Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 7 of 126
Found at i:1795344 original size:21 final size:20
Alignment explanation
Indices: 1795307--1795347 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1795297 TTTAGAATAC
*
1795307 TTTTTTTTTATTTTTTAAAA
1 TTTTTTTGTATTTTTTAAAA
*
1795327 TTTTTTTGTGTTTATTTAAAA
1 TTTTTTTGTATTT-TTTAAAA
1795348 AATAGGCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTTTTGTATTTTTTAAAA
Found at i:1796152 original size:18 final size:19
Alignment explanation
Indices: 1796131--1796172 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
1796121 TTTTTAAAAG
*
1796131 AAATTATAAAAAAT-TTAA
1 AAATTAGAAAAAATATTAA
1796149 AAATTAGAAAAAATATTAA
1 AAATTAGAAAAAATATTAA
1796168 AAATT
1 AAATT
1796173 TAATCAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATTAGAAAAAATATTAA
Found at i:1804703 original size:115 final size:116
Alignment explanation
Indices: 1804493--1804721 Score: 415
Period size: 115 Copynumber: 2.0 Consensus size: 116
1804483 GGGTAGATCT
*
1804493 ATTAAGGCTAACACAAGGCAGCATGAGTGGACACTATCCCCATGATCGGGCCCCTGGACCATCAA
1 ATTAAGGCTAACACAAGGCAGCATGAGTAGACACTATCCCCATGATCGGGCCCCTGGACCATCAA
1804558 ATCATTGTTTCCTCTCCTCTTTTCCATCACCACCATGATCAACTTCCATCA
66 ATCATTGTTTCCTCTCCTCTTTTCCATCACCACCATGATCAACTTCCATCA
* *
1804609 ATTAAGGCTAACACAAGGCAGCATGAGTAGACATTGTCCCCATGATCGGG-CCCTGGACCATCAA
1 ATTAAGGCTAACACAAGGCAGCATGAGTAGACACTATCCCCATGATCGGGCCCCTGGACCATCAA
*
1804673 ATCATTGTTTCCTCTCCTCTTTTCCATCACCACCATGATCAATTTCCAT
66 ATCATTGTTTCCTCTCCTCTTTTCCATCACCACCATGATCAACTTCCAT
1804722 GTCATCTATT
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
115 62 0.57
116 47 0.43
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (116 bp):
ATTAAGGCTAACACAAGGCAGCATGAGTAGACACTATCCCCATGATCGGGCCCCTGGACCATCAA
ATCATTGTTTCCTCTCCTCTTTTCCATCACCACCATGATCAACTTCCATCA
Found at i:1812029 original size:31 final size:31
Alignment explanation
Indices: 1811994--1812066 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
1811984 TTAACAATAA
* *
1811994 AGTGACTTGAATAAAAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTTAAATAGTTC
1812025 AGTGACTTAAATAAAAACTTTTAAATAGTTC
1 AGTGACTTAAATAAAAACTTTTAAATAGTTC
*
1812056 AATGAC-TAAAT
1 AGTGACTTAAAT
1812067 TGTAACTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.13
31 34 0.87
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTAAATAGTTC
Found at i:1813990 original size:18 final size:18
Alignment explanation
Indices: 1813969--1814009 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
1813959 GTAAACTCCA
1813969 TACATTGGCTAAATTCTT
1 TACATTGGCTAAATTCTT
1813987 TACATTGGCTAAATTCTT
1 TACATTGGCTAAATTCTT
1814005 TACAT
1 TACAT
1814010 CTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (18 bp):
TACATTGGCTAAATTCTT
Found at i:1814973 original size:17 final size:17
Alignment explanation
Indices: 1814951--1814983 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1814941 ACTGATATAC
1814951 GAAAAAAGAAAAAAAAA
1 GAAAAAAGAAAAAAAAA
*
1814968 GAAAAAGGAAAAAAAA
1 GAAAAAAGAAAAAAAA
1814984 TTTTGGGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
GAAAAAAGAAAAAAAAA
Found at i:1817132 original size:12 final size:12
Alignment explanation
Indices: 1817115--1817139 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1817105 TTAACAAGTT
1817115 GGATTTAAAAAG
1 GGATTTAAAAAG
1817127 GGATTTAAAAAG
1 GGATTTAAAAAG
1817139 G
1 G
1817140 ACCCTATGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (12 bp):
GGATTTAAAAAG
Found at i:1819612 original size:30 final size:32
Alignment explanation
Indices: 1819543--1819619 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 32
1819533 TCAAAATATT
1819543 AAAAATATTTAATT-AAGCCTCTTTAAATTTTA
1 AAAAAT-TTTAATTAAAGCCTCTTTAAATTTTA
*
1819575 AAAAATTTTAATTAAATCCTC-TTAAATTTT-
1 AAAAATTTTAATTAAAGCCTCTTTAAATTTTA
* *
1819605 GAAAATTTTTATTAA
1 AAAAATTTTAATTAA
1819620 TCTCACAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
30 13 0.32
31 16 0.39
32 12 0.29
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (32 bp):
AAAAATTTTAATTAAAGCCTCTTTAAATTTTA
Found at i:1822698 original size:3 final size:3
Alignment explanation
Indices: 1822652--1822686 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
1822642 AACATAAACA
1822652 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1822687 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1824544 original size:96 final size:95
Alignment explanation
Indices: 1824420--1824727 Score: 314
Period size: 96 Copynumber: 3.3 Consensus size: 95
1824410 TTTGCTATGA
* *
1824420 TCTACTCAACTGCAACTTTAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCA
1 TCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCA
*
1824485 ACTTCAGGGAAATAAGATTCACTTTCTTCAG
66 AATTCAGGGAAATAAGATTC-CTTTCTTCAG
* * * * *
1824516 TCTACTCCACTGCAACTTCAAAGAGATAAGACTTG-----TA-A-CTTCAACCTGCTCCACTGCA
1 TCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCA
* * * *
1824574 AATTCAGGGAGATAAG-GT--TTGCTATGA-
66 AATTCAGGGAAATAAGATTCCTTTCT-TCAG
* * * * *
1824601 TATACTCTACTACAACTTTAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCTACTGCA
1 TCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCA
* * *
1824666 ATTTCAGGAAAATAAGATTCGCTATCTTCAG
66 AATTCAGGGAAATAAGATTC-CTTTCTTCAG
* *
1824697 TCTGCTCTACTGCAACTTCAGGGAGATAAGA
1 TCTACTCTACTGCAACTTCAGAGAGATAAGA
1824728 CTTGAAACTT
Statistics
Matches: 166, Mismatches: 33, Indels: 26
0.74 0.15 0.12
Matches are distributed among these distances:
85 32 0.19
86 2 0.01
88 1 0.01
89 32 0.19
90 3 0.02
91 3 0.02
92 30 0.18
93 1 0.01
95 2 0.01
96 60 0.36
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (95 bp):
TCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCA
AATTCAGGGAAATAAGATTCCTTTCTTCAG
Found at i:1824555 original size:181 final size:181
Alignment explanation
Indices: 1824315--1824783 Score: 688
Period size: 181 Copynumber: 2.6 Consensus size: 181
1824305 GTTTGATATG
* * * * * * * *
1824315 ATAAGATCCGCTATCTTGAGTGTACTCCACTACAACTT-TAGGAAGATAAGACTTGTAACTTTAA
1 ATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAAAG-AGATAAGACTTGTAACTTCAA
* * *
1824379 CCTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGCTATGATCTACTCAACTGCAACTTTAGAGA
65 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATATACTCAACTACAACTTTAGAGA
* *
1824444 GATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAA
130 GATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGAAA
*
1824496 ATAAGATTCACTTTCTTCAGTCTACTCCACTGCAACTTCAAAGAGATAAGACTTGTAACTTCAAC
1 ATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAAAGAGATAAGACTTGTAACTTCAAC
* *
1824561 CTGCTCCACTGCAAATTCAGGGAGATAAGGTTTGCTATGATATACTCTACTACAACTTTAGAGAG
66 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATATACTCAACTACAACTTTAGAGAG
* *
1824626 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCTACTGCAATTTCAGGAAA
131 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGAAA
* * * ** *
1824677 ATAAGATTCGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGAAACTTCAAC
1 ATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAAAGAGATAAGACTTGTAACTTCAAC
* *
1824742 CTACTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATA
66 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATA
1824784 GATTTAATCT
Statistics
Matches: 259, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
181 257 0.99
182 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (181 bp):
ATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAAAGAGATAAGACTTGTAACTTCAAC
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATATACTCAACTACAACTTTAGAGAG
ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGAAA
Found at i:1824580 original size:89 final size:88
Alignment explanation
Indices: 1824358--1824769 Score: 309
Period size: 96 Copynumber: 4.6 Consensus size: 88
1824348 AACTTTAGGA
* * * * * *
1824358 AGATAAGACTTGTAACTTTAACCTGCTCCACTGTAACTTCAGGGAGATAAG-GT--TTGCTATGA
1 AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCCTTTCT-TCA
* *
1824420 -TCTACTCAACTGCAACTTTAGAG
65 GTCTACTCTACTGCAACTTCAGAG
* * *
1824443 AGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACT
1 AGATAAGACTTG-----TA-A-CTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTC-CT
* *
1824508 TTCTTCAGTCTACTCCACTGCAACTTCAAAG
58 TTCTTCAGTCTACTCTACTGCAACTTCAGAG
* * * * *
1824539 AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAAATTCAGGGAGATAAG-GT--TTGCTATGA
1 AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCCTTTCT-TCA
* * *
1824601 -TATACTCTACTACAACTTTAGAG
