCATAAAAC
1 AAAAAGTATCGACAC-AAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* * * *
17896103 CGGTATATCTATACTGGTTACAATGAAAAATTACCTATTATATTATACTTATGGGTTTCGATATT
65 CGGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTT
* *
17896168 TCTGTGATCGATACTTTTTATAAATGGATCGACACTTTATGATTGCACCCTTTTTGTGCATTCAT
130 TCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTG-GCATTCAT
17896233 TCTGGAC
194 TCTGGAC
17896240 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
*
17896305 GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATAGGTTTCGATGTTT
66 GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
17896370 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
131 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
17896435 TGGAC
196 TGGAC
*
17896440 GAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
1 AAAAAGTATCGACACAAAATT-AAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* * * * *
17896505 CGGTATATCTATTCTGGTTACATTGAAAAATTACCTATTATATTATACTTATGTGTTTCGATATT
65 CGGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTT
* *
17896570 TATGTGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGTGCATTCAT
130 TCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTG-GCATTCAT
17896635 TCTGGAC
194 TCTGGAC
*
17896642 AAAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
*
17896707 GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATAGGTTTCGATGTTT
66 GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
17896772 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
131 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
17896837 TGGAC
196 TGGAC
* *
17896842 CAAAAGTATCGACACAAAATTAAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAAC
1 AAAAAGTATCGACACAAAATT-AAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* * *
17896907 CGGTATATCTATACTGGTTACATTGAAAAATTACCTATTATATTATACTTATGGGTTTCGATATT
65 CGGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTT
* *
17896972 TCTGTGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTCAT
130 TCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTG-GCATTCAT
17897037 TCTGGAC
194 TCTGGAC
*
17897044 -AAAA-TATCGACACAAAATTAAAAAGTGTCGATACATGTTCTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
*
17897107 GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATG-TT
66 GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
*
17897171 CTTGAGATCGATACTTTTTATA
131 C-TGGGATCGATACTTTTTATA
17897193 TATAGATTGA
Statistics
Matches: 2228, Mismatches: 121, Indels: 55
0.93 0.05 0.02
Matches are distributed among these distances:
198 3 0.00
199 119 0.05
200 678 0.30
201 1147 0.51
202 83 0.04
207 5 0.00
208 2 0.00
209 2 0.00
211 1 0.00
212 2 0.00
213 6 0.00
219 180 0.08
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (200 bp):
AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
GGTATATCTATACCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
TGGAC
Found at i:17895867 original size:19 final size:19
Alignment explanation
Indices: 17895843--17895881 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17895833 CAAAATTAAA
17895843 AAGTGTCGATACATGTTGT
1 AAGTGTCGATACATGTTGT
17895862 AAGTGTCGATACATGTTGT
1 AAGTGTCGATACATGTTGT
17895881 A
1 A
17895882 GACCTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (19 bp):
AAGTGTCGATACATGTTGT
Found at i:17897472 original size:19 final size:19
Alignment explanation
Indices: 17897448--17897494 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
17897438 TTATATTCAC
17897448 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
17897467 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
17897486 ATACAAAAT
1 ATACAAAAT
17897495 AACCCTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:17899081 original size:21 final size:21
Alignment explanation
Indices: 17899055--17899095 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
17899045 CCTCCTCATT
17899055 TCCTCCATCTTTTCTTCTTCC
1 TCCTCCATCTTTTCTTCTTCC
*
17899076 TCCTCCCTCTTTTCTTCTTC
1 TCCTCCATCTTTTCTTCTTC
17899096 ATATTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.44, G:0.00, T:0.54
Consensus pattern (21 bp):
TCCTCCATCTTTTCTTCTTCC
Found at i:17899368 original size:15 final size:15
Alignment explanation
Indices: 17899343--17899378 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
17899333 CTTTCACTAC
17899343 TCCATCTATTTTTCCG
1 TCCA-CTATTTTTCCG
*
17899359 TCCACTATTTTTCCT
1 TCCACTATTTTTCCG
17899374 TCCAC
1 TCCAC
17899379 ATCCCCCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.14, C:0.36, G:0.03, T:0.47
Consensus pattern (15 bp):
TCCACTATTTTTCCG
Found at i:17899417 original size:21 final size:21
Alignment explanation
Indices: 17899392--17899456 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
17899382 CCCCTTATGC
*
17899392 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
17899413 CTCTCAAGTTTCTCTTTGACT
1 CTCTCAAGTTTCTCTTCGACT
*
17899434 CTCTCAAGTTTCTTTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
17899455 CT
1 CT
17899457 TGATTGTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.14, C:0.31, G:0.11, T:0.45
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:17899488 original size:21 final size:21
Alignment explanation
Indices: 17899459--17899499 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17899449 TCGACTCTTG
*
17899459 ATTGTATTTGCATGATATCAA
1 ATTGGATTTGCATGATATCAA
* *
17899480 ATTGGATTTTCTTGATATCA
1 ATTGGATTTGCATGATATCA
17899500 GCCAATTCAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (21 bp):
ATTGGATTTGCATGATATCAA
Found at i:17901894 original size:182 final size:182
Alignment explanation
Indices: 17901582--17902060 Score: 723
Period size: 182 Copynumber: 2.6 Consensus size: 182
17901572 TACAAGTACT
* * *
17901582 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTATCAGTTTTATCATTTCGATACCG
1 TATTAAAGTATCGACACTTTAAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCG
* * *
17901647 GTTTTGTCATATTTTTACTTGTTATATCGTTTTGGATCGATATACTTTTT-TAAAGTATAGACAC
66 GTTTTGTCATATTTTTACTTGTTATATCATTATGGATCGATACA-TTTTTATAAAGTATAGACAC
*
17901711 TTTATAGGCACTAAAACTGATTCTCTTTTAAATTCATAAAGTGTCGATACTTA
130 TTTATAGGCACTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
17901764 TATTAAAGTATTGACACTTTTAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACTG
1 TATTAAAGTATCGACACTTTAAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCG
* * *
17901829 ATTTTGTCATATTTTTACTTGTTATATCATTGTGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACTTGTTATATCATTATGGATCGATACATTTTTATAAAGTATAGACACT
* *
17901894 TTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCACTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
17901946 TATTAAAGTATCGACACTTTAAATATATCCGGTAGCGCTTTACCGGTATTGTCTTTTCG-TGACC
1 TATTAAAGTATCGACACTTTAAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGAT-ACC
*
17902010 GGTTTTGTCATATTTTTA-TCTGTTATATTGA-TATGGATCGATACATTTTTA
65 GGTTTTGTCATATTTTTACT-TGTTATA-TCATTATGGATCGATACATTTTTA
17902061 ATTTGAATCG
Statistics
Matches: 271, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
181 7 0.03
182 262 0.97
183 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.43
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTAAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTCGATACCG
GTTTTGTCATATTTTTACTTGTTATATCATTATGGATCGATACATTTTTATAAAGTATAGACACT
TTATAGGCACTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:17911823 original size:20 final size:20
Alignment explanation
Indices: 17911798--17911842 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
17911788 AATACATTTA
17911798 GACATCAAGCAAGTTAGGGC
1 GACATCAAGCAAGTTAGGGC
17911818 GACATCAAGCAAGTTAGGGC
1 GACATCAAGCAAGTTAGGGC
17911838 GACAT
1 GACAT
17911843 AAGATTGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.29, T:0.16
Consensus pattern (20 bp):
GACATCAAGCAAGTTAGGGC
Found at i:17916529 original size:77 final size:79
Alignment explanation
Indices: 17916389--17916543 Score: 210
Period size: 77 Copynumber: 2.0 Consensus size: 79
17916379 ATATAGTAAG
17916389 TAAACATTAAAAGAATGTAATTCTGATTACAACTCTTTTAATGGATATTTAATTCGGAATAATTA
1 TAAACATTAAAAGAATGTAATTCTGATTACAACTCTTTTAATGGATATTTAATTCGGAATAATTA
*
17916454 AATAAGAGTTTAAA
66 AATAAGAATTTAAA
* * * * *
17916468 TAAACGTT-AAAGAGTGTAATT-TGGATTATAAGTC-TTTAATGGATATTTAATT-TGAATTAAT
1 TAAACATTAAAAGAATGTAATTCT-GATTACAACTCTTTTAATGGATATTTAATTCGGAA-TAAT
17916529 TAAATAAGAATTTAA
64 TAAATAAGAATTTAA
17916544 TTAATTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
76 3 0.04
77 37 0.54
78 21 0.31
79 7 0.10
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (79 bp):
TAAACATTAAAAGAATGTAATTCTGATTACAACTCTTTTAATGGATATTTAATTCGGAATAATTA
AATAAGAATTTAAA
Found at i:17919630 original size:19 final size:19
Alignment explanation
Indices: 17919608--17919647 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
17919598 CACATTTTTT
17919608 GTCTTTTAGTATGTTTTCA
1 GTCTTTTAGTATGTTTTCA
17919627 GTCTTTTAGTATGTTTTCA
1 GTCTTTTAGTATGTTTTCA
17919646 GT
1 GT
17919648 ATTTGTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.57
Consensus pattern (19 bp):
GTCTTTTAGTATGTTTTCA
Found at i:17920952 original size:17 final size:17
Alignment explanation
Indices: 17920930--17920962 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17920920 TGAATCAAAT
17920930 TAATTAGATATTATTTG
1 TAATTAGATATTATTTG
17920947 TAATTAGATATTATTT
1 TAATTAGATATTATTT
17920963 AAATTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TAATTAGATATTATTTG
Found at i:17921633 original size:13 final size:13
Alignment explanation
Indices: 17921615--17921679 Score: 76
Period size: 13 Copynumber: 5.0 Consensus size: 13
17921605 GCTATAAACC
17921615 TATGACGCACATT
1 TATGACGCACATT
* **
17921628 TATGACACGTATT
1 TATGACGCACATT
*
17921641 TATGACACACATT
1 TATGACGCACATT
*
17921654 TATGACGCTCATT
1 TATGACGCACATT
*
17921667 TATGACGCGCATT
1 TATGACGCACATT
17921680 GAGCGTCATT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:17921679 original size:26 final size:26
Alignment explanation
Indices: 17921615--17921679 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
17921605 GCTATAAACC
17921615 TATGACGCACATTTATGACACGTATT
1 TATGACGCACATTTATGACACGTATT
* *
17921641 TATGACACACATTTATGACGC-TCATT
1 TATGACGCACATTTATGACACGT-ATT
*
17921667 TATGACGCGCATT
1 TATGACGCACATT
17921680 GAGCGTCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 1 0.03
26 33 0.97
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (26 bp):
TATGACGCACATTTATGACACGTATT
Found at i:17921843 original size:2 final size:2
Alignment explanation
Indices: 17921836--17921868 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17921826 TTTCGTAAAT
17921836 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17921869 TGTAGATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17925507 original size:6 final size:6
Alignment explanation
Indices: 17925498--17925531 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
17925488 TGTGTGCGTG
17925498 TGTGTA TGTGTA TGTGTA TGTGTA TGTGTA TGTG
1 TGTGTA TGTGTA TGTGTA TGTGTA TGTGTA TGTG
17925532 CGTGTGCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (6 bp):
TGTGTA
Found at i:17925537 original size:12 final size:12
Alignment explanation
Indices: 17925498--17925549 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
17925488 TGTGTGCGTG
*
17925498 TGTGTATGTGTA
1 TGTGTATGTGCA
*
17925510 TGTGTATGTGTA
1 TGTGTATGTGCA
*
17925522 TGTGTATGTGCG
1 TGTGTATGTGCA
* *
17925534 TGTGCATGTGCT
1 TGTGTATGTGCA
17925546 TGTG
1 TGTG
17925550 GGTGTGTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.12, C:0.06, G:0.37, T:0.46
Consensus pattern (12 bp):
TGTGTATGTGCA
Found at i:17925537 original size:18 final size:18
Alignment explanation
Indices: 17925497--17925556 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
17925487 ATGTGTGCGT
*
17925497 GTGTGTATGTGTATGTGT
1 GTGTGTATGTGTATGTGC
*
17925515 ATGTGTATGTGTATGTGC
1 GTGTGTATGTGTATGTGC
* *
17925533 GTGTGCATGTGCT-TGTGG
1 GTGTGTATGTG-TATGTGC
17925551 GTGTGT
1 GTGTGT
17925557 GTTAGAATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 34 0.97
19 1 0.03
ACGTcount: A:0.10, C:0.05, G:0.40, T:0.45
Consensus pattern (18 bp):
GTGTGTATGTGTATGTGC
Found at i:17925639 original size:2 final size:2
Alignment explanation
Indices: 17925632--17925660 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17925622 GTTTAAAATA
17925632 AT 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 AT A
17925661 ATTTTATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17932403 original size:21 final size:19
Alignment explanation
Indices: 17932317--17932493 Score: 77
Period size: 20 Copynumber: 8.8 Consensus size: 19
17932307 AAATGACCAA
**
17932317 CAAAATCGCAACGCGAAAT
1 CAAAATCGCAACGCGATTT
* **
17932336 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGAT-TT
* **
17932356 CAGAATCGCAAAAC-AGTTT
1 CAAAATCGCAACGCGA-TTT
17932375 CCAAAATCGCAACGCGATTCT
1 -CAAAATCGCAACGCGATT-T
* * *
17932396 GGAAAATCGCAATGCGATAGTA
1 -CAAAATCGCAACGCGAT--TT
* **
17932418 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGA-TTT
*
17932438 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCG-ATTT
* ***
17932459 GAAAATCGCAACGCGAACA
1 CAAAATCGCAACGCGATTT
17932478 CATAAATCGCAACGCG
1 CA-AAATCGCAACGCG
17932494 TATCCGTAAA
Statistics
Matches: 117, Mismatches: 30, Indels: 21
0.70 0.18 0.12
Matches are distributed among these distances:
19 18 0.15
20 53 0.45
21 43 0.37
22 2 0.02
23 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.17
Consensus pattern (19 bp):
CAAAATCGCAACGCGATTT
Found at i:17932467 original size:20 final size:20
Alignment explanation
Indices: 17932442--17932693 Score: 125
Period size: 20 Copynumber: 12.4 Consensus size: 20
17932432 GATTTTCAAG
*
17932442 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
*
17932462 AATCGCAACGCGAACAC-ATA
1 AATCGCAACGCGAATACGA-A
* *
17932482 AATCGCAACGCGTATCCGTAAA
1 AATCGCAACGCGAATACG--AA
* * *
17932504 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* * *
17932524 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
**
17932544 AATCGCAACGAAAATACGTAA
1 AATCGCAACGCGAATACG-AA
* * *
17932565 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* ** * *
17932585 AATCGCAATGATAATCCGTA
1 AATCGCAACGCGAATACGAA
* * *
17932605 AATCACAACGAGAAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
** *
17932625 AATCGCAACGATAAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
** * *
17932645 AATCGCAACGATAATCCGTA
1 AATCGCAACGCGAATACGAA
* *
17932665 AATCGCAACGAGAAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
17932685 AATCGCAAC
1 AATCGCAAC
17932694 ACTGAAATTT
Statistics
Matches: 198, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
19 3 0.02
20 159 0.80
21 16 0.08
22 19 0.10
23 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:17932508 original size:62 final size:61
Alignment explanation
Indices: 17932442--17932693 Score: 169
Period size: 60 Copynumber: 4.1 Consensus size: 61
17932432 GATTTTCAAG
* *** *
17932442 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTAAA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAAC-CATAAATCGCAACGAAAATACGT-AA
* * * * *
17932504 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACGTAA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATAAATCGCAACGAAAATACGTAA
* * * * * * * *
17932565 AATCGCAACGCGTATCCGTAAATCGCAATG-ATAATCCGTAAATCACAACGAGAAT-CTGT-A
1 AATCGCAACGCGAATACGAAAATCGCAACGCGTAA-CCATAAATCGCAACGAAAATAC-GTAA
** * * * *
17932625 AATCGCAACGATAAT-CTGTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAAT-CTGT-A
1 AATCGCAACGCGAATAC-GAAAATCGCAACGCGTAA-CCATAAATCGCAACGAAAATAC-GTAA
17932685 AATCGCAAC
1 AATCGCAAC
17932694 ACTGAAATTT
Statistics
Matches: 166, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
59 1 0.01
60 66 0.40
61 51 0.31
62 46 0.28
63 2 0.01
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (61 bp):
AATCGCAACGCGAATACGAAAATCGCAACGCGTAACCATAAATCGCAACGAAAATACGTAA
Found at i:17932513 original size:42 final size:42
Alignment explanation
Indices: 17932460--17932586 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
17932450 CGCGAATATG
*
17932460 AAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AAAATCGCAACGCGAACACGTAAATCGCAACGCGTATCCGTA
*
17932502 AAAATCGCAACGCGTATC-CGTAAATCGCAACGCGTATCCGT-
1 AAAATCGCAACGCG-AACACGTAAATCGCAACGCGTATCCGTA
** *
17932543 -AAATCGCAACGAAAATACGTAAAATCGCAACGCGTATCCGTA
1 AAAATCGCAACGCGAACACGT-AAATCGCAACGCGTATCCGTA
17932585 AA
1 AA
17932587 TCGCAATGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
39 1 0.01
40 14 0.19
41 20 0.27
42 36 0.49
43 3 0.04
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (42 bp):
AAAATCGCAACGCGAACACGTAAATCGCAACGCGTATCCGTA
Found at i:17932626 original size:40 final size:40
Alignment explanation
Indices: 17932480--17932693 Score: 241
Period size: 40 Copynumber: 5.3 Consensus size: 40
17932470 CGCGAACACA
* * *
17932480 TAAATCGCAACGCGTATCCGTAAAAATCGCAACGCGT-ATCCG
1 TAAATCGCAACGAGAATCCGT--AAATCGCAACG-ATAATCCG
* * * *
17932522 TAAATCGCAACGCGTATCCGTAAATCGCAACGAAAATACG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
* * *
17932562 TAAAATCGCAACGCGTATCCGTAAATCGCAATGATAATCCG
1 T-AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
* * *
17932603 TAAATCACAACGAGAATCTGTAAATCGCAACGATAATCTG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
* * *
17932643 TAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
17932683 TAAATCGCAAC
1 TAAATCGCAAC
17932694 ACTGAAATTT
Statistics
Matches: 154, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 96 0.62
41 37 0.24
42 21 0.14
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (40 bp):
TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
Found at i:17932658 original size:60 final size:60
Alignment explanation
Indices: 17932480--17932693 Score: 272
Period size: 60 Copynumber: 3.5 Consensus size: 60
17932470 CGCGAACACA
* * * *
17932480 TAAATCGCAACGCGTATCCGTAAAAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCG
1 TAAATCGCAACGAGAATCTGT--AAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCG
* *
17932542 TAAATCGCAACGAAAATAC-GTAAAATCGCAACGCGTATCCGTAAATCGCAATGATAATCCG
1 TAAATCGCAACGAGAAT-CTGT-AAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCG
* * *
17932603 TAAATCACAACGAGAATCTGTAAATCGCAACG-ATAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCTGTAAATCGCAACGCGT-ATCCGTAAATCGCAACGATAATCCG
17932663 TAAATCGCAACGAGAATCTGTAAATCGCAAC
1 TAAATCGCAACGAGAATCTGTAAATCGCAAC
17932694 ACTGAAATTT
Statistics
Matches: 137, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
59 1 0.01
60 66 0.48
61 53 0.39
62 16 0.12
63 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (60 bp):
TAAATCGCAACGAGAATCTGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCG
Found at i:17933371 original size:24 final size:24
Alignment explanation
Indices: 17933351--17933421 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
17933341 AAATTTGGTC
*
17933351 TTGGTCAATACCCGGACTTTGATA
1 TTGGTCAATACACGGACTTTGATA
17933375 TTGGTCAATACACGGACTTTGATA
1 TTGGTCAATACACGGACTTTGATA
*
17933399 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
17933422 GATGTTTCAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:17933613 original size:12 final size:12
Alignment explanation
Indices: 17933596--17933620 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17933586 ATATAATCCT
17933596 GAAGAAGAAAAA
1 GAAGAAGAAAAA
17933608 GAAGAAGAAAAA
1 GAAGAAGAAAAA
17933620 G
1 G
17933621 TCCCTGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:17935971 original size:53 final size:52
Alignment explanation
Indices: 17935913--17936030 Score: 184
Period size: 53 Copynumber: 2.2 Consensus size: 52
17935903 GCAATGAGAG
17935913 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAAAATCGCAATGCG-AAATGAA
* *
17935966 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGAAATGAA
*
17936018 AATCGCATTGCGA
1 AATCGCAATGCGA
17936031 TTCTCTCGTT
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
52 19 0.31
53 41 0.67
54 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:17935983 original size:19 final size:19
Alignment explanation
Indices: 17935913--17936030 Score: 130
Period size: 19 Copynumber: 6.7 Consensus size: 19
17935903 GCAATGAGAG
17935913 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
17935932 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
17935946 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
17935966 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
17935985 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
17935999 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
17936018 AATCGCATTGCGA
1 AATCGCAATGCGA
17936031 TTCTCTCGTT
Statistics
Matches: 83, Mismatches: 5, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
14 22 0.27
15 1 0.01
16 3 0.04
17 3 0.04
18 1 0.01
19 36 0.43
20 17 0.20
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:17936057 original size:33 final size:33
Alignment explanation
Indices: 17936020--17936097 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
17936010 GAAATGAAAA
*
17936020 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTACGATTTTCATT
*
17936053 TCGCATTGCGATTCTCTTGTTACGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTACGATTTTCATT
17936086 TCGCATTGCGAT
1 TCGCATTGCGAT
17936098 AGTCATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTACGATTTTCATT
Found at i:17936063 original size:19 final size:19
Alignment explanation
Indices: 17936039--17936097 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
17936029 GATTCTCTCG
17936039 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
17936058 TTGCGATTCTC--TT-G--
1 TTGCGATTTTCATTTCGCA
*
17936072 TTACGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17936091 TTGCGAT
1 TTGCGAT
17936098 AGTCATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
16 3 0.10
17 3 0.10
19 16 0.52
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:17936223 original size:14 final size:14
Alignment explanation
Indices: 17936204--17936237 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
17936194 CATCAATTAA
17936204 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
17936218 ACAAATCATCTTTT
1 ACAAATCAACTTTT
17936232 ACAAAT
1 ACAAAT
17936238 AAATTAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:17936314 original size:14 final size:14
Alignment explanation
Indices: 17936291--17936324 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
17936281 TCTACTATTG
17936291 AATCAACTTTTACA
1 AATCAACTTTTACA
*
17936305 AATCATCTTTTACA
1 AATCAACTTTTACA
17936319 AATCAA
1 AATCAA
17936325 TTAAACAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:17936565 original size:18 final size:18
Alignment explanation
Indices: 17936544--17936580 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17936534 GTAATTGGAG
17936544 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
17936562 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
17936580 T
1 T
17936581 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:17936587 original size:24 final size:24
Alignment explanation
Indices: 17936536--17936588 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
17936526 TTTCATATGT
* * *
17936536 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
17936560 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
17936584 AATTT
1 AATTT
17936589 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:17936881 original size:39 final size:39
Alignment explanation
Indices: 17936838--17936924 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
17936828 TCCGATGCTC
17936838 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
17936877 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
17936916 ATCAAAATC
1 ATCAAAATC
17936925 TACAACTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:17937140 original size:20 final size:20
Alignment explanation
Indices: 17937115--17937267 Score: 223
Period size: 20 Copynumber: 8.1 Consensus size: 20
17937105 AAAGTCAAAT
17937115 GGAAATGAAAATCGCAATGC
1 GGAAATGAAAATCGCAATGC
17937135 GGAAATGAAAATCGCAATGC
1 GGAAATGAAAATCGCAATGC
17937155 GGAAATGAAAATCGCAATGC
1 GGAAATGAAAATCGCAATGC
*
17937175 AGAAATGAAAATCGCAATGC
1 GGAAATGAAAATCGCAATGC
17937195 -GAAATGAAAATCGCAA--C
1 GGAAATGAAAATCGCAATGC
*
17937212 -G--A-GAGAATCGCAATGC
1 GGAAATGAAAATCGCAATGC
17937228 GGAAATGAAAATCGCAATGC
1 GGAAATGAAAATCGCAATGC
*
17937248 -GAAATGAAAATCGCATTGC
1 GGAAATGAAAATCGCAATGC
17937267 G
1 G
17937268 ATTCTCTCGT
Statistics
Matches: 122, Mismatches: 4, Indels: 14
0.87 0.03 0.10
Matches are distributed among these distances:
14 10 0.08
15 1 0.01
16 1 0.01
17 3 0.02
19 35 0.29
20 72 0.59
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (20 bp):
GGAAATGAAAATCGCAATGC
Found at i:17937244 original size:53 final size:57
Alignment explanation
Indices: 17937115--17937262 Score: 223
Period size: 53 Copynumber: 2.6 Consensus size: 57
17937105 AAAGTCAAAT
17937115 GGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1 GGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAA-GCGG-AATGAAAATCGCAATGC
* *
17937175 AGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G-A-GAGAATCGCAATGC
1 GGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGGAATGAAAATCGCAATGC
17937228 GGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 GGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
17937263 TTGCGATTCT
Statistics
Matches: 85, Mismatches: 3, Indels: 7
0.89 0.03 0.07
Matches are distributed among these distances:
53 47 0.55
54 1 0.01
56 1 0.01
57 1 0.01
59 16 0.19
60 19 0.22
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.14
Consensus pattern (57 bp):
GGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGGAATGAAAATCGCAATGC
Found at i:17937302 original size:53 final size:52
Alignment explanation
Indices: 17937239--17937354 Score: 133
Period size: 53 Copynumber: 2.2 Consensus size: 52
17937229 GAAATGAAAA
* * *
17937239 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCAATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCAATTCTCTCGTTGCAATTTTCAGT
** ** ** *
17937291 TCCGCATTGCGATTTTCATTTCGCATTGCAATTCTCTCGTTGCGATTTTCAGT
1 T-CGCATTGCGAAATGAAAATCGCATTGCAATTCTCTCGTTGCAATTTTCAGT
17937344 TCGCATTGCGA
1 TCGCATTGCGA
17937355 TTCTCTCGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
52 11 0.21
53 42 0.79
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCAATTCTCTCGTTGCAATTTTCAGT
Found at i:17937386 original size:33 final size:33
Alignment explanation
Indices: 17937297--17937388 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
17937287 CATTTCCGCA
*
17937297 TTGCGATTTTCATTTCGCATTGCAATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
17937330 TTGCGATTTTCAGTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
17937363 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
17937389 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:17937396 original size:19 final size:19
Alignment explanation
Indices: 17937277--17937388 Score: 100
Period size: 19 Copynumber: 6.4 Consensus size: 19
17937267 GATTCTCTCG
*
17937277 TTGCAATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
17937297 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
17937316 TTGC-A-ATTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
17937330 TTGCGATTTTCAGTTCGCA
1 TTGCGATTTTCATTTCGCA
*
17937349 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
17937363 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17937382 TTGCGAT
1 TTGCGAT
17937389 AGTCATTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 13 0.18
17 13 0.18
18 1 0.01
19 21 0.29
20 14 0.19
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:17937514 original size:14 final size:14
Alignment explanation
Indices: 17937495--17937531 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
17937485 TATCAATTAA
17937495 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
17937509 ACAAATCATCTTTT
1 ACAAATCAACTTTT
17937523 ACAAATCAA
1 ACAAATCAA
17937532 TTAAGCAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:17939485 original size:19 final size:19
Alignment explanation
Indices: 17939443--17939544 Score: 114
Period size: 19 Copynumber: 5.3 Consensus size: 19
17939433 TAGTTTACTT
* *
17939443 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
** *
17939463 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAACCAAAA
*
17939482 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
17939501 TCGCAACACGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
17939520 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
17939539 TCGCAA
1 TCGCAA
17939545 AGACAGAATC
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
19 57 0.83
20 12 0.17
ACGTcount: A:0.48, C:0.25, G:0.17, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:17939564 original size:33 final size:33
Alignment explanation
Indices: 17939518--17939596 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
17939508 ACGAAACCAA
*
17939518 AATCGCAACGCGAAATGAAAATCGCAAAGACAG
1 AATCGCAATGCGAAATGAAAATCGCAAAGACAG
* *
17939551 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAAAGACAG
*
17939584 AATCACAATGCGA
1 AATCGCAATGCGA
17939597 TTTTGGTTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAAAGACAG
Found at i:17939616 original size:19 final size:18
Alignment explanation
Indices: 17939592--17939650 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
17939582 AGAATCACAA
17939592 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
17939611 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
17939625 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
17939644 TGCGATT
1 TGCGATT
17939651 CTCTCGTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 11 0.34
16 1 0.03
17 1 0.03
18 1 0.03
19 18 0.56
ACGTcount: A:0.08, C:0.19, G:0.27, T:0.46
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:17939627 original size:14 final size:14
Alignment explanation
Indices: 17939608--17939664 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
17939598 TTTGGTTTCG
*
17939608 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
17939622 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
17939641 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
17939655 CGTTGCGATT
1 CGTTGCGATT
17939665 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:17939640 original size:33 final size:33
Alignment explanation
Indices: 17939592--17939682 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
17939582 AGAATCACAA
** *
17939592 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
*
17939625 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
*
17939658 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTTAA-TTTCGCGTTGCGA
17939683 AAGTAAACTA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
33 40 0.77
34 12 0.23
ACGTcount: A:0.10, C:0.19, G:0.26, T:0.45
Consensus pattern (33 bp):
TGCGATTTTAATTTCGCGTTGCGATTCTCTCGT
Found at i:17941636 original size:20 final size:20
Alignment explanation
Indices: 17941603--17941664 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
17941593 TTTTGGTTGA
17941603 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
** * *
17941623 AATGACTATTGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
17941642 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
17941662 AAT
1 AAT
17941665 CGCAACGCGA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.15
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:17941655 original size:19 final size:19
Alignment explanation
Indices: 17941601--17941726 Score: 110
Period size: 19 Copynumber: 7.1 Consensus size: 19
17941591 TCTTTTGGTT
*
17941601 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
** *
17941620 GAGAATGACTATTGCAACGC
1 GA-AATGAAAATCGCAACGC
17941640 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
17941657 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
17941673 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
17941690 GACA-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
17941706 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
17941725 GA
1 GA
17941727 TTTTGGTTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
14 18 0.21
15 1 0.01
16 7 0.08
17 7 0.08
18 1 0.01
19 35 0.42
20 15 0.18
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:17941667 original size:14 final size:14
Alignment explanation
Indices: 17941648--17941704 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
17941638 GCGAAATGAA
17941648 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
17941662 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
17941681 AATCGCAACGACAG
1 AATCGCAACGAGAG
17941695 AATCGCAACG
1 AATCGCAACG
17941705 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:17941675 original size:33 final size:33
Alignment explanation
Indices: 17941601--17941721 Score: 179
Period size: 33 Copynumber: 3.5 Consensus size: 33
17941591 TCTTTTGGTT
17941601 GAAATGAAAATCGCAACGAGAGAATGACTATTGCAACGC
1 GAAATGAAAATCGCAACGAGAGAAT--C----GCAACGC
17941640 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
17941673 GAAATGAAAATCGCAACGACAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
17941706 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
17941722 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
33 55 0.68
37 1 0.01
39 25 0.31
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:17941757 original size:14 final size:14
Alignment explanation
Indices: 17941738--17941794 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
17941728 TTTGGTTTCG
17941738 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
17941752 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
17941771 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
17941785 CGTTGCGATT
1 CGTTGCGATT
17941795 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:17941770 original size:33 final size:33
Alignment explanation
Indices: 17941722--17941802 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
17941712 AAAATCGCAA
**
17941722 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
17941755 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
17941788 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
17941803 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:17941935 original size:33 final size:33
Alignment explanation
Indices: 17941893--17941963 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
17941883 AATACTAACT
17941893 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
*
17941926 TGAAAATCGCAACGAGAGAATCGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
17941959 TGAAA
1 TGAAA
17941964 TCTAAGTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.48, C:0.18, G:0.24, T:0.10
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:17941939 original size:19 final size:19
Alignment explanation
Indices: 17941915--17941963 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 19
17941905 CGAGAGAATA
17941915 GCAACGCGAAATGAAAATC
1 GCAACGCGAAATGAAAATC
*
17941934 GCAA--CG--A-GAGAATC
1 GCAACGCGAAATGAAAATC
17941948 GCAACGCGAAATGAAA
1 GCAACGCGAAATGAAA
17941964 TCTAAGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 10
0.66 0.06 0.29
Matches are distributed among these distances:
14 10 0.43
15 1 0.04
16 2 0.09
17 2 0.09
18 1 0.04
19 7 0.30
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.08
Consensus pattern (19 bp):
GCAACGCGAAATGAAAATC
Found at i:17941949 original size:14 final size:14
Alignment explanation
Indices: 17941897--17941953 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
17941887 CTAACTTGAA
17941897 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
17941911 AATAGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
17941930 AATCGCAACGAGAG
1 AATCGCAACGAGAG
17941944 AATCGCAACG
1 AATCGCAACG
17941954 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.21, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:17942368 original size:20 final size:20
Alignment explanation
Indices: 17942343--17942417 Score: 98
Period size: 20 Copynumber: 3.6 Consensus size: 20
17942333 CATTAAAAAT
17942343 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
17942363 CGCGTTGCGATTTTTACGGATA
1 CGCGTTGCGA--TTTACGGATA
* *
17942385 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
17942405 CGCGTTGCGATTT
1 CGCGTTGCGATTT
17942418 TCATATTCGC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
20 29 0.58
21 1 0.02
22 20 0.40
ACGTcount: A:0.15, C:0.19, G:0.29, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:17942381 original size:22 final size:22
Alignment explanation
Indices: 17942343--17942397 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
17942333 CATTAAAAAT
17942343 CGCGTTGCGA--TTTACGGATA
1 CGCGTTGCGATTTTTACGGATA
17942363 CGCGTTGCGATTTTTACGGATA
1 CGCGTTGCGATTTTTACGGATA
17942385 CGCGTTGCGATTT
1 CGCGTTGCGATTT
17942398 ATGTGTTCGC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 10 0.30
22 23 0.70
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (22 bp):
CGCGTTGCGATTTTTACGGATA
Found at i:17942426 original size:20 final size:20
Alignment explanation
Indices: 17942342--17942436 Score: 86
Period size: 20 Copynumber: 4.7 Consensus size: 20
17942332 GCATTAAAAA
*
17942342 TCGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTTCGGAT
*
17942362 ACGCGTTGCGATTTTTACGGAT
1 TCGCGTTGCGA-TTTT-CGGAT
*
17942384 ACGCGTTGCGATTTAT-GTG-T
1 TCGCGTTGCGATTT-TCG-GAT
**
17942404 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCGGAT
*
17942424 TCGCGTTGTGATT
1 TCGCGTTGCGATT
17942437 CTTGAAAATC
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.02
20 38 0.60
21 7 0.11
22 17 0.27
ACGTcount: A:0.15, C:0.18, G:0.27, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCGGAT
Found at i:17944136 original size:18 final size:18
Alignment explanation
Indices: 17944102--17944137 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17944092 AGGACTGAAG
**
17944102 TAAATGATAAGTTTGGAT
1 TAAATGATAAGAATGGAT
17944120 TAAATGATAAGAATGGAT
1 TAAATGATAAGAATGGAT
17944138 GGAATGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (18 bp):
TAAATGATAAGAATGGAT
Found at i:17944246 original size:26 final size:26
Alignment explanation
Indices: 17944227--17944285 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
17944217 CAAGTTTGGG
*
17944227 AATGAATAGATATCCTCAAGCTTTCA
1 AATGAATAGATATCCTCAAGCTTTGA
17944253 AATGAATAGATATCCTCAAGCTTTGA
1 AATGAATAGATATCCTCAAGCTTTGA
17944279 AATGAAT
1 AATGAAT
17944286 GGAAAAACGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (26 bp):
AATGAATAGATATCCTCAAGCTTTGA
Found at i:17953726 original size:44 final size:45
Alignment explanation
Indices: 17953677--17953914 Score: 365
Period size: 44 Copynumber: 5.3 Consensus size: 45
17953667 TGGTATATGG
* *
17953677 TTATGGAAT-AATGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
17953721 TTATGG-ATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAAC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
17953765 TTATGG-ATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
17953809 TTATGGTATTAAATGGTAAGTATATTGGTAAAATAAACTTACGAGC
1 TTATGG-AATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
17953855 TTATGGAATTAAATGGAAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAA-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
17953901 TTATGGGATAAATG
1 TTATGGAATAAATG
17953915 AAAATTATAT
Statistics
Matches: 178, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
43 2 0.01
44 85 0.48
45 7 0.04
46 84 0.47
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:17957533 original size:36 final size:38
Alignment explanation
Indices: 17957480--17957551 Score: 112
Period size: 36 Copynumber: 1.9 Consensus size: 38
17957470 TGTCTTAAGC
17957480 GAGACGAAATTTGGTTT-AAG-AAAAACAATCTCAAGT
1 GAGACGAAATTTGGTTTAAAGAAAAAACAATCTCAAGT
* *
17957516 GAGATGAAATTTTGTTTAAAGAAAAAACAATCTCAA
1 GAGACGAAATTTGGTTTAAAGAAAAAACAATCTCAA
17957552 AGTTTGAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 15 0.47
37 3 0.09
38 14 0.44
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.26
Consensus pattern (38 bp):
GAGACGAAATTTGGTTTAAAGAAAAAACAATCTCAAGT
Found at i:17957583 original size:103 final size:102
Alignment explanation
Indices: 17957439--17957653 Score: 263
Period size: 103 Copynumber: 2.1 Consensus size: 102
17957429 TTGAGTGAAG
* * *
17957439 CAATCTTCAAAGTTCAATTTTCAATGGAAACTGTCTTAAGCGAGACGAAATT-TGGTTTAAGAAA
1 CAATC-TCAAAGTTCAAGTTTCAATGGAAACTGTCTCAAGCGAGACAAAATTAT-GTTTAAGAAA
*
17957503 AACAATCTCAAGTGAGATGAAATTTTGTTTAAAGAAAAAA
64 AACAATCTCAAGTGAGATGAAATTTTATTTAAAG-AAAAA
** * * *
17957543 CAATCTCAAAGTTTGAGTTTC-ATGAGAAATTGTCTCAAGCGAGACAAAATTATTTTTAAGAACA
1 CAATCTCAAAGTTCAAGTTTCAATG-GAAACTGTCTCAAGCGAGACAAAATTATGTTTAAGAAAA
* * * *
17957607 ATAATCTCAAGTGATATGCAATTTTATTTTAAGAAAAA
65 ACAATCTCAAGTGAGATGAAATTTTATTTAAAGAAAAA
17957645 CAATCTCAA
1 CAATCTCAA
17957654 GTGAGATGAA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
102 17 0.18
103 73 0.76
104 6 0.06
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (102 bp):
CAATCTCAAAGTTCAAGTTTCAATGGAAACTGTCTCAAGCGAGACAAAATTATGTTTAAGAAAAA
CAATCTCAAGTGAGATGAAATTTTATTTAAAGAAAAA
Found at i:17957672 original size:17 final size:17
Alignment explanation
Indices: 17957646--17957679 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17957636 TAAGAAAAAC
*
17957646 AATCTCAAGTGAGATGA
1 AATCTCAAGTGAAATGA
*
17957663 AATCTTAAGTGAAATGA
1 AATCTCAAGTGAAATGA
17957680 TTTTGATGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (17 bp):
AATCTCAAGTGAAATGA
Found at i:17957882 original size:71 final size:72
Alignment explanation
Indices: 17957795--17957953 Score: 187
Period size: 71 Copynumber: 2.2 Consensus size: 72
17957785 ATCTCAGGCT
* * * * *
17957795 AGATAAAATTTTGTTTCAAGTGAAACTGTCTCAAGTGAGATAAAAA-ATTT-ATGGGAAAATATT
1 AGATAAAATTTTGTTTCAAGAGAAACTATCTCAAGTGAGACAAAAAGATTTCAAGGGAAAATATC
17957858 TCAACTG
66 TCAACTG
* * * *
17957865 AGATGAAATTTTAGTTTCAAGAGAATCTATCTCGAGTGAGACAAAAAGTTTTCAAGGGAAAATAT
1 AGATAAAATTTT-GTTTCAAGAGAAACTATCTCAAGTGAGACAAAAAGATTTCAAGGGAAAATAT
**
17957930 CTCAAGGG
65 CTCAACTG
17957938 AGATAAATATTTTGTT
1 AGATAAA-ATTTTGTT
17957954 ATGAGAGAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
70 11 0.15
71 29 0.40
72 3 0.04
73 25 0.34
74 5 0.07
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (72 bp):
AGATAAAATTTTGTTTCAAGAGAAACTATCTCAAGTGAGACAAAAAGATTTCAAGGGAAAATATC
TCAACTG
Found at i:17967210 original size:55 final size:55
Alignment explanation
Indices: 17967146--17967536 Score: 511
Period size: 55 Copynumber: 7.1 Consensus size: 55
17967136 ATGGTTTTGT
* * * * * *
17967146 ACACCTAGTGCTGATACGGTAATTCACAAACTCATTATGAATTACGTGGGGTTAC
1 ACACATAGTGCTAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGC
* * *
17967201 ACATATAGTGCTAATACGAAAATTCACAAACTCATTATGAATTTCGTGGGGTTGC
1 ACACATAGTGCTAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGC
* *
17967256 ACACATAGTGCCAATACGGAAATTCATAAACTCATTATCAATTTCGTGGGGTTGC
1 ACACATAGTGCTAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGC
* *
17967311 ACGCATAGTG-TCAATACGGAAATTCACAAACTCATTATGAATTT-GTGGGGTTGC
1 ACACATAGTGCT-AATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGC
* * *
17967365 ACACATAGTG-TCAATATGGAAATTCATAAACTCATTATGAATTTCATGGAGTTGC
1 ACACATAGTGCT-AATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGC
* * *
17967420 ACACAAATTGGC-AATACGGAAATCCATAAACTCATTATGAATTTCGTGGGGTTGC
1 ACACATAGT-GCTAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGC
* * * * *
17967475 AAACATAGTGCCAATATGGAAATTCATAAACTCATTATGAAATTCGTGGGGATGC
1 ACACATAGTGCTAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGC
17967530 ACACATA
1 ACACATA
17967537 TACATTAAAA
Statistics
Matches: 296, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
54 53 0.18
55 242 0.82
56 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (55 bp):
ACACATAGTGCTAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGC
Found at i:17967409 original size:164 final size:164
Alignment explanation
Indices: 17967159--17967536 Score: 542
Period size: 164 Copynumber: 2.3 Consensus size: 164
17967149 CCTAGTGCTG
* * *
17967159 ATACGGTAATTCACAAACTCATTATGAATTACGTGGGGTTACACATATAGTGCTAATACGAAAAT
1 ATACGGAAATTCACAAACTCATTATGAATT-CGTGGGGTTGCACACATAGTGCTAATACGAAAAT
* * * *
17967224 TCACAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCATAAACTC
65 TCACAAACTCATTATGAATTTCATGGAGTTGCACACAAAGTGCCAATACGGAAATCCATAAACTC
** *
17967289 ATTATCAATTTCGTGGGGTTGCACGCATAGTGTCA
130 ATTATCAATTTCGTGGGGTTGCAAACATAGTGCCA
* * *
17967324 ATACGGAAATTCACAAACTCATTATGAATTTGTGGGGTTGCACACATAGTG-TCAATATGGAAAT
1 ATACGGAAATTCACAAACTCATTATGAATTCGTGGGGTTGCACACATAGTGCT-AATACGAAAAT
* * *
17967388 TCATAAACTCATTATGAATTTCATGGAGTTGCACACAAATTGGCAATACGGAAATCCATAAACTC
65 TCACAAACTCATTATGAATTTCATGGAGTTGCACACAAAGTGCCAATACGGAAATCCATAAACTC
*
17967453 ATTATGAATTTCGTGGGGTTGCAAACATAGTGCCA
130 ATTATCAATTTCGTGGGGTTGCAAACATAGTGCCA
* * *
17967488 ATATGGAAATTCATAAACTCATTATGAAATTCGTGGGGATGCACACATA
1 ATACGGAAATTCACAAACTCATTATG-AATTCGTGGGGTTGCACACATA
17967537 TACATTAAAA
Statistics
Matches: 190, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
163 1 0.01
164 140 0.74
165 49 0.26
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (164 bp):
ATACGGAAATTCACAAACTCATTATGAATTCGTGGGGTTGCACACATAGTGCTAATACGAAAATT
CACAAACTCATTATGAATTTCATGGAGTTGCACACAAAGTGCCAATACGGAAATCCATAAACTCA
TTATCAATTTCGTGGGGTTGCAAACATAGTGCCA
Found at i:17969586 original size:21 final size:22
Alignment explanation
Indices: 17969561--17969608 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17969551 AATTATTTAC
*
17969561 AAAATAAAATA-TAAATATAAA
1 AAAATAAAAGATTAAATATAAA
* *
17969582 TAAATAAAAGATTAAATTTAAA
1 AAAATAAAAGATTAAATATAAA
17969604 AAAAT
1 AAAAT
17969609 TATTTATGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAATAAAAGATTAAATATAAA
Found at i:17986220 original size:21 final size:21
Alignment explanation
Indices: 17986194--17986234 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
17986184 AGCAATCAAG
*
17986194 GCACAATCTTCCTTTAAAGAT
1 GCACAACCTTCCTTTAAAGAT
17986215 GCACAACCTTCCTTTAAAGA
1 GCACAACCTTCCTTTAAAGA
17986235 CATACGTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (21 bp):
GCACAACCTTCCTTTAAAGAT
Found at i:17986466 original size:55 final size:55
Alignment explanation
Indices: 17986378--17986608 Score: 354
Period size: 55 Copynumber: 4.2 Consensus size: 55
17986368 TTCTGAGTTA
* * * * *
17986378 ACAAACTCACTATGAATTACGTGGGGTTACACACATAGTGCCAATACAGAAATTC
1 ACAAACTCATTATGAATTTCGTAGGGTTGCACACATAGTGCCAATACGGAAATTC
17986433 ACAAACTCATTATGAATTTCGTAGGGTTGCACACATAGTGCCAATACGGAAATTC
1 ACAAACTCATTATGAATTTCGTAGGGTTGCACACATAGTGCCAATACGGAAATTC
* * *
17986488 ATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAAAACGGAAATTC
1 ACAAACTCATTATGAATTTCGTAGGGTTGCACACATAGTGCCAATACGGAAATTC
* * *
17986543 ACAAACTCATTATGAATTTCTTAGGGTTGAACACATAGTGCCAATACTGAAATTC
1 ACAAACTCATTATGAATTTCGTAGGGTTGCACACATAGTGCCAATACGGAAATTC
*
17986598 ATAAACTCATT
1 ACAAACTCATT
17986609 TTTTCTATTT
Statistics
Matches: 161, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 161 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (55 bp):
ACAAACTCATTATGAATTTCGTAGGGTTGCACACATAGTGCCAATACGGAAATTC
Found at i:17987085 original size:54 final size:55
Alignment explanation
Indices: 17986897--17987203 Score: 422
Period size: 55 Copynumber: 5.6 Consensus size: 55
17986887 CTAAGTCAAC
* * * * * * *
17986897 AAACTCAATATGAATTACATGGGGATACACACATAGTGCCAATATGGAAATTCAC
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
* *
17986952 AAACTCATTATGAATTTCGTAGGGTTGCACACATAGTGCCAATACAGAAATTCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
* * ***
17987007 AAACTCATTATGTATTTCAT-GGGTTGCACACATAGTGCCAA-AAAAAAATTCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
* *
17987060 AAACTCATTATGAATTTCTTGGGGTTGCACACATAGAGCCAATACGGAAA-TCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
* *
17987114 AAACTCAATATGAATTTCGTGGGGTTGCACACATAGTGCTAATACGGAAATTCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
*
17987169 AAACTCATTATGAATTTCGTGGGGTTACACACATA
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATA
17987204 TACATTAAAC
Statistics
Matches: 224, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
53 28 0.12
54 91 0.41
55 105 0.47
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (55 bp):
AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
Found at i:17990312 original size:54 final size:55
Alignment explanation
Indices: 17990152--17990456 Score: 398
Period size: 55 Copynumber: 5.6 Consensus size: 55
17990142 CTAAGTCAAC
* * * * * * *
17990152 AAACTCAATATGAATTACATGGGGATACACACATAGTGCCAATATGGAAATTCAC
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
* *
17990207 AAACTCATTATGAATTTCGTAGGGTTGCACACATAGTGCCAATACAGAAATTCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
* * * ***
17990262 AAACTCATTATGTATTTCAT-GGGTTGCACACATAGTGCCAAAAAAAAAATTCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
* *
17990316 AAACTCATTATGAATTTCTTGGGGTTGCACACATAGAGCCAATACGGAAA-TCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
* * *
17990370 AAACTCAATATGAATTTCGTGGGGTTGCACACATAGTGCTAATATGGAAATTCAT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
* *
17990425 AAACTAATTATGAATTTTGTGGGGTTGCACAC
1 AAACTCATTATGAATTTCGTGGGGTTGCACAC
17990457 GTATACATTA
Statistics
Matches: 219, Mismatches: 29, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
54 98 0.45
55 121 0.55
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (55 bp):
AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGGAAATTCAT
Found at i:17990395 original size:109 final size:110
Alignment explanation
Indices: 17990152--17990456 Score: 427
Period size: 109 Copynumber: 2.8 Consensus size: 110
17990142 CTAAGTCAAC
* * * *
17990152 AAACTCAATATGAATTACATGGGGATACACACATAGTGCCAATATGGAAATTCACAAACTCATTA
1 AAACTCAATATGAATTTCATGGGGTTGCACACATAGTGCCAATATGGAAATTCATAAACTCATTA
* * *
17990217 TGAATTTCGTAGGGTTGCACACATAGTGCCAATACAGAAATTCAT
66 TGAATTTCTTGGGGTTGCACACATAGAGCCAATACAGAAATTCAT
* * * ***
17990262 AAACTCATTATGTATTTCAT-GGGTTGCACACATAGTGCCAAAAAAAAAATTCATAAACTCATTA
1 AAACTCAATATGAATTTCATGGGGTTGCACACATAGTGCCAATATGGAAATTCATAAACTCATTA
*
17990326 TGAATTTCTTGGGGTTGCACACATAGAGCCAATACGGAAA-TCAT
66 TGAATTTCTTGGGGTTGCACACATAGAGCCAATACAGAAATTCAT
* * *
17990370 AAACTCAATATGAATTTCGTGGGGTTGCACACATAGTGCTAATATGGAAATTCATAAACTAATTA
1 AAACTCAATATGAATTTCATGGGGTTGCACACATAGTGCCAATATGGAAATTCATAAACTCATTA
17990435 TGAATTT-TGTGGGGTTGCACAC
66 TGAATTTCT-TGGGGTTGCACAC
17990457 GTATACATTA
Statistics
Matches: 170, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
108 22 0.13
109 131 0.77
110 17 0.10
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (110 bp):
AAACTCAATATGAATTTCATGGGGTTGCACACATAGTGCCAATATGGAAATTCATAAACTCATTA
TGAATTTCTTGGGGTTGCACACATAGAGCCAATACAGAAATTCAT
Found at i:17994554 original size:20 final size:20
Alignment explanation
Indices: 17994510--17994554 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17994500 GTGAGAATGC
*
17994510 ACAAATGCAAAGATGTGAAT
1 ACAAATGCAAAGATGTAAAT
*
17994530 ACAAATGCAAATATGTAAAT
1 ACAAATGCAAAGATGTAAAT
*
17994550 GCAAA
1 ACAAA
17994555 AGGTGTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.20
Consensus pattern (20 bp):
ACAAATGCAAAGATGTAAAT
Found at i:17996953 original size:16 final size:16
Alignment explanation
Indices: 17996932--17996962 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17996922 TACAAACAAT
*
17996932 ACACACATATATATAC
1 ACACACATAAATATAC
17996948 ACACACATAAATATA
1 ACACACATAAATATA
17996963 AGTAGGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (16 bp):
ACACACATAAATATAC
Found at i:17998432 original size:3 final size:3
Alignment explanation
Indices: 17998424--17998462 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
17998414 AAGAAAAAGA
*
17998424 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17998463 TAAAAACCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18000588 original size:10 final size:10
Alignment explanation
Indices: 18000573--18000617 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
18000563 CAATCAATCG
18000573 AATAAATTAA
1 AATAAATTAA
* *
18000583 AATAAA-CAT
1 AATAAATTAA
*
18000592 ATTAAATTAA
1 AATAAATTAA
18000602 AATAAATTAA
1 AATAAATTAA
18000612 AATAAA
1 AATAAA
18000618 GTTAGTCTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 6 0.21
10 22 0.79
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAAATTAA
Found at i:18009179 original size:26 final size:26
Alignment explanation
Indices: 18009150--18009206 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
18009140 GATTAATTAT
18009150 GTGTTGAAAGAGGATTGATCTTTTAA
1 GTGTTGAAAGAGGATTGATCTTTTAA
18009176 GTGTTGAAAGAGGATTGATCTTTTAA
1 GTGTTGAAAGAGGATTGATCTTTTAA
18009202 GTGTT
1 GTGTT
18009207 TTGTGATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.40
Consensus pattern (26 bp):
GTGTTGAAAGAGGATTGATCTTTTAA
Found at i:18010130 original size:55 final size:55
Alignment explanation
Indices: 18010069--18010192 Score: 167
Period size: 55 Copynumber: 2.3 Consensus size: 55
18010059 ATGAAGGACG
* * * * ** *
18010069 TCCGATGAATGAAGAAATTTGAACCTGATTGAAGAACGATTCATAAAGATGGGCA
1 TCCGATGAATGAAGAAATCTGAAACTGATTAAAGAACGATCCATAAAGAAAGACA
* *
18010124 TCCGATGAATGAAGAAATCTGAAACTGATTAAAGACCGATCCATTAAGAAAGACA
1 TCCGATGAATGAAGAAATCTGAAACTGATTAAAGAACGATCCATAAAGAAAGACA
18010179 TCCGATGAATGAAG
1 TCCGATGAATGAAG
18010193 TTTGAAGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (55 bp):
TCCGATGAATGAAGAAATCTGAAACTGATTAAAGAACGATCCATAAAGAAAGACA
Found at i:18014223 original size:125 final size:125
Alignment explanation
Indices: 18013971--18014274 Score: 421
Period size: 125 Copynumber: 2.4 Consensus size: 125
18013961 AAGTTAGGAT
* * * * * *
18013971 ATGTTGGGGCACAATTGAAGCC-CGTCATGTTGAGATGACAAGATTTAGACCAATGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTAAGACCAAGGAGGCATGAA
** * *
18014035 GTGTGAGCCTTACAATTTGAGGTGATGGGGAATTTTAAAGGCCCGTACCAGTATATGACA
66 GAATGAGCCTTACAATTTGAGGTGATGGGGAATTTTAAAGGCACGTACCAGTATAAGACA
* *
18014095 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCATACCAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTAAGACCAAGGAGGCATGAA
* * *
18014160 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCACGTACCAGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTGATGGGGAATTTTAAAGGCACGTACCAGTATAAGACA
* * * * *
18014220 ATGTTGGGGCATGACTAAACCCATATCATGTTGGGATAACAAGATTAAGACCAAG
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTAAGACCAAG
18014275 AAGATATTGA
Statistics
Matches: 158, Mismatches: 21, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
124 19 0.12
125 139 0.88
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (125 bp):
ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTAAGACCAAGGAGGCATGAA
GAATGAGCCTTACAATTTGAGGTGATGGGGAATTTTAAAGGCACGTACCAGTATAAGACA
Found at i:18015415 original size:234 final size:234
Alignment explanation
Indices: 18015005--18015583 Score: 998
Period size: 234 Copynumber: 2.5 Consensus size: 234
18014995 TCCAAAATTT
* *
18015005 ATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGATGTTTTCACATGTCTATCAAAATATG
1 ATAAGTCCTTTGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCAAAATATG
**
18015070 AGAAACGTTTCTCATTCAAATTTGAAAATTTGAATTTTTTGAAAAGTAAGAAAGGTTTCTTACTT
66 AGAAACGTTTCTCATTCAAATTTGAAAATTTGAATTTTTTGAAAAGTAAGAAACCTTTCTTACTT
*
18015135 AGTAAAATATTTCCGAAATTCATAAGTCCTTCAGGCAATCAGTAAGTCTTCCGAGCATGATGCTT
131 AGTAAAATATTTCCAAAATTCATAAGTCCTTCAGGCAATCAGTAAGTCTTCCGAGCATGATGCTT
*
18015200 AAATCCTTTGGGTCATCTGTAAGCCTTTCGAGCAAGATG
196 AAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATG
* *
18015239 ATAAGTCCTTTGAGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCAAAAAATG
1 ATAAGTCCTTTGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCAAAATATG
18015304 AGAAACGTTTCTCATTCAAATTTGAAAATTTGAATTTTTTGAAAAGTAAGAAACCTTTCTTACTT
66 AGAAACGTTTCTCATTCAAATTTGAAAATTTGAATTTTTTGAAAAGTAAGAAACCTTTCTTACTT
* * *
18015369 AGTAAAATATTTCCAAAATTCATAAGTCCTTCGGGCCATTAGTAAGTCTTCCGAGCATGATGCTT
131 AGTAAAATATTTCCAAAATTCATAAGTCCTTCAGGCAATCAGTAAGTCTTCCGAGCATGATGCTT
*
18015434 AAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG
196 AAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATG
**
18015473 ATAAGTCCTTTGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATTGAAATATG
1 ATAAGTCCTTTGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCAAAATATG
* * *
18015538 AGAAAGGTTTCTCATTCAAATTTGAAAA-TTAAAATTTTTGAAAAGT
66 AGAAACGTTTCTCATTCAAATTTGAAAATTTGAATTTTTTGAAAAGT
18015584 TTGGTCCCAA
Statistics
Matches: 326, Mismatches: 19, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
233 16 0.05
234 310 0.95
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (234 bp):
ATAAGTCCTTTGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCAAAATATG
AGAAACGTTTCTCATTCAAATTTGAAAATTTGAATTTTTTGAAAAGTAAGAAACCTTTCTTACTT
AGTAAAATATTTCCAAAATTCATAAGTCCTTCAGGCAATCAGTAAGTCTTCCGAGCATGATGCTT
AAATCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATG
Found at i:18015443 original size:42 final size:41
Alignment explanation
Indices: 18015390--18015491 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
18015380 TCCAAAATTC
* *
18015390 ATAAGTCCTTCGGGCCAT-TAGTAAGTCTTCCGAGCATGATG
1 ATAAATCCTTCGGGCCATCT-GTAAGTCTTCCGAGCAAGATG
* * *
18015431 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCTGTAAGTCTTCCGAGCAAGATG
* *
18015473 ATAAGTCCTTTGGGCCATC
1 ATAAATCCTTCGGGCCATC
18015492 CATAAGACCT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
41 15 0.30
42 34 0.68
43 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCTGTAAGTCTTCCGAGCAAGATG
Found at i:18024449 original size:14 final size:14
Alignment explanation
Indices: 18024427--18024457 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18024417 TTGTAATTTA
18024427 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
*
18024441 TTTTGTTTTCTTCT
1 TTTTCTTTTCTTCT
18024455 TTT
1 TTT
18024458 GATTGCTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:18030949 original size:2 final size:2
Alignment explanation
Indices: 18030942--18031007 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
18030932 ATAATAGGTA
18030942 AT AT AT AT AT 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 AT AT AT AT AT
18030984 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
18031008 TACCACTCGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18033703 original size:20 final size:20
Alignment explanation
Indices: 18033678--18033715 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18033668 TTACACTTGT
18033678 TTTAAAATAAATTTAATGAA
1 TTTAAAATAAATTTAATGAA
**
18033698 TTTAAAATTCATTTAATG
1 TTTAAAATAAATTTAATG
18033716 CTAAATTACC
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:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTAAAATAAATTTAATGAA
Found at i:18035211 original size:24 final size:24
Alignment explanation
Indices: 18035177--18035240 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
18035167 AATCGGAGAT
*
18035177 ATCAGAAATCAAAATAGAATCCAG
1 ATCAGAAATCAAAACAGAATCCAG
* *
18035201 ATTAGATATCAAAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATCCAG
*
18035225 ATCAGAAATCAGAACA
1 ATCAGAAATCAAAACA
18035241 TAATTCAGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.53, C:0.17, G:0.12, T:0.17
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATCCAG
Found at i:18045462 original size:2 final size:2
Alignment explanation
Indices: 18045403--18045446 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
18045393 GAATATGTTG
18045403 AT AT AT AT AT AT AT A- 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 AT AT AT AT AT
18045444 AT A
1 AT A
18045447 CATACATTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18057822 original size:2 final size:2
Alignment explanation
Indices: 18057769--18057809 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18057759 GAATATGTTG
18057769 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
18057810 CATTGGATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18062070 original size:17 final size:17
Alignment explanation
Indices: 18062048--18062084 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
18062038 ACGGTCAATA
*
18062048 GTCAACGGTCGGGTCGG
1 GTCAACAGTCGGGTCGG
18062065 GTCAACAGTCGGGTCGG
1 GTCAACAGTCGGGTCGG
18062082 GTC
1 GTC
18062085 GGGTCGGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.43, T:0.19
Consensus pattern (17 bp):
GTCAACAGTCGGGTCGG
Found at i:18069050 original size:7 final size:7
Alignment explanation
Indices: 18069038--18069068 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
18069028 GTCAAAGGAA
18069038 GTCAACG
1 GTCAACG
*
18069045 GTCAACA
1 GTCAACG
18069052 GTCAACG
1 GTCAACG
18069059 GTCAACG
1 GTCAACG
18069066 GTC
1 GTC
18069069 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:18073628 original size:85 final size:85
Alignment explanation
Indices: 18073480--18073645 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 85
18073470 ATACAATCAC
* * * *
18073480 GACACACAAATGTGTCTCATCTTTTTTAATGGCGTGTGCTTCAATGACACGCAATGTAAGTCATA
1 GACACACAAATGTGTCTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
* *
18073545 CATGCGTGTCATAAATTTAT
66 AATGCGCGTCATAAATTTAT
* ** *
18073565 GACACACAAATGTGTGTCATCTTAATTT-ATGACGGGGGCTTCAATGATGCTCAATG-AACGTCA
1 GACACACAAATGTGTCTCATCTT-ATTTAATGACGGGGGCTTCAATGACACGCAATGTAA-GTCA
*
18073628 TAAATGTGCGTCATAAAT
64 TAAATGCGCGTCATAAAT
18073646 GTGCGTCATA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 2 0.03
85 63 0.93
86 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (85 bp):
GACACACAAATGTGTCTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
AATGCGCGTCATAAATTTAT
Found at i:18073639 original size:13 final size:13
Alignment explanation
Indices: 18073623--18073684 Score: 106
Period size: 13 Copynumber: 4.8 Consensus size: 13
18073613 GCTCAATGAA
18073623 CGTCATAAATGTG
1 CGTCATAAATGTG
18073636 CGTCATAAATGTG
1 CGTCATAAATGTG
18073649 CGTCATAAATGTG
1 CGTCATAAATGTG
* *
18073662 TGTCATAAATGCG
1 CGTCATAAATGTG
18073675 CGTCATAAAT
1 CGTCATAAAT
18073685 TTATGACGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (13 bp):
CGTCATAAATGTG
Found at i:18077628 original size:2 final size:2
Alignment explanation
Indices: 18077621--18077661 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18077611 TAACCCAAAA
18077621 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
18077662 ACTCATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18085401 original size:3 final size:3
Alignment explanation
Indices: 18085384--18085455 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
18085374 GGGTTTCTTT
* *
18085384 TAA TAA TAG TCA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18085432 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
18085456 ATATACAAGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18086828 original size:180 final size:174
Alignment explanation
Indices: 18086533--18086964 Score: 443
Period size: 180 Copynumber: 2.5 Consensus size: 174
18086523 ATATGTTATG
* * *
18086533 ACTATAATTAAAATTTATAAC-AGCAAATATAATTTGTCACAAAAACGTT-AATATCATTATTT-
1 ACTATAATTAAAATATATAACTA-CAAATATATTTTTTCACAAAAAC-TTGAATATCATTATTTG
* * * * *
18086595 TTGTGAC-AATGTTTTTAATAATTATCAATAGTTATAGTTATAAAATTTGTCATTATATGATTTG
64 TTGTGACAAATTTTTTTAACAATAATCAATAGTTATAGTTACAAAATATGTCATTATATGATTT-
* * *
18086659 TTTACG-CCAAAAAATATGGAGGGA-AATC-TTTATGACGATATATTTTTTT
128 TTTACGACC-AAAAAT-T-G-GGGATAATCATTTATGACGATACA-TTTGTC
* * *
18086708 ACTATAATTAAAATATATAACTAAAAATATTATTTTTTCAATAAAAACTTGAATCTCATTATTTG
1 ACTATAATTAAAATATATAACTACAAATA-TATTTTTTC-ACAAAAACTTGAATATCATTATTTG
* * *
18086773 TTTTGACAAATTTTTCTTAACAATAAT-TATAGCTTATAGTTACATAATATGTCATTATATGATT
64 TTGTGACAAATTTTT-TTAACAATAATCAATAG-TTATAGTTACAAAATATGTCATTATATGATT
** * * *
18086837 TTTTTGGTACCAAAAATTGGTGATAATCATTTGTGACTATACATTTGTC
127 TTTTACG-ACCAAAAATTGGGGATAATCATTTATGACGATACATTTGTC
* * *
18086886 ACTATAATTAAAATATATAATTACAAATA-ATTTTTTTCACAAAAATTTGAATTTCATTATTTGT
1 ACTATAATTAAAATATATAACTACAAATATA-TTTTTTCACAAAAACTTGAATATCATTATTTGT
18086950 TGTGAC-AATTTTTTT
65 TGTGACAAATTTTTTT
18086965 GTCATATTTA
Statistics
Matches: 216, Mismatches: 28, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
174 2 0.01
175 32 0.15
176 39 0.18
177 29 0.13
178 42 0.19
179 26 0.12
180 44 0.20
181 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (174 bp):
ACTATAATTAAAATATATAACTACAAATATATTTTTTCACAAAAACTTGAATATCATTATTTGTT
GTGACAAATTTTTTTAACAATAATCAATAGTTATAGTTACAAAATATGTCATTATATGATTTTTT
ACGACCAAAAATTGGGGATAATCATTTATGACGATACATTTGTC
Found at i:18086991 original size:176 final size:180
Alignment explanation
Indices: 18086708--18087030 Score: 419
Period size: 176 Copynumber: 1.8 Consensus size: 180
18086698 ATATTTTTTT
* *
18086708 ACTATAATTAAAATATATAACTAAAAATATTATTTTTTCAATAAAAACTTGAATCTCATTATTTG
1 ACTATAATTAAAATATATAACTAAAAATAATATTTTTTCAACAAAAACTTGAATCTCATTATTTG
* * *
18086773 TTTTGACAAATTTTTCTTAACAATAATTATAGCTTATAGTTACATAA-TATGTCATTATATGA-T
66 TTGTGACAAATTTTTCTTAACAATAATTATAACTTATAGTTACAAAACT-TGTCATTATATGACT
*
18086836 TT-TTTTGGTACCAAAAATTGGTGATAATCATTTGTGACTATACATTTGTC
130 TTAATTTGGTACCAAAAATTGGTGATAATCATTTGTGACTATACATTTGTC
* * * *
18086886 ACTATAATTAAAATATATAATTACAAATAAT-TTTTTTC-ACAAAAATTTGAATTTCATTATTTG
1 ACTATAATTAAAATATATAACTAAAAATAATATTTTTTCAACAAAAACTTGAATCTCATTATTTG
** * *
18086949 TTGTGAC-AATTTTT-TTGTC-ATATTTACTAAAACTTTTAGTTACAAAACTTGTCATTATATGA
66 TTGTGACAAATTTTTCTTAACAATAATTA-T--AACTTATAGTTACAAAACTTGTCATTATATGA
*
18087011 CTTTAATTTGGTGCCAAAAA
128 CTTTAATTTGGTACCAAAAA
18087031 ACTGGAGTGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
173 6 0.05
174 4 0.03
175 7 0.06
176 55 0.44
177 11 0.09
178 41 0.33
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (180 bp):
ACTATAATTAAAATATATAACTAAAAATAATATTTTTTCAACAAAAACTTGAATCTCATTATTTG
TTGTGACAAATTTTTCTTAACAATAATTATAACTTATAGTTACAAAACTTGTCATTATATGACTT
TAATTTGGTACCAAAAATTGGTGATAATCATTTGTGACTATACATTTGTC
Found at i:18098416 original size:19 final size:20
Alignment explanation
Indices: 18098377--18098427 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
18098367 GAAATCCCTT
*
18098377 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATCTTTAA
18098397 TGAAAATACATGA-CTTTAA
1 TGAAAATACATGATCTTTAA
18098416 TGAAAATACATG
1 TGAAAATACATG
18098428 CTCCTGGACG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATCTTTAA
Found at i:18112117 original size:22 final size:22
Alignment explanation
Indices: 18112092--18112133 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18112082 ATGATATGTC
* **
18112092 AAAATATATCCATCATAAATAT
1 AAAAAATATCCAATATAAATAT
18112114 AAAAAATATCCAATATAAAT
1 AAAAAATATCCAATATAAAT
18112134 TTTTATAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAATATCCAATATAAATAT
Found at i:18118684 original size:30 final size:30
Alignment explanation
Indices: 18118650--18118713 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
18118640 TCCAAGGTGG
*
18118650 GAGCTAAGTGATCTCTAATAGTTTGTGGTC
1 GAGCTAAGTGATCTCTAATAGATTGTGGTC
18118680 GAGCTAAGTGATCTCTAATAGATTGTGGTC
1 GAGCTAAGTGATCTCTAATAGATTGTGGTC
18118710 GAGC
1 GAGC
18118714 AACATTCTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (30 bp):
GAGCTAAGTGATCTCTAATAGATTGTGGTC
Found at i:18135997 original size:2 final size:2
Alignment explanation
Indices: 18135990--18136024 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
18135980 TCAATCTACA
18135990 AT AT AT AT 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 AT AT AT AT A
18136025 ATTTACGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18136210 original size:13 final size:13
Alignment explanation
Indices: 18136166--18136217 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
18136156 AATGACGCTC
18136166 AATGCGCGTCATA
1 AATGCGCGTCATA
***
18136179 AATGTATGTCATA
1 AATGCGCGTCATA
*
18136192 AATGCGTGTCATA
1 AATGCGCGTCATA
18136205 AATGCGCGTCATA
1 AATGCGCGTCATA
18136218 GATTTATGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:18153489 original size:26 final size:26
Alignment explanation
Indices: 18153460--18153556 Score: 118
Period size: 26 Copynumber: 4.0 Consensus size: 26
18153450 TTATTCGTAA
18153460 ATTTTAGTTATGGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
18153486 ATTTTAGTTATGG-ATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
* *
18153511 --CTTA---AT-GCATCATTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
*
18153531 ATTTTAGTCATGGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
18153557 CTTAATGCAT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 1 0.02
20 13 0.22
22 3 0.05
23 3 0.05
25 14 0.23
26 26 0.43
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (26 bp):
ATTTTAGTTATGGCATCCTTTCATGC
Found at i:18153527 original size:45 final size:46
Alignment explanation
Indices: 18153472--18153588 Score: 200
Period size: 46 Copynumber: 2.6 Consensus size: 46
18153462 TTTAGTTATG
*
18153472 GCATCCTTTCATGCATTTTAGTTATGG-ATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
*
18153517 GCATCATTTCATGCATTTTAGTCATGGCATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
*
18153563 GCATCATTTCATTCATTTTAGTTATG
1 GCATCATTTCATGCATTTTAGTTATG
18153589 AATTCGTTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 25 0.37
46 42 0.63
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44
Consensus pattern (46 bp):
GCATCATTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
Done.