Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_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: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 19
Found at i:1702363 original size:195 final size:198
Alignment explanation
Indices: 1701865--1702395 Score: 978
Period size: 195 Copynumber: 2.7 Consensus size: 198
1701855 GTGCAACCAT
1701865 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
*
1701930 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGGCACTTTTTAGTTGG
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
*
1701995 TGTCGATATTTTTGGTCCAGAATGAATGGAAAATAGGGTGCAACCATAAAGTGTCGATCCATATA
131 TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATA
1702060 TAA
196 TAA
1702063 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
*
1702128 CGGTACAAGTATACCGGTTTTATGAGAGAATATATCTAAATAATGTGTCGACACTTTTTAGTTGG
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
* *
1702193 TGTCGA-A-TTTTGGTCCAGAATGAATGGAAAACA-GGTGCACCCATAAAGTGTCGATTCATATA
131 TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATA
1702255 TAA
196 TAA
*
1702258 AAAGTGTCGATCCCAAAAACATCAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
*
1702323 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTG
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
1702388 TGTCGATA
131 TGTCGATA
1702396 CTAATTTAAA
Statistics
Matches: 324, Mismatches: 8, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
195 163 0.50
196 26 0.08
197 1 0.00
198 134 0.41
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (198 bp):
AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATA
TAA
Found at i:1703878 original size:6 final size:6
Alignment explanation
Indices: 1703854--1703948 Score: 73
Period size: 6 Copynumber: 15.3 Consensus size: 6
1703844 AGCGGTCGCA
* * * * * *
1703854 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * *
1703902 GACGAT GAAGAT GATGACGAT GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA--A-GAT GAAGAT GAAGAT GAAGAT GAAGAT GA
1703949 TGATCCAAAC
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
6 66 0.92
8 1 0.01
9 5 0.07
ACGTcount: A:0.38, C:0.07, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:1703896 original size:9 final size:9
Alignment explanation
Indices: 1703869--1703952 Score: 87
Period size: 9 Copynumber: 9.3 Consensus size: 9
1703859 TGAAGCTGAC
*
1703869 GATGAAGAT
1 GATGATGAT
*
1703878 GACGATGAT
1 GATGATGAT
*
1703887 GATGACGAT
1 GATGATGAT
* * *
1703896 GAAGCTGAC
1 GATGATGAT
*
1703905 GATGAAGAT
1 GATGATGAT
*
1703914 GATGACGAT
1 GATGATGAT
1703923 GATGATGAT
1 GATGATGAT
1703932 GATGATGAT
1 GATGATGAT
*
1703941 GAAGATGAT
1 GATGATGAT
1703950 GAT
1 GAT
1703953 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.24
Consensus pattern (9 bp):
GATGATGAT
Found at i:1703952 original size:12 final size:12
Alignment explanation
Indices: 1703857--1703948 Score: 100
Period size: 12 Copynumber: 7.9 Consensus size: 12
1703847 GGTCGCAGAA
*
1703857 GATGAAGCTGAC
1 GATGAAGATGAC
1703869 GATGAAGATGAC
1 GATGAAGATGAC
*
1703881 GATGATGATGAC
1 GATGAAGATGAC
*
1703893 GATGAAGCTGAC
1 GATGAAGATGAC
1703905 GATGAAGAT---
1 GATGAAGATGAC
* *
1703914 GATGACGATGAT
1 GATGAAGATGAC
* *
1703926 GATGATGATGAT
1 GATGAAGATGAC
1703938 GATGAAGATGA
1 GATGAAGATGA
1703949 TGATCCAAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.12
12 61 0.88
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:1705603 original size:23 final size:23
Alignment explanation
Indices: 1705533--1705605 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1705523 ATAGGTAAAA
* **
1705533 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGTGCTT
* *
1705556 ATATAATGTAATAGGTATTGTTT
1 ATATAATGTAATAGGTAGTGCTT
*
1705579 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1705602 ATAT
1 ATAT
1705606 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1705988 original size:23 final size:23
Alignment explanation
Indices: 1705957--1706029 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1705947 ATAGGTAAAA
*
1705957 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1705980 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1706003 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1706026 ATAT
1 ATAT
1706030 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1706068 original size:18 final size:19
Alignment explanation
Indices: 1706033--1706069 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1706023 GTTATATTGT
*
1706033 AAAGTATCTATCCTTTTTA
1 AAAGTATCTATACTTTTTA
*
1706052 AAAGTGTCTATACTTTTT
1 AAAGTATCTATACTTTTT
1706070 TCACTGTGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.49
Consensus pattern (19 bp):
AAAGTATCTATACTTTTTA
Found at i:1706297 original size:424 final size:427
Alignment explanation
Indices: 1705333--1706367 Score: 1858
Period size: 424 Copynumber: 2.4 Consensus size: 427
1705323 GTTAATGTTG
* *
1705333 TTAAATTTAAATTCTAAATATTATTTTATAAAATATC-AAACAA--AAATAATTTTTTGTGTAAA
1 TTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
1705395 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TT-AAAAAAATTGAAACAT
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTGAAACAT
*
1705458 AAATTACATAACTTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATA
130 AAATTACATATC-TTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATA
*
1705523 ATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATTGTTTATATAATGT
194 ATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGT
1705588 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
259 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
*
1705653 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
324 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAG
1705718 GCGTCTAATGATTTATTTTTGACGTTACGATATATATTA
389 GCGTCTAATGATTTATTTTTGACGTTACGATATATATTA
1705757 TTAAATTAAAAATTCTAAATATTA-TTT-TAAAATATCAAAACAATCAAATAA--TTTTGTGCAA
1 TTAAATT-AAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1705818 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACAT
1705883 AAATTACATATCTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATATCTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
*
1705948 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGTA
1706013 ATAGGTAGTGGTTATATTGTAAAGTATCTATCC-TTTT-TAAAAGTGTCTATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTG
1706076 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGG
*
1706141 CGTCTAATGATTTATTTTTTACGTTACGATATATATTA
390 CGTCTAATGATTTATTTTTGACGTTACGATATATATTA
* *
1706179 TTAAATTAAAATTCTTAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTACAAA
1 TTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
*
1706244 TGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACATA
* *
1706309 AATTAAATATCTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AATTACATATCTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAA
1706368 CATATTATAA
Statistics
Matches: 589, Mismatches: 12, Indels: 19
0.95 0.02 0.03
Matches are distributed among these distances:
421 15 0.03
422 137 0.23
423 39 0.07
424 219 0.37
425 173 0.29
426 6 0.01
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (427 bp):
TTAAATTAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGAAACATA
AATTACATATCTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTGACGTTACGATATATATTA
Found at i:1706679 original size:183 final size:182
Alignment explanation
Indices: 1706404--1706896 Score: 905
Period size: 183 Copynumber: 2.7 Consensus size: 182
1706394 GCAATGCTAT
*
1706404 CGGTATAAATATACCGGTTTTATGCGTGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
1706469 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
*
1706534 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
1706587 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1706652 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
1706717 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
1706770 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1706835 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
1706897 GTAATTTTAA
Statistics
Matches: 302, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
183 298 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:1709391 original size:25 final size:25
Alignment explanation
Indices: 1709363--1709427 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
1709353 TTATCATTAA
1709363 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
1709388 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
1709413 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
1709428 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1709802 original size:23 final size:23
Alignment explanation
Indices: 1709771--1709843 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1709761 ATAGGTAAAA
*
1709771 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1709794 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1709817 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1709840 ATAT
1 ATAT
1709844 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1710157 original size:25 final size:25
Alignment explanation
Indices: 1710117--1710166 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1710107 AAATCAATTA
* *
1710117 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATAGGTACATTATTTG
1710142 AACATTGTTATAGGTACATTATTTG
1 AACATTGTTATAGGTACATTATTTG
1710167 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
AACATTGTTATAGGTACATTATTTG
Found at i:1710884 original size:39 final size:39
Alignment explanation
Indices: 1710841--1710927 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1710831 TCCGATGCTC
*
1710841 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
1710880 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1710919 ATCAAAATC
1 ATCAAAATC
1710928 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1711372 original size:23 final size:23
Alignment explanation
Indices: 1711346--1711418 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1711336 TATAGGTAAC
*
1711346 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1711369 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1711392 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1711415 ATAT
1 ATAT
1711419 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1711806 original size:23 final size:23
Alignment explanation
Indices: 1711775--1711847 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1711765 ATAGGTAAAA
*
1711775 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1711798 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1711821 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1711844 ATAT
1 ATAT
1711848 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1712170 original size:22 final size:22
Alignment explanation
Indices: 1712145--1712189 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1712135 ATCACATAAC
*
1712145 TTTA-AAAGAAGTATCGATCCTT
1 TTTATAAA-AAGTATCGATACTT
*
1712167 TTTATAAAAAGTATGGATACTT
1 TTTATAAAAAGTATCGATACTT
1712189 T
1 T
1712190 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (22 bp):
TTTATAAAAAGTATCGATACTT
Found at i:1712238 original size:23 final size:23
Alignment explanation
Indices: 1712207--1712276 Score: 113
Period size: 23 Copynumber: 3.0 Consensus size: 23
1712197 ATAGGTAAAA
*
1712207 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1712230 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1712253 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1712276 A
1 A
1712277 AATTGTAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1712484 original size:431 final size:430
Alignment explanation
Indices: 1711146--1712630 Score: 2708
Period size: 431 Copynumber: 3.5 Consensus size: 430
1711136 GTTAATGTTG
* *
1711146 TTAAATT-TAAATTATAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
1711210 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
* * *
1711275 AATTACAAAACTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAT-AT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
1711339 AGGT-AACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
1711403 TAGGTAGTGGTTATATTGTAAAGTATCAATCCTTTTTATAAAAGTGTCCATCCTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCAATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
1711468 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
1711533 GTCTAATGATTTA-TTTTTACATTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
1711572 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1711637 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
1711702 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
1711767 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
1711832 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCAATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
1711897 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
1711962 GTCTAATGATTTATTTTTTACGTTACGATATTGTATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATA-TATATTATTA
*
1712003 TTAAATTAAAAATTCTAAATATCATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
1712068 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACCCTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
* *
1712133 AAATCACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGATACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
1712198 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
1712263 ATAGGTAGTGCTTAAATTGTAAAGTATCAATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTATCAATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
1712328 TGGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
1712393 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1712434 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1712499 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
* *
1712564 AAATTACATAACTTTAAACGAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
1712629 TA
195 TA
1712631 TAATGTAATA
Statistics
Matches: 1022, Mismatches: 31, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
426 7 0.01
427 177 0.17
428 6 0.01
429 200 0.20
430 15 0.01
431 317 0.31
432 300 0.29
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.38
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCAATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:1721810 original size:242 final size:236
Alignment explanation
Indices: 1721430--1721875 Score: 641
Period size: 242 Copynumber: 1.9 Consensus size: 236
1721420 ACTTTATTTT
*
1721430 GGTCGGGTCGGGTCGCTTTTAAAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAA
1 GGTCGGGTCGGGTCGCTTTTAAAAGTGTGATATTAGGGTCGGGTCGAGTTCGGGTTTAGGGTGAA
*
1721495 AAATACTCGACCCAAAAATATATATAATTTTACCTTATATATTTAGGAATAATTATAATAATACA
66 AAATACTCGACCCAAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACA
* *
1721560 CCTCTATATATACT-TTTTTTCAATTAAGTCATTATTTTTATTGAATAAAAATAA-TTTTTTATT
131 CCTCTATATATA-TATATTTCCAATTAAGTCATTATTTTTATTGAATAAAAATAATTTTTTTATT
1721623 ATTTCGGGTCTGGTCGGGTCGGATTTCTAATTCATATATTCA
195 ATTTCGGGTCTGGTCGGGTCGGATTTCTAATTCATATATTCA
* ** *
1721665 GGTCGGGTCGGGTCGTTTTTTTAAGTGTGATATTAGGGTCGGGTCG-GTTGGGGTTTAGGGTGAA
1 GGTCGGGTCGGGTCGCTTTTAAAAGTGTGATATTAGGGTCGGGTCGAGTTCGGGTTTAGGGTGAA
*
1721729 AAATACTTGACCCGACCTGACCCAAAAA-ATATATAA-TTTACTTTATATATTTAGGAATAATTA
66 AAATAC-T--------C-GACCCAAAAATATATATAATTTTACCTTATATATTTAGGAATAATTA
* ** *
1721792 CAATAATACCCCTCTATATATATATATTTCCAATTAAGTTTTTGTTTTTATTGAATAAAAATAAT
121 CAATAATACACCTCTATATATATATATTTCCAATTAAGTCATTATTTTTATTGAATAAAAATAAT
1721857 TTTTTTATTATTTCGGGTC
186 TTTTTTATTATTTCGGGTC
1721876 GGGTTTCTAA
Statistics
Matches: 186, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
234 23 0.12
235 43 0.23
241 1 0.01
242 81 0.44
243 28 0.15
244 10 0.05
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (236 bp):
GGTCGGGTCGGGTCGCTTTTAAAAGTGTGATATTAGGGTCGGGTCGAGTTCGGGTTTAGGGTGAA
AAATACTCGACCCAAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACA
CCTCTATATATATATATTTCCAATTAAGTCATTATTTTTATTGAATAAAAATAATTTTTTTATTA
TTTCGGGTCTGGTCGGGTCGGATTTCTAATTCATATATTCA
Found at i:1722299 original size:17 final size:17
Alignment explanation
Indices: 1722277--1722323 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
1722267 TATGGAATTG
1722277 GATTTCAATTCCTGACA
1 GATTTCAATTCCTGACA
* *
1722294 GATTTCAATTTCTTTACA
1 GATTTCAA-TTCCTGACA
*
1722312 GATTCCAATTCC
1 GATTTCAATTCC
1722324 ATCAGAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (17 bp):
GATTTCAATTCCTGACA
Found at i:1722904 original size:17 final size:18
Alignment explanation
Indices: 1722882--1722917 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1722872 AATATTATTT
1722882 TTATTTAA-TAAAAAAAA
1 TTATTTAATTAAAAAAAA
*
1722899 TTATTTAATTGAAAAAAA
1 TTATTTAATTAAAAAAAA
1722917 T
1 T
1722918 AATATATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TTATTTAATTAAAAAAAA
Found at i:1723174 original size:28 final size:28
Alignment explanation
Indices: 1723134--1723189 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
1723124 ATACAAATAT
1723134 TAAAAATATTTGTTATGAGTTTAAAAGG
1 TAAAAATATTTGTTATGAGTTTAAAAGG
1723162 TAAAAATATTTGTTATGAGTTTAAAAGG
1 TAAAAATATTTGTTATGAGTTTAAAAGG
1723190 CACAGTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (28 bp):
TAAAAATATTTGTTATGAGTTTAAAAGG
Found at i:1723856 original size:2 final size:2
Alignment explanation
Indices: 1723849--1723884 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1723839 TCAAATTTTA
*
1723849 AT AT AT AT AC 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
1723885 TCATTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1734062 original size:2 final size:2
Alignment explanation
Indices: 1734055--1734090 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1734045 GAATCATTAT
1734055 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1734091 AGTATTTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1735814 original size:16 final size:16
Alignment explanation
Indices: 1735793--1735824 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1735783 ATATTAATTT
*
1735793 TACAAATATATAAAAA
1 TACAAAAATATAAAAA
1735809 TACAAAAATATAAAAA
1 TACAAAAATATAAAAA
1735825 ATTATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (16 bp):
TACAAAAATATAAAAA
Found at i:1735876 original size:25 final size:25
Alignment explanation
Indices: 1735848--1735906 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
1735838 ATTAATATGA
1735848 TTATTTATC-TAATTTAAATATATTT
1 TTATTTATCTTAATTT-AATATATTT
1735873 TTATTTATCTTATAATTTAATATATTT
1 TTATTTATC-T-TAATTTAATATATTT
*
1735900 TAATTTA
1 TTATTTA
1735907 AAAAAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 9 0.30
27 15 0.50
28 6 0.20
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATTTATCTTAATTTAATATATTT
Found at i:1738322 original size:17 final size:18
Alignment explanation
Indices: 1738294--1738327 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1738284 AAGTATAAAG
1738294 ATTTATTTAAAATTAATC
1 ATTTATTTAAAATTAATC
1738312 ATTTA-TTAAAATTAAT
1 ATTTATTTAAAATTAAT
1738328 TATAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTATTTAAAATTAATC
Found at i:1738448 original size:29 final size:29
Alignment explanation
Indices: 1738387--1738445 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
1738377 ATTACTTAAA
* *
1738387 TTAATTATTATTTTTATAAAAATTATAAT
1 TTAATTATTAATTCTATAAAAATTATAAT
*
1738416 TTAATTA-TAATTCTATTAAAATTATAAT
1 TTAATTATTAATTCTATAAAAATTATAAT
1738444 TT
1 TT
1738446 TAAATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
TTAATTATTAATTCTATAAAAATTATAAT
Found at i:1738533 original size:18 final size:18
Alignment explanation
Indices: 1738506--1738541 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1738496 TTAATTATAC
*
1738506 TTTTAATAAAATTATAAT
1 TTTTAATAAAAATATAAT
*
1738524 TTTTATTAAAAATATAAT
1 TTTTAATAAAAATATAAT
1738542 AATTTAAGTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTAATAAAAATATAAT
Found at i:1745431 original size:19 final size:20
Alignment explanation
Indices: 1745390--1745431 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
1745380 AAATATTAGA
*
1745390 AAATATTAATATTTTAAGTAT
1 AAATAATAATATTTTAAG-AT
*
1745411 AAATAATAATTTTTTAA-AT
1 AAATAATAATATTTTAAGAT
1745430 AA
1 AA
1745432 TTTTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
21 15 0.79
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATAATAATATTTTAAGAT
Found at i:1747435 original size:20 final size:21
Alignment explanation
Indices: 1747410--1747461 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1747400 TTTTCCCAAT
*
1747410 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1747430 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1747451 TCGCAATGCGA
1 TCGCAATGCGA
1747462 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1747475 original size:20 final size:20
Alignment explanation
Indices: 1747450--1747563 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
1747440 AATTGGGAAA
*
1747450 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1747470 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
1747490 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
1747511 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1747531 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
1747551 TTCGCAACGCGAT
1 ATCGCAACGCGAT
1747564 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1747494 original size:61 final size:61
Alignment explanation
Indices: 1747447--1747563 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
1747437 GCGAATTGGG
* * * * *
1747447 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
1747508 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
1747564 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:1748158 original size:18 final size:19
Alignment explanation
Indices: 1748115--1748158 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1748105 GCAACGAGAG
1748115 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
* *
1748134 AAACGCAACGCGAAA-CAA
1 AATCGCAACGCGAAATAAA
1748152 AATCGCA
1 AATCGCA
1748159 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.52, C:0.25, G:0.16, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:1748181 original size:19 final size:19
Alignment explanation
Indices: 1748154--1748351 Score: 127
Period size: 19 Copynumber: 10.1 Consensus size: 19
1748144 CGAAACAAAA
*
1748154 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1748173 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1748192 TCCCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
1748211 TCGCGGTTGCAATTTTCATT
1 TCGC-GTTGCGATTTTCATT
* *
1748231 TCGTGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
1748247 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
1748264 TCGCGTTGCGATTCTCTCGTTGCAATT
1 TCGCGTTGCGA---T-T--TT-C-ATT
* **
1748291 CTCTCGTTGCGATAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
1748311 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
1748331 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1748351 T
1 T
1748352 TAACCAAAAG
Statistics
Matches: 140, Mismatches: 22, Indels: 34
0.71 0.11 0.17
Matches are distributed among these distances:
14 10 0.07
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 56 0.40
20 50 0.36
21 2 0.01
22 2 0.01
25 2 0.01
26 1 0.01
27 3 0.02
28 10 0.07
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1748231 original size:39 final size:38
Alignment explanation
Indices: 1748159--1748243 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 38
1748149 CAAAATCGCA
*
1748159 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCCCG
1 TTGCGATTTTCATTTCGCGTTGCAATTTTCATTTCCCG
* **
1748197 TTGCGATTTTTATTTCGCGGTTGCAATTTTCATTTCGTG
1 TTGCGATTTTCATTTCGC-GTTGCAATTTTCATTTCCCG
1748236 TTGCGATT
1 TTGCGATT
1748244 GTCTGGTCGC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 17 0.40
39 25 0.60
ACGTcount: A:0.12, C:0.19, G:0.20, T:0.49
Consensus pattern (38 bp):
TTGCGATTTTCATTTCGCGTTGCAATTTTCATTTCCCG
Found at i:1748284 original size:14 final size:14
Alignment explanation
Indices: 1748267--1748303 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1748257 AGTCATTTCG
1748267 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1748281 CGTTGCAATTCTCT
1 CGTTGCGATTCTCT
1748295 CGTTGCGAT
1 CGTTGCGAT
1748304 AGTCATTTCC
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:0.11, C:0.27, G:0.22, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1748329 original size:20 final size:19
Alignment explanation
Indices: 1748295--1748351 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
1748285 GCAATTCTCT
**
1748295 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTT-CG
*
1748315 CGTTGCGATTCTCATTATCT
1 CGTTGCGATTCTCATT-TCG
*
1748335 CGTTGCGATTTTCATTT
1 CGTTGCGATTCTCATTT
1748352 TAACCAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTCTCATTTCG
Found at i:1750431 original size:21 final size:21
Alignment explanation
Indices: 1750407--1750473 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1750397 TCATTCCTCG
1750407 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1750428 AGAGGCCACTTTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1750449 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
1750470 AGAG
1 AGAG
1750474 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:1750431 original size:42 final size:42
Alignment explanation
Indices: 1750355--1750473 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
1750345 GACTCGCCTG
* * * * * * *
1750355 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
1750397 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTT
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
1750439 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
1750474 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:1751845 original size:14 final size:14
Alignment explanation
Indices: 1751826--1751861 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1751816 ATTGTTTAAT
1751826 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1751840 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1751854 TGATTTGT
1 TGATTTGT
1751862 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1752002 original size:20 final size:20
Alignment explanation
Indices: 1751977--1752018 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1751967 TCGCATTGCG
1751977 AAATGAAAATCGCAACGCGA
1 AAATGAAAATCGCAACGCGA
1751997 AAATGAAAATCGCAACGCGA
1 AAATGAAAATCGCAACGCGA
1752017 AA
1 AA
1752019 TTAAATTCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (20 bp):
AAATGAAAATCGCAACGCGA
Found at i:1752118 original size:18 final size:18
Alignment explanation
Indices: 1752095--1752151 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
1752085 GAAATTAGCG
1752095 TTGCGATTTCATTTCGCA
1 TTGCGATTTCATTTCGCA
*
1752113 TTGCGA-TTC-TCTCG--
1 TTGCGATTTCATTTCGCA
1752127 TTGCGATTTCATTTCGCA
1 TTGCGATTTCATTTCGCA
1752145 TTGCGAT
1 TTGCGAT
1752152 AGTAATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 6 0.18
15 3 0.09
16 8 0.24
17 3 0.09
18 13 0.39
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (18 bp):
TTGCGATTTCATTTCGCA
Found at i:1752145 original size:64 final size:65
Alignment explanation
Indices: 1752021--1752146 Score: 202
Period size: 65 Copynumber: 2.0 Consensus size: 65
1752011 ACGCGAAATT
*
1752021 AAATTCGCGTTGCGATTTTCATTTGCATTACGATTCCCTCGTTGCGATTTTCATTTCGCATTACG
1 AAATTAGCGTTGCGATTTTCATTTGCATTACGATTCCCTCGTTGCGATTTTCATTTCGCATTACG
* *
1752086 AAATTAGCGTTGCGA-TTTCATTTCGCATTGCGATTCTCTCGTTGCGA-TTTCATTTCGCATT
1 AAATTAGCGTTGCGATTTTCATTT-GCATTACGATTCCCTCGTTGCGATTTTCATTTCGCATT
1752147 GCGATAGTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 22 0.39
65 35 0.61
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.42
Consensus pattern (65 bp):
AAATTAGCGTTGCGATTTTCATTTGCATTACGATTCCCTCGTTGCGATTTTCATTTCGCATTACG
Found at i:1752171 original size:38 final size:32
Alignment explanation
Indices: 1752025--1752151 Score: 150
Period size: 32 Copynumber: 3.9 Consensus size: 32
1752015 GAAATTAAAT
*
1752025 TCGCGTTGCGATTTTCATTT-GCATTACGATTC
1 TCGCGTTGCGA-TTTCATTTCGCATTGCGATTC
* * * *
1752057 CCTCGTTGCGATTTTCATTTCGCATTACGAAAT-
1 TCGCGTTGCGA-TTTCATTTCGCATTGCG-ATTC
*
1752090 TAGCGTTGCGATTTCATTTCGCATTGCGATTC
1 TCGCGTTGCGATTTCATTTCGCATTGCGATTC
*
1752122 TCTCGTTGCGATTTCATTTCGCATTGCGAT
1 TCGCGTTGCGATTTCATTTCGCATTGCGAT
1752152 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
31 2 0.02
32 62 0.76
33 16 0.20
34 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.42
Consensus pattern (32 bp):
TCGCGTTGCGATTTCATTTCGCATTGCGATTC
Found at i:1754450 original size:12 final size:12
Alignment explanation
Indices: 1754433--1754457 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1754423 TCTCCGGGGA
1754433 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1754445 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1754457 C
1 C
1754458 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1754666 original size:24 final size:24
Alignment explanation
Indices: 1754632--1754685 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1754622 CTGAAACATC
* *
1754632 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
1754656 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
1754680 ATCAAA
1 ATCAAA
1754686 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:1755767 original size:20 final size:20
Alignment explanation
Indices: 1755742--1755779 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1755732 ATTCATTTGA
*
1755742 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
1755762 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
1755780 CGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:1755862 original size:19 final size:19
Alignment explanation
Indices: 1755798--1755865 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
1755788 GAAATGAAAA
1755798 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
1755814 TCG--TTGCGATATTCATT
1 TCGCATTGCGATTTTCATT
1755831 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1755850 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
1755866 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
14 10 0.22
16 3 0.07
17 3 0.07
19 29 0.64
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1757889 original size:20 final size:19
Alignment explanation
Indices: 1757865--1757956 Score: 96
Period size: 20 Copynumber: 4.8 Consensus size: 19
1757855 CGAAACTTAA
*
1757865 AATCGCAACGTGAAAATGAC
1 AATCGCAACGCG-AAATGAC
* *
1757885 TATCGCAACGCGGAAATGGC
1 AATCGCAACGC-GAAATGAC
* * * *
1757905 TATTGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAC
1757924 AATCGCAACGCGAAATGA-
1 AATCGCAACGCGAAATGAC
1757942 AATCGCAACGCGAAA
1 AATCGCAACGCGAAA
1757957 CACAAATCGC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
18 15 0.25
19 21 0.34
20 24 0.39
21 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAC
Found at i:1757965 original size:19 final size:18
Alignment explanation
Indices: 1757923--1757967 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
1757913 TGCGAAATGA
**
1757923 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAAAC
1757941 AAATCGCAACGCGAAACAC
1 AAATCGCAACGCGAAA-AC
1757960 AAATCGCA
1 AAATCGCA
1757968 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (18 bp):
AAATCGCAACGCGAAAAC
Found at i:1757985 original size:19 final size:17
Alignment explanation
Indices: 1757963--1758058 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
1757953 GAAACACAAA
1757963 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
1757982 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
1757998 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
1758014 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
1758030 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
1758047 TCGCATTGCGAT
1 TCGC-TTGCGAT
1758059 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:1758004 original size:14 final size:14
Alignment explanation
Indices: 1757985--1758042 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1757975 TTTCATTTCG
1757985 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1757999 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1758015 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
1758031 CGTTGCGATTTT
1 CGTTGCGATTTT
1758043 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1758049 original size:33 final size:33
Alignment explanation
Indices: 1757968--1758058 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
1757958 ACAAATCGCA
1757968 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1758001 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
1758033 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
1758059 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:1758077 original size:20 final size:19
Alignment explanation
Indices: 1758043--1758097 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
1758033 TTGCGATTTT
*
1758043 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1758062 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1758082 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
1758098 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1758605 original size:18 final size:18
Alignment explanation
Indices: 1758579--1758623 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1758569 GTCGATCAGA
*
1758579 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
1758597 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
1758615 TGATGGCTC
1 TGATGGCTC
1758624 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:1759873 original size:20 final size:20
Alignment explanation
Indices: 1759848--1759885 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1759838 AATAGTTTCT
1759848 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
1759868 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
1759886 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:1760176 original size:22 final size:22
Alignment explanation
Indices: 1760149--1760192 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1760139 GATGGAGATA
1760149 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1760171 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1760193 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1760406 original size:20 final size:20
Alignment explanation
Indices: 1760380--1760493 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
1760370 GATTATGTAT
1760380 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1760400 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1760420 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
1760440 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
1760461 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1760481 TATCGCATTGCGA
1 TATCGCGTTGCGA
1760494 TTTTCCCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:1760497 original size:41 final size:41
Alignment explanation
Indices: 1760360--1760495 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
1760350 CGCTTTGAAA
*
1760360 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
1760401 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * * *
1760441 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1760482 ATCGCATTGCGATT
1 ATCGCATTGCGATT
1760496 TTCCCAATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.40
41 42 0.54
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:1760512 original size:21 final size:21
Alignment explanation
Indices: 1760483--1760575 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
1760473 ATAGTCAGTA
1760483 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
1760504 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
1760524 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
1760545 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
1760565 TCGCATTGCGA
1 TCGCATTGCGA
1760576 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:1760513 original size:41 final size:41
Alignment explanation
Indices: 1760422--1760556 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
1760412 AAAGTCAGTA
* * * ** *
1760422 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
1760462 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
1760504 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
1760545 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1760557 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:1760557 original size:41 final size:41
Alignment explanation
Indices: 1760483--1760575 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
1760473 ATAGTCAGTA
1760483 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1760524 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1760565 TCGCATTGCGA
1 TCGCATTGCGA
1760576 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:1762137 original size:21 final size:22
Alignment explanation
Indices: 1762097--1762147 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
1762087 TTCATCTCAT
1762097 TAATAAAATGTTATATTTTATA
1 TAATAAAATGTTATATTTTATA
1762119 TAATAACAAT-TTA-ATTTTATA
1 TAATAA-AATGTTATATTTTATA
1762140 TAAATAAA
1 T-AATAAA
1762148 TTTTTAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 10 0.37
22 14 0.52
23 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TAATAAAATGTTATATTTTATA
Found at i:1762154 original size:22 final size:21
Alignment explanation
Indices: 1762097--1762142 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 21
1762087 TTCATCTCAT
1762097 TAATAA-AATGTTATATTTTATA
1 TAATAACAAT-TTA-ATTTTATA
1762119 TAATAACAATTTAATTTTATA
1 TAATAACAATTTAATTTTATA
1762140 TAA
1 TAA
1762143 ATAAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.48
22 9 0.39
23 3 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TAATAACAATTTAATTTTATA
Found at i:1764431 original size:45 final size:45
Alignment explanation
Indices: 1764332--1764435 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
1764322 ATGCATAGGA
* * * *
1764332 AGTGCATCGATGCACCCATTAAAAATGGAAACATCGAATGCAGTT
1 AGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGGAAATT
*
1764377 AGTGCATCGATGCACCCCCTT-AAAATGAAAACATCGAAGGTAAATT
1 AGTGCATCGATGCA-CCCATTAAAAATGAAAACATCGAAGG-AAATT
*
1764423 -GTGTATCGATGCA
1 AGTGCATCGATGCA
1764436 TGGTTAGTGC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
45 43 0.84
46 8 0.16
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGGAAATT
Found at i:1764489 original size:20 final size:22
Alignment explanation
Indices: 1764443--1764499 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 22
1764433 GCATGGTTAG
1764443 TGCATCGATGCACGTGTTAAAAA
1 TGCATCGATGCAC-TGTTAAAAA
*
1764466 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAAAA
1764486 TGCATCGATGCACT
1 TGCATCGATGCACT
1764500 TCAAGGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 17 0.52
21 1 0.03
22 2 0.06
23 13 0.39
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAAAA
Found at i:1765687 original size:30 final size:29
Alignment explanation
Indices: 1765648--1765706 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1765638 GAGAATTTAC
* *
1765648 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
1765677 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
1765707 TATATTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:1766004 original size:23 final size:22
Alignment explanation
Indices: 1765937--1766004 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
1765927 AATTTTATAT
* * *
1765937 GGCACTTTGGTGTAATCCTACGT
1 GGCAC-TTGGTGCAATTCTACGC
*
1765960 GGCACTATGGTGCATTTCTACGC
1 GGCACT-TGGTGCAATTCTACGC
*
1765983 GGCACTTCGGTGCAATTATACG
1 GGCACTT-GGTGCAATTCTACG
1766005 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.31
Consensus pattern (22 bp):
GGCACTTGGTGCAATTCTACGC
Found at i:1770230 original size:21 final size:21
Alignment explanation
Indices: 1770206--1770278 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
1770196 AACAATTCTC
*
1770206 TTCATGAAAAGATTAAATCCT
1 TTCATGAAAAGATTAAGTCCT
* * *
1770227 TTCACGAAAAGGTTAAGCCCT
1 TTCATGAAAAGATTAAGTCCT
*
1770248 TTCATCAAAAGGA-TAAGTCCT
1 TTCATGAAAA-GATTAAGTCCT
1770269 TTCATCGAAA
1 TTCAT-GAAA
1770279 GAACTTAACT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 37 0.90
22 4 0.10
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (21 bp):
TTCATGAAAAGATTAAGTCCT
Found at i:1772009 original size:18 final size:18
Alignment explanation
Indices: 1771986--1772022 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1771976 ACTGAATATT
*
1771986 TGTCCCGAATGACCACTA
1 TGTCCCGAAAGACCACTA
1772004 TGTCCCGAAAGACCACTA
1 TGTCCCGAAAGACCACTA
1772022 T
1 T
1772023 CCATATGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:1773443 original size:17 final size:18
Alignment explanation
Indices: 1773411--1773446 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1773401 TTCCTTTAAA
*
1773411 TTTCCTTTTTTCATTTAT
1 TTTCCTTATTTCATTTAT
1773429 TTTCCTTATTT-ATTTAT
1 TTTCCTTATTTCATTTAT
1773446 T
1 T
1773447 CCTTCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCCTTATTTCATTTAT
Found at i:1775407 original size:66 final size:63
Alignment explanation
Indices: 1775300--1775422 Score: 149
Period size: 66 Copynumber: 1.9 Consensus size: 63
1775290 TTTGTTGAAG
* * *
1775300 GTGCATCGATGCACATGGAGTGTATCGATGCACTCATTTAAAATAAATGAACATCGAATGCCATT
1 GTGCATCGATGCACAAGGACTGCATCGATGCACTCA-TTAAAATAAA--AACATCGAATGCCATT
1775365 A
63 A
* *
1775366 GTGCATCGATGCATAAGGACTGCATCGATGCACCTGC-TTAAAATACAAACATCGAAT
1 GTGCATCGATGCACAAGGACTGCATCGATGCA-CT-CATTAAAATAAAAACATCGAAT
1775423 AGGATTTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
64 10 0.20
66 37 0.74
67 2 0.04
68 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (63 bp):
GTGCATCGATGCACAAGGACTGCATCGATGCACTCATTAAAATAAAAACATCGAATGCCATTA
Found at i:1777635 original size:31 final size:31
Alignment explanation
Indices: 1777592--1777652 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
1777582 ATGCCAAGGG
*
1777592 TTACCTATGTTCTTC-GGAACATATGGACTGT
1 TTACCTAGGTTCTTCGGGAAC-TATGGACTGT
*
1777623 TTACCTAGGTTCTTCGGGATCTATGGACTG
1 TTACCTAGGTTCTTCGGGAACTATGGACTG
1777653 GTCCTTCAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTAGGTTCTTCGGGAACTATGGACTGT
Found at i:1783423 original size:66 final size:63
Alignment explanation
Indices: 1783316--1783438 Score: 158
Period size: 66 Copynumber: 1.9 Consensus size: 63
1783306 TTTGTTGAAG
* *
1783316 GTGCATCGATGCACATGGAGTGTATCGATGTACTCATTTAAAATAAATGAACATCGAATGCCATT
1 GTGCATCGATGCACAAGGAGTGTATCGATGCACTCA-TTAAAATAAA--AACATCGAATGCCATT
1783381 A
63 A
* *
1783382 GTGCATCGATGCATAAGGAGTGTATCGATGCACCTGC-TTAAAATACAAACATCGAAT
1 GTGCATCGATGCACAAGGAGTGTATCGATGCA-CT-CATTAAAATAAAAACATCGAAT
1783439 AGGATTTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
64 10 0.20
66 38 0.75
67 2 0.04
68 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (63 bp):
GTGCATCGATGCACAAGGAGTGTATCGATGCACTCATTAAAATAAAAACATCGAATGCCATTA
Found at i:1786367 original size:21 final size:22
Alignment explanation
Indices: 1786328--1786379 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1786318 TGACATGATC
*
1786328 TATATGATTACATGAATATGTGA
1 TATATG-TTACATGAATATGAGA
*
1786351 TATATGTTATATG-ATATGAGA
1 TATATGTTACATGAATATGAGA
*
1786372 TAGATGTT
1 TATATGTT
1786380 TACACATACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 14 0.54
22 6 0.23
23 6 0.23
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (22 bp):
TATATGTTACATGAATATGAGA
Found at i:1786600 original size:31 final size:31
Alignment explanation
Indices: 1786562--1786684 Score: 158
Period size: 31 Copynumber: 4.0 Consensus size: 31
1786552 GAGTCGAGGG
*
1786562 TTACCTATGTTCTTCGGGACATATGGACAGT
1 TTACCTATGTTCTTCGGGACATATGGACAGC
**
1786593 TTACCTATG-TCTTTCAAGACATATGGACAGC
1 TTACCTATGTTC-TTCGGGACATATGGACAGC
** *
1786624 TTACCTATGTTCTAAGGAACATATGGACAGC
1 TTACCTATGTTCTTCGGGACATATGGACAGC
* *
1786655 TTACCTAGGTTCTTCGGGACCTATGGACAG
1 TTACCTATGTTCTTCGGGACATATGGACAG
1786685 TTGTCGAGGT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
30 2 0.03
31 73 0.95
32 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACAGC
Found at i:1788620 original size:18 final size:18
Alignment explanation
Indices: 1788587--1788621 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1788577 GCACTGAAAA
* *
1788587 TTTGTCCCGAATGACCAC
1 TTTGTCCCAAAGGACCAC
1788605 TTTGTCCCAAAGGACCA
1 TTTGTCCCAAAGGACCA
1788622 ATATCTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (18 bp):
TTTGTCCCAAAGGACCAC
Found at i:1792291 original size:21 final size:21
Alignment explanation
Indices: 1792267--1792315 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1792257 TCATTTTACG
*
1792267 AAAAGGTTAAGCCCTTTCATC
1 AAAAGGATAAGCCCTTTCATC
*
1792288 AAAAGGATAAGTCCTTTCATC
1 AAAAGGATAAGCCCTTTCATC
*
1792309 GAAAGGA
1 AAAAGGA
1792316 CTTAACCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (21 bp):
AAAAGGATAAGCCCTTTCATC
Found at i:1792747 original size:3 final size:3
Alignment explanation
Indices: 1792741--1792768 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1792731 ATAATAATAT
1792741 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1792769 ATCTGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1792865 original size:17 final size:17
Alignment explanation
Indices: 1792843--1792877 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1792833 AGAGGATAAC
*
1792843 AATCTTATATGACATTG
1 AATCTTATATCACATTG
*
1792860 AATCTTATGTCACATTG
1 AATCTTATATCACATTG
1792877 A
1 A
1792878 CCATTCACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (17 bp):
AATCTTATATCACATTG
Found at i:1803507 original size:22 final size:22
Alignment explanation
Indices: 1803465--1803511 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1803455 TTTACCAGTG
1803465 AATATTAAAATAGAATAAAAATA
1 AATATTAAAATAGAATAAAAA-A
* *
1803488 AATATT-AAATATAATTAAAAA
1 AATATTAAAATAGAATAAAAAA
1803509 AAT
1 AAT
1803512 TATAATTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 12 0.55
23 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AATATTAAAATAGAATAAAAAA
Found at i:1804128 original size:64 final size:63
Alignment explanation
Indices: 1804027--1804150 Score: 212
Period size: 64 Copynumber: 2.0 Consensus size: 63
1804017 TGAATTATTA
* *
1804027 AAATATGTGTATTTTGCATGGTCACAGTTGAAAGAAAAAGTACTTTGTATTCCGTAGTTCTTCT
1 AAATATGTGCATTTTGCATGGTCACAGTTGAAAGAAAAAATACTTTGTATTCCGTA-TTCTTCT
*
1804091 AAATATGTGCATTTTGTATGGTCACAGTTGAAAGAAAAAATACTTTGTATTCCGTATTCT
1 AAATATGTGCATTTTGCATGGTCACAGTTGAAAGAAAAAATACTTTGTATTCCGTATTCT
1804151 GGTAGAGCTA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 4 0.07
64 53 0.93
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (63 bp):
AAATATGTGCATTTTGCATGGTCACAGTTGAAAGAAAAAATACTTTGTATTCCGTATTCTTCT
Found at i:1807018 original size:20 final size:18
Alignment explanation
Indices: 1806972--1807022 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
1806962 TGTGTATGAT
1806972 GGAATTGAAAGG-AATAA
1 GGAATTGAAAGGAAATAA
1806989 GGAA-TGAAAGGACAATAGA
1 GGAATTGAAAGGA-AATA-A
*
1807008 GTAATTGAAAGGAAA
1 GGAATTGAAAGGAAA
1807023 AATAATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 7 0.24
17 4 0.14
18 4 0.14
19 6 0.21
20 8 0.28
ACGTcount: A:0.53, C:0.02, G:0.29, T:0.16
Consensus pattern (18 bp):
GGAATTGAAAGGAAATAA
Found at i:1807722 original size:64 final size:64
Alignment explanation
Indices: 1807653--1807808 Score: 174
Period size: 64 Copynumber: 2.4 Consensus size: 64
1807643 TTGAAGGTGT
* **
1807653 ATCGATGCACAGGTAGTGCATCGATGCACTCTTTTAA-AATAAAAACATCGAATGCA-ATTAGTG
1 ATCGATGCACAGGTAGTGCATCGATGCACCCCATTAATAAT-AAAACATCGAATGCATATTA-TG
1807716 C
64 C
* * * * *
1807717 ATCGATGCATAAGGCA-TGCATCGATGCACCCCATTAATAATAAAAGATTGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCACCCCATTAATAATAAAACATCGAATGCATATTATGC
* *
1807781 ACCGATGCACAAGTAGTGCATCGATGCA
1 ATCGATGCACAGGTAGTGCATCGATGCA
1807809 TACCTTCATT
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
63 3 0.04
64 63 0.83
65 10 0.13
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCACCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:1808205 original size:29 final size:29
Alignment explanation
Indices: 1808159--1808268 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
1808149 TATGTGATAT
*
1808159 GAGAATATAACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
*
1808189 GAGAAATGACAAGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
1808218 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
1808247 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
1808269 ACATATAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
28 7 0.09
29 63 0.84
30 5 0.07
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:1808219 original size:17 final size:17
Alignment explanation
Indices: 1808172--1808220 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1808162 AATATAACAT
1808172 GAGCTACATGATCACAA
1 GAGCTACATGATCACAA
*
1808189 GAG--A-A--ATGACAA
1 GAGCTACATGATCACAA
1808201 GAGCTACATGATCACAA
1 GAGCTACATGATCACAA
1808218 GAG
1 GAG
1808221 AAATGACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
12 9 0.36
14 2 0.08
15 2 0.08
17 12 0.48
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (17 bp):
GAGCTACATGATCACAA
Found at i:1808371 original size:15 final size:15
Alignment explanation
Indices: 1808353--1808386 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1808343 GAGGGTATAA
*
1808353 TAGTCTTTCGGGACG
1 TAGTCCTTCGGGACG
*
1808368 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
1808383 TAGT
1 TAGT
1808387 GGTCCTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:1814671 original size:64 final size:64
Alignment explanation
Indices: 1814589--1814743 Score: 165
Period size: 64 Copynumber: 2.4 Consensus size: 64
1814579 GAAGGTGTAT
* * **
1814589 CGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCA-ATTAGTGC
1 CGATGCACAAGCAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-TGC
*
1814651 AT
63 AC
* * *
1814653 CGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAAGATCGAATGCATTTTATGCAC
1 CGATGCACAA-GCAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGCAC
*
1814717 CGATGCACAAGTAGTGCATCGATGCAT
1 CGATGCACAAGCAGTGCATCGATGCAT
1814744 ACCTTCATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
63 2 0.03
64 65 0.86
65 9 0.12
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (64 bp):
CGATGCACAAGCAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGCAC
Found at i:1815162 original size:29 final size:29
Alignment explanation
Indices: 1815120--1815229 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
1815110 TATGTGATAT
*
1815120 GAGAACATAACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
1815150 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
1815179 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
1815208 GAGAAATGATATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
1815230 ACATATAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
28 7 0.09
29 64 0.84
30 5 0.07
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:1815332 original size:15 final size:15
Alignment explanation
Indices: 1815314--1815347 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1815304 GAGGGTATAA
*
1815314 TAGTCCTTCTGGACG
1 TAGTCCTTCGGGACG
*
1815329 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
1815344 TAGT
1 TAGT
1815348 GGTCCTACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.35
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:1817214 original size:55 final size:54
Alignment explanation
Indices: 1817151--1817266 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 54
1817141 TTCCATGTTA
* * *
1817151 TGCACACATAGAGCTTGTACGATTATTCATCAACTTATGATGAATTTCGCAGATT
1 TGCACACATAGAGCCTGTACGATTATTCATCAACATATGATGAACTTCG-AGATT
* * * *
1817206 TGCACACATAGCGCCTGTACGGTTGTTCATCAACATATGATGAACTTCGTGATT
1 TGCACACATAGAGCCTGTACGATTATTCATCAACATATGATGAACTTCGAGATT
1817260 TGCACAC
1 TGCACAC
1817267 GAAGTTCCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 11 0.20
55 43 0.80
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (54 bp):
TGCACACATAGAGCCTGTACGATTATTCATCAACATATGATGAACTTCGAGATT
Found at i:1817290 original size:55 final size:55
Alignment explanation
Indices: 1817175--1817290 Score: 121
Period size: 55 Copynumber: 2.1 Consensus size: 55
1817165 TTGTACGATT
* * * **
1817175 ATTCATCAACTTATGATGAATTTCGCAGATTTGCACACATAGCGCCTGTACGGTT
1 ATTCATCAACATATGATGAACTTCGCAGATTTGCACACATAGCGCCTATACGGGA
* *
1817230 GTTCATCAACATATGATGAACTTCG-TGATTTGCACACGA-AGTTC-CCTATACGGGA
1 ATTCATCAACATATGATGAACTTCGCAGATTTGCACAC-ATAG--CGCCTATACGGGA
1817285 ATTCAT
1 ATTCAT
1817291 ACACTTAGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
54 13 0.26
55 36 0.72
56 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (55 bp):
ATTCATCAACATATGATGAACTTCGCAGATTTGCACACATAGCGCCTATACGGGA
Found at i:1817336 original size:59 final size:57
Alignment explanation
Indices: 1817261--1817434 Score: 209
Period size: 59 Copynumber: 3.1 Consensus size: 57
1817251 TTCGTGATTT
*
1817261 GCACACGAAGTTCCCTATACGGGAATTCATACACTTAGTATGAATTTCTTAACATTTTA
1 GCACACGAAGTGCCCTATAC--GAATTCATACACTTAGTATGAATTTCTTAACATTTTA
* ** * *
1817320 GCACATGAAGTGCCCTAT-----TT-GGA-AGTTAGTATGAATTTCTTAATATTTTA
1 GCACACGAAGTGCCCTATACGAATTCATACACTTAGTATGAATTTCTTAACATTTTA
1817370 GCACACGAAGTGCCCTATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTA
1 GCACACGAAGTGCCCTATAC-G-AATTCATACACTTAGTATGAATTTCTTAACATTTTA
1817429 GCACAC
1 GCACAC
1817435 TTAGTGCCAT
Statistics
Matches: 95, Mismatches: 11, Indels: 18
0.77 0.09 0.15
Matches are distributed among these distances:
50 42 0.44
51 1 0.01
52 2 0.02
57 2 0.02
58 1 0.01
59 47 0.49
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (57 bp):
GCACACGAAGTGCCCTATACGAATTCATACACTTAGTATGAATTTCTTAACATTTTA
Found at i:1818325 original size:21 final size:21
Alignment explanation
Indices: 1818301--1818343 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1818291 CCCAGAATAG
*
1818301 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
1818322 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
1818343 A
1 A
1818344 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:1818457 original size:15 final size:15
Alignment explanation
Indices: 1818437--1818466 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1818427 AACCTGCAGG
1818437 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
1818452 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
1818467 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:1818476 original size:21 final size:21
Alignment explanation
Indices: 1818452--1818493 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1818442 ATCTGTACCC
* *
1818452 GGGGTATCTGTACCCCCTGGG
1 GGGGAATCTATACCCCCTGGG
1818473 GGGGAATCTATACCCCCTGGG
1 GGGGAATCTATACCCCCTGGG
1818494 CAATCTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (21 bp):
GGGGAATCTATACCCCCTGGG
Found at i:1818615 original size:29 final size:31
Alignment explanation
Indices: 1818583--1818642 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1818573 AAACTTTGAA
*
1818583 TAAATTCAATT-ACGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1818612 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1818643 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:1818832 original size:22 final size:22
Alignment explanation
Indices: 1818801--1818847 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1818791 AAGCTCCCCC
1818801 TTTTTCATTAAGAAATTGAATT
1 TTTTTCATTAAGAAATTGAATT
*
1818823 TTTTTTATTAAGAAATTGAATT
1 TTTTTCATTAAGAAATTGAATT
1818845 TTT
1 TTT
1818848 CAAACCAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
TTTTTCATTAAGAAATTGAATT
Found at i:1819942 original size:19 final size:20
Alignment explanation
Indices: 1819899--1819946 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1819889 TCTAAATCCT
*
1819899 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
1819919 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
1819938 TTTTCAAAA
1 TTTTCAAAA
1819947 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:1820857 original size:34 final size:32
Alignment explanation
Indices: 1820804--1820873 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
1820794 ACCTTACAAC
*
1820804 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
* *
1820836 TCCCTAGCTTTTACACGGGCTAAGCTATAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
1820870 TCCC
1 TCCC
1820874 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:1821180 original size:21 final size:21
Alignment explanation
Indices: 1821156--1821198 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1821146 CCTAGAATAG
*
1821156 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
1821177 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
1821198 A
1 A
1821199 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:1821260 original size:21 final size:21
Alignment explanation
Indices: 1821234--1821277 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1821224 CTGTTGAACA
1821234 GGGGGGGAATCGGTACCCCCT
1 GGGGGGGAATCGGTACCCCCT
1821255 GGGGGGGAATCGGTACCCCCT
1 GGGGGGGAATCGGTACCCCCT
1821276 GG
1 GG
1821278 ACATTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.27, G:0.45, T:0.14
Consensus pattern (21 bp):
GGGGGGGAATCGGTACCCCCT
Found at i:1821336 original size:21 final size:21
Alignment explanation
Indices: 1821311--1821390 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 21
1821301 AAAACCTGCA
1821311 GGGGGTATCTGTACCCCCTGGG
1 GGGGGTATCTGTACCCCCT-GG
1821333 GGGGGTATCTGTA--CCC---
1 GGGGGTATCTGTACCCCCTGG
1821349 -GGGGTATCTGTACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
* *
1821369 GGGGGAATCTATACCCCCTGG
1 GGGGGTATCTGTACCCCCTGG
1821390 G
1 G
1821391 CAATCTTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
20 3 0.06
21 19 0.38
22 13 0.26
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.23
Consensus pattern (21 bp):
GGGGGTATCTGTACCCCCTGG
Found at i:1821354 original size:15 final size:15
Alignment explanation
Indices: 1821334--1821363 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1821324 CCCCCTGGGG
1821334 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
1821349 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
1821364 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:1821384 original size:36 final size:37
Alignment explanation
Indices: 1821312--1821384 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
1821302 AAACCTGCAG
* *
1821312 GGGGTATCTGTACCCCCTGGGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCCCCTGGGGGGGGAATCTATACCC
1821349 GGGGTATCTGTACCCCCT-GGGGGGGAATCTATACCC
1 GGGGTATCTGTACCCCCTGGGGGGGGAATCTATACCC
1821385 CCTGGGCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 16 0.47
37 18 0.53
ACGTcount: A:0.14, C:0.27, G:0.36, T:0.23
Consensus pattern (37 bp):
GGGGTATCTGTACCCCCTGGGGGGGGAATCTATACCC
Found at i:1821512 original size:29 final size:31
Alignment explanation
Indices: 1821480--1821539 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1821470 AAACTTTGAA
*
1821480 TAAATTCAATT-ACGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1821509 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1821540 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:1821750 original size:94 final size:95
Alignment explanation
Indices: 1821580--1821788 Score: 258
Period size: 94 Copynumber: 2.2 Consensus size: 95
1821570 ACAATACTGC
* * * * * * * *
1821580 TACCCTGGTACCGATACTTCTATACTATGGTATCGATATACCCTTCTGGTATCGATACCAAATTT
1 TACCATGGTATCGATACTACAATACTATGCTACCGATATACCCTTCCGATATCGATACCAAATTT
* * *
1821645 AGGTTTGATGTTTCCTGGTATCGATACCCT
66 AGATTCGATGTTGCCTGGTATCGATACCCT
* * *
1821675 TACCATGGTATCGATACTACAATACTATGCTACCGATA-CCCCTTCCGATATTGATACCAATTTT
1 TACCATGGTATCGATACTACAATACTATGCTACCGATATACCCTTCCGATATCGATACCAAATTT
**
1821739 AGATTCGATGTTGGTTGGTATCGATACCCT
66 AGATTCGATGTTGCCTGGTATCGATACCCT
*
1821769 TATCATGGTATCGATACTAC
1 TACCATGGTATCGATACTAC
1821789 CTTATTGGTA
Statistics
Matches: 97, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
94 65 0.67
95 32 0.33
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (95 bp):
TACCATGGTATCGATACTACAATACTATGCTACCGATATACCCTTCCGATATCGATACCAAATTT
AGATTCGATGTTGCCTGGTATCGATACCCT
Found at i:1821806 original size:20 final size:20
Alignment explanation
Indices: 1821753--1821807 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1821743 TCGATGTTGG
1821753 TTGGTATCGATAC--CCTTA
1 TTGGTATCGATACTACCTTA
1821771 TCATGGTATCGATACTACCTTA
1 T--TGGTATCGATACTACCTTA
1821793 TTGGTATCGATACTA
1 TTGGTATCGATACTA
1821808 ATTGAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.03
20 26 0.79
22 6 0.18
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (20 bp):
TTGGTATCGATACTACCTTA
Found at i:1823527 original size:105 final size:105
Alignment explanation
Indices: 1823371--1823572 Score: 289
Period size: 105 Copynumber: 1.9 Consensus size: 105
1823361 ACTCATTATT
* * * *
1823371 CTCAGCTACACTAATTGAGGTTGCACCAGCTACCTCTTGCTGAACTGCTGCTCCCAGAGGAGTAA
1 CTCAGCTACACTAATTGAGGTTGCACCAGCTACATCTTACTGAACTACTGCTCCCAAAGGAGTAA
*
1823436 CACCCGTATCCACAGTAGCATGACCCGTCTCAACAGAATC
66 CACCCGCATCCACAGTAGCATGACCCGTCTCAACAGAATC
* * * *
1823476 CTCAGCTGCACT-ATCTGAGGTTGTACCAGCTACATCTTATTGTACTACTGCTCCCAAAGGAGTA
1 CTCAGCTACACTAAT-TGAGGTTGCACCAGCTACATCTTACTGAACTACTGCTCCCAAAGGAGTA
* *
1823540 ACACCCGCATCCACAGTAGCCTGACCTGTCTCA
65 ACACCCGCATCCACAGTAGCATGACCCGTCTCA
1823573 CTAGAAAAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
104 2 0.02
105 83 0.98
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (105 bp):
CTCAGCTACACTAATTGAGGTTGCACCAGCTACATCTTACTGAACTACTGCTCCCAAAGGAGTAA
CACCCGCATCCACAGTAGCATGACCCGTCTCAACAGAATC
Found at i:1828665 original size:7 final size:7
Alignment explanation
Indices: 1828655--1828701 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
1828645 TATAAATATA
*
1828655 CTAAACC
1 CTAAACT
1828662 CTAAACT
1 CTAAACT
1828669 CTAAACT
1 CTAAACT
1828676 CTAAACT
1 CTAAACT
* *
1828683 ATAATCT
1 CTAAACT
1828690 -TAAACT
1 CTAAACT
1828696 CTAAAC
1 CTAAAC
1828702 CTTAACCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 5 0.14
7 30 0.86
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
CTAAACT
Found at i:1828919 original size:21 final size:21
Alignment explanation
Indices: 1828881--1828920 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1828871 GAATGGTTAG
* *
1828881 GGTTTAGGGTTTAAGATTTAT
1 GGTTTAAGGTATAAGATTTAT
*
1828902 GGTTTAAGGTATAGGATTT
1 GGTTTAAGGTATAAGATTT
1828921 TCATCAACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
GGTTTAAGGTATAAGATTTAT
Found at i:1830714 original size:161 final size:161
Alignment explanation
Indices: 1830449--1830772 Score: 639
Period size: 161 Copynumber: 2.0 Consensus size: 161
1830439 CCGGCAGCAT
*
1830449 TCCCTGGACCTTCTCCAAGAACCCTTTAGAGAGCAAGAACAAGGGCTTTCTGTTCAAACTCACCC
1 TCCCTGGACCTTCTCCAAGAACCCTTTAGAGAGCAAGAACAAGAGCTTTCTGTTCAAACTCACCC
1830514 GTACTTTTCAGGACTTGCCTGCCATGCCATGTATCAGTCGCCATTGGAGGAGGAAACCAAGGATA
66 GTACTTTTCAGGACTTGCCTGCCATGCCATGTATCAGTCGCCATTGGAGGAGGAAACCAAGGATA
1830579 CCCAACTTCCAGACTGTGATTCCCAGATTCC
131 CCCAACTTCCAGACTGTGATTCCCAGATTCC
1830610 TCCCTGGACCTTCTCCAAGAACCCTTTAGAGAGCAAGAACAAGAGCTTTCTGTTCAAACTCACCC
1 TCCCTGGACCTTCTCCAAGAACCCTTTAGAGAGCAAGAACAAGAGCTTTCTGTTCAAACTCACCC
1830675 GTACTTTTCAGGACTTGCCTGCCATGCCATGTATCAGTCGCCATTGGAGGAGGAAACCAAGGATA
66 GTACTTTTCAGGACTTGCCTGCCATGCCATGTATCAGTCGCCATTGGAGGAGGAAACCAAGGATA
1830740 CCCAACTTCCAGACTGTGATTCCCAGATTCC
131 CCCAACTTCCAGACTGTGATTCCCAGATTCC
1830771 TC
1 TC
1830773 AAATGGGAGA
Statistics
Matches: 162, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 162 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (161 bp):
TCCCTGGACCTTCTCCAAGAACCCTTTAGAGAGCAAGAACAAGAGCTTTCTGTTCAAACTCACCC
GTACTTTTCAGGACTTGCCTGCCATGCCATGTATCAGTCGCCATTGGAGGAGGAAACCAAGGATA
CCCAACTTCCAGACTGTGATTCCCAGATTCC
Found at i:1836177 original size:81 final size:81
Alignment explanation
Indices: 1836042--1836200 Score: 255
Period size: 81 Copynumber: 2.0 Consensus size: 81
1836032 TCATCCTCAG
* * *
1836042 CTGCACCAACAGGACCTTCACAGCAGCTACCGCAACCATATATAATGTCGCCATCGCCTTTCTAT
1 CTGCACCAACAGGACCTTCACAGCAACTACCACAACCATATATAATGTCGCCATCGCCTTTCCAT
1836107 TACCAGATGCCACCAC
66 TACCAGATGCCACCAC
* * * *
1836123 CTGCACCAGCAGGACCTTCACAGCAACTATCACAACCATATATGATGTCGCCATCTCCTTTCCAT
1 CTGCACCAACAGGACCTTCACAGCAACTACCACAACCATATATAATGTCGCCATCGCCTTTCCAT
1836188 TACCAGATGCCAC
66 TACCAGATGCCAC
1836201 TGCCGCCTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.28, C:0.36, G:0.13, T:0.22
Consensus pattern (81 bp):
CTGCACCAACAGGACCTTCACAGCAACTACCACAACCATATATAATGTCGCCATCGCCTTTCCAT
TACCAGATGCCACCAC
Found at i:1836526 original size:3 final size:3
Alignment explanation
Indices: 1836518--1836558 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
1836508 ACCTGCTCAG
* *
1836518 GAC GAC GAC GAC GAC GAT GAC GAT GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
1836559 TGATGACAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.34, C:0.27, G:0.34, T:0.05
Consensus pattern (3 bp):
GAC
Found at i:1838552 original size:253 final size:255
Alignment explanation
Indices: 1838104--1838611 Score: 970
Period size: 253 Copynumber: 2.0 Consensus size: 255
1838094 TCCCTTGTGA
1838104 TAACATGTGCACGTAAATTTTGGAGGAAAAAAGCCCAAGAATTTGTATCTTCTCCTTCGAAAAGA
1 TAACATGTGCACGTAAATTTTGGAGGAAAAAAGCCCAAGAATTTGTATCTTCTCCTTCGAAAAGA
1838169 GCAAAAGCAACTGGAAGAATGTTGCGATTTTCCATCTTGGACAACTGCCAATAATAAAACTTGCT
66 GCAAAAGCAACTGGAAGAATGTTGCGATTTTCCATCTTGGACAACTGCCAATAATAAAACTTGCT
1838234 TGTATTTTCCATACAAAAGTCTCGTCGATCTGGACCACAGGCTTGCAGTATTTGACAAACATTAA
131 TGTATTTTCCATACAAAAGTCTCGTCGATCTGGACCACAGGCTTGCAGTATTTGACAAACATTAA
1838299 CACACTGT-GGTAAGTCTAAAAAATACGGTAGAATTGGCATCGATCGCGG-GAACTCGAT
196 CACACTGTGGGTAAGTCTAAAAAATACGGTAGAATTGGCATCGATCGCGGAGAACTCGAT
1838357 TAACATGTGCACGTAAATTTTGGAGGAAAAAAGCCCAAGAATTTGTATCTTCTCCTTCGAAAAGA
1 TAACATGTGCACGTAAATTTTGGAGGAAAAAAGCCCAAGAATTTGTATCTTCTCCTTCGAAAAGA
1838422 GCAAAAGCAACTGGAAGAATGTTGCGA-TTTCCATCTTGGACAACTGCCAATAATAAAACTTGCT
66 GCAAAAGCAACTGGAAGAATGTTGCGATTTTCCATCTTGGACAACTGCCAATAATAAAACTTGCT
1838486 TGTATTTTCCATACAAGAAAGTCTCGTCGATCTGGACCACAGGCTTGCAGTATTTGAC-AACATT
131 TGTATTTTCCATAC-A-AAAGTCTCGTCGATCTGGACCACAGGCTTGCAGTATTTGACAAACATT
1838550 AACACACTGTGGGTAAGTCTAAAAAATACGGTAGAATTGGCATCGATCGCGGAGAACTCGAT
194 AACACACTGTGGGTAAGTCTAAAAAATACGGTAGAATTGGCATCGATCGCGGAGAACTCGAT
1838612 CATTATGGTA
Statistics
Matches: 251, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
252 51 0.20
253 109 0.43
254 82 0.33
255 9 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (255 bp):
TAACATGTGCACGTAAATTTTGGAGGAAAAAAGCCCAAGAATTTGTATCTTCTCCTTCGAAAAGA
GCAAAAGCAACTGGAAGAATGTTGCGATTTTCCATCTTGGACAACTGCCAATAATAAAACTTGCT
TGTATTTTCCATACAAAAGTCTCGTCGATCTGGACCACAGGCTTGCAGTATTTGACAAACATTAA
CACACTGTGGGTAAGTCTAAAAAATACGGTAGAATTGGCATCGATCGCGGAGAACTCGAT
Found at i:1843357 original size:110 final size:107
Alignment explanation
Indices: 1843234--1843447 Score: 374
Period size: 110 Copynumber: 2.0 Consensus size: 107
1843224 TGACACTATA
*
1843234 GGAATGCTCGGCGTCTTCAAGCAATTGGACTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAG
1 GGAATGCTCGGCGTCTTCAAGCAATTGGACTGCGGGATATCTCGGCGTCTTCTGCATG---CAAG
1843299 GAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTGATG
63 GAATGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTGATG
*
1843344 GGAATGCTCGGCGTCTTCAAGCAATTGGACTGCGGGATCTCTCGGCGTCTTCTGCATGCAAGGAA
1 GGAATGCTCGGCGTCTTCAAGCAATTGGACTGCGGGATATCTCGGCGTCTTCTGCATGCAAGGAA
*
1843409 TGCCAATGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
66 TGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTG
1843448 GCGGGAATCT
Statistics
Matches: 101, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
107 45 0.45
110 56 0.55
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (107 bp):
GGAATGCTCGGCGTCTTCAAGCAATTGGACTGCGGGATATCTCGGCGTCTTCTGCATGCAAGGAA
TGCCAAGGTGGATCTCTCGGCGTCTTCACCTGTCGTCTGATG
Found at i:1843743 original size:18 final size:18
Alignment explanation
Indices: 1843716--1843780 Score: 121
Period size: 18 Copynumber: 3.6 Consensus size: 18
1843706 CTTTGTGGCC
*
1843716 GAAGCTTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
1843734 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
1843752 GAAGCGTGAGATTCGTCT
1 GAAGCGTGAGATTCGTCT
1843770 GAAGCGTGAGA
1 GAAGCGTGAGA
1843781 CTAATAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (18 bp):
GAAGCGTGAGATTCGTCT
Found at i:1847035 original size:38 final size:38
Alignment explanation
Indices: 1846984--1847058 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
1846974 CAAAAAGAAA
1846984 TTGTCCAACCTTCCACAGTATAGA-CTCAGCAGTAATC
1 TTGTCCAACCTTCCACAGTATAGACCTCAGCAGTAATC
1847021 TTGTCCAAACCTTCCACAGTATAGACCTCAGCAGTAAT
1 TTGTCC-AACCTTCCACAGTATAGACCTCAGCAGTAAT
1847059 ATTATTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 6 0.17
38 18 0.50
39 12 0.33
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (38 bp):
TTGTCCAACCTTCCACAGTATAGACCTCAGCAGTAATC
Found at i:1847126 original size:14 final size:14
Alignment explanation
Indices: 1847107--1847199 Score: 84
Period size: 14 Copynumber: 6.6 Consensus size: 14
1847097 CTCGAGTACA
1847107 TATTTAATAATAAT
1 TATTTAATAATAAT
*
1847121 TATTTAA-ATTTAAT
1 TATTTAATA-ATAAT
*
1847135 TATTTAACT-TTAAT
1 TATTTAA-TAATAAT
*
1847149 GATTTAATAATAAT
1 TATTTAATAATAAT
*
1847163 TATTTAACT-TTAAT
1 TATTTAA-TAATAAT
*
1847177 GATTTAATAATAAT
1 TATTTAATAATAAT
1847191 TACTTTAAT
1 TA-TTTAAT
1847200 GATTTAACTT
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
13 3 0.05
14 54 0.84
15 7 0.11
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (14 bp):
TATTTAATAATAAT
Done.