65 GTCTACTCTACTGCAACTTCAGAG
* * * * * *
1824624 AGATAAGATCTGTAATTTATAGCTTCAATCTGTTCTACTGCAATTTCAGGAAAATAAGATTCGCT
1 AGATAAGA-C--T--TGTA-A-CTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTC-CT
* * *
1824689 ATCTTCAGTCTGCTCTACTGCAACTTCAGGG
58 TTCTTCAGTCTACTCTACTGCAACTTCAGAG
* * *
1824720 AGATAAGACTTGAAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAA
1 AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAAATAA
1824770 TGTTTGCTAT
Statistics
Matches: 252, Mismatches: 50, Indels: 46
0.72 0.14 0.13
Matches are distributed among these distances:
85 41 0.16
86 3 0.01
88 2 0.01
89 60 0.24
90 7 0.03
91 6 0.02
92 61 0.24
93 3 0.01
95 5 0.02
96 64 0.25
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (88 bp):
AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCCTTTCTTCAG
TCTACTCTACTGCAACTTCAGAG
Found at i:1824864 original size:44 final size:44
Alignment explanation
Indices: 1824697--1824895 Score: 124
Period size: 44 Copynumber: 4.5 Consensus size: 44
1824687 CTATCTTCAG
* * ** ** *
1824697 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGAAACTTCAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAGGATTTCTAGTTTTAA
* * * *
1824741 CCTACTCCACTGCAACTTCAGGGAGATAATG-TTTGCTATGATAGATTTAA
1 TCTGCTCTACTGCAACTTCAGGGAGAT-AGGATTT-CTA-G-T---TTTAA
* *
1824791 TCTGGC-CTACTGCAACCTCAGAGG-TATAGGATTTCTAGTTTTAA
1 TCT-GCTCTACTGCAACTTCAG-GGAGATAGGATTTCTAGTTTTAA
* *
1824835 TCTGCTCTACTGCAACTTCAGGGAGATAGGATTACTA----TGA
1 TCTGCTCTACTGCAACTTCAGGGAGATAGGATTTCTAGTTTTAA
*
1824875 TCTGCTCTATTGCAACTTCAG
1 TCTGCTCTACTGCAACTTCAG
1824896 AGAGGTAAGA
Statistics
Matches: 122, Mismatches: 21, Indels: 28
0.71 0.12 0.16
Matches are distributed among these distances:
40 22 0.18
43 4 0.03
44 59 0.48
45 3 0.02
47 1 0.01
48 1 0.01
49 5 0.04
50 24 0.20
51 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
TCTGCTCTACTGCAACTTCAGGGAGATAGGATTTCTAGTTTTAA
Found at i:1825000 original size:45 final size:45
Alignment explanation
Indices: 1824917--1825050 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 45
1824907 CTATAATTTG
* * * *
1824917 TAGCTTTAATCTGTTCCAATGTAACTTTAGGGAAATAAGATTCGC
1 TAGCTTCAATCTGCTCCAATGTAACTTTAAGGAGATAAGATTCGC
* * * ** *
1824962 TATCTTCAGTCTGCTCCACTGTAACTTTAAGGAGATAAGGCT-GG
1 TAGCTTCAATCTGCTCCAATGTAACTTTAAGGAGATAAGATTCGC
* * * * *
1825006 TGGCTTCAATCTGCTCCATTGCAACTTCATGGAGATAAGATTCGC
1 TAGCTTCAATCTGCTCCAATGTAACTTTAAGGAGATAAGATTCGC
1825051 CATGATGACT
Statistics
Matches: 68, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
44 34 0.50
45 34 0.50
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (45 bp):
TAGCTTCAATCTGCTCCAATGTAACTTTAAGGAGATAAGATTCGC
Found at i:1825093 original size:274 final size:275
Alignment explanation
Indices: 1824561--1825098 Score: 663
Period size: 274 Copynumber: 2.0 Consensus size: 275
1824551 TAACTTCAAC
* * *
1824561 CTGCTCCACTGCAAATTCAGGGAGATAAGGTTTGCTATGATATACTCTACTACAACTTTAGAGAG
1 CTGCTCCACTGCAAATTCAGGGAGATAAGGATTACTATGATATACTCTACTACAACTTCAGAGAG
* * *
1824626 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCTACTGCAATTTCAGGAAAATAAGATTCGCTAT
66 ATAAGATCTATAATTTATAGCTTCAATCTGTTCCAATGCAATTTCAGGAAAATAAGATTCGCTAT
* * *
1824691 CTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGAAACTTCAACCTACTCCACTGCAA
131 CTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTGGAAACTTCAACCTACTCCACTGCAA
* * * ** *
1824756 CTTCAGGGAGATAATGTTTGCTATGATAGATTTAATCTGGCCTACTGCAACCTCAGAGGTATAGG
196 CTTCAGGGAGATAATGTTCGCCATGATAGATTCAATCCAGCCCACTGCAACCTCAGAGGTATAGG
1824821 ATTTCTAGTTTTAAT
261 ATTTCTAGTTTTAAT
* * * * * *
1824836 CTGCTCTACTGCAACTTCAGGGAGAT-AGGATTACTATGATCTGCTCTATTGCAACTTCAGAGAG
1 CTGCTCCACTGCAAATTCAGGGAGATAAGGATTACTATGATATACTCTACTACAACTTCAGAGAG
* * * * *
1824900 GTAAGATCTATAATTTGTAGCTTTAATCTGTTCCAATGTAACTTT-AGGGAAATAAGATTCGCTA
66 ATAAGATCTATAATTTATAGCTTCAATCTGTTCCAATGCAA-TTTCAGGAAAATAAGATTCGCTA
* * * *** * * *
1824964 TCTTCAGTCTGCTCCACTGTAACTTTAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCATTGCA
130 TCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTGGAAACTTCAACCTACTCCACTGCA
* * *
1825029 ACTTCATGGAGATAA-GATTCGCCATGAT-GACTTCAATCCATCCCACTGCAACTTCA-AGGGTA
195 ACTTCAGGGAGATAATG-TTCGCCATGATAGA-TTCAATCCAGCCCACTGCAACCTCAGA-GGTA
1825091 TAGGATTT
257 TAGGATTT
1825099 GTGGTTTCAC
Statistics
Matches: 221, Mismatches: 38, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
273 4 0.02
274 190 0.86
275 27 0.12
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (275 bp):
CTGCTCCACTGCAAATTCAGGGAGATAAGGATTACTATGATATACTCTACTACAACTTCAGAGAG
ATAAGATCTATAATTTATAGCTTCAATCTGTTCCAATGCAATTTCAGGAAAATAAGATTCGCTAT
CTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTGGAAACTTCAACCTACTCCACTGCAA
CTTCAGGGAGATAATGTTCGCCATGATAGATTCAATCCAGCCCACTGCAACCTCAGAGGTATAGG
ATTTCTAGTTTTAAT
Found at i:1825941 original size:11 final size:11
Alignment explanation
Indices: 1825927--1825984 Score: 55
Period size: 11 Copynumber: 5.0 Consensus size: 11
1825917 TTGGCCTCTC
1825927 CTTTTATTTTT
1 CTTTTATTTTT
*
1825938 CTTTTCTTTTTT
1 CTTTT-ATTTTT
1825950 CATTTT-TTCCTTT
1 C-TTTTATT--TTT
1825963 CTTTTATTTTT
1 CTTTTATTTTT
*
1825974 CTTTTCTTTTT
1 CTTTTATTTTT
1825985 TTATGAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
11 20 0.50
12 10 0.25
13 10 0.25
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTATTTTT
Found at i:1825958 original size:20 final size:18
Alignment explanation
Indices: 1825928--1825985 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
1825918 TGGCCTCTCC
1825928 TTTTATTTTTCTTTTCTT
1 TTTTATTTTTCTTTTCTT
*
1825946 TTTTCATTTTTTCCTTTC--
1 TTTT-A-TTTTTCTTTTCTT
1825964 TTTTATTTTTCTTTTCTT
1 TTTTATTTTTCTTTTCTT
1825982 TTTT
1 TTTT
1825986 TATGAAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
16 10 0.29
17 1 0.03
18 12 0.35
19 1 0.03
20 10 0.29
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTCTTTTCTT
Found at i:1825974 original size:16 final size:16
Alignment explanation
Indices: 1825927--1825983 Score: 69
Period size: 16 Copynumber: 3.3 Consensus size: 16
1825917 TTGGCCTCTC
1825927 CTTTTATTTTTCTTTT
1 CTTTTATTTTTCTTTT
*
1825943 CTTTTTTCATTTTTTCCTTT
1 C--TTTT-A-TTTTTCTTTT
1825963 CTTTTATTTTTCTTTT
1 CTTTTATTTTTCTTTT
1825979 CTTTT
1 CTTTT
1825984 TTTATGAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 15 0.43
17 1 0.03
18 8 0.23
19 1 0.03
20 10 0.29
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (16 bp):
CTTTTATTTTTCTTTT
Found at i:1831082 original size:12 final size:11
Alignment explanation
Indices: 1831045--1831104 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 11
1831035 AATTAAAAAT
*
1831045 ATAATAATGACA
1 ATAATAAT-ATA
*
1831057 ATGATAATGATA
1 ATAATAAT-ATA
*
1831069 ATGATAATATTA
1 ATAATAATA-TA
1831081 ATAATAATACTA
1 ATAATAATA-TA
1831093 ATAATAA-ATA
1 ATAATAATATA
1831103 AT
1 AT
1831105 TTAGATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
10 4 0.09
11 2 0.05
12 37 0.86
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (11 bp):
ATAATAATATA
Found at i:1831082 original size:18 final size:18
Alignment explanation
Indices: 1831045--1831088 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1831035 AATTAAAAAT
1831045 ATAATAATGACAATGATA
1 ATAATAATGACAATGATA
* *
1831063 ATGATAATGATAAT-ATTA
1 ATAATAATGACAATGA-TA
1831081 ATAATAAT
1 ATAATAAT
1831089 ACTAATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAATAATGACAATGATA
Found at i:1831159 original size:17 final size:18
Alignment explanation
Indices: 1831120--1831167 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
1831110 TTTTAAAAAA
1831120 ATAA-AAATAAAA-AGAT
1 ATAATAAATAAAACAGAT
1831136 ATAAATAAATAAAACA-AT
1 AT-AATAAATAAAACAGAT
*
1831154 ATAATAAATTAAAC
1 ATAATAAATAAAAC
1831168 GTGTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 2 0.07
17 13 0.46
18 12 0.43
19 1 0.04
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (18 bp):
ATAATAAATAAAACAGAT
Found at i:1832330 original size:8 final size:8
Alignment explanation
Indices: 1832319--1832376 Score: 68
Period size: 8 Copynumber: 7.6 Consensus size: 8
1832309 GCATGGTAAT
1832319 TGGGTTTG
1 TGGGTTTG
*
1832327 TGGGTATG
1 TGGGTTTG
1832335 -GGGTTTG
1 TGGGTTTG
*
1832342 TGGGTAT-
1 TGGGTTTG
1832349 TGGGTTTG
1 TGGGTTTG
*
1832357 TGGGTAT-
1 TGGGTTTG
1832364 TGGGTTTG
1 TGGGTTTG
1832372 TGGGT
1 TGGGT
1832377 ATTGGGTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
7 18 0.44
8 23 0.56
ACGTcount: A:0.05, C:0.00, G:0.50, T:0.45
Consensus pattern (8 bp):
TGGGTTTG
Found at i:1832338 original size:15 final size:15
Alignment explanation
Indices: 1832317--1832384 Score: 127
Period size: 15 Copynumber: 4.5 Consensus size: 15
1832307 GGGCATGGTA
1832317 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
*
1832332 ATGGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
1832347 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
1832362 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
1832377 ATTGGGTT
1 ATTGGGTT
1832385 CTTTTGTTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 51 1.00
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.46
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Found at i:1837750 original size:13 final size:13
Alignment explanation
Indices: 1837698--1837750 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
1837688 TTTAAACCAA
**
1837698 ACTTTTCAAAAAT
1 ACTTTTCAAAAGC
1837711 A-TTTCTCAAAAGC
1 ACTTT-TCAAAAGC
* *
1837724 ACTTTTCCAGAGC
1 ACTTTTCAAAAGC
1837737 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
1837750 A
1 A
1837751 ATAAAGAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 3 0.09
13 26 0.81
14 3 0.09
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:1838745 original size:21 final size:21
Alignment explanation
Indices: 1838720--1838763 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1838710 ATCTTCAAGG
1838720 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
1838741 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
1838762 AT
1 AT
1838764 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:1838769 original size:19 final size:19
Alignment explanation
Indices: 1838719--1838774 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
1838709 AATCTTCAAG
1838719 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
1838738 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
1838759 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
1838775 AGGTATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:1839012 original size:21 final size:19
Alignment explanation
Indices: 1838974--1839012 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
1838964 TGTTTTCTTT
*
1838974 TTTTTTTCTTTTTTGATTA
1 TTTTTTTCTTTTTCGATTA
1838993 TTTTTTTCTTATTTACGATT
1 TTTTTTTCTT-TTT-CGATT
1839013 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 3 0.18
21 4 0.24
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTTTCTTTTTCGATTA
Found at i:1839243 original size:3 final size:3
Alignment explanation
Indices: 1839235--1839274 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
1839225 ATTAATTTTG
*
1839235 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
1839275 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1839243 original size:15 final size:15
Alignment explanation
Indices: 1839219--1839273 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
1839209 GTTTTTAGTC
1839219 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
1839233 TGTTATTATTATTTT
1 TATTATTATTAATTT
1839248 TATTATTA-T-ATTAT
1 TATTATTATTAATT-T
1839262 ATATTATTATTA
1 -TATTATTATTA
1839274 TACCTACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 2 0.06
14 5 0.16
15 24 0.75
16 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:1839250 original size:12 final size:12
Alignment explanation
Indices: 1839221--1839272 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
1839211 TTTTAGTCTA
1839221 TTTTATTAATT-T
1 TTTTATT-ATTAT
*
1839233 TGTTATTATTAT
1 TTTTATTATTAT
1839245 TTTTATTATTAT
1 TTTTATTATTAT
1839257 ATTATATATTATTAT
1 -TT-T-TATTATTAT
1839272 T
1 T
1839273 ATACCTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 18 0.53
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:1841594 original size:23 final size:24
Alignment explanation
Indices: 1841568--1841619 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
1841558 TTTTAGTAAC
* * *
1841568 TTTTATGTCTTTTTT-TTTTGAAT
1 TTTTATATATTTTTTATTTTAAAT
1841591 TTTTATATATTTTTTATTTTAAAT
1 TTTTATATATTTTTTATTTTAAAT
1841615 TTTTA
1 TTTTA
1841620 ATTGTTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTATATATTTTTTATTTTAAAT
Found at i:1853815 original size:23 final size:23
Alignment explanation
Indices: 1853781--1853850 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
1853771 ACCTGGCTCG
1853781 TTTTTAATTAAAATTAAAATTATA
1 TTTTTAA-TAAAATTAAAATTATA
*
1853805 TTTTTAATAAAATTAAAACTA-A
1 TTTTTAATAAAATTAAAATTATA
* *
1853827 TTGTTAGTAAAATTATCAAATTAT
1 TTTTTAATAAAATTA--AAATTAT
1853851 TAATTGTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 14 0.36
23 13 0.33
24 12 0.31
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (23 bp):
TTTTTAATAAAATTAAAATTATA
Found at i:1853901 original size:66 final size:59
Alignment explanation
Indices: 1853844--1853963 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
1853834 TAAAATTATC
* *
1853844 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1853902 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1853961 AAA
1 AAA
1853964 CAAGCCTGAT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 7 0.12
59 52 0.88
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:1857637 original size:41 final size:43
Alignment explanation
Indices: 1857542--1857685 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 43
1857532 GGCTCGTACA
* * *
1857542 ATGCCAACGTCCCAGAC-GTGGTCTTACATATAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACATAATCAAATATCG
* *
1857585 ATGCCACTGTCCTAGACAGGGTCTTACACA-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACATAATCAAATATCG
* * *
1857626 ATGCCAATGTCCCAGACATGGTCTTATACGTATAAAC-AAT-TCG
1 ATGCCAATGTCCCAGACAGGGTCTTACAC--ATAATCAAATATCG
*
1857669 ATGCCAACGTCCCAGAC
1 ATGCCAATGTCCCAGAC
1857686 GTGATCTTAC
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
41 27 0.32
42 8 0.09
43 46 0.54
44 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACATAATCAAATATCG
Found at i:1857694 original size:84 final size:84
Alignment explanation
Indices: 1857542--1857697 Score: 194
Period size: 84 Copynumber: 1.9 Consensus size: 84
1857532 GGCTCGTACA
* * * *
1857542 ATGCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACATATAAACACATATCGATGCCACTGTCCCAGACAGGAT
1857607 CTTACACAAATCAAATACG
66 CTTACACAAATCAAATACG
* *
1857626 ATGCCAATGTCCCAGACATGGTCTTATACGTATAAACA-AT-TCGATGCCAAC-GTCCCAGAC-G
1 ATGCCAACGTCCCAGACATGGTC-T-TACATATAAACACATATCGATGCC-ACTGTCCCAGACAG
1857687 TGATCTTACAC
63 -GATCTTACAC
1857698 GAAAATACAT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
83 1 0.02
84 46 0.74
85 5 0.08
86 10 0.16
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACATATAAACACATATCGATGCCACTGTCCCAGACAGGAT
CTTACACAAATCAAATACG
Found at i:1860721 original size:82 final size:83
Alignment explanation
Indices: 1860583--1860746 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 83
1860573 GAAGTCCTGA
1860583 AATCCAAAAATAATCTTATTTATAAATCGGTTACTGAATATATATACAAATATTTTATTAAATAT
1 AATCCAAAAATAATCTTATTTATAAATCGGTTACTGAATATATATACAAATATTTTATTAAATAT
1860648 ACAAATAGGTTAAAACAG
66 ACAAATAGGTTAAAACAG
*
1860666 AATCCAAAAATAA-CTTATTTATAACTCGGTTACTGAATATATATACAAATATTTTATTAAATAT
1 AATCCAAAAATAATCTTATTTATAAATCGGTTACTGAATATATATACAAATATTTTATTAAATAT
1860730 ACAAATAGGTTAAAACA
66 ACAAATAGGTTAAAACA
1860747 AAATGCATAC
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 67 0.84
83 13 0.16
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (83 bp):
AATCCAAAAATAATCTTATTTATAAATCGGTTACTGAATATATATACAAATATTTTATTAAATAT
ACAAATAGGTTAAAACAG
Found at i:1861250 original size:82 final size:82
Alignment explanation
Indices: 1861113--1861284 Score: 285
Period size: 82 Copynumber: 2.1 Consensus size: 82
1861103 AGAGGAAAGC
* * *
1861113 GCAAACAAAATTAAAATTCAAACACAAAAGGAATAAGAATGGAATGGAACAAAAACATTTATTAG
1 GCAAACAATATTAAAATGCAAACAAAAAAGGAATAAGAATGGAATGGAACAAAAACATTTATTAG
1861178 ATTTCAAATTTATATAT
66 ATTTCAAATTTATATAT
* *
1861195 GCAAACAATATTAAAATGCAAACAAAAAATGAATAAGAATTGAATGGAACAAAAACATTTATTAG
1 GCAAACAATATTAAAATGCAAACAAAAAAGGAATAAGAATGGAATGGAACAAAAACATTTATTAG
1861260 ATTTCAAATTTATATAT
66 ATTTCAAATTTATATAT
1861277 --AAACAATA
1 GCAAACAATA
1861285 GGCAAATTAT
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
80 8 0.09
82 77 0.91
ACGTcount: A:0.55, C:0.09, G:0.10, T:0.26
Consensus pattern (82 bp):
GCAAACAATATTAAAATGCAAACAAAAAAGGAATAAGAATGGAATGGAACAAAAACATTTATTAG
ATTTCAAATTTATATAT
Found at i:1863587 original size:21 final size:22
Alignment explanation
Indices: 1863546--1863588 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1863536 AAACTTAAAA
* *
1863546 TAAAACTAAAACTATTATATTT
1 TAAAAATAAAAATATTATATTT
1863568 TAAAAATAAAAATA-TATATTT
1 TAAAAATAAAAATATTATATTT
1863589 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAATAAAAATATTATATTT
Found at i:1864671 original size:11 final size:11
Alignment explanation
Indices: 1864632--1864760 Score: 74
Period size: 11 Copynumber: 12.9 Consensus size: 11
1864622 GGCCTATTTT
1864632 TATTTT-AAAA
1 TATTTTAAAAA
1864642 T-TTTTAAAAA
1 TATTTTAAAAA
*
1864652 -A--TTACAAA
1 TATTTTAAAAA
1864660 TATTTTAAAAA
1 TATTTTAAAAA
1864671 TATTTT--AAA
1 TATTTTAAAAA
1864680 -A--TTAAAAA
1 TATTTTAAAAA
* *
1864688 AATTTAAAAAAA
1 TATTT-TAAAAA
1864700 GTATTTTAAAAA
1 -TATTTTAAAAA
1864712 TATTTT--AAA
1 TATTTTAAAAA
1864721 -A-TTTAAAAA
1 TATTTTAAAAA
1864730 -A-TTTAAAAA
1 TATTTTAAAAA
* *
1864739 GTATGTAAAAAA
1 -TATTTTAAAAA
1864751 TATTTTAAAA
1 TATTTTAAAA
1864761 TTAAAGGCCG
Statistics
Matches: 93, Mismatches: 9, Indels: 33
0.69 0.07 0.24
Matches are distributed among these distances:
6 2 0.02
7 3 0.03
8 11 0.12
9 24 0.26
10 5 0.05
11 28 0.30
12 16 0.17
13 4 0.04
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:1864680 original size:28 final size:28
Alignment explanation
Indices: 1864632--1864765 Score: 88
Period size: 28 Copynumber: 4.9 Consensus size: 28
1864622 GGCCTATTTT
*
1864632 TATTTT-AAAAT-TTTTAAAAAATTACAAA
1 TATTTTAAAAATATTTT--AAAATTAAAAA
1864660 TATTTTAAAAATATTTTAAAATTAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAA
* * *
1864688 -AATTTAAAAAAAGTATT----TTAAAAA
1 TATTTTAAAAATA-TTTTAAAATTAAAAA
**
1864712 TATTTT-AAAAT-TTAAAAAATTTAAAAA
1 TATTTTAAAAATATTTTAAAA-TTAAAAA
* *
1864739 GTATGTAAAAAATATTTTAAAATTAAA
1 -TATTTTAAAAATATTTTAAAATTAAA
1864766 GGCCGGGCCC
Statistics
Matches: 81, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
22 1 0.01
24 11 0.14
25 4 0.05
27 17 0.21
28 23 0.28
29 15 0.19
30 10 0.12
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (28 bp):
TATTTTAAAAATATTTTAAAATTAAAAA
Found at i:1864750 original size:39 final size:39
Alignment explanation
Indices: 1864632--1864762 Score: 176
Period size: 39 Copynumber: 3.3 Consensus size: 39
1864622 GGCCTATTTT
*
1864632 TATTTTAAAATTTTTAAAAAA-TTACAAA-TATTTTAAAAA
1 TATTTTAAAA--TTTAAAAAATTTAAAAAGTATTTTAAAAA
*
1864671 TATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAATTT--AAAAAGTATTTTAAAAA
* *
1864712 TATTTTAAAATTTAAAAAATTTAAAAAGTATGTAAAAAA
1 TATTTTAAAATTTAAAAAATTTAAAAAGTATTTTAAAAA
1864751 TATTTTAAAATT
1 TATTTTAAAATT
1864763 AAAGGCCGGG
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
37 8 0.10
38 2 0.02
39 37 0.45
40 4 0.05
41 32 0.39
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (39 bp):
TATTTTAAAATTTAAAAAATTTAAAAAGTATTTTAAAAA
Found at i:1879490 original size:27 final size:28
Alignment explanation
Indices: 1879445--1879500 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
1879435 AAATGAATGG
* **
1879445 ATAATTAGTTGTATTTATTA-AATATAA
1 ATAATTAGTTCTAGCTATTATAATATAA
*
1879472 ATAATTAGTTCTAGCTATTATACTATAA
1 ATAATTAGTTCTAGCTATTATAATATAA
1879500 A
1 A
1879501 GAAATAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (28 bp):
ATAATTAGTTCTAGCTATTATAATATAA
Found at i:1881771 original size:16 final size:17
Alignment explanation
Indices: 1881742--1881782 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1881732 GGGTTTGAAT
1881742 CAATTTT-AGATTCGAA
1 CAATTTTAAGATTCGAA
*
1881758 CAATTTTAAG-TTCGAG
1 CAATTTTAAGATTCGAA
*
1881774 CCATTTTAA
1 CAATTTTAA
1881783 TTTCCAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (17 bp):
CAATTTTAAGATTCGAA
Found at i:1884716 original size:72 final size:72
Alignment explanation
Indices: 1884618--1884836 Score: 357
Period size: 72 Copynumber: 3.0 Consensus size: 72
1884608 AACCTCTTCC
* * * * *
1884618 ACCACCGGTTTATAAGCCTCACCCGGTGCCGGTCTACAAGAAACCACTCCCTCCGCCGGTTCCTG
1 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAGCCGCTTCCACCGCCGGTTCCTG
1884683 TCTACAA
66 TCTACAA
1884690 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAGCCGCTTCCACCGCCGGTTCCTG
1 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAGCCGCTTCCACCGCCGGTTCCTG
1884755 TCTACAA
66 TCTACAA
* * *
1884762 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTTTATAAGAAGCCGCTTCCACCGCCGGTTCCTA
1 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAGCCGCTTCCACCGCCGGTTCCTG
*
1884827 TTTACAA
66 TCTACAA
1884834 ACC
1 ACC
1884837 GAAACCCTTC
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 138 1.00
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (72 bp):
ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAGCCGCTTCCACCGCCGGTTCCTG
TCTACAA
Found at i:1884727 original size:39 final size:39
Alignment explanation
Indices: 1884673--1884794 Score: 98
Period size: 39 Copynumber: 3.3 Consensus size: 39
1884663 ACTCCCTCCG
* *
1884673 CCGGTTCCTGTCTACAAACCACCGGTTTATAAGCCTCAT
1 CCGGTGCCGGTCTACAAACCACCGGTTTATAAGCCTCAT
* * **
1884712 CCGGTGCCGGTCTACAAGA--AGCC-G-CT-T---CCACCG
1 CCGGTGCCGGTCTACAA-ACCA-CCGGTTTATAAGCCTCAT
* *
1884745 CCGGTTCCTGTCTACAAACCACCGGTTTATAAGCCTCAT
1 CCGGTGCCGGTCTACAAACCACCGGTTTATAAGCCTCAT
1884784 CCGGTGCCGGT
1 CCGGTGCCGGT
1884795 TTATAAGAAG
Statistics
Matches: 59, Mismatches: 14, Indels: 20
0.63 0.15 0.22
Matches are distributed among these distances:
32 1 0.02
33 20 0.34
34 2 0.03
35 1 0.02
36 2 0.03
37 1 0.02
38 2 0.03
39 29 0.49
40 1 0.02
ACGTcount: A:0.20, C:0.35, G:0.21, T:0.24
Consensus pattern (39 bp):
CCGGTGCCGGTCTACAAACCACCGGTTTATAAGCCTCAT
Found at i:1886091 original size:36 final size:35
Alignment explanation
Indices: 1886024--1886094 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
1886014 AATACAAGTT
1886024 TAAAGGCTAAAAAAAATTAAAAAGTAAAAAATAAAA
1 TAAAGGCTAAAAAAAATTAAAAAGT-AAAAATAAAA
* *
1886060 TAAAGGACTAAAATTAAATTAAAAGGT-AAAATAAA
1 TAAAGG-CTAAAA-AAAATTAAAAAGTAAAAATAAA
1886095 TCATTATACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 14 0.45
37 6 0.19
38 11 0.35
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (35 bp):
TAAAGGCTAAAAAAAATTAAAAAGTAAAAATAAAA
Found at i:1886376 original size:22 final size:21
Alignment explanation
Indices: 1886347--1886388 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1886337 CTTGTTGTTG
1886347 TTTTTTACTATTTTGCTATTA
1 TTTTTTACTATTTTGCTATTA
*
1886368 TTTTCTTACTATTTTGTTATT
1 TTTT-TTACTATTTTGCTATT
1886389 GTTTCCCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTATTTTGCTATTA
Found at i:1893102 original size:41 final size:41
Alignment explanation
Indices: 1893045--1893146 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
1893035 GCATAGCGCT
*
1893045 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* * *
1893086 TAGCAGACTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
1893127 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
1893147 TACTGAATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:1898473 original size:17 final size:18
Alignment explanation
Indices: 1898441--1898476 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1898431 TAATTTAAAT
1898441 TACTTAAATATATATTTA
1 TACTTAAATATATATTTA
*
1898459 TACTTATAT-TATATTTA
1 TACTTAAATATATATTTA
1898476 T
1 T
1898477 GAATATACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TACTTAAATATATATTTA
Found at i:1904618 original size:26 final size:26
Alignment explanation
Indices: 1904583--1904805 Score: 94
Period size: 26 Copynumber: 8.8 Consensus size: 26
1904573 GCAGCTCTTA
*
1904583 TGAGCGTCCCGTTATATGGCTCTTCG
1 TGAGCTTCCCGTTATATGGCTCTTCG
* *
1904609 TGAGCTTCCCGATTA-AAGGCTCTTTG
1 TGAGCTTCCCG-TTATATGGCTCTTCG
** * *
1904635 TGAGCTTCCTAATTA-ATGGCTATCCG
1 TGAGCTTCC-CGTTATATGGCTCTTCG
1904661 -GAGCTTCCCGTTA-ATGGCTCTTTTC-
1 TGAGCTTCCCGTTATATGGCTC--TTCG
* * * *
1904686 TGAGCTACCCGTTAT-TGACTCGT-A
1 TGAGCTTCCCGTTATATGGCTCTTCG
** * * *
1904710 TGAGCTTCATG-AATATGACTCTT-A
1 TGAGCTTCCCGTTATATGGCTCTTCG
**
1904734 TGAGCTTCCCGTTATACAGC-C--CGG
1 TGAGCTTCCCGTTATATGGCTCTTC-G
* * * * *
1904758 ATAAGCTTCCAGTTACATGGCTC-ACA
1 -TGAGCTTCCCGTTATATGGCTCTTCG
1904784 TGAGCTTCCCGTTATATGGCTC
1 TGAGCTTCCCGTTATATGGCTC
1904806 GAGAGATGGC
Statistics
Matches: 146, Mismatches: 37, Indels: 29
0.69 0.17 0.14
Matches are distributed among these distances:
23 2 0.01
24 36 0.25
25 46 0.32
26 58 0.40
27 4 0.03
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.34
Consensus pattern (26 bp):
TGAGCTTCCCGTTATATGGCTCTTCG
Found at i:1905687 original size:45 final size:45
Alignment explanation
Indices: 1905638--1905901 Score: 429
Period size: 45 Copynumber: 5.9 Consensus size: 45
1905628 TCGGCCATGG
* * * * *
1905638 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
1905683 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1905728 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1905773 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1905818 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * **
1905863 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
1905902 TCCACCTCTT
Statistics
Matches: 207, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 207 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:1912107 original size:45 final size:45
Alignment explanation
Indices: 1912058--1912411 Score: 609
Period size: 45 Copynumber: 7.9 Consensus size: 45
1912048 TCGGCCATGG
* * * * *
1912058 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
1912103 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1912148 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1912193 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1912238 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1912283 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1912328 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * **
1912373 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
1912412 TCCACCTCTT
Statistics
Matches: 297, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 297 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:1919853 original size:3 final size:3
Alignment explanation
Indices: 1919841--1919878 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
1919831 ACAATGTTAA
1919841 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1919879 CAATTTTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1928131 original size:47 final size:48
Alignment explanation
Indices: 1928027--1928151 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 48
1928017 CCGAACGCAT
* *
1928027 AACTTAATTAGGATTATGAAAATTATATTTTATAAATATATATTAGCTAG
1 AACTGAATTAGGATTACGAAAATTATA-TTTAT-AATATATATTAGCTAG
* * *
1928077 AATTGAATTAGGATTAGGAAAATTATATTTAT-ATATAT-TCTAGTTAG
1 AACTGAATTAGGATTACGAAAATTATATTTATAATATATAT-TAGCTAG
* *
1928124 AACTGAATTAAGATCACGAAAATTATAT
1 AACTGAATTAGGATTACGAAAATTATAT
1928152 ATAGAGTTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.02
47 36 0.55
49 5 0.08
50 24 0.36
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (48 bp):
AACTGAATTAGGATTACGAAAATTATATTTATAATATATATTAGCTAG
Found at i:1933124 original size:29 final size:29
Alignment explanation
Indices: 1933057--1933124 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
1933047 AATGTATAAC
* *
1933057 TATA-AAAATATAAAAGATATATGTGTGTA
1 TATATAAAA-ATAAAAGATATATATATGTA
* *
1933086 T-TCATGAAAATAAAAGATATGTATATGTA
1 TAT-ATAAAAATAAAAGATATATATATGTA
1933115 TATATAAAAA
1 TATATAAAAA
1933125 AAATTATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
28 1 0.03
29 26 0.84
30 4 0.13
ACGTcount: A:0.53, C:0.01, G:0.12, T:0.34
Consensus pattern (29 bp):
TATATAAAAATAAAAGATATATATATGTA
Found at i:1933140 original size:19 final size:20
Alignment explanation
Indices: 1933109--1933147 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
1933099 AAGATATGTA
1933109 TATGTATATATAAAAAAAAT
1 TATGTATATATAAAAAAAAT
1933129 TATGTA-ATATAAAAAAAAT
1 TATGTATATATAAAAAAAAT
1933148 GCGTTTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TATGTATATATAAAAAAAAT
Found at i:1935112 original size:35 final size:35
Alignment explanation
Indices: 1935064--1935131 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
1935054 ATACACTATC
1935064 TTAGAACTTAATTAGGATTACGAAAATTATATTAG
1 TTAGAACTTAATTAGGATTACGAAAATTATATTAG
*
1935099 TTAGAA-TTGAATTAGGATTATGAAAATTATATT
1 TTAGAACTT-AATTAGGATTACGAAAATTATATT
1935132 TATATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.40
Consensus pattern (35 bp):
TTAGAACTTAATTAGGATTACGAAAATTATATTAG
Found at i:1938619 original size:35 final size:35
Alignment explanation
Indices: 1938571--1938638 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
1938561 ATACACTATC
1938571 TTAGAACTTAATTAGGATTACGAAAATTATATTAG
1 TTAGAACTTAATTAGGATTACGAAAATTATATTAG
*
1938606 TTAGAA-TTGAATTAGGATTATGAAAATTATATT
1 TTAGAACTT-AATTAGGATTACGAAAATTATATT
1938639 TATATATATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.40
Consensus pattern (35 bp):
TTAGAACTTAATTAGGATTACGAAAATTATATTAG
Found at i:1939618 original size:26 final size:26
Alignment explanation
Indices: 1939563--1939609 Score: 73
Period size: 23 Copynumber: 1.9 Consensus size: 26
1939553 AATTTGTTAA
1939563 TTATTCTTATTTCTCATAAATTGAAG
1 TTATTCTTATTTCTCATAAATTGAAG
1939589 TTATT-TTATTT-TCA-AAATTGA
1 TTATTCTTATTTCTCATAAATTGA
1939610 TAGATTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 6 0.29
26 5 0.24
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (26 bp):
TTATTCTTATTTCTCATAAATTGAAG
Found at i:1939828 original size:20 final size:21
Alignment explanation
Indices: 1939803--1939844 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1939793 ATATTTATAT
*
1939803 TCTTTT-ATCAATTTTGATCC
1 TCTTTTAATCAAATTTGATCC
*
1939823 TCTTTTAATTAAATTTGATCC
1 TCTTTTAATCAAATTTGATCC
1939844 T
1 T
1939845 AAACCTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.55
Consensus pattern (21 bp):
TCTTTTAATCAAATTTGATCC
Found at i:1949615 original size:13 final size:14
Alignment explanation
Indices: 1949589--1949618 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1949579 GATTAATTAA
1949589 AACTAAACTTAACT
1 AACTAAACTTAACT
1949603 AACTAAA-TTAACT
1 AACTAAACTTAACT
1949616 AAC
1 AAC
1949619 AAGTGCGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (14 bp):
AACTAAACTTAACT
Found at i:1956663 original size:27 final size:26
Alignment explanation
Indices: 1956633--1956704 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
1956623 AAAGTCTACT
* *
1956633 GGGATAGTAAATACGGGGTAGTCCATC
1 GGGATA-TAAATACGAGATAGTCCATC
* *
1956660 GGGACAATAAACACGAGATAGTCCATC
1 GGGA-TATAAATACGAGATAGTCCATC
*
1956687 GAGATATAAAATACGAGA
1 GGGATAT-AAATACGAGA
1956705 CTTGAGTGAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 2 0.06
27 33 0.92
28 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.18
Consensus pattern (26 bp):
GGGATATAAATACGAGATAGTCCATC
Found at i:1960092 original size:20 final size:19
Alignment explanation
Indices: 1960069--1960120 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
1960059 TTTAAAAATA
1960069 AAAAATAAAAAAAGTATTTT
1 AAAAATAAAAAAA-TATTTT
***
1960089 AAAATATTTTAAAATATTTT
1 AAAA-ATAAAAAAATATTTT
*
1960109 AAAATTAAAAAA
1 AAAAATAAAAAA
1960121 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
19 4 0.17
20 14 0.58
21 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATAAAAAAATATTTT
Found at i:1960096 original size:10 final size:10
Alignment explanation
Indices: 1960078--1960113 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
1960068 AAAAAATAAA
1960078 AAAAGTATTTT
1 AAAA-TATTTT
1960089 AAAATATTTT
1 AAAATATTTT
1960099 AAAATATTTT
1 AAAATATTTT
1960109 AAAAT
1 AAAAT
1960114 TAAAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 21 0.84
11 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (10 bp):
AAAATATTTT
Found at i:1965045 original size:106 final size:106
Alignment explanation
Indices: 1964860--1965060 Score: 393
Period size: 106 Copynumber: 1.9 Consensus size: 106
1964850 AAGCTTTAAG
1964860 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1964925 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
*
1964966 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1965031 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
1965061 GAAAAATTTT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 94 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:1965581 original size:38 final size:38
Alignment explanation
Indices: 1965522--1965627 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
1965512 TATTTTTAAG
*
1965522 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
1965559 AATATGTATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
1965597 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
1965628 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:1965971 original size:22 final size:22
Alignment explanation
Indices: 1965915--1965971 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
1965905 AGTTTAAAAT
1965915 AAAATATATAAAAGAAAGTCTTA
1 AAAATATA-AAAAGAAAGTCTTA
*
1965938 AATAATA-AAAAAGACAGT-TTA
1 AA-AATATAAAAAGAAAGTCTTA
1965959 AAAATATACAAAA
1 AAAATATA-AAAA
1965972 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (22 bp):
AAAATATAAAAAGAAAGTCTTA
Found at i:1971021 original size:132 final size:132
Alignment explanation
Indices: 1970796--1971549 Score: 714
Period size: 132 Copynumber: 5.7 Consensus size: 132
1970786 AGGGAGATAG
* * * * * * *
1970796 GATCTG-TTT-TTCAATCCACTTC-CTACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTG-TATCTTCGATCCA
* * *
1970858 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGA
65 CTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
1970923 CAA
130 CAA
* * *
1970926 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGGCAAGATCTGTATCTTGGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
* * * * * *
1970991 TTCATATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
1971056 AA
131 AA
* * *
1971058 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
* * * * * * * * ***
1971123 TTCACGCCGATACATGAAGACAAGATTTGCTTTCTTCGATCTACCTCGCCACCAATATGGGAAGA
66 TTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGA
1971188 CAA
130 CAA
* * * * *** * * *
1971191 GATCTGC-ATCTTCGATCCACTTCA-CGCCGATACATGAAGACAAGATTTGCTTTCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTG-TATCTTCGATCCA
* * ** * *
1971254 CCTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCACGCCGATACATGAAG
65 CTTC-ACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
1971318 ACAA
129 ACAA
* * * *
1971322 GATTTGCTTTCTTCGATCTACCTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
* * * * * * * * ***
1971387 TTCACGCCGATACATGAAGACAAGATTTGCTTTCTTCGATCTACCTCGCCACCAATATGGGAAGA
66 TTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGA
1971452 CAA
130 CAA
* * * * * * * * *
1971455 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTATCCTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTG-TATCTTCGATCCA
** *
1971518 CTTCATGCCAATACATGAAGACAAGATCTGCT
65 CTTCACACCAATACAGGAAGACAAGATCTGCT
1971550 TTAATGACTT
Statistics
Matches: 497, Mismatches: 116, Indels: 20
0.79 0.18 0.03
Matches are distributed among these distances:
130 6 0.01
131 83 0.17
132 305 0.61
133 103 0.21
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
TTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:1971518 original size:88 final size:88
Alignment explanation
Indices: 1970820--1971477 Score: 919
Period size: 88 Copynumber: 7.5 Consensus size: 88
1970810 TCCACTTCCT
* * * * *
1970820 ACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
1 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCACGCCGATACATGAAGACAAGAT
* * *
1970885 CTGCTTTCTTCGATCTACTTC-AC
65 TTGCTTTCTTCGATCTACCTCGCC
* *** * * * *** *
1970908 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-CACCAGTATGGGAAGGCAAG
1 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCACGC-CGA-TACATGAAGACAAG
* * * * * **
1970972 ATCTG-TATCTTGGATCCACTTC-AT
63 ATTTGCTTTCTTCGATCTACCTCGCC
* * * * * * *
1970996 ATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
1 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCACGCCGATACATGAAGACAAGAT
* * *
1971061 CTGCTTTCTGCGATCTACTTCGCC
65 TTGCTTTCTTCGATCTACCTCGCC
1971085 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACGCCGATACATGAAGACAAGATT
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACGCCGATACATGAAGACAAGATT
1971150 TGCTTTCTTCGATCTACCTCGCC
66 TGCTTTCTTCGATCTACCTCGCC
1971173 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACGCCGATACATGAAGACAAGATT
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACGCCGATACATGAAGACAAGATT
1971238 TGCTTTCTTCGATCTACCTCGCC
66 TGCTTTCTTCGATCTACCTCGCC
1971261 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACGCCGATACATGAAGACAAGATT
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACGCCGATACATGAAGACAAGATT
1971326 TGCTTTCTTCGATCTACCTCGCC
66 TGCTTTCTTCGATCTACCTCGCC
1971349 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACGCCGATACATGAAGACAAGATT
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACGCCGATACATGAAGACAAGATT
1971414 TGCTTTCTTCGATCTACCTCGCC
66 TGCTTTCTTCGATCTACCTCGCC
1971437 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
1 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
1971478 CTACCAATAT
Statistics
Matches: 521, Mismatches: 44, Indels: 10
0.91 0.08 0.02
Matches are distributed among these distances:
87 16 0.03
88 469 0.90
89 36 0.07
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (88 bp):
ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACGCCGATACATGAAGACAAGATT
TGCTTTCTTCGATCTACCTCGCC
Found at i:1984026 original size:22 final size:22
Alignment explanation
Indices: 1983970--1984026 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
1983960 AGTTTAAAAT
1983970 AAAATATATAAAAGAAAGTCTTA
1 AAAATATA-AAAAGAAAGTCTTA
*
1983993 AATAATA-AAAAAGACAGT-TTA
1 AA-AATATAAAAAGAAAGTCTTA
1984014 AAAATATACAAAA
1 AAAATATA-AAAA
1984027 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (22 bp):
AAAATATAAAAAGAAAGTCTTA
Found at i:1984088 original size:23 final size:25
Alignment explanation
Indices: 1984057--1984108 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
1984047 GGTGCAATTG
* * *
1984057 AAATCAT-AATAAAACAAAGGGGAT
1 AAATCATAAAAAAAACAAAGAGGAA
1984081 AAAT-ATAAAAAAAACAAAGAGGAA
1 AAATCATAAAAAAAACAAAGAGGAA
1984105 AAAT
1 AAAT
1984109 GGACCAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.67, C:0.06, G:0.13, T:0.13
Consensus pattern (25 bp):
AAATCATAAAAAAAACAAAGAGGAA
Found at i:1986348 original size:21 final size:21
Alignment explanation
Indices: 1986322--1986362 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1986312 ATCTGCTCAA
* *
1986322 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1986343 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1986363 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1993880 original size:44 final size:40
Alignment explanation
Indices: 1993768--1993895 Score: 121
Period size: 42 Copynumber: 3.0 Consensus size: 40
1993758 TCTTACATGT
*
1993768 AATCAATATCGATGCCACTGTCCCAGACAGGGTCTTATACGA
1 AATCAA-ATCGATGCCAC-GTCCCAGACATGGTCTTATACGA
* * * *
1993810 AATCAAATATGATGCTGATGTCCCAGACATGGTCTTATACATA
1 AATCAAAT-CGATGC-CACGTCCCAGACATGGTCTTATAC-GA
* *
1993853 AATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTACACGA
1 AA--TCAAATCGATGCC-ACGTCCCAGACATGGTCTTATACGA
1993896 TAACACATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
41 2 0.03
42 31 0.45
43 5 0.07
44 25 0.36
45 6 0.09
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (40 bp):
AATCAAATCGATGCCACGTCCCAGACATGGTCTTATACGA
Found at i:1997359 original size:21 final size:21
Alignment explanation
Indices: 1997329--1997387 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
1997319 ATGAACCCCG
1997329 AATC-TGAACCAC-AAACTCAA
1 AATCATGAACC-CTAAACTCAA
*
1997349 AATCATGAACCCTAAACTCCA
1 AATCATGAACCCTAAACTCAA
*
1997370 AA-CATGACCCCTCAAACT
1 AATCATGAACCCT-AAACT
1997388 TGAACTAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.44, C:0.34, G:0.05, T:0.17
Consensus pattern (21 bp):
AATCATGAACCCTAAACTCAA
Found at i:1997381 original size:20 final size:22
Alignment explanation
Indices: 1997340--1997387 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
1997330 ATCTGAACCA
1997340 CAAACTCAAAATCATGAACCCT
1 CAAACTCAAAATCATGAACCCT
* *
1997362 -AAACTCCAAA-CATGACCCCT
1 CAAACTCAAAATCATGAACCCT
1997382 CAAACT
1 CAAACT
1997388 TGAACTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.44, C:0.35, G:0.04, T:0.17
Consensus pattern (22 bp):
CAAACTCAAAATCATGAACCCT
Found at i:1997514 original size:28 final size:28
Alignment explanation
Indices: 1997460--1997514 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
1997450 TTATGTGTGT
* * **
1997460 ATGATTTAGGGTTTGAGATTCGGGGTTC
1 ATGATTTAGGGTGTAAGATTAAGGGTTC
*
1997488 ATGATTTAGGGTGTAAGATTAATGGTT
1 ATGATTTAGGGTGTAAGATTAAGGGTT
1997515 TAGAGTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.24, C:0.04, G:0.33, T:0.40
Consensus pattern (28 bp):
ATGATTTAGGGTGTAAGATTAAGGGTTC
Found at i:1998268 original size:11 final size:11
Alignment explanation
Indices: 1998254--1998304 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
1998244 GTTTTGTTCT
1998254 TATTTTGCTAC
1 TATTTTGCTAC
*
1998265 TATTTTGCTGC
1 TATTTTGCTAC
** *
1998276 TATTTCACTAT
1 TATTTTGCTAC
*
1998287 TATATTGCTAC
1 TATTTTGCTAC
1998298 TATTTTG
1 TATTTTG
1998305 TTCTTATTAT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.55
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:2005549 original size:3 final size:3
Alignment explanation
Indices: 2005541--2005686 Score: 292
Period size: 3 Copynumber: 48.7 Consensus size: 3
2005531 TACTATGACT
2005541 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2005589 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2005637 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2005685 TT
1 TT
2005687 CCTACTATAT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 143 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2005892 original size:12 final size:12
Alignment explanation
Indices: 2005875--2005903 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2005865 TATGCATACC
2005875 TACATATTTTAA
1 TACATATTTTAA
2005887 TACATATTTTAA
1 TACATATTTTAA
2005899 TACAT
1 TACAT
2005904 TCATTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
TACATATTTTAA
Found at i:2006848 original size:2 final size:2
Alignment explanation
Indices: 2006841--2006865 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2006831 TAAGTATTTC
2006841 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2006866 CACGAAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2008494 original size:19 final size:19
Alignment explanation
Indices: 2008470--2008513 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
2008460 TGAATTAGTA
2008470 ATACCTCACCTTATTTTAT
1 ATACCTCACCTTATTTTAT
*
2008489 ATACCTCACCTTATTTTGT
1 ATACCTCACCTTATTTTAT
2008508 ATACCT
1 ATACCT
2008514 TATCAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.45
Consensus pattern (19 bp):
ATACCTCACCTTATTTTAT
Found at i:2012799 original size:36 final size:36
Alignment explanation
Indices: 2012752--2012824 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
2012742 GATAGGGAGA
2012752 ATTTAATGATCATGGGGTTGAGTAGGGTGTGAAAAG
1 ATTTAATGATCATGGGGTTGAGTAGGGTGTGAAAAG
2012788 ATTTAATGATCATGGGGTTGAGTAGGGTGTGAAAAG
1 ATTTAATGATCATGGGGTTGAGTAGGGTGTGAAAAG
2012824 A
1 A
2012825 AAGAAAGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.03, G:0.36, T:0.30
Consensus pattern (36 bp):
ATTTAATGATCATGGGGTTGAGTAGGGTGTGAAAAG
Found at i:2014793 original size:47 final size:47
Alignment explanation
Indices: 2014733--2014828 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
2014723 GTCTTGTAAA
2014733 CATTCCTGATAGGTTGAAGTTGCCTCTTTGCTACTAATCCCACCCTC
1 CATTCCTGATAGGTTGAAGTTGCCTCTTTGCTACTAATCCCACCCTC
* *
2014780 CATTCCTGCTAGGTTGAGGTTGCCTCTTTGCTACTAATCCCACCCTC
1 CATTCCTGATAGGTTGAAGTTGCCTCTTTGCTACTAATCCCACCCTC
2014827 CA
1 CA
2014829 CTCATTGGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (47 bp):
CATTCCTGATAGGTTGAAGTTGCCTCTTTGCTACTAATCCCACCCTC
Found at i:2018718 original size:22 final size:22
Alignment explanation
Indices: 2018674--2018732 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
2018664 ATGAATGTTG
*
2018674 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
2018698 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
2018720 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
2018733 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:2021245 original size:22 final size:22
Alignment explanation
Indices: 2021188--2021249 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
2021178 CCCAAAACCC
2021188 AACTAACCTAGCCCAATACCCTAA
1 AACT-ACCTAGCCCAATA-CCTAA
* *
2021212 ACCAACCTAGCCCAAT-CCTAA
1 AACTACCTAGCCCAATACCTAA
2021233 AACTACCTGAGCCCAAT
1 AACTACCT-AGCCCAAT
2021250 TTACAAACCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.33
22 8 0.24
23 12 0.36
24 2 0.06
ACGTcount: A:0.39, C:0.39, G:0.06, T:0.16
Consensus pattern (22 bp):
AACTACCTAGCCCAATACCTAA
Found at i:2022534 original size:26 final size:27
Alignment explanation
Indices: 2022500--2022553 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
2022490 CCTATTACTT
*
2022500 TATTCTTATTTTA-TTTTTATATCATTA
1 TATTCTTA-TCTACTTTTTATATCATTA
*
2022527 TATT-TTATCTACTTTTTATATTATTA
1 TATTCTTATCTACTTTTTATATCATTA
2022553 T
1 T
2022554 TATTATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 3 0.12
26 17 0.71
27 4 0.17
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (27 bp):
TATTCTTATCTACTTTTTATATCATTA
Found at i:2022544 original size:32 final size:38
Alignment explanation
Indices: 2022508--2022578 Score: 91
Period size: 36 Copynumber: 2.0 Consensus size: 38
2022498 TTTATTCTTA
2022508 TTTTAT-TT-TTA-TATCAT-TATATTTTA-TC-TACT
1 TTTTATATTATTATTATCATATATATTTTAGTCTTACT
*
2022540 TTTTATATTATTATTATTATATATATTTTAGTCTTACT
1 TTTTATATTATTATTATCATATATATTTTAGTCTTACT
2022578 T
1 T
2022579 GTCATATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 6 0.19
33 2 0.06
34 3 0.09
35 5 0.16
36 9 0.28
37 2 0.06
38 5 0.16
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (38 bp):
TTTTATATTATTATTATCATATATATTTTAGTCTTACT
Found at i:2022568 original size:26 final size:25
Alignment explanation
Indices: 2022511--2022568 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
2022501 ATTCTTATTT
* *
2022511 TATTTTTATATCATTATATTTTATC
1 TATTTTTATATCATTATATTATATA
*
2022536 TACTTTTTATATTATTATTATTATATA
1 TA-TTTTTATATCATTA-TATTATATA
2022563 TATTTT
1 TATTTT
2022569 AGTCTTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 17 0.61
27 9 0.32
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (25 bp):
TATTTTTATATCATTATATTATATA
Found at i:2034987 original size:73 final size:71
Alignment explanation
Indices: 2034802--2035124 Score: 375
Period size: 73 Copynumber: 4.5 Consensus size: 71
2034792 CTTTCCAAGG
* * *
2034802 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTA-TTTTAATTCAT
1 AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACGCTGAGGTATTTTTAGTTTAT
2034866 GTTTTCA
66 G-TTTCA
* * ** *
2034873 AAAACTTAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTT
1 AAAA-TTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGT--CACGCTGAGGTATTTTTAGTT
2034938 TATGTTTCA
63 TATGTTTCA
* * *
2034947 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTT
1 AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACGCTGAGGTATTTTTAGT--TT
*
2035012 TTGTTTCA
64 ATGTTTCA
* * * * * *
2035020 AAAA-TCAGCTCATATTGCGAGGGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAATTGA-CTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACGCTGAGGTATTTTTAGTTTA
2035084 TGTTT--
65 TGTTTCA
* *
2035089 TAAATTGACTCATATTGCGAGAAGTGAGTTAAGCCT
1 AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
2035125 TTTAATTTTT
Statistics
Matches: 212, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
69 28 0.13
70 2 0.01
71 29 0.14
72 33 0.16
73 89 0.42
74 21 0.10
75 10 0.05
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (71 bp):
AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACGCTGAGGTATTTTTAGTTTAT
GTTTCA
Found at i:2034996 original size:145 final size:142
Alignment explanation
Indices: 2034802--2035124 Score: 461
Period size: 145 Copynumber: 2.3 Consensus size: 142
2034792 CTTTCCAAGG
2034802 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATT-CAT
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCAT
* * *
2034866 GT-TTTCAAAAACTTAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
66 GTGTTTCAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GG-CACACGCCGAGGTAT
2034930 TTTTAGTTTATGTTT
128 TTTTAGTTTATGTTT
2034945 CAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCC
1 --AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCC
* * * *** **
2035010 TTTTGTTTCAAAAATCAGCTCATATTGCGAGGGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATT
64 ATGTGTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGCACACGCCGAGGTATT
2035075 TTTAGTTTATGTTT
129 TTTAGTTTATGTTT
* * *
2035089 TAAATTGACTCATATTGCGAGAAGTGAGTTAAGCCT
1 AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCT
2035125 TTTAATTTTT
Statistics
Matches: 162, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
142 33 0.20
144 27 0.17
145 63 0.39
146 30 0.19
147 9 0.06
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (142 bp):
AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCAT
GTGTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGCACACGCCGAGGTATTTT
TAGTTTATGTTT
Found at i:2035246 original size:73 final size:73
Alignment explanation
Indices: 2035142--2035679 Score: 425
Period size: 74 Copynumber: 7.0 Consensus size: 73
2035132 TTTGTTTTTC
* * *
2035142 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
*
2035207 GTTTTCCA
66 GTTTTCAA
** ** *
2035215 AATTTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
*
2035280 GTTGTCAAA
66 GTTTTC-AA
** *
2035289 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
2035354 GCTTTTCAA
66 G-TTTTCAA
*
2035363 GAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCC
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG-----T-AA----
*
2035428 TGTTCAATTTATGTTTTTC-A
55 T-TTCAATTTCTG-TTTTCAA
* * * * * *
2035448 AAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
2035513 GTTTTTCAATTTATGTTTTCA
66 G-TTTTC-----A-------A
* * * * * * *
2035534 AAAATCAATTCATATTGCTAGAGGTGAATGGAGCCTCAGGACACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--AGACACGCTGAGGTAATTTCAATTT
* *
2035599 TTGTGTTT--T
64 CTGT-TTTCAA
** * * * * * * *
2035608 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACACCGAGGTATTTTCCATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
2035673 GTTTTCA
66 GTTTTCA
2035680 TTATTATGTT
Statistics
Matches: 378, Mismatches: 55, Indels: 64
0.76 0.11 0.13
Matches are distributed among these distances:
71 3 0.01
72 23 0.06
73 79 0.21
74 93 0.25
75 54 0.14
78 1 0.00
79 1 0.00
80 1 0.00
81 1 0.00
84 46 0.12
85 2 0.01
86 48 0.13
87 1 0.00
88 25 0.07
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
GTTTTCAA
Found at i:2035569 original size:86 final size:87
Alignment explanation
Indices: 2035342--2035612 Score: 327
Period size: 84 Copynumber: 3.1 Consensus size: 87
2035332 CATTGAGGTA
* *
2035342 TTTTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTATGCTTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
2035407 CGTTGAGGTATTTTCAATTCCTG-
64 CGCTGAGGTATTTTCAATTTCTGT
* * * *
2035430 --TTCAATTTATGTTTTTCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
2035493 CTGAGGTATTTTCCATTTCTGT
66 CTGAGGTATTTTCAATTTCTGT
* * * *
2035515 TTTTCAATTTATG-TTTTCAAAAATCAATTCATATTGCTAGAGGTGAATGGAGCCTCAGGACACA
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACA
* *
2035579 CGCCGAGGTATTTTCAATTTTTGT
64 CGCTGAGGTATTTTCAATTTCTGT
2035603 GTTTT-AATTT
1 -TTTTCAATTT
2035613 CAACTCATAT
Statistics
Matches: 158, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
84 59 0.37
85 1 0.01
86 55 0.35
87 11 0.07
88 28 0.18
89 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (87 bp):
TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTCTGT
Found at i:2035661 original size:160 final size:161
Alignment explanation
Indices: 2035430--2035836 Score: 457
Period size: 160 Copynumber: 2.5 Consensus size: 161
2035420 TCAATTCCTG
* * * *
2035430 TTCAATTTATGTTTTTCAAAAA-CCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTCAATTTCTG-TTTT-AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
2035494 TGAGGTATTTTCCATTTCTGTTTTTCAAT-TTATG-TTTTCAAA-AATCAATTCATATTGCTAGA
64 TGAGGTATTTTCCATTTCTGTTTTTCAATATTATGTTTTTCAAAGAATCAACTCATATTGCGAGA
** * *
2035556 GGTGAATGGAGCCTCAGGACACACGCCGAGGTATT
129 AATGAATGGAGCCTCAAGACACA--CCGAGGTAAT
* * * * * * *
2035591 TTCAATTTTTGTGTTT-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACACC
1 TTCAATTTCTGT-TTTAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* *
2035655 GAGGTATTTTCCATTTCTG-TTTTCATTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAA
65 GAGGTATTTTCCATTTCTGTTTTTCAATATTATGTTTTTCAAAGAATCAACTCATATTGCGAGAA
* * **
2035719 ATGAGTTGAGCCTCAAGACACATTGAGGTAAT
130 ATGAATGGAGCCTCAAGACACACCGAGGTAAT
* ** *
2035751 TTCGATTTCTGTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
1 TTCAATTTCTGTTTT-AAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* *
2035816 GAGGTAATTTCAATTTCTGTT
65 GAGGTATTTTCCATTTCTGTT
2035837 GTCCAAACAA
Statistics
Matches: 203, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
159 12 0.06
160 78 0.38
161 76 0.37
162 37 0.18
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (161 bp):
TTCAATTTCTGTTTTAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
AGGTATTTTCCATTTCTGTTTTTCAATATTATGTTTTTCAAAGAATCAACTCATATTGCGAGAAA
TGAATGGAGCCTCAAGACACACCGAGGTAAT
Found at i:2035819 original size:73 final size:72
Alignment explanation
Indices: 2035689--2035957 Score: 303
Period size: 73 Copynumber: 3.7 Consensus size: 72
2035679 ATTATTATGT
* *
2035689 TTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTC
1 TTTTCAAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
2035754 GATTTCTG
65 GATTTCTG
*
2035762 TTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
1 TTTTCAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
*
2035827 AATTTCTG
65 GATTTCTG
* *
2035835 TTGTCCAAACAATCAACTCATATTGCGA-AAAGTGAGTTGAGCCTC-AGTTCACATGTTGAGGTA
1 TT-TTCAAA-AATCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCAAG---ACACGTTGAGGTA
* * *
2035898 TCTTTAG-TTTTTG
60 -ATTTCGATTTCTG
* * * *
2035911 TTTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTG-GGCTCAAGA
1 TTTTCAAA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
2035958 TCACATGCCA
Statistics
Matches: 169, Mismatches: 17, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
72 3 0.02
73 73 0.43
74 38 0.22
75 31 0.18
76 21 0.12
77 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (72 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCG
ATTTCTG
Found at i:2037705 original size:10 final size:10
Alignment explanation
Indices: 2037678--2037760 Score: 66
Period size: 10 Copynumber: 8.3 Consensus size: 10
2037668 AAGTTTTTAA
*
2037678 TATTATATTT
1 TATTATATAT
2037688 TA-TATATAT
1 TATTATATAT
2037697 TATTATATAT
1 TATTATATAT
2037707 T-TTA-ATAT
1 TATTATATAT
2037715 TATTAGTTATAT
1 TATTA--TATAT
* * *
2037727 TTTTTTATAC
1 TATTATATAT
2037737 TATTATATAT
1 TATTATATAT
2037747 ATATCTA-ATAT
1 -TAT-TATATAT
2037758 TAT
1 TAT
2037761 ATGGTATATT
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
8 5 0.08
9 14 0.24
10 24 0.41
11 7 0.12
12 9 0.15
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (10 bp):
TATTATATAT
Found at i:2037745 original size:40 final size:44
Alignment explanation
Indices: 2037680--2037792 Score: 123
Period size: 42 Copynumber: 2.7 Consensus size: 44
2037670 GTTTTTAATA
*
2037680 TTATATTTTATATATATTATTATATAT-T-T-TAATATTATTAG
1 TTATATTTTATATATACTATTATATATATATCTAATATTATTAG
*
2037721 TTATATTTT-TTTATACTATTATATATATATCTAATATTA-TATG
1 TTATATTTTATATATACTATTATATATATATCTAATATTATTA-G
* * *
2037764 GTATA-TTTCTA-ATACTATTATTTATATAT
1 TTATATTTTATATATACTATTATATATATAT
2037793 ATATTTATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
40 15 0.24
41 10 0.16
42 23 0.37
43 14 0.23
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (44 bp):
TTATATTTTATATATACTATTATATATATATCTAATATTATTAG
Found at i:2037779 original size:42 final size:40
Alignment explanation
Indices: 2037681--2037792 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 40
2037671 TTTTTAATAT
* *
2037681 TATATTTTATATA-TATTATTATATATTTTAATATTATTAGT
1 TATATTTTA-ATACTATTATTATATA-TCTAATATTATTAGG
*
2037722 TATATTTTTTTATACTATTATATATATATCTAATATTA-TATGG
1 TATA--TTTTAATACTATTAT-TATATATCTAATATTATTA-GG
2037765 TATATTTCTAATACTATTATTTATATAT
1 TATATTT-TAATACTATTA-TTATATAT
2037793 ATATTTATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
41 7 0.12
42 22 0.37
43 25 0.42
44 6 0.10
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (40 bp):
TATATTTTAATACTATTATTATATATCTAATATTATTAGG
Found at i:2037797 original size:12 final size:12
Alignment explanation
Indices: 2037677--2037804 Score: 56
Period size: 12 Copynumber: 10.5 Consensus size: 12
2037667 TAAGTTTTTA
2037677 ATAT-TATATTT
1 ATATATATATTT
2037688 -TATATATA-TT
1 ATATATATATTT
2037698 AT-TATATATTT
1 ATATATATATTT
2037709 -TA-ATAT-TATT
1 ATATATATAT-TT
*
2037719 AGT-TATATTTTT
1 A-TATATATATTT
* *
2037731 TTATACTATTATAT
1 ATATA-TA-TATTT
*
2037745 ATATATCTAATATT
1 ATATATAT-AT-TT
*
2037759 ATATGGTATATTT
1 ATAT-ATATATTT
*
2037772 CTAATACTATTATTT
1 AT-ATA-TA-TATTT
2037787 ATATATATATTT
1 ATATATATATTT
2037799 ATATAT
1 ATATAT
2037805 GTATGTATGT
Statistics
Matches: 88, Mismatches: 11, Indels: 35
0.66 0.08 0.26
Matches are distributed among these distances:
9 1 0.01
10 18 0.20
11 8 0.09
12 21 0.24
13 11 0.12
14 21 0.24
15 8 0.09
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (12 bp):
ATATATATATTT
Found at i:2046257 original size:26 final size:26
Alignment explanation
Indices: 2046207--2046258 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2046197 AGTGATTTGG
* **
2046207 TTTATATTCTAATGTTAATTTCTTAT
1 TTTATATTCCAATGTTAATCCCTTAT
2046233 TTTATATTCCAATGTTAATCCCTTAT
1 TTTATATTCCAATGTTAATCCCTTAT
2046259 GTCCCATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTATATTCCAATGTTAATCCCTTAT
Found at i:2066156 original size:52 final size:52
Alignment explanation
Indices: 2066099--2066204 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
2066089 AGAGTGAAGT
*
2066099 TAACATTATATACATATTTAAATCAATTGTTTTTTATACACTTGCATCAAAC
1 TAACATTATATACATATTTAAATCAATTATTTTTTATACACTTGCATCAAAC
*
2066151 TAACATTATATACATATTTAAATCAATTATTTTTTATATACTTGCATCAAAC
1 TAACATTATATACATