Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001840.1 Hibiscus syriacus cultivar Beakdansim tig00003725_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: 2412736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:1876626 original size:21 final size:21
Alignment explanation
Indices: 1876602--1876641 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1876592 TAATTGACTT
*
1876602 ACACAGTAAATATTCCATTTC
1 ACACAGTAAAGATTCCATTTC
1876623 ACACAGTAAAGATTCCATT
1 ACACAGTAAAGATTCCATT
1876642 CTGATAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (21 bp):
ACACAGTAAAGATTCCATTTC
Found at i:1877426 original size:100 final size:100
Alignment explanation
Indices: 1877253--1878150 Score: 1081
Period size: 100 Copynumber: 9.1 Consensus size: 100
1877243 TCTTGCATGA
* * * * **
1877253 CAGTTAAAATAAAATAGGTGCAACTTGTTACGTTAAATTAGCTACCGGTTTGTTTAAAGACATAA
1 CAGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCGATTTGTTTAAAGGTATAA
* *
1877318 TAATAATGTAAACGGTCAAATATTTACAACTTAAC
66 TAATAATGTAAACGATAAAATATTTACAACTTAAC
*
1877353 CAGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCGATTTGTTTAAAAGTATAA
1 CAGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCGATTTGTTTAAAGGTATAA
*
1877418 TAGTAATGTAAACGATAAAATATTTACAACTTAAC
66 TAATAATGTAAACGATAAAATATTTACAACTTAAC
* * ** * *
1877453 AATTTAAAAT-AAATAGACGCAACTTATTACATTAAACTAGCTA-C-ATATTGTTTAAAGGTATA
1 CAGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCGAT-TTGTTTAAAGGTATA
* *
1877515 ATAATAATATAAATGATAAAATATTTACAACTTAAC
65 ATAATAATGTAAACGATAAAATATTTACAACTTAAC
* * *
1877551 C-GATTAAAATAAAATAGGTGCAACTTATTATGTTAAACTAGCTA-CAAGTTTGTTTAAAGGTAT
1 CAG-TTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCGA-TTTGTTTAAAGGTAT
* *
1877614 AATAATAATGTAAACGGTAAAATATTTACACCTTAAC
64 AATAATAATGTAAACGATAAAATATTTACAACTTAAC
** * * * * * * *
1877651 TGGTTAAAAT-AAATTGTTGCAA-CTATTACATTAAACTAGTTACCTACTTGTTGAAAGGTATAA
1 CAGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCGATTTGTTTAAAGGTATAA
1877714 TAATAATGTAAACGATAAAATATTTACAACTTAAC
66 TAATAATGTAAACGATAAAATATTTACAACTTAAC
*
1877749 C-GATTAAAATAAAATAGGAGCAA-CTGATTACGTTAAACTAGCTACCTG-TTTGTTTAAAGGTA
1 CAG-TTAAAATAAAATAGGTGCAACCT-ATTACGTTAAACTAGCTACC-GATTTGTTTAAAGGTA
* * *
1877811 TAGTAATAATAG-AAACGGTAAAATATTTACAACTTAAT
63 TAATAATAAT-GTAAACGATAAAATATTTACAACTTAAC
* * * * * *
1877849 CGGTTAAAATAAAATATGTTCAATCTATTATGTTAAACTAGCTACATG-TTTGTTTAAAGGTATA
1 CAGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTAC-CGATTTGTTTAAAGGTATA
1877913 ATAATAATGTAAACGATAAAATATTTACAACTTAAC
65 ATAATAATGTAAACGATAAAATATTTACAACTTAAC
** * * * *
1877949 TGGTTAAAATAAAATATGTGCAACCTATTACGTTAAACTAGTTACCTACTTGTTTAAAGGTATAA
1 CAGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCGATTTGTTTAAAGGTATAA
* * *
1878014 TATTAATGT--ACGATAAAATATTTTCAACATAAC
66 TAATAATGTAAACGATAAAATATTTACAACTTAAC
* * * * * *
1878047 CGGTTAAAATAAAATAGGCGCAATCTATTACATTAAACTTGCTATCGATTTGTTTATAA-GTATA
1 CAGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCGATTTGTTTA-AAGGTATA
*
1878111 ATAATAATGTAAACGGTAAAATATTTACAACTTAA-
65 ATAATAATGTAAACGATAAAATATTTACAACTTAAC
1878146 CAGTT
1 CAGTT
1878151 TGAAATATTT
Statistics
Matches: 690, Mismatches: 88, Indels: 41
0.84 0.11 0.05
Matches are distributed among these distances:
97 3 0.00
98 208 0.30
99 89 0.13
100 384 0.56
101 6 0.01
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (100 bp):
CAGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCGATTTGTTTAAAGGTATAA
TAATAATGTAAACGATAAAATATTTACAACTTAAC
Found at i:1877640 original size:198 final size:196
Alignment explanation
Indices: 1877255--1878146 Score: 1079
Period size: 198 Copynumber: 4.5 Consensus size: 196
1877245 TTGCATGACA
* * * * **
1877255 GTTAAAATAAAATAGGTGCAACTTGTTACGTTAAATTAGCTACCGGTTTGTTTAAAGACATAATA
1 GTTAAAATAAAATAGGTGCAACTTATTACATTAAACTAGCTA-C-ATTTGTTTAAAGGTATAATA
* *
1877320 ATAATGTAAACGGTCAAATATTTACAACTTAACC-AGTTAAAATAAAATAGGTGCAACCTATTAC
64 ATAATGTAAACGATAAAATATTTACAACTTAACCGA-TTAAAATAAAATAGGTGCAACCTATTAC
* * *
1877384 GTTAAACTAGCTACCGATTTGTTTAAAAGTATAATAGTAATGTAAACGATAAAATATTTACAACT
128 GTTAAACTAGCTACAG-TTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATATTTACAACT
*
1877449 TAACAA
192 TAAC-G
* **
1877455 TTTAAAAT-AAATAGACGCAACTTATTACATTAAACTAGCTACATATTGTTTAAAGGTATAATAA
1 GTTAAAATAAAATAGGTGCAACTTATTACATTAAACTAGCTACAT-TTGTTTAAAGGTATAATAA
* * * *
1877519 TAATATAAATGATAAAATATTTACAACTTAACCGATTAAAATAAAATAGGTGCAACTTATTATGT
65 TAATGTAAACGATAAAATATTTACAACTTAACCGATTAAAATAAAATAGGTGCAACCTATTACGT
* *
1877584 TAAACTAGCTACAAGTTTGTTTAAAGGTATAATAATAATGTAAACGGTAAAATATTTACACCTTA
130 TAAACTAGCTAC-AGTTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATATTTACAACTTA
1877649 ACTG
194 AC-G
* * * * *
1877653 GTTAAAAT-AAATTGTTGCAAC-TATTACATTAAACTAGTTACCTACTTGTTGAAAGGTATAATA
1 GTTAAAATAAAATAGGTGCAACTTATTACATTAAACTAGCTA-C-ATTTGTTTAAAGGTATAATA
*
1877716 ATAATGTAAACGATAAAATATTTACAACTTAACCGATTAAAATAAAATAGGAGCAA-CTGATTAC
64 ATAATGTAAACGATAAAATATTTACAACTTAACCGATTAAAATAAAATAGGTGCAACCT-ATTAC
* * *
1877780 GTTAAACTAGCTACCTGTTTGTTTAAAGGTATAGTAATAATAG-AAACGGTAAAATATTTACAAC
128 GTTAAACTAGCTA-CAGTTTGTTTAAAGGTATAATAATAAT-GTAAACGATAAAATATTTACAAC
1877844 TTAATCG
191 TTAA-CG
* * **
1877851 GTTAAAATAAAATATGTTCAA-TCTATTATGTTAAACTAGCTACATGTTTGTTTAAAGGTATAAT
1 GTTAAAATAAAATAGGTGCAACT-TATTACATTAAACTAGCTACA--TTTGTTTAAAGGTATAAT
* * *
1877915 AATAATGTAAACGATAAAATATTTACAACTTAACTGGTTAAAATAAAATATGTGCAACCTATTAC
63 AATAATGTAAACGATAAAATATTTACAACTTAACCGATTAAAATAAAATAGGTGCAACCTATTAC
* * * *
1877980 GTTAAACTAGTTACCTA-CTTGTTTAAAGGTATAATATTAATGT--ACGATAAAATATTTTCAAC
128 GTTAAACTAGCTA-C-AGTTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATATTTACAAC
*
1878042 ATAACCG
191 TTAA-CG
* *
1878049 GTTAAAATAAAATAGGCGCAA-TCTATTACATTAAACTTGCTATCGATTTGTTTATAA-GTATAA
1 GTTAAAATAAAATAGGTGCAACT-TATTACATTAAACTAGCTA-C-ATTTGTTTA-AAGGTATAA
*
1878112 TAATAATGTAAACGGTAAAATATTTACAACTTAAC
62 TAATAATGTAAACGATAAAATATTTACAACTTAAC
1878147 AGTTTGAAAT
Statistics
Matches: 606, Mismatches: 66, Indels: 42
0.85 0.09 0.06
Matches are distributed among these distances:
197 20 0.03
198 404 0.67
199 47 0.08
200 133 0.22
201 2 0.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (196 bp):
GTTAAAATAAAATAGGTGCAACTTATTACATTAAACTAGCTACATTTGTTTAAAGGTATAATAAT
AATGTAAACGATAAAATATTTACAACTTAACCGATTAAAATAAAATAGGTGCAACCTATTACGTT
AAACTAGCTACAGTTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATATTTACAACTTAAC
G
Found at i:1877804 original size:298 final size:298
Alignment explanation
Indices: 1877256--1878146 Score: 1237
Period size: 298 Copynumber: 3.0 Consensus size: 298
1877246 TGCATGACAG
* * * ** **
1877256 TTAAAATAAAATAGGTGCAACTTGTTACGTTAAATTAGCTACCGGTTTGTTTAAAGACATAATAA
1 TTAAAATAAAATAGGTGCAACTTATTATGTTAAACTAGCTACAAGTTTGTTTAAAGGTATAATAA
* ** *
1877321 TAATGTAAACGGTCAAATATTTACAACTTAACCAGTTAAAATAAAATAGGTGCAACCTATTACGT
66 TAATGTAAACGGTAAAATATTTACAACTTAACTGGTTAAAATAAAAT-TGTGCAACCTATTACGT
* * * * *
1877386 TAAACTAGCTACCGATTTGTTTAAAAGTATAATAGTAATGTAAACGATAAAATATTTACAACTTA
130 TAAACTAGTTACCTACTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATATTTACAACTTA
* * *
1877451 A-CAATTTAAAAT-AAATA-GACGCAACTTATTACATTAAACTAGCTACAT-ATTGTTTAAAGGT
195 ACCGA-TTAAAATAAAATAGGA-GCAAC-TATTACATTAAACTAGCTACCTGTTTGTTTAAAGGT
* *
1877512 ATAATAATAATATAAATGATAAAATATTTACAACTTAACCGA
257 ATAATAATAATATAAACGGTAAAATATTTACAACTTAACCGA
1877554 TTAAAATAAAATAGGTGCAACTTATTATGTTAAACTAGCTACAAGTTTGTTTAAAGGTATAATAA
1 TTAAAATAAAATAGGTGCAACTTATTATGTTAAACTAGCTACAAGTTTGTTTAAAGGTATAATAA
* *
1877619 TAATGTAAACGGTAAAATATTTACACCTTAACTGGTTAAAAT-AAATTGTTGCAA-CTATTACAT
66 TAATGTAAACGGTAAAATATTTACAACTTAACTGGTTAAAATAAAATTG-TGCAACCTATTACGT
*
1877682 TAAACTAGTTACCTACTTGTTGAAAGGTATAATAATAATGTAAACGATAAAATATTTACAACTTA
130 TAAACTAGTTACCTACTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATATTTACAACTTA
*
1877747 ACCGATTAAAATAAAATAGGAGCAACTGATTACGTTAAACTAGCTACCTGTTTGTTTAAAGGTAT
195 ACCGATTAAAATAAAATAGGAGCAACT-ATTACATTAAACTAGCTACCTGTTTGTTTAAAGGTAT
* * * *
1877812 AGTAATAATAGAAACGGTAAAATATTTACAACTTAATCGG
259 AATAATAATATAAACGGTAAAATATTTACAACTTAACCGA
* * *
1877852 TTAAAATAAAATATGTTCAA-TCTATTATGTTAAACTAGCTACATGTTTGTTTAAAGGTATAATA
1 TTAAAATAAAATAGGTGCAACT-TATTATGTTAAACTAGCTACAAGTTTGTTTAAAGGTATAATA
*
1877916 ATAATGTAAACGATAAAATATTTACAACTTAACTGGTTAAAATAAAATATGTGCAACCTATTACG
65 ATAATGTAAACGGTAAAATATTTACAACTTAACTGGTTAAAATAAAAT-TGTGCAACCTATTACG
* * *
1877981 TTAAACTAGTTACCTACTTGTTTAAAGGTATAATATTAATGT--ACGATAAAATATTTTCAACAT
129 TTAAACTAGTTACCTACTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATATTTACAACTT
* * * *
1878044 AACCGGTTAAAATAAAATAGGCGCAATCTATTACATTAAACTTGCTATC-GATTTGTTTATAA-G
194 AACCGATTAAAATAAAATAGGAGCAA-CTATTACATTAAACTAGCTACCTG-TTTGTTTA-AAGG
*
1878107 TATAATAATAATGTAAACGGTAAAATATTTACAACTTAAC
256 TATAATAATAATATAAACGGTAAAATATTTACAACTTAAC
1878147 AGTTTGAAAT
Statistics
Matches: 532, Mismatches: 48, Indels: 26
0.88 0.08 0.04
Matches are distributed among these distances:
296 77 0.14
297 42 0.08
298 351 0.66
299 13 0.02
300 49 0.09
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (298 bp):
TTAAAATAAAATAGGTGCAACTTATTATGTTAAACTAGCTACAAGTTTGTTTAAAGGTATAATAA
TAATGTAAACGGTAAAATATTTACAACTTAACTGGTTAAAATAAAATTGTGCAACCTATTACGTT
AAACTAGTTACCTACTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATATTTACAACTTAA
CCGATTAAAATAAAATAGGAGCAACTATTACATTAAACTAGCTACCTGTTTGTTTAAAGGTATAA
TAATAATATAAACGGTAAAATATTTACAACTTAACCGA
Found at i:1879088 original size:107 final size:107
Alignment explanation
Indices: 1878864--1879236 Score: 479
Period size: 107 Copynumber: 3.5 Consensus size: 107
1878854 ATTATTGGGA
* * * * *
1878864 GCAACCTAATATGTTAATATTTATTTATAA-AAAATAAGTATTTAACTTATTTTGTTGTCGT-AT
1 GCAACCTAATATGTTGATA-ATATTAATAACAAAATAAGTAATTAACTTATTTTGTTATCGTGA-
* *
1878927 GATTTCTAAGGCTCTATCAGCTTAAATTTTAGTAGCATTTTAGGT
64 GATTTCTAAGGCTC-ATCAGCTTAAACTTTAGTAGCTTTTTAGGT
* * *
1878972 GCAACCTAATATGTTGATAATATTTATAACAAAATATGTAATTAACATATTTTGTTATCGTGAGA
1 GCAACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACTTATTTTGTTATCGTGAGA
* *
1879037 TTTCTAAGGCTCGTCAGCTTAAACTTTGGTAGCTTTTTAGGT
66 TTTCTAAGGCTCATCAGCTTAAACTTTAGTAGCTTTTTAGGT
*
1879079 GCAACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAAC-TATTTTGTTATTGTCG-G
1 GCAACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACTTATTTTGTTATCGT-GAG
* * * * *
1879142 ATTTCTAAGGCCCCATCAACTTAAACTTTCA-TA-ATTATTAGGA
65 ATTTCTAAGG-CTCATCAGCTTAAACTTT-AGTAGCTTTTTAGGT
*
1879185 GCAACCTAATATTTTGATAATATTAATAACAAAATAAGTAATTAACTTATTT
1 GCAACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACTTATTT
1879237 CTTACCGTTT
Statistics
Matches: 238, Mismatches: 21, Indels: 13
0.88 0.08 0.05
Matches are distributed among these distances:
106 76 0.32
107 102 0.43
108 59 0.25
109 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (107 bp):
GCAACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACTTATTTTGTTATCGTGAGA
TTTCTAAGGCTCATCAGCTTAAACTTTAGTAGCTTTTTAGGT
Found at i:1880939 original size:23 final size:22
Alignment explanation
Indices: 1880902--1880987 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 22
1880892 CTTCCATAAA
1880902 CATTTTATTCTTCTTCTATAAACT
1 CATTTT-TTCTTCTTC-ATAAACT
*
1880926 CGTTTTTTCTTCTTACATAAACT
1 CATTTTTTCTTCTT-CATAAACT
*
1880949 CATTTATTCTTCTTCCATAAA-T
1 CATTTTTTCTTCTT-CATAAACT
* *
1880971 CCATTTTTCCTTTTTCA
1 -CATTTTTTCTTCTTCA
1880988 ATTCGTCTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
22 3 0.06
23 44 0.83
24 6 0.11
ACGTcount: A:0.22, C:0.23, G:0.01, T:0.53
Consensus pattern (22 bp):
CATTTTTTCTTCTTCATAAACT
Found at i:1883871 original size:28 final size:28
Alignment explanation
Indices: 1883831--1883892 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
1883821 CGTGCCAATG
1883831 TTTATTGATAAATTCAGTTACCCGCATA
1 TTTATTGATAAATTCAGTTACCCGCATA
1883859 TTTATTGATAAATTCAGTTACCCGCATA
1 TTTATTGATAAATTCAGTTACCCGCATA
1883887 TTTATT
1 TTTATT
1883893 TTCTCTTTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.44
Consensus pattern (28 bp):
TTTATTGATAAATTCAGTTACCCGCATA
Found at i:1892668 original size:13 final size:13
Alignment explanation
Indices: 1892650--1892676 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1892640 ACTGAAAATA
1892650 ACGATTCACGATG
1 ACGATTCACGATG
1892663 ACGATTCACGATG
1 ACGATTCACGATG
1892676 A
1 A
1892677 AAGGTTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (13 bp):
ACGATTCACGATG
Found at i:1906096 original size:90 final size:90
Alignment explanation
Indices: 1905964--1906134 Score: 238
Period size: 90 Copynumber: 1.9 Consensus size: 90
1905954 TTTGCTCTGG
*
1905964 GTTTCGATACTTACTATTTCAATCCAAAATGTTACCAATATATATAACATTTTAGGTTGGATTGG
1 GTTTCGATACTTACTATTTCAATCCAAAATGTTACCAATATATATAACATTTTAGGTTGGATTGA
*
1906029 TAAGTATCGAAACTTATTCTTTGAT
66 TAAGTATCAAAACTTATTCTTTGAT
* * * * *
1906054 GTTT-GATACTTA-TCATTTCTAATCTAAAATGTTACTATTATATATAACATTTTAGGTTTGCTT
1 GTTTCGATACTTACT-ATTTC-AATCCAAAATGTTACCAATATATATAACATTTTAGGTTGGATT
*
1906117 GATAAGTATTAAAACTTA
64 GATAAGTATCAAAACTTA
1906135 ACGTCAATGT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
88 1 0.01
89 13 0.18
90 57 0.80
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (90 bp):
GTTTCGATACTTACTATTTCAATCCAAAATGTTACCAATATATATAACATTTTAGGTTGGATTGA
TAAGTATCAAAACTTATTCTTTGAT
Found at i:1908492 original size:13 final size:13
Alignment explanation
Indices: 1908474--1908502 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1908464 CAAAAACACT
1908474 CACAACTCAATTA
1 CACAACTCAATTA
1908487 CACAACTCAATTA
1 CACAACTCAATTA
1908500 CAC
1 CAC
1908503 CCTGAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (13 bp):
CACAACTCAATTA
Found at i:1913571 original size:126 final size:126
Alignment explanation
Indices: 1913336--1913580 Score: 474
Period size: 126 Copynumber: 1.9 Consensus size: 126
1913326 GACAAATTCG
1913336 TATCGCCGACCAAATTTTACTATTTACAAAATTCACTATTCACATGAATAGTAACCTCACAGAAA
1 TATCGCCGACCAAATTTTACTATTTACAAAATTCACTATTCACATGAATAGTAACCTCACAGAAA
1913401 AAACTGACAAAATTTACCATCAAAAGCTCTGATACTGTTAAGGAAATTAAACCAATTTCCC
66 AAACTGACAAAATTTACCATCAAAAGCTCTGATACTGTTAAGGAAATTAAACCAATTTCCC
1913462 TATCGCCGACCAAATTTTACTATTTACAAAATTCACTATTCACATGAATAGTAACCTCACAGAAA
1 TATCGCCGACCAAATTTTACTATTTACAAAATTCACTATTCACATGAATAGTAACCTCACAGAAA
1913527 AAACTGACAAAATTTACCATCAAAAGCTCTGATATCTGTT-AGGAAATTAAACCA
66 AAACTGACAAAATTTACCATCAAAAGCTCTGATA-CTGTTAAGGAAATTAAACCA
1913581 GTAATTTCCC
Statistics
Matches: 118, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
126 113 0.96
127 5 0.04
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (126 bp):
TATCGCCGACCAAATTTTACTATTTACAAAATTCACTATTCACATGAATAGTAACCTCACAGAAA
AAACTGACAAAATTTACCATCAAAAGCTCTGATACTGTTAAGGAAATTAAACCAATTTCCC
Found at i:1919350 original size:17 final size:17
Alignment explanation
Indices: 1919325--1919364 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1919315 GTATGGTGTT
*
1919325 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
1919342 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
1919359 CATTTA
1 CATTTA
1919365 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:1919391 original size:17 final size:17
Alignment explanation
Indices: 1919371--1919429 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1919361 TTTAGGGAAG
1919371 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
1919388 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
1919404 TACTTCATTCATGCATT
1 TAGTTCATTTATGCATC
1919421 TAGTTCATT
1 TAGTTCATT
1919430 GAATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:1919443 original size:18 final size:18
Alignment explanation
Indices: 1919420--1919465 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1919410 ATTCATGCAT
1919420 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
1919438 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
1919456 TTATTTCATT
1 TTAGTTCATT
1919466 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:1920486 original size:17 final size:17
Alignment explanation
Indices: 1920461--1920500 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1920451 GTATGGTGTT
*
1920461 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
1920478 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
1920495 CATTTA
1 CATTTA
1920501 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:1920527 original size:17 final size:17
Alignment explanation
Indices: 1920507--1920565 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1920497 TTTAGGGAAG
1920507 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
1920524 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
1920540 TACTTCATTCATGCATT
1 TAGTTCATTTATGCATC
1920557 TAGTTCATT
1 TAGTTCATT
1920566 GAATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:1920579 original size:18 final size:18
Alignment explanation
Indices: 1920556--1920601 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1920546 ATTCATGCAT
1920556 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
1920574 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
1920592 TTATTTCATT
1 TTAGTTCATT
1920602 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:1923036 original size:19 final size:19
Alignment explanation
Indices: 1923007--1923063 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
1922997 AAAAAGAAGA
*
1923007 AGAAATGAGAGTTGAAAA-
1 AGAATTGAGAGTTGAAAAG
1923025 AGACATTGAGAGCATTGAAAAG
1 AGA-ATTGAGAG--TTGAAAAG
1923047 AGAATTGAGAG-TGAAAA
1 AGAATTGAGAGTTGAAAA
1923064 TGAGTACACT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 9 0.26
19 7 0.21
21 15 0.44
22 3 0.09
ACGTcount: A:0.51, C:0.04, G:0.28, T:0.18
Consensus pattern (19 bp):
AGAATTGAGAGTTGAAAAG
Found at i:1924582 original size:18 final size:18
Alignment explanation
Indices: 1924540--1924585 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1924530 TAGTTTGATT
*
1924540 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
1924558 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
1924576 AATGAACTAA
1 AATGAACTAA
1924586 ATGCATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:1924661 original size:17 final size:17
Alignment explanation
Indices: 1924641--1924692 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
1924631 ACTACTTCCC
1924641 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
1924658 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
* *
1924675 TTAATGAAA-ACATACT
1 TAAATGAAATACATGCT
1924691 TA
1 TA
1924693 TTAAATGCAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:1930520 original size:21 final size:21
Alignment explanation
Indices: 1930494--1930533 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1930484 GAAATAAGAG
1930494 TTGAAAA-AGACATTGAGAGCA
1 TTGAAAAGAGA-ATTGAGAGCA
1930515 TTGAAAAGAGAATTGAGAG
1 TTGAAAAGAGAATTGAGAG
1930534 TGAAAATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.47, C:0.05, G:0.28, T:0.20
Consensus pattern (21 bp):
TTGAAAAGAGAATTGAGAGCA
Found at i:1931554 original size:17 final size:17
Alignment explanation
Indices: 1931529--1931568 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1931519 GTATGGTGTT
*
1931529 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
1931546 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
1931563 CATTTA
1 CATTTA
1931569 GGGAAATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:1931595 original size:17 final size:17
Alignment explanation
Indices: 1931575--1931633 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1931565 TTTAGGGAAA
1931575 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
1931592 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
1931608 TACTTCATTCATGCATT
1 TAGTTCATTTATGCATC
1931625 TAGTTCATT
1 TAGTTCATT
1931634 GAATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:1934590 original size:18 final size:18
Alignment explanation
Indices: 1934567--1934611 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
1934557 TAGTTTGATT
1934567 AATGAACTAACATTATTC
1 AATGAACTAACATTATTC
*
1934585 AATGAACTAACCTTATTC
1 AATGAACTAACATTATTC
1934603 AATGAACTA
1 AATGAACTA
1934612 GATAAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:1949269 original size:22 final size:22
Alignment explanation
Indices: 1949244--1949296 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
1949234 ATCTTAATCA
* *
1949244 TTTCTTTTCTTTCTTCTTCCT-T
1 TTTCTTTTCTTTCCT-TTACTAT
*
1949266 TTTCATTTTTTTTCCTTTACTAT
1 TTTC-TTTTCTTTCCTTTACTAT
1949289 TTTCTTTT
1 TTTCTTTT
1949297 TGTTGTCAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTCTTTTCTTTCCTTTACTAT
Found at i:1949455 original size:16 final size:16
Alignment explanation
Indices: 1949436--1949473 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1949426 AATTTAAATA
1949436 TAAAATGATCAT-AACT
1 TAAAATGAT-ATAAACT
1949452 TAAAATGATATAAACT
1 TAAAATGATATAAACT
1949468 TAAAAT
1 TAAAAT
1949474 AAAAAATGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (16 bp):
TAAAATGATATAAACT
Found at i:1954589 original size:21 final size:20
Alignment explanation
Indices: 1954562--1954620 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
1954552 GAAATTTTTC
*
1954562 CCGAAGGACCTCATGTATGT
1 CCGAAGGACCTCATATATGT
*
1954582 CTCGAAGGACCTCTTATATGT
1 C-CGAAGGACCTCATATATGT
1954603 CCTGAAGGACCTCATATA
1 CC-GAAGGACCTCATATA
1954621 ATCTCTCGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (20 bp):
CCGAAGGACCTCATATATGT
Found at i:1961881 original size:30 final size:30
Alignment explanation
Indices: 1961845--1961948 Score: 106
Period size: 30 Copynumber: 3.5 Consensus size: 30
1961835 AGGGCTGGAA
* *
1961845 ACCGGTTTGATCGGTTTTCAATCGGTTCTG
1 ACCGGTTTGAACGGTTTTCAACCGGTTCTG
* *
1961875 ACCGGTTTGACCGG-TTTCGACCGGTTCTG
1 ACCGGTTTGAACGGTTTTCAACCGGTTCTG
* *
1961904 ACCGGTTTGGAACGG-TTTCGACTGGTTC-G
1 ACCGGTTT-GAACGGTTTTCAACCGGTTCTG
*
1961933 AACCGGTTTGACCGGT
1 -ACCGGTTTGAACGGT
1961949 ATGAACCGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
29 27 0.42
30 38 0.58
ACGTcount: A:0.13, C:0.23, G:0.31, T:0.33
Consensus pattern (30 bp):
ACCGGTTTGAACGGTTTTCAACCGGTTCTG
Found at i:1961896 original size:10 final size:10
Alignment explanation
Indices: 1961874--1961948 Score: 77
Period size: 10 Copynumber: 7.7 Consensus size: 10
1961864 AATCGGTTCT
1961874 GACCGGTTT-
1 GACCGGTTTC
1961883 GACCGGTTTC
1 GACCGGTTTC
1961893 GACCGG-TTC
1 GACCGGTTTC
*
1961902 TGACCGGTTTG
1 -GACCGGTTTC
*
1961913 GAACGGTTTC
1 GACCGGTTTC
*
1961923 GACTGG-TTC
1 GACCGGTTTC
1961932 GAACCGGTTT-
1 G-ACCGGTTTC
1961942 GACCGGT
1 GACCGGT
1961949 ATGAACCGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
9 22 0.40
10 29 0.53
11 4 0.07
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.29
Consensus pattern (10 bp):
GACCGGTTTC
Found at i:1961907 original size:20 final size:19
Alignment explanation
Indices: 1961874--1961967 Score: 93
Period size: 19 Copynumber: 4.8 Consensus size: 19
1961864 AATCGGTTCT
1961874 GACCGGTTTGACCGGTTTC
1 GACCGGTTTGACCGGTTTC
*
1961893 GACCGGTTCTGACCGGTTTG
1 GACCGGTT-TGACCGGTTTC
* *
1961913 GAACGGTTTCGACTGG-TTC
1 GACCGGTTT-GACCGGTTTC
*
1961932 GAACCGGTTTGACCGGTAT-
1 G-ACCGGTTTGACCGGTTTC
*
1961951 GAACCGGTTTGATCGGT
1 G-ACCGGTTTGACCGGT
1961968 CTGACCCGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 33 0.52
20 30 0.48
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (19 bp):
GACCGGTTTGACCGGTTTC
Found at i:1968438 original size:20 final size:21
Alignment explanation
Indices: 1968413--1968451 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1968403 GAGGGCTGGA
*
1968413 AACCGGTT-TGAGCGGTTTTT
1 AACCGGTTCTGACCGGTTTTT
1968433 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTGACCGGTTT
1968452 GACCGGTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.21, G:0.28, T:0.36
Consensus pattern (21 bp):
AACCGGTTCTGACCGGTTTTT
Found at i:1973133 original size:24 final size:24
Alignment explanation
Indices: 1973097--1973168 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
1973087 ATTTAAATTT
1973097 AAACTAATATTTAATATATTATCA-
1 AAAC-AATATTTAATATATTATCAG
** *
1973121 AAACAATATTTTAATATCACAAACAG
1 AAACAATA-TTTAATAT-ATTATCAG
1973147 AAACAATATTTAA-ATATTATCA
1 AAACAATATTTAATATATTATCA
1973169 TGTCATAAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
23 8 0.21
24 14 0.36
25 9 0.23
26 8 0.21
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (24 bp):
AAACAATATTTAATATATTATCAG
Found at i:1978771 original size:27 final size:27
Alignment explanation
Indices: 1978720--1978771 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
1978710 GTGTAACGGT
* ***
1978720 AAAAATATTAAACACCTATTTTTAATA
1 AAAAAAATTAAACACCTAAAATTAATA
1978747 AAAAAAATTAAACACCTAAAATTAA
1 AAAAAAATTAAACACCTAAAATTAA
1978772 ATTTAAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAAAAATTAAACACCTAAAATTAATA
Found at i:1990041 original size:19 final size:20
Alignment explanation
Indices: 1990014--1990055 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1990004 GAAAAATATG
1990014 AAATATTTAAAATTAT-AAT
1 AAATATTTAAAATTATAAAT
* *
1990033 AAATGTTTATAATTATAAAT
1 AAATATTTAAAATTATAAAT
1990053 AAA
1 AAA
1990056 AATTAAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AAATATTTAAAATTATAAAT
Found at i:1990226 original size:53 final size:53
Alignment explanation
Indices: 1990168--1990277 Score: 193
Period size: 53 Copynumber: 2.1 Consensus size: 53
1990158 TGATTGAACG
*
1990168 TTTATTGTCAAATGGTTGAGAGTACTTACGACAGATAATATTTTATAATTACT
1 TTTATTGTCAAATGGTTGAGAGTACTTACGACAGATAATATTTTATAATCACT
* *
1990221 TTTATTGTCAAATGGTTGAGAGTACTTACGACAGATAGTATTTTGTAATCACT
1 TTTATTGTCAAATGGTTGAGAGTACTTACGACAGATAATATTTTATAATCACT
1990274 TTTA
1 TTTA
1990278 ACTTAATATA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (53 bp):
TTTATTGTCAAATGGTTGAGAGTACTTACGACAGATAATATTTTATAATCACT
Found at i:1997835 original size:29 final size:27
Alignment explanation
Indices: 1997798--1997867 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 27
1997788 TATTTTATTT
1997798 TAAATAAATTTGAGATTTTTT-TTAAAAAAA
1 TAAA-AAATTT-A-ATTTTTTATT-AAAAAA
**
1997828 TAAAAAATTATAATTTTTTATTTTAAAA
1 TAAAAAATT-TAATTTTTTATTAAAAAA
1997856 TAAAAAATTTAA
1 TAAAAAATTTAA
1997868 AATTTTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 3 0.08
28 20 0.56
29 8 0.22
30 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
TAAAAAATTTAATTTTTTATTAAAAAA
Found at i:2001452 original size:2 final size:2
Alignment explanation
Indices: 2001445--2001541 Score: 178
Period size: 2 Copynumber: 49.0 Consensus size: 2
2001435 GTGAATTAAG
2001445 AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
2001486 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
*
2001528 AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT
2001542 GAATAAGTGG
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
1 1 0.01
2 91 0.99
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2002880 original size:21 final size:21
Alignment explanation
Indices: 2002829--2002881 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
2002819 ATTATGACTA
2002829 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
2002850 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
2002871 TCGCAATGCGA
1 TCGCAATGCGA
2002882 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:2002914 original size:21 final size:20
Alignment explanation
Indices: 2002871--2002944 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2002861 TTTTCCCAAT
2002871 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
2002891 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
* *
2002912 TCGCGATGCGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
2002932 TCGCAATGCGAAT
1 TCGCAATGCGAAT
2002945 CTTACTATCG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 30 0.64
21 17 0.36
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:2003609 original size:33 final size:33
Alignment explanation
Indices: 2003563--2003659 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 33
2003553 CAAAATCGCA
** *
2003563 TTGCGATTTTCATTTCGCGTTGTGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
*
2003596 TTGCGATAGTCATTTCGCTTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
2003629 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
2003660 ATTATCTCGT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 44 0.76
34 14 0.24
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:2003661 original size:20 final size:20
Alignment explanation
Indices: 2003627--2003684 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
2003617 GCGATTCTCT
**
2003627 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
2003647 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
2003667 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
2003685 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:2005953 original size:20 final size:20
Alignment explanation
Indices: 2005928--2005971 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
2005918 TTGGTCAATA
2005928 CTGACTATCGCAACGAGATT
1 CTGACTATCGCAACGAGATT
*
2005948 CTGACTTTCGCAACGAGATT
1 CTGACTATCGCAACGAGATT
2005968 CTGA
1 CTGA
2005972 AAATCGCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (20 bp):
CTGACTATCGCAACGAGATT
Found at i:2005978 original size:20 final size:20
Alignment explanation
Indices: 2005934--2005980 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
2005924 AATACTGACT
**
2005934 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGAAA
*
2005954 TTCGCAACGAGATTCTGAAA
1 ATCGCAACGAGATTCTGAAA
2005974 ATCGCAA
1 ATCGCAA
2005981 TCATCTTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGAAA
Found at i:2006219 original size:20 final size:20
Alignment explanation
Indices: 2006194--2006275 Score: 103
Period size: 20 Copynumber: 4.1 Consensus size: 20
2006184 CAACGGGGAA
2006194 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
2006214 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
2006234 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
2006254 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
2006274 AT
1 AT
2006276 TGCGATTTTC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
19 5 0.10
20 40 0.80
21 5 0.10
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:2007927 original size:40 final size:42
Alignment explanation
Indices: 2007883--2007973 Score: 123
Period size: 40 Copynumber: 2.2 Consensus size: 42
2007873 CCTCTTCAAC
* *
2007883 GATGACAGTGGCCTCTTGAACG-GTGG-GGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGA
* *
2007923 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGA
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGA
*
2007965 AATGACAGG
1 GATGACAGG
2007974 TGAGTCAGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 20 0.47
41 3 0.07
42 20 0.47
ACGTcount: A:0.23, C:0.15, G:0.40, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGA
Found at i:2008336 original size:20 final size:20
Alignment explanation
Indices: 2008311--2008363 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2008301 GAAGAATAGT
*
2008311 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
2008331 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
2008351 TGACTATCGCAAC
1 TTACTTTCGCAAC
2008364 GCGGAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:2008364 original size:20 final size:20
Alignment explanation
Indices: 2008317--2008403 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
2008307 TAGTTTACTT
* * * *
2008317 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
2008337 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
2008357 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
2008377 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
2008396 TCGCAACG
1 TCGCAACG
2008404 ACAAAATCAC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 13 0.23
20 43 0.77
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:2008451 original size:19 final size:19
Alignment explanation
Indices: 2008429--2008525 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 19
2008419 GAAACACAAA
2008429 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
2008448 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
2008464 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2008481 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
2008497 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2008514 TCGCATTGCGAT
1 TCGCATTGCGAT
2008526 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 12 0.19
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 23 0.37
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2008470 original size:14 final size:14
Alignment explanation
Indices: 2008451--2008509 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
2008441 TTTCATTTCG
2008451 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2008465 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
2008482 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
2008498 CGTTGCGATTTT
1 CGTTGCGATTTT
2008510 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2008476 original size:33 final size:33
Alignment explanation
Indices: 2008434--2008525 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
2008424 ACAAATCGCA
*
2008434 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
2008467 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
2008500 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
2008526 AGCCATTTCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:2008544 original size:20 final size:19
Alignment explanation
Indices: 2008510--2008564 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
2008500 TTGCGATTTT
*
2008510 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2008529 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
2008549 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
2008565 AAGTAACTAT
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:2009121 original size:18 final size:18
Alignment explanation
Indices: 2009098--2009145 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
2009088 CGGGTCGATC
2009098 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
2009116 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
2009134 AGGTGATGGCTC
1 AGGTGATGGCTC
2009146 CCAAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:2010494 original size:20 final size:20
Alignment explanation
Indices: 2010469--2010511 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
2010459 AATAGTTTCT
2010469 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
2010489 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
2010509 GAA
1 GAA
2010512 TTTGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:2010807 original size:20 final size:21
Alignment explanation
Indices: 2010782--2010831 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
2010772 CTCTGAGAGA
2010782 TGGAGAT-AGACGTATTTCGT
1 TGGAGATGAGACGTATTTCGT
*
2010802 TGGAGATGGGGACGTATTTCGT
1 TGGAGAT-GAGACGTATTTCGT
*
2010824 CGGAGATG
1 TGGAGATG
2010832 GGTGAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 1 0.04
22 18 0.69
ACGTcount: A:0.22, C:0.10, G:0.38, T:0.30
Consensus pattern (21 bp):
TGGAGATGAGACGTATTTCGT
Found at i:2010818 original size:22 final size:22
Alignment explanation
Indices: 2010790--2010833 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2010780 GATGGAGATA
*
2010790 GACGTATTTCGTTGGAGATGGG
1 GACGTATTTCGTCGGAGATGGG
2010812 GACGTATTTCGTCGGAGATGGG
1 GACGTATTTCGTCGGAGATGGG
2010834 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:0.11, G:0.41, T:0.30
Consensus pattern (22 bp):
GACGTATTTCGTCGGAGATGGG
Found at i:2011051 original size:20 final size:20
Alignment explanation
Indices: 2011026--2011090 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
2011016 GTATTATCTC
*
2011026 GTTGCGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGA
* *
2011046 GTTGCGAAATTAAGTATCGA
1 GTTGCGAAAGTCAGTATCGA
*
2011066 GTTGCGAAAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGA
2011086 GTTGC
1 GTTGC
2011091 AATTTTGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGA
Found at i:2011119 original size:41 final size:41
Alignment explanation
Indices: 2011000--2011137 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 41
2010990 CGCTTTGAAA
* * * *
2011000 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGT
* * * * * *
2011041 ATTGAGTTGCGAA-ATT-AAGTATCGAGTTGCGAAAGTCAGT
1 ATCGCGTTGC-AATTTTGTATTATCGCGTTGCGAAAGTCAGT
*
2011081 ATCGCGTTGCAATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGT
* *
2011122 ACCGCGTTGCGATTTT
1 ATCGCGTTGCAATTTT
2011138 CCAAATTCGC
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.40
41 42 0.56
42 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCAATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:2011153 original size:41 final size:41
Alignment explanation
Indices: 2011067--2011155 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 41
2011057 AAGTATCGAG
* * ** * *
2011067 TTGCGAAAGTCAGTATCGCGTTGCAATTTTGTATTATCGCG
1 TTGCGATAGTCAGTACCGCGTTGCAATTTTCAAATATCGCA
*
2011108 TTGCGATAGTCAGTACCGCGTTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTCAGTACCGCGTTGCAATTTT-CAAATATCGCA
2011149 TTGCGAT
1 TTGCGAT
2011156 TTACTTATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 38 0.95
42 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCAGTACCGCGTTGCAATTTTCAAATATCGCA
Found at i:2011154 original size:21 final size:20
Alignment explanation
Indices: 2011128--2011174 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2011118 CAGTACCGCG
*
2011128 TTGCGATTTTCCAAATTCGCA
1 TTGCGA-TTTACAAATTCGCA
**
2011149 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACAAATTCGCA
2011169 TTGCGA
1 TTGCGA
2011175 ATTGGGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACAAATTCGCA
Found at i:2012886 original size:771 final size:773
Alignment explanation
Indices: 2011400--2012938 Score: 2699
Period size: 771 Copynumber: 2.0 Consensus size: 773
2011390 ATCATTATGA
* * *
2011400 ATGCAAAGTTGAAAATAATATTTGTTTATTAAAGCCAATAACATTCACCCCCTAGCATGAATGTG
1 ATGCAAAGTTGAAAATAATAATCGTTTATTAAAGCCAATAACATTCACCCCCTAGCATGAATGCG
* * * * *
2011465 GGAGATCAACTATTGTGCCCAATAACATGACATTGCCTCGATATTTTAGAAATCATGATGCGGTT
66 AGAGATCAACTATTGTGCCCAATAACAGGACATTGCCTCGATATTTTAAAAATAATGATGCAGTT
* *
2011530 TTAAAAAAGATGTCAACTTATTTCGGGAATCACCGGTAACCACCCCTGAGCATACTTGCAGGAGA
131 TTAAAAAAGATGTCAACTTATTTCGAGAATCACCGGTAACCACCCCTGAGCATACATGCAGGAGA
*
2011595 TATACTATTGAATCCCTCATAAGTGAACATTGCCTTAGGTTTTAAAAACATATACAACTAATCAA
196 TATACTATTGAATCCCTCATAAGTGAACATTGCCTTAGGTTTTAAAAACATATACAACCAATCAA
*
2011660 TCAATTATGAAACCTAATTATTCTAAAATTAATTAAAGCTTCTTTCTAGCTTAAATTGTCAAATT
261 TCAATTATGAAACCTAATTATTCTAAAATTAATTAAAGCTTATTTCTAGCTTAAATTGTCAAATT
*
2011725 ATGAAATTTAAAGAATTTAAGGATTAAACCTAAAATGTAGGCTATAATATAAATCCTATTTGATT
326 ATGAAATTTAAAGAATTTAAGGATTAAACCTAAAATGTAGGCTATAATATAAATCCAATTTGATT
* * *
2011790 TTGACTTGTTATTGAATCGAATAATTGATATGGTCCCTTGAGCATTTAGGCGAGGGCCAAATTAG
391 TTGACTTGTTATTAAATCAAATAATTGATATGGTCCCTTGAACATTTAGGCGAGGGCCAAATTAG
*
2011855 ATTACTCCTTAAATTAAAGGGACTAAATTGAAATCTAATCTAAAGTGGAGACTCTAATATTATTT
456 ATTACTCCTTAAATTAAAGGGACTAAATTGAAATCTAATCTAAAGTGGAGACTCTAATATTATCT
2011920 CAAATTAATTTTAATAAATATTAACATTCAAATAATTAAAGTGGAACCTCGAGCAAAAACGATGA
521 CAAATTAATTTTAATAAATATTAACATTCAAATAATTAAAGTGGAACCTCGAGCAAAAACGATGA
*
2011985 CCAAATTATGAACTCTCCTAATTTAAGGAATAGATGTAAAATTAGGCCTAAGATGAAGACTCTAA
586 CCAAATTACGAACTCTCCTAATTTAAGGAATAGATGTAAAATTAGGCCTAAGATGAAGACTCTAA
* *
2012050 TATTAATCCTGATTAGTTTTAATTAATTATGTGATATGAATAAATTAAAAGCTATAGGGACTAAA
651 TATTAATCCTGATTAGTTTTAATTAATTATGCGATATGAATAAATTAAAAGCTATAGGAACTAAA
2012115 TCAAAAGGAATCTAAATTTAAAAAGTAAACTTAAAGATACGGTAATCTAAATTTACGG
716 TCAAAAGGAATCTAAATTTAAAAAGTAAACTTAAAGATACGGTAATCTAAATTTACGG
* *
2012173 ATGCAAAGTTGAAAATGATAATCGTTTATTAAAGCCAATAACATTCGCCCCCTAGCATGAATGCG
1 ATGCAAAGTTGAAAATAATAATCGTTTATTAAAGCCAATAACATTCACCCCCTAGCATGAATGCG
*
2012238 AGAGATCAACTATTGTGCCCAATAACCGGACATTGCCTCGATATTTTAAAAATAATGATGCAGTT
66 AGAGATCAACTATTGTGCCCAATAACAGGACATTGCCTCGATATTTTAAAAATAATGATGCAGTT
* * *
2012303 TTGAAAAGGATGTCAACTT-TTTCGAGAATCACCGGTAACCA-CCCTGAGCATACATGCGGGAGA
131 TTAAAAAAGATGTCAACTTATTTCGAGAATCACCGGTAACCACCCCTGAGCATACATGCAGGAGA
*
2012366 TATACTATT-AACTCCCTCATAAGTGAACATTGCCTTAGGTTTTAAAAACATGTACAACCAATCA
196 TATACTATTGAA-TCCCTCATAAGTGAACATTGCCTTAGGTTTTAAAAACATATACAACCAATCA
2012430 ATCAATTATGAAACCTAATTATTCTAAAATTAATTAAAGCTTATTTCTAGCTTAAATTGTCAAAT
260 ATCAATTATGAAACCTAATTATTCTAAAATTAATTAAAGCTTATTTCTAGCTTAAATTGTCAAAT
* * *
2012495 TATGAAATTTAAAGAATTTCAGGATTAAACCTAAAATGTAGGCTCTAATATTAATCCAATTTGAT
325 TATGAAATTTAAAGAATTTAAGGATTAAACCTAAAATGTAGGCTATAATATAAATCCAATTTGAT
*
2012560 TTTGACTTGTTATTAAATCAAATAATTGATATGGTCTCTTGAACATTTAGGCGAGGGCCAAATTA
390 TTTGACTTGTTATTAAATCAAATAATTGATATGGTCCCTTGAACATTTAGGCGAGGGCCAAATTA
*
2012625 GATTACTCCTTAAATTAAAGGGACTAAATTGAAATCTAATCTAAAGTGGAGATTCTAATATTATC
455 GATTACTCCTTAAATTAAAGGGACTAAATTGAAATCTAATCTAAAGTGGAGACTCTAATATTATC
**
2012690 TCAAATTAATTTTAATAAATATTCCCATTCAAATAATTAAAGTGGAACCTCGAGCAAAAACGATT
520 TCAAATTAATTTTAATAAATATTAACATTCAAATAATTAAAGTGGAACCTCGAGCAAAAACGA-T
2012755 G-CCAAATTACGAACTCTCCTAATTTAAGGAATAGATGTAAAATTAGGCCTAAGATGAAGACTCT
584 GACCAAATTACGAACTCTCCTAATTTAAGGAATAGATGTAAAATTAGGCCTAAGATGAAGACTCT
*
2012819 AATATTAATCCTGATTAGTTTTAATTAATTATGCGATCTGAATAAATTAAAAGCTATAGGAACTA
649 AATATTAATCCTGATTAGTTTTAATTAATTATGCGATATGAATAAATTAAAAGCTATAGGAACTA
* *
2012884 AATCAAAAGGAATCTAAATTTAAAAGGTAAACTTAAAGATATGGTAATCTAAATT
714 AATCAAAAGGAATCTAAATTTAAAAAGTAAACTTAAAGATACGGTAATCTAAATT
2012939 AGGACCAAAA
Statistics
Matches: 727, Mismatches: 37, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
770 2 0.00
771 566 0.78
772 23 0.03
773 136 0.19
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (773 bp):
ATGCAAAGTTGAAAATAATAATCGTTTATTAAAGCCAATAACATTCACCCCCTAGCATGAATGCG
AGAGATCAACTATTGTGCCCAATAACAGGACATTGCCTCGATATTTTAAAAATAATGATGCAGTT
TTAAAAAAGATGTCAACTTATTTCGAGAATCACCGGTAACCACCCCTGAGCATACATGCAGGAGA
TATACTATTGAATCCCTCATAAGTGAACATTGCCTTAGGTTTTAAAAACATATACAACCAATCAA
TCAATTATGAAACCTAATTATTCTAAAATTAATTAAAGCTTATTTCTAGCTTAAATTGTCAAATT
ATGAAATTTAAAGAATTTAAGGATTAAACCTAAAATGTAGGCTATAATATAAATCCAATTTGATT
TTGACTTGTTATTAAATCAAATAATTGATATGGTCCCTTGAACATTTAGGCGAGGGCCAAATTAG
ATTACTCCTTAAATTAAAGGGACTAAATTGAAATCTAATCTAAAGTGGAGACTCTAATATTATCT
CAAATTAATTTTAATAAATATTAACATTCAAATAATTAAAGTGGAACCTCGAGCAAAAACGATGA
CCAAATTACGAACTCTCCTAATTTAAGGAATAGATGTAAAATTAGGCCTAAGATGAAGACTCTAA
TATTAATCCTGATTAGTTTTAATTAATTATGCGATATGAATAAATTAAAAGCTATAGGAACTAAA
TCAAAAGGAATCTAAATTTAAAAAGTAAACTTAAAGATACGGTAATCTAAATTTACGG
Found at i:2013687 original size:4 final size:4
Alignment explanation
Indices: 2013678--2013703 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2013668 TTTGAACATA
2013678 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
2013704 CAAGTTAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:2016084 original size:35 final size:35
Alignment explanation
Indices: 2016038--2016108 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
2016028 GCATTGAAGT
2016038 TCAAATTATAATGTAATTTGTTTGAACACAATTTG
1 TCAAATTATAATGTAATTTGTTTGAACACAATTTG
2016073 TCAAATTATAATGTAATTTGTTTGAACACAATTTG
1 TCAAATTATAATGTAATTTGTTTGAACACAATTTG
2016108 T
1 T
2016109 TAATGGAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (35 bp):
TCAAATTATAATGTAATTTGTTTGAACACAATTTG
Found at i:2016684 original size:29 final size:29
Alignment explanation
Indices: 2016626--2016776 Score: 164
Period size: 29 Copynumber: 5.3 Consensus size: 29
2016616 AATTTCTATG
** * *
2016626 AAGTTTTGTATTTTATTGTAATTTATAAA
1 AAGTTTTGTCCTTTATTGTAAATTACAAA
* * *
2016655 ATA-TTTAGTACTTTATTGTAAATTCCAAA
1 A-AGTTTTGTCCTTTATTGTAAATTACAAA
*
2016684 AAGTTTTGTCCTTTATTGTAAATTACAAT
1 AAGTTTTGTCCTTTATTGTAAATTACAAA
* * *
2016713 TAGTTTTGTTCTTTATTGTAAATTTCAAA
1 AAGTTTTGTCCTTTATTGTAAATTACAAA
*
2016742 AAG--TTGTCCTTTATTGTAAATTTCAAA
1 AAGTTTTGTCCTTTATTGTAAATTACAAA
2016769 AAGTTTTG
1 AAGTTTTG
2016777 CTTTTTTTAT
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.25
28 1 0.01
29 75 0.73
30 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (29 bp):
AAGTTTTGTCCTTTATTGTAAATTACAAA
Found at i:2016774 original size:56 final size:58
Alignment explanation
Indices: 2016665--2016791 Score: 177
Period size: 58 Copynumber: 2.2 Consensus size: 58
2016655 ATATTTAGTA
**
2016665 CTTTATTGTAAATTCCAAAAAGTTTTGTCCTTTATTGTAAATTACAATTAGTTTTG-TT
1 CTTTATTGTAAATTCCAAAAAG-TTTGTCCTTTATTGTAAATTACAAAAAGTTTTGCTT
* *
2016723 CTTTATTGTAAATTTCAAAAAG-TTGTCCTTTATTGTAAATTTCAAAAAGTTTTGCTTT
1 CTTTATTGTAAATTCCAAAAAGTTTGTCCTTTATTGTAAATTACAAAAAGTTTTGC-TT
*
2016781 TTTTATTGTAA
1 CTTTATTGTAA
2016792 TTTTATATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
56 29 0.47
58 33 0.53
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.50
Consensus pattern (58 bp):
CTTTATTGTAAATTCCAAAAAGTTTGTCCTTTATTGTAAATTACAAAAAGTTTTGCTT
Found at i:2017970 original size:14 final size:14
Alignment explanation
Indices: 2017951--2017978 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2017941 GAAATGGAAA
2017951 TTAACAAGGAGGTG
1 TTAACAAGGAGGTG
2017965 TTAACAAGGAGGTG
1 TTAACAAGGAGGTG
2017979 GGCACCGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.36, T:0.21
Consensus pattern (14 bp):
TTAACAAGGAGGTG
Found at i:2018464 original size:16 final size:16
Alignment explanation
Indices: 2018443--2018474 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2018433 TACTATTCAC
2018443 GTGAATAGTAAATTTT
1 GTGAATAGTAAATTTT
2018459 GTGAATAGTAAATTTT
1 GTGAATAGTAAATTTT
2018475 TTTATTGACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (16 bp):
GTGAATAGTAAATTTT
Found at i:2019241 original size:15 final size:15
Alignment explanation
Indices: 2019221--2019259 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
2019211 TGGCAGATCG
2019221 AAATCCAGACGGAGA
1 AAATCCAGACGGAGA
*
2019236 AAATCCAGACGGGGA
1 AAATCCAGACGGAGA
2019251 AAATCCAGA
1 AAATCCAGA
2019260 ACGGGAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.46, C:0.21, G:0.26, T:0.08
Consensus pattern (15 bp):
AAATCCAGACGGAGA
Found at i:2019265 original size:15 final size:14
Alignment explanation
Indices: 2019221--2019267 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 14
2019211 TGGCAGATCG
2019221 AAATCCAGACGGAGA
1 AAATCCAGACGG-GA
2019236 AAATCCAGACGGGGA
1 AAATCCAGAC-GGGA
2019251 AAATCCAGAACGGGA
1 AAATCCAG-ACGGGA
2019266 AA
1 AA
2019268 GAAAGATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 26 0.87
16 4 0.13
ACGTcount: A:0.47, C:0.19, G:0.28, T:0.06
Consensus pattern (14 bp):
AAATCCAGACGGGA
Found at i:2023396 original size:26 final size:27
Alignment explanation
Indices: 2023361--2023417 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
2023351 TTTATAATTT
2023361 TATTTATAA-TTCTGAAGTA-TTTTATAA
1 TATTTATAATTTCT-AA-TATTTTTATAA
2023388 TATTT-TAATTTCTAATATTTTTATAA
1 TATTTATAATTTCTAATATTTTTATAA
2023414 -ATTT
1 TATTT
2023418 GGCTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
25 6 0.21
26 13 0.46
27 9 0.32
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (27 bp):
TATTTATAATTTCTAATATTTTTATAA
Found at i:2024596 original size:25 final size:23
Alignment explanation
Indices: 2024552--2024597 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
2024542 ACATCCTCAA
**
2024552 CCTTAAAATTTTTAGTTTTTTTT
1 CCTTAAAATTTTTAAATTTTTTT
2024575 CCTTCAAAATCTTTTAAATTTTT
1 CCTT-AAAAT-TTTTAAATTTTT
2024598 AAATATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 5 0.26
25 10 0.53
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.59
Consensus pattern (23 bp):
CCTTAAAATTTTTAAATTTTTTT
Found at i:2025953 original size:20 final size:20
Alignment explanation
Indices: 2025928--2025969 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
2025918 GTGGGTATTT
2025928 ATCCCTGTTGAATATTCAAG
1 ATCCCTGTTGAATATTCAAG
2025948 ATCCCTGTTGAATATTCAAG
1 ATCCCTGTTGAATATTCAAG
2025968 AT
1 AT
2025970 TAGTAGCCGG
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:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATCCCTGTTGAATATTCAAG
Found at i:2026372 original size:17 final size:17
Alignment explanation
Indices: 2026335--2026368 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2026325 CGAGGTTATT
2026335 ATTTACGTGAATAGTGA
1 ATTTACGTGAATAGTGA
2026352 ATTT-CGTGAATAGTGA
1 ATTTACGTGAATAGTGA
2026368 A
1 A
2026369 ATTTGATCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
ATTTACGTGAATAGTGA
Found at i:2031843 original size:28 final size:28
Alignment explanation
Indices: 2031810--2031892 Score: 78
Period size: 31 Copynumber: 2.9 Consensus size: 28
2031800 TACCATGCCG
*
2031810 AAATTGTTGAAAGTTAAAAAGGGGCACC
1 AAATTGTTGAAAGTAAAAAAGGGGCACC
* *
2031838 GAATTGTTGATAGTAAAAAAATGGGTGCACC
1 AAATTGTTGAAAGT-AAAAAA-GGG-GCACC
* *
2031869 AAATTATT-AACAGTCAAAAAGGGG
1 AAATTGTTGAA-AGTAAAAAAGGGG
2031893 GTGCACCGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
28 13 0.30
29 8 0.18
30 9 0.20
31 14 0.32
ACGTcount: A:0.43, C:0.10, G:0.24, T:0.23
Consensus pattern (28 bp):
AAATTGTTGAAAGTAAAAAAGGGGCACC
Found at i:2036230 original size:29 final size:30
Alignment explanation
Indices: 2036188--2036244 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
2036178 CAAGTGGGAG
2036188 ATTGTTGAAAGTCAAAAAGGGG-GCATCAA
1 ATTGTTGAAAGTCAAAAAGGGGTGCATCAA
*
2036217 ATTGTTGATAGTCAAAAAGGGGTGCATC
1 ATTGTTGAAAGTCAAAAAGGGGTGCATC
2036245 GAAAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.25
Consensus pattern (30 bp):
ATTGTTGAAAGTCAAAAAGGGGTGCATCAA
Found at i:2040944 original size:17 final size:19
Alignment explanation
Indices: 2040906--2040944 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
2040896 TCTATTTTTT
2040906 TAAT-TATTAACTGAATAA
1 TAATATATTAACTGAATAA
2040924 -AATATATT-ACTG-ATAA
1 TAATATATTAACTGAATAA
2040940 TAATA
1 TAATA
2040945 AAGTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.21
17 11 0.58
18 4 0.21
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
TAATATATTAACTGAATAA
Found at i:2055330 original size:254 final size:254
Alignment explanation
Indices: 2054881--2055390 Score: 1020
Period size: 254 Copynumber: 2.0 Consensus size: 254
2054871 CAGTTTGACT
2054881 GGAAAATAACAGGGCCTACCGAATACAAGGTGATATGGCAACATGTCGATATGTCTTTTATATGC
1 GGAAAATAACAGGGCCTACCGAATACAAGGTGATATGGCAACATGTCGATATGTCTTTTATATGC
2054946 AGTTAGGTACGCCTATAAGGCATCAATTAATTTTAAGCTCCAATCATTGCGATCTGGCTTGACTA
66 AGTTAGGTACGCCTATAAGGCATCAATTAATTTTAAGCTCCAATCATTGCGATCTGGCTTGACTA
2055011 TTTTTCTAAGAATTGTCTTAACTTCTTAGTTCGATATTTCCATTTGTCTATTCATTCCTGGATGA
131 TTTTTCTAAGAATTGTCTTAACTTCTTAGTTCGATATTTCCATTTGTCTATTCATTCCTGGATGA
2055076 TAAGTCGTGGTAATTCTGAACACACTTCCATAAGAGTATTAGAGATTCTATTTTAATAC
196 TAAGTCGTGGTAATTCTGAACACACTTCCATAAGAGTATTAGAGATTCTATTTTAATAC
2055135 GGAAAATAACAGGGCCTACCGAATACAAGGTGATATGGCAACATGTCGATATGTCTTTTATATGC
1 GGAAAATAACAGGGCCTACCGAATACAAGGTGATATGGCAACATGTCGATATGTCTTTTATATGC
2055200 AGTTAGGTACGCCTATAAGGCATCAATTAATTTTAAGCTCCAATCATTGCGATCTGGCTTGACTA
66 AGTTAGGTACGCCTATAAGGCATCAATTAATTTTAAGCTCCAATCATTGCGATCTGGCTTGACTA
2055265 TTTTTCTAAGAATTGTCTTAACTTCTTAGTTCGATATTTCCATTTGTCTATTCATTCCTGGATGA
131 TTTTTCTAAGAATTGTCTTAACTTCTTAGTTCGATATTTCCATTTGTCTATTCATTCCTGGATGA
2055330 TAAGTCGTGGTAATTCTGAACACACTTCCATAAGAGTATTAGAGATTCTATTTTAATAC
196 TAAGTCGTGGTAATTCTGAACACACTTCCATAAGAGTATTAGAGATTCTATTTTAATAC
2055389 GG
1 GG
2055391 TTTAGGCATC
Statistics
Matches: 256, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
254 256 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (254 bp):
GGAAAATAACAGGGCCTACCGAATACAAGGTGATATGGCAACATGTCGATATGTCTTTTATATGC
AGTTAGGTACGCCTATAAGGCATCAATTAATTTTAAGCTCCAATCATTGCGATCTGGCTTGACTA
TTTTTCTAAGAATTGTCTTAACTTCTTAGTTCGATATTTCCATTTGTCTATTCATTCCTGGATGA
TAAGTCGTGGTAATTCTGAACACACTTCCATAAGAGTATTAGAGATTCTATTTTAATAC
Found at i:2070274 original size:15 final size:15
Alignment explanation
Indices: 2070254--2070283 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2070244 GGGTCTCTAA
*
2070254 CGTTTATGTTTGTTT
1 CGTTTATGTTCGTTT
2070269 CGTTTATGTTCGTTT
1 CGTTTATGTTCGTTT
2070284 ATTTATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.10, G:0.20, T:0.63
Consensus pattern (15 bp):
CGTTTATGTTCGTTT
Found at i:2071768 original size:20 final size:20
Alignment explanation
Indices: 2071721--2072134 Score: 389
Period size: 20 Copynumber: 20.2 Consensus size: 20
2071711 AATGACCAAC
2071721 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
* *
2071740 AAAACCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* * **
2071760 AAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
2071780 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* * *
2071802 AGAATCGCAATGCGATTCAT
1 AAAATCGCAACGCGATTCAG
2071822 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
*
2071844 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
2071864 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
2071884 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
2071904 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
*
2071926 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
2071946 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
2071966 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
2071986 AGAATCGCAACGCGATCCAG
1 AAAATCGCAACGCGATTCAG
2072006 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
2072026 AGAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
*
2072048 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
* *
2072068 AAAATCGCAACGCGATTTAT
1 AAAATCGCAACGCGATTCAG
* *
2072088 AAAATCGCAACGCGATCTTAC
1 AAAATCGCAACGCGAT-TCAG
*
2072109 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTCAG
2072130 AAAAT
1 AAAAT
2072135 GAGTAAATTC
Statistics
Matches: 340, Mismatches: 31, Indels: 47
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.00
19 26 0.08
20 215 0.63
21 14 0.04
22 79 0.23
23 5 0.01
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:2071831 original size:62 final size:62
Alignment explanation
Indices: 2071721--2072134 Score: 517
Period size: 62 Copynumber: 6.8 Consensus size: 62
2071711 AATGACCAAC
* * * * * **
2071721 AAAATCGCAACGCGAT-AT-CAA-AACCGCAACGCGATTTAGAAAAGCGCAACGTTGA-AAAG
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACG-CGATTTAG
* * **
2071780 AAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGAT-TTAG
* *
2071843 AAGAATCGCAACGCGA--TT-CAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCAG
1 AA-AATCGCAACGCGATCTTCCA-AGAATCGCAACGCGATTCAGAAAATCGCAACGCGATTTAG
*
2071904 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCCA-AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATT-CAGAAAATCGCAACGCGATTTAG
* *
2071966 AAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATCCAGAAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGATT-TAG
* *
2072026 AGAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGATTTAT
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGATTTAG
* *
2072088 AAAATCGCAACGCGATCTTACAAGAATCGCAACGCGATTAAGAAAAT
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAAT
2072135 GAGTAAATTC
Statistics
Matches: 310, Mismatches: 29, Indels: 29
0.84 0.08 0.08
Matches are distributed among these distances:
59 18 0.06
60 65 0.21
61 12 0.04
62 196 0.63
63 6 0.02
64 13 0.04
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (62 bp):
AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAGAAAATCGCAACGCGATTTAG
Found at i:2071900 original size:82 final size:81
Alignment explanation
Indices: 2071780--2072134 Score: 418
Period size: 82 Copynumber: 4.3 Consensus size: 81
2071770 CGTTGAAAAG
* * *
2071780 AAAATCGCAACGCGATCTTCCA-AGAATCGCAATGCGATTCATAAAATCGCAACGCGATCTTCCA
1 AAAATCGCAACGCGA--TT-CAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGAT-TTCCA
2071844 AGAATCGCAACGCGATT-CA
62 AGAATCGCAACGCGATTCCA
2071863 GAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATCTTCCAAG
1 -AAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGAT-TTCCAAG
2071928 AATCGCAACGCGATTCCA
64 AATCGCAACGCGATTCCA
* * * *
2071946 AGAATCGCAACGCGATTTAGAAAATCGCAACGCGATTCCA-AGAATCGCAACGCGA--TCCAGAA
1 AAAATCGCAACGCGATTCAGAAAATCGCAACGCGATT-CAGAAAATCGCAACGCGATTTCCA-AG
2072008 AATCGCAACGCGATTCCA
64 AATCGCAACGCGATTCCA
* * **
2072026 AGAATCGCAACGCGATCTTCCA-AGAATCGCAACGCGATTCAGAAAATCGCAACGCGATTTATAA
1 AAAATCGCAACGCGA--TT-CAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTTCCAA
*
2072090 -AATCGCAACGCGATCTTACA
63 GAATCGCAACGCGA--TTCCA
* *
2072110 AGAATCGCAACGCGATTAAGAAAAT
1 AAAATCGCAACGCGATTCAGAAAAT
2072135 GAGTAAATTC
Statistics
Matches: 243, Mismatches: 15, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
79 4 0.02
80 34 0.14
81 5 0.02
82 158 0.65
83 6 0.02
84 36 0.15
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (81 bp):
AAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTCAGAAAATCGCAACGCGATTTCCAAGAA
TCGCAACGCGATTCCA
Found at i:2072238 original size:6 final size:6
Alignment explanation
Indices: 2072227--2072364 Score: 255
Period size: 6 Copynumber: 23.5 Consensus size: 6
2072217 GACACGTATT
2072227 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
2072275 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
2072323 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
2072365 CGAGACGAGA
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 15 0.11
6 117 0.89
ACGTcount: A:0.32, C:0.51, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2072856 original size:6 final size:6
Alignment explanation
Indices: 2072836--2072917 Score: 136
Period size: 6 Copynumber: 14.3 Consensus size: 6
2072826 CCGCCGTCTC
2072836 GTCG-G GTCG-G GTCGTG GTCGTG GT-GTG GTCGTG GTCGTG GTCGTG
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
2072881 GTCGTG GTCG-G GTCGTG GTCGTG GTCGTG GTCGTG GT
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GT
2072918 AATACGTGTC
Statistics
Matches: 74, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
5 19 0.26
6 55 0.74
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GTCGTG
Found at i:2072872 original size:23 final size:23
Alignment explanation
Indices: 2072836--2072913 Score: 133
Period size: 23 Copynumber: 3.4 Consensus size: 23
2072826 CCGCCGTCTC
2072836 GTCG-GGTCGGGTCGTGGTCGTG
1 GTCGTGGTCGGGTCGTGGTCGTG
2072858 GT-GTGGTCGTGGTCGTGGTCGTG
1 GTCGTGGTCG-GGTCGTGGTCGTG
2072881 GTCGTGGTCGGGTCGTGGTCGTG
1 GTCGTGGTCGGGTCGTGGTCGTG
2072904 GTCGTGGTCG
1 GTCGTGGTCG
2072914 TGGTAATACG
Statistics
Matches: 53, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.02
22 7 0.13
23 38 0.72
24 7 0.13
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.31
Consensus pattern (23 bp):
GTCGTGGTCGGGTCGTGGTCGTG
Found at i:2072878 original size:29 final size:29
Alignment explanation
Indices: 2072837--2072917 Score: 123
Period size: 29 Copynumber: 2.8 Consensus size: 29
2072827 CGCCGTCTCG
2072837 TCGGGTCG-GGTCGTGGTCGTGGT-GTGG
1 TCGGGTCGTGGTCGTGGTCGTGGTCGTGG
2072864 TCGTGGTCGTGGTCGTGGTCGTGGTCG-GG
1 TCG-GGTCGTGGTCGTGGTCGTGGTCGTGG
2072893 TCGTGGTCGTGGTCGTGGTCGTGGT
1 TCG-GGTCGTGGTCGTGGTCGTGGT
2072918 AATACGTGTC
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
27 3 0.06
28 5 0.10
29 42 0.82
30 1 0.02
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (29 bp):
TCGGGTCGTGGTCGTGGTCGTGGTCGTGG
Found at i:2073045 original size:20 final size:20
Alignment explanation
Indices: 2073020--2073395 Score: 429
Period size: 20 Copynumber: 18.7 Consensus size: 20
2073010 TCATTTTCTT
2073020 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
2073040 AATCGCGTTGCG-TT-TT--
1 AATCGCGTTGCGATTCTTGG
2073056 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
**
2073076 AAGATCGCGTTGCGATT-TTCTA
1 -A-ATCGCGTTGCGATTCTT-GG
2073098 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
*
2073118 AAGATCGCGTTGCGATT-TTCTG
1 -A-ATCGCGTTGCGATTCTT-GG
2073140 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
*
2073160 AATCGCGTTGCGATTTTCTGG
1 AATCGCGTTGCGATTCT-TGG
2073181 -ATCGCGTTGCGATT-TTGG
1 AATCGCGTTGCGATTCTTGG
*
2073199 AATCGCGTTGCGAGATT-TTTG
1 AATCGCGTTGC--GATTCTTGG
2073220 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
*
2073240 AATCGCGTTGCGATTTTCTGG
1 AATCGCGTTGCGATTCT-TGG
2073261 -ATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
**
2073280 AATCGCGTTGCGATT-TTCTA
1 AATCGCGTTGCGATTCTT-GG
2073300 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
2073320 AATCGCGTTGCGATTTTCTT--
1 AATCGCGTTGCGA--TTCTTGG
2073340 AATCGCGTTGCGATTCTTGG
1 AATCGCGTTGCGATTCTTGG
*
2073360 AAGATCGCGTTGCGATT-TTCTG
1 -A-ATCGCGTTGCGATTCTT-GG
2073382 AATCGCGTTGCGAT
1 AATCGCGTTGCGAT
2073396 CTTCTTTTCT
Statistics
Matches: 312, Mismatches: 16, Indels: 56
0.81 0.04 0.15
Matches are distributed among these distances:
16 12 0.04
17 2 0.01
18 12 0.04
19 22 0.07
20 173 0.55
21 42 0.13
22 49 0.16
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (20 bp):
AATCGCGTTGCGATTCTTGG
Found at i:2073176 original size:40 final size:40
Alignment explanation
Indices: 2073012--2073395 Score: 600
Period size: 40 Copynumber: 9.6 Consensus size: 40
2073002 AGAATTACTC
*
2073012 ATTTTCTTAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
2073052 --TTT-T-AATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
*
2073090 ATTTTCTAAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
2073132 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
2073172 ATTTTCTGGATCGCGTTGCGATT-TTGGAATCGCGTTGCGAG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGC--G
2073213 ATTTT-TGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
2073252 ATTTTCTGGATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
2073292 ATTTTCTAAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
*
2073332 ATTTTCTTAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTGAATCGCGTTGCGATTCTTGG-A-ATCGCGTTGCG
2073374 ATTTTCTGAATCGCGTTGCGAT
1 ATTTTCTGAATCGCGTTGCGAT
2073396 CTTCTTTTCT
Statistics
Matches: 324, Mismatches: 8, Indels: 22
0.92 0.02 0.06
Matches are distributed among these distances:
36 20 0.06
37 2 0.01
38 14 0.04
39 21 0.06
40 150 0.46
41 24 0.07
42 93 0.29
ACGTcount: A:0.16, C:0.19, G:0.27, T:0.38
Consensus pattern (40 bp):
ATTTTCTGAATCGCGTTGCGATTCTTGGAATCGCGTTGCG
Found at i:2079016 original size:35 final size:34
Alignment explanation
Indices: 2078961--2079097 Score: 159
Period size: 36 Copynumber: 3.9 Consensus size: 34
2078951 CAAGAATAAC
* *
2078961 GGAAGGAAACGTCGCACTTCCGATTCAAGTGAAT
1 GGAAGGAAGCATCGCACTTCCGATTCAAGTGAAT
* *
2078995 GGAAGGAAGCATCGGCACTTCCGATTCAAACTGAAA
1 GGAAGGAAGCATC-GCACTTCCGATTC-AAGTGAAT
*
2079031 GGAAGGAAGCATCGGCACTTTCGATTCAAGTCGAAT
1 GGAAGGAAGCATC-GCACTTCCGATTCAAGT-GAAT
* *
2079067 GGAAGG-AGACGTCGCACTTTCGATTCAAGTG
1 GGAAGGAAG-CATCGCACTTCCGATTCAAGTG
2079098 TTCATTTTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
34 12 0.13
35 35 0.38
36 44 0.48
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (34 bp):
GGAAGGAAGCATCGCACTTCCGATTCAAGTGAAT
Found at i:2079056 original size:71 final size:70
Alignment explanation
Indices: 2078961--2079094 Score: 182
Period size: 71 Copynumber: 1.9 Consensus size: 70
2078951 CAAGAATAAC
*
2078961 GGAAGGAAACGTCGCACTTCCGATTCAAGT-GAATGGAAGGA-AGCATCGGCACTTCCGATTCAA
1 GGAAGGAAACATCGCACTTCCGATTCAAGTCGAATGGAAGGAGA-CATC-GCACTTCCGATTCAA
2079024 ACTGAAA
64 ACTGAAA
* * * *
2079031 GGAAGGAAGCATCGGCACTTTCGATTCAAGTCGAATGGAAGGAGACGTCGCACTTTCGATTCAA
1 GGAAGGAAACATC-GCACTTCCGATTCAAGTCGAATGGAAGGAGACATCGCACTTCCGATTCAA
2079095 GTGTTCATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
70 11 0.20
71 30 0.54
72 14 0.25
73 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (70 bp):
GGAAGGAAACATCGCACTTCCGATTCAAGTCGAATGGAAGGAGACATCGCACTTCCGATTCAAAC
TGAAA
Found at i:2084164 original size:13 final size:13
Alignment explanation
Indices: 2084146--2084194 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
2084136 GGTCGAACTG
2084146 AGTCAACTCGCTT
1 AGTCAACTCGCTT
* *
2084159 AGTCAACTCACTG
1 AGTCAACTCGCTT
2084172 AGTCAACTCGC-T
1 AGTCAACTCGCTT
2084184 ATGTCAACTCG
1 A-GTCAACTCG
2084195 TTGACTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 1 0.03
13 30 0.97
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (13 bp):
AGTCAACTCGCTT
Found at i:2084178 original size:26 final size:26
Alignment explanation
Indices: 2084142--2084193 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
2084132 ACCGGGTCGA
2084142 ACTGAGTCAACTCGCT-TAGTCAACTC
1 ACTGAGTCAACTCGCTAT-GTCAACTC
2084168 ACTGAGTCAACTCGCTATGTCAACTC
1 ACTGAGTCAACTCGCTATGTCAACTC
2084194 GTTGACTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (26 bp):
ACTGAGTCAACTCGCTATGTCAACTC
Found at i:2088906 original size:2 final size:2
Alignment explanation
Indices: 2088899--2088940 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2088889 TCCCAACTCA
2088899 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
2088941 TCTTCAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2089118 original size:2 final size:2
Alignment explanation
Indices: 2089111--2089137 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2089101 GTCATTTAAT
2089111 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 T
2089138 TAGAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2089693 original size:25 final size:26
Alignment explanation
Indices: 2089649--2089698 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
2089639 ACTTCAAACA
*
2089649 TGACAATAATTAAATTGTCACTTTTG
1 TGACAATAATTAAAATGTCACTTTTG
*
2089675 TGACAATAA-TAAAATGTCATTTTT
1 TGACAATAATTAAAATGTCACTTTT
2089699 AGCGTCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (26 bp):
TGACAATAATTAAAATGTCACTTTTG
Found at i:2090382 original size:59 final size:58
Alignment explanation
Indices: 2090254--2090365 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 58
2090244 ATAGTTGAAT
2090254 GATCATTTTGTAACTTTTAATAGTCGGAGACTCAACAAAGTAATGACATATAACCGTGG
1 GATCATTTTGTAACTTTTAATAGTCGGAGACTCAACAAAGTAATGACATATAA-CGTGG
* * *
2090313 GATTATTTTGTAATTTTTAATAGTTGGATGACTCAACAAAGTAAT-ACCATATA
1 GATCATTTTGTAACTTTTAATAGTCGGA-GACTCAACAAAGTAATGA-CATATA
2090366 GTTAGAGGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
59 26 0.54
60 22 0.46
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (58 bp):
GATCATTTTGTAACTTTTAATAGTCGGAGACTCAACAAAGTAATGACATATAACGTGG
Found at i:2095524 original size:32 final size:32
Alignment explanation
Indices: 2095488--2095553 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
2095478 ATTTTATATT
* **
2095488 AATTTAAGATATTTAAAGTTGTATTTGAATTA
1 AATTTAAGATATTTAAAGTTATATTCAAATTA
* *
2095520 AATTTGAGATATTTAATGTTATATTCAAATTA
1 AATTTAAGATATTTAAAGTTATATTCAAATTA
2095552 AA
1 AA
2095554 ATTTTATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (32 bp):
AATTTAAGATATTTAAAGTTATATTCAAATTA
Found at i:2102437 original size:21 final size:21
Alignment explanation
Indices: 2102407--2102454 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
2102397 TAATTTTCAA
*
2102407 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
2102428 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
2102449 ACATTG
1 ACATTG
2102455 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:2107103 original size:21 final size:21
Alignment explanation
Indices: 2107073--2107120 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
2107063 TAATTTTCAA
*
2107073 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
2107094 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
2107115 ACATTG
1 ACATTG
2107121 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:2110148 original size:3 final size:3
Alignment explanation
Indices: 2110134--2110208 Score: 87
Period size: 3 Copynumber: 24.7 Consensus size: 3
2110124 TCTATAAAAA
* ** *
2110134 TAT TAA TAT TAT TAT CGT TAT CAT TAT TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
**
2110180 TAT TAT TAT GCT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2110209 ATTTACATGT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:2110955 original size:18 final size:18
Alignment explanation
Indices: 2110932--2110977 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
2110922 GAGTGGTGAA
2110932 GGGAAGCACACGGAGGAG
1 GGGAAGCACACGGAGGAG
2110950 GGGAAGCACACGGAGGAG
1 GGGAAGCACACGGAGGAG
*
2110968 GGGAACCACA
1 GGGAAGCACA
2110978 TACTTGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.46, T:0.00
Consensus pattern (18 bp):
GGGAAGCACACGGAGGAG
Found at i:2113903 original size:21 final size:22
Alignment explanation
Indices: 2113848--2113911 Score: 85
Period size: 23 Copynumber: 2.9 Consensus size: 22
2113838 TGTGTGTCGT
*
2113848 ATAAAATGTCCCGAAGGACAAC
1 ATAAAATGTCCCGAAGGACCAC
2113870 ATAAAATTGTCCCGAAGGACCAC
1 ATAAAA-TGTCCCGAAGGACCAC
* *
2113893 AT-ATATGTCCCGAATGACC
1 ATAAAATGTCCCGAAGGACC
2113912 GTGTAGAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.34
22 8 0.21
23 17 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (22 bp):
ATAAAATGTCCCGAAGGACCAC
Found at i:2114230 original size:23 final size:23
Alignment explanation
Indices: 2114202--2114262 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
2114192 CTCAGACAGG
2114202 TATTCACATAGCTCAGAATCACA
1 TATTCACATAGCTCAGAATCACA
*
2114225 TATTCATATAGCTCAGAATCACA
1 TATTCACATAGCTCAGAATCACA
2114248 TATTCACATAGCTCA
1 TATTCACATAGCTCA
2114263 TGTATATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.30
Consensus pattern (23 bp):
TATTCACATAGCTCAGAATCACA
Found at i:2117447 original size:19 final size:19
Alignment explanation
Indices: 2117425--2117465 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
2117415 TTATTATATT
*
2117425 AAAAAAT-TCAAATCTTTA
1 AAAAAATATCAAAACTTTA
2117443 AAAAAATATCAAAACTTTA
1 AAAAAATATCAAAACTTTA
2117462 AAAA
1 AAAA
2117466 CTTCACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAAATATCAAAACTTTA
Found at i:2119035 original size:3 final size:3
Alignment explanation
Indices: 2119027--2119089 Score: 63
Period size: 3 Copynumber: 21.0 Consensus size: 3
2119017 TTTGATCCCT
* * * * * * *
2119027 TTC TTC TTC CTC CTC TTC TTA TTC TTC ATC ATC ATC ATC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
2119075 TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC
2119090 AAATTTAGTC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.08, C:0.35, G:0.00, T:0.57
Consensus pattern (3 bp):
TTC
Found at i:2119140 original size:3 final size:3
Alignment explanation
Indices: 2119132--2119716 Score: 593
Period size: 3 Copynumber: 196.0 Consensus size: 3
2119122 TTTGATCCCT
* * * *
2119132 TTC TTC TTC TTC TTC CTC TTC TTC CTC TTC TTC TTT TTC TTC CTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * * *
2119180 TTC TTT TTC TTC CTC TTCC TTC TTC TTC CTC TTC CTC TTC CTC TTC
1 TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
2119226 CTC TTC CTC TTC TTC TT- TT- TTC TTC TTC -TC TTC TTTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC
2119269 TTC -TC TTC TTC TTC TTC TTC TTC -TC TTC TT- TTC TTC -TC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * * * *
2119313 CTC TTC CTC TTC TTCC TTC TCTC TTC CTC TTCC CTC TTC CTC CTC TTC
1 TTC TTC TTC TTC TT-C TTC T-TC TTC TTC TT-C TTC TTC TTC TTC TTC
* * * *
2119361 CTC TTC TTC TTC -TC TTC TTC CTC TTC TTC TTT TTC TTC CTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * * *
2119408 TTT TTC TTC -TC TTC TTC CTC TTC TTC CTC TTC CTC TTC TTC TCC TCTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC
*
2119456 CTC TTC TTTC TT- TTC TTTC TTC TTTC TTC TTC TTC TTC -TC TTC TTC
1 TTC TTC -TTC TTC TTC -TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC
2119502 TTC TTC TTC -TC TTC TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
2119549 TTC TTC TTC -TC TATC TT- TTC TTC TTC TTC TTC TTC TTCC TTC TTC
1 TTC TTC TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC
2119594 TT- TTC -TC TTTC TTC TTC TTC TCTC TTC -TC TTC TT- TTC TTC TTCC
1 TTC TTC TTC -TTC TTC TTC TTC T-TC TTC TTC TTC TTC TTC TTC TT-C
*
2119638 TTC TTC TTCC TCC TTC TTC TTC TTC TT- TTC TTC TTC TTC TTC TTTC
1 TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
2119684 TTC TTC TTC TTC -TC TTTC TTC TT- TTC TTTC TTC
1 TTC TTC TTC TTC TTC -TTC TTC TTC TTC -TTC TTC
2119717 AAGAGGACCC
Statistics
Matches: 488, Mismatches: 54, Indels: 80
0.78 0.09 0.13
Matches are distributed among these distances:
2 44 0.09
3 393 0.81
4 51 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:2119173 original size:105 final size:105
Alignment explanation
Indices: 2118986--2119191 Score: 304
Period size: 105 Copynumber: 2.0 Consensus size: 105
2118976 TGGTCACCGG
*
2118986 AATTTAGTCACCGGTTCAAAAATTAAGTAGGTTTGATCCCTTTCTTCTTCCTCCTCTTCTTATTC
1 AATTTAGTCACCGGTTCAAAAATTAAGTAGGTTTGATCCCTTTCTTCTTCCTCCTCCTCTTATTC
* *
2119051 TTCATCATCATCATCTTCTTCTTCTTCTTCTTCTTCTTCA
66 CTCATCATCATCATCTTCCTCTTCTTCTTCTTCTTCTTCA
* * *
2119091 AATTTAGTCACCGGTTCAAAAATTAAGTAGGTTTGATCCCTTTCTTCTTCTTCTTCCTCTTCTTC
1 AATTTAGTCACCGGTTCAAAAATTAAGTAGGTTTGATCCCTTTCTTCTTCCTCCTCCTCTTATTC
* * * ** *
2119156 CTCTTCTTCTTTTTCTTCCTCTTCTTCTTTTTCTTC
66 CTCATCATCATCATCTTCCTCTTCTTCTTCTTCTTC
2119192 CTCTTCCTTC
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 89 1.00
ACGTcount: A:0.16, C:0.28, G:0.07, T:0.50
Consensus pattern (105 bp):
AATTTAGTCACCGGTTCAAAAATTAAGTAGGTTTGATCCCTTTCTTCTTCCTCCTCCTCTTATTC
CTCATCATCATCATCTTCCTCTTCTTCTTCTTCTTCTTCA
Found at i:2119832 original size:3 final size:3
Alignment explanation
Indices: 2119824--2119858 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2119814 GGGGTTTTCT
2119824 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
2119859 GTTTAAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:2120032 original size:83 final size:85
Alignment explanation
Indices: 2119870--2120045 Score: 329
Period size: 83 Copynumber: 2.1 Consensus size: 85
2119860 TTTAAGAGAT
*
2119870 ATTGGAAGTTATCGGTTCAAGTAACTTTGGTGTTGCAAAGTTGTTTAGAGATAAGTGGAGTGGCA
1 ATTGAAAGTTATCGGTTCAAGTAACTTTGGTGTTGCAAAGTTGTTTAGAGATAAGTGGAGTGGCA
2119935 AACTTTATGTTGTCAAGTGC
66 AACTTTATGTTGTCAAGTGC
2119955 ATTGAAAGTTATCGGTTCAAGTAACTTTGGTGTTGCAAAG-TG-TTAGAGATAAGTGGAGTGGCA
1 ATTGAAAGTTATCGGTTCAAGTAACTTTGGTGTTGCAAAGTTGTTTAGAGATAAGTGGAGTGGCA
2120018 AACTTTATGTTGTCAAGTGC
66 AACTTTATGTTGTCAAGTGC
2120038 ATTGAAAG
1 ATTGAAAG
2120046 AGGACCCAAG
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
83 49 0.54
84 2 0.02
85 39 0.43
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (85 bp):
ATTGAAAGTTATCGGTTCAAGTAACTTTGGTGTTGCAAAGTTGTTTAGAGATAAGTGGAGTGGCA
AACTTTATGTTGTCAAGTGC
Found at i:2120036 original size:40 final size:41
Alignment explanation
Indices: 2119914--2120036 Score: 96
Period size: 41 Copynumber: 3.0 Consensus size: 41
2119904 GCAAAGTTGT
2119914 TTAGAGATAAGTGGAGTGGCAAACTTTATGTTGTCAAGTGCA
1 TTAGAGATAAGTGGAGTGGCAAACTTTATGTTGTCAAGTG-A
* * * * *
2119956 TT-GAAAGTTA-TCG-GT-TCAAGTAACTTTGGTGTTG-CAAAGTG-
1 TTAGAGA-TAAGTGGAGTGGC-A--AACTTT-ATGTTGTC-AAGTGA
2119997 TTAGAGATAAGTGGAGTGGCAAACTTTATGTTGTCAAGTG
1 TTAGAGATAAGTGGAGTGGCAAACTTTATGTTGTCAAGTG
2120037 CATTGAAAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 24
0.64 0.11 0.26
Matches are distributed among these distances:
39 1 0.02
40 13 0.22
41 16 0.27
42 16 0.27
43 13 0.22
44 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.33
Consensus pattern (41 bp):
TTAGAGATAAGTGGAGTGGCAAACTTTATGTTGTCAAGTGA
Found at i:2120594 original size:248 final size:250
Alignment explanation
Indices: 2120150--2120874 Score: 1359
Period size: 250 Copynumber: 2.9 Consensus size: 250
2120140 GGGTTTGCTT
2120150 TTCTTCTTCTTCTTCTTCTTCTTGTTTAAGAGATATTGGAAGTTATCGGTTCAAGTAACTTTGGT
1 TTCTTCTTCTTCTTCTTCTTCTTGTTTAAGAGATATTGGAAGTTATCGGTTCAAGTAACTTTGGT
2120215 GTTGCAAAGCTGTTTAGAGATAAGTGGAGTGGCGAACTTTATGTTGTCAAGTGCATTGAAAGAGG
66 GTTGCAAAGCTGTTTAGAGATAAGTGGAGTGGCGAACTTTATGTTGTCAAGTGCATTGAAAGAGG
*
2120280 ACCCAAGGTTACGCGTTTTTTCATGGTCTTCATATATTTGCTTTTATTATTCATAGACAAAGATG
131 ACCCAAGGTTACGCGTTTTTTCATGGTCTTCATATATTTGCTTTTATTATTCATAGACTAAGATG
*
2120345 GGTTTTTATTTTAGATTGATTTTTTGGGGTTTGC-T-TTCTCCTTCTTC-TCATTC
196 GGTTTTTATTTTAGACTGATTTTTTGGGGTTTGCTTCTTCTCCTTCTTCTTC-TTC
*
2120398 TTCTTATTCTTCTTCTTCTTCTTGTTTAAGAGATATTGGAAGTTATCGGTTCAAGTAACTTTGGT
1 TTCTTCTTCTTCTTCTTCTTCTTGTTTAAGAGATATTGGAAGTTATCGGTTCAAGTAACTTTGGT
*
2120463 GTTGCAAAGTTGTTTAGAGATAAGTGGAGTGGCGAACTTTATGTTGTCAAGTGCATTGAAAGAGG
66 GTTGCAAAGCTGTTTAGAGATAAGTGGAGTGGCGAACTTTATGTTGTCAAGTGCATTGAAAGAGG
*
2120528 ACCCAAGGTTACGAGTTTTTTCATGGTCTTCATATATTTGCTTTTATTATTCATAGACTAAGATG
131 ACCCAAGGTTACGCGTTTTTTCATGGTCTTCATATATTTGCTTTTATTATTCATAGACTAAGATG
*
2120593 GGTTTTTATTTTAGACTGATTTTTTGGGGTTTGCTTCTTCTTCTTCTTCTTCTTC
196 GGTTTTTATTTTAGACTGATTTTTTGGGGTTTGCTTCTTCTCCTTCTTCTTCTTC
2120648 TTCTTCTTCTTCTTCTTCTTCTTGTTTAAGAGATATTGGAAGTTATCGGTTCAAGTAACTTTGGT
1 TTCTTCTTCTTCTTCTTCTTCTTGTTTAAGAGATATTGGAAGTTATCGGTTCAAGTAACTTTGGT
2120713 GTTGCAAAGCTGTTTAGAGATAAGTGGAGTGGCGAACTTTATGTTGTCAAGTGCATTGAAAGAGG
66 GTTGCAAAGCTGTTTAGAGATAAGTGGAGTGGCGAACTTTATGTTGTCAAGTGCATTGAAAGAGG
2120778 ACCCAAGGTTACGCGTTTTTTCATGGTCTTCATATATTTGCTTTTATTATTCATAGACTAAGATG
131 ACCCAAGGTTACGCGTTTTTTCATGGTCTTCATATATTTGCTTTTATTATTCATAGACTAAGATG
2120843 GGTTTTTATTTTAGACTGA-TTTTTGGGGTTTG
196 GGTTTTTATTTTAGACTGATTTTTTGGGGTTTG
2120875 ATTGGTTATA
Statistics
Matches: 465, Mismatches: 9, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
248 224 0.48
249 14 0.03
250 225 0.48
251 2 0.00
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (250 bp):
TTCTTCTTCTTCTTCTTCTTCTTGTTTAAGAGATATTGGAAGTTATCGGTTCAAGTAACTTTGGT
GTTGCAAAGCTGTTTAGAGATAAGTGGAGTGGCGAACTTTATGTTGTCAAGTGCATTGAAAGAGG
ACCCAAGGTTACGCGTTTTTTCATGGTCTTCATATATTTGCTTTTATTATTCATAGACTAAGATG
GGTTTTTATTTTAGACTGATTTTTTGGGGTTTGCTTCTTCTCCTTCTTCTTCTTC
Found at i:2120634 original size:3 final size:3
Alignment explanation
Indices: 2120626--2120670 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
2120616 TTGGGGTTTG
2120626 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
2120671 GTTTAAGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:2123637 original size:72 final size:72
Alignment explanation
Indices: 2123508--2123649 Score: 207
Period size: 72 Copynumber: 2.0 Consensus size: 72
2123498 CTATTCACGG
* * * * *
2123508 TGGCTGAAATTTATAAATTTACCCCAAATCAATCTTTCTTTTACCCTCAAGTCGAATCTGGCTTC
1 TGGCAGAAATTTAGAAATTTACCCCAAATCAATCTCTCTTTTACCCTAAAGTCGAATCTGCCTTC
2123573 CTTTCGA
66 CTTTCGA
2123580 TGGCAGAAATTTAGAAATTTACCCCAAATCAATC-CTCTTTTTACCCTAAAG-CTGAATCTGCCT
1 TGGCAGAAATTTAGAAATTTACCCCAAATCAATCTCTC-TTTTACCCTAAAGTC-GAATCTGCCT
2123643 TCCTTTC
64 TCCTTTC
2123650 TTTCTAAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
71 3 0.05
72 60 0.95
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (72 bp):
TGGCAGAAATTTAGAAATTTACCCCAAATCAATCTCTCTTTTACCCTAAAGTCGAATCTGCCTTC
CTTTCGA
Found at i:2124385 original size:15 final size:15
Alignment explanation
Indices: 2124365--2124393 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2124355 AATAAAATAA
2124365 TAATAATAATATTAG
1 TAATAATAATATTAG
2124380 TAATAATAATATTA
1 TAATAATAATATTA
2124394 TAAACATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATAATAATATTAG
Found at i:2124984 original size:98 final size:98
Alignment explanation
Indices: 2124813--2125018 Score: 322
Period size: 98 Copynumber: 2.1 Consensus size: 98
2124803 AAATCTACCT
* * *
2124813 GGAGGACTTAATGTACTGAACATTAAATGAGAAATTTTGGTACTTGCTTCCTTATTTTCATGTGA
1 GGAGGACTTAATGTACTGAACATTAAATGAGAAACTTTGGTAATTGCTTCCTCATTTTCATGTGA
2124878 AAAAATCCTACCCCGAGGTTTTATGGATGGCCC
66 AAAAATCCTACCCCGAGGTTTTATGGATGGCCC
* * * *
2124911 GGAGGACTTGATTTTCTGAACATTAAATGAGAAGCTTTGGTAATTGCTTCCTCATTTTCATGTGA
1 GGAGGACTTAATGTACTGAACATTAAATGAGAAACTTTGGTAATTGCTTCCTCATTTTCATGTGA
** *
2124976 AAGCATCCTACCCTGAGGTTTTATGGATGGCCC
66 AAAAATCCTACCCCGAGGTTTTATGGATGGCCC
2125009 GGAGGACTTA
1 GGAGGACTTA
2125019 TCATCTTTGG
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (98 bp):
GGAGGACTTAATGTACTGAACATTAAATGAGAAACTTTGGTAATTGCTTCCTCATTTTCATGTGA
AAAAATCCTACCCCGAGGTTTTATGGATGGCCC
Found at i:2126553 original size:37 final size:37
Alignment explanation
Indices: 2126465--2126585 Score: 145
Period size: 37 Copynumber: 3.2 Consensus size: 37
2126455 TTAAAAAATG
* * * * *
2126465 GCCCCACATTATTTCTTGTTGATATGAACCTTCAAAAT
1 GCCCCACATT-TTTCATGCTGATGTGAGCCTTCAAGAT
* *
2126503 ATCCCAACA-TTTTCATGCTGATGTGAGCCTTCAAGAT
1 -GCCCCACATTTTTCATGCTGATGTGAGCCTTCAAGAT
*
2126540 GCCCCACATTTTTCATACTGATGTGAGCCTTCAAGAT
1 GCCCCACATTTTTCATGCTGATGTGAGCCTTCAAGAT
2126577 GCCCCACAT
1 GCCCCACAT
2126586 GGATCATTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
36 6 0.08
37 58 0.82
38 1 0.01
39 6 0.08
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (37 bp):
GCCCCACATTTTTCATGCTGATGTGAGCCTTCAAGAT
Found at i:2134772 original size:8 final size:8
Alignment explanation
Indices: 2134759--2134783 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2134749 CTCTCAATTT
2134759 TCTCTTTG
1 TCTCTTTG
2134767 TCTCTTTG
1 TCTCTTTG
2134775 TCTCTTTG
1 TCTCTTTG
2134783 T
1 T
2134784 GTCTCTCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.12, T:0.64
Consensus pattern (8 bp):
TCTCTTTG
Found at i:2135191 original size:21 final size:22
Alignment explanation
Indices: 2135165--2135219 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
2135155 CTTGTGCCAG
2135165 CTTGTTGGGCTTCCAG-TTCAA
1 CTTGTTGGGCTTCCAGATTCAA
*
2135186 CTTGTTGGGCTT-CTGATTCAA
1 CTTGTTGGGCTTCCAGATTCAA
*
2135207 CTTGTTGGACTTC
1 CTTGTTGGGCTTC
2135220 TGGGTTAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.13, C:0.22, G:0.24, T:0.42
Consensus pattern (22 bp):
CTTGTTGGGCTTCCAGATTCAA
Found at i:2135360 original size:3 final size:3
Alignment explanation
Indices: 2135346--2135382 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
2135336 TTTGGTCTTG
*
2135346 TAA TAA -AA TAA TAA TAA TAA TAA TAG TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2135383 TTATAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2135586 original size:2 final size:2
Alignment explanation
Indices: 2135581--2135622 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2135571 ATCTCAATTA
2135581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
2135622 A
1 A
2135623 AATTTTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2140900 original size:29 final size:29
Alignment explanation
Indices: 2140868--2140930 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
2140858 TCTATTTTCA
2140868 TATTTCTATTTCTATTTAATGTTATGTTT
1 TATTTCTATTTCTATTTAATGTTATGTTT
2140897 TATTTCTATTTCTATTTAATGTTATGTTT
1 TATTTCTATTTCTATTTAATGTTATGTTT
2140926 TATTT
1 TATTT
2140931 GATTGCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (29 bp):
TATTTCTATTTCTATTTAATGTTATGTTT
Found at i:2154039 original size:25 final size:23
Alignment explanation
Indices: 2154010--2154062 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
2154000 TTCATTTTCC
*
2154010 GTTCACGAACATGTTTGTGTTTAAT
1 GTTCACGAACATG-TT-CGTTTAAT
**
2154035 GTTCACGGGCATGTTCGTTTAAT
1 GTTCACGAACATGTTCGTTTAAT
2154058 GTTCA
1 GTTCA
2154063 ACAAACAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.48
24 2 0.08
25 11 0.44
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (23 bp):
GTTCACGAACATGTTCGTTTAAT
Done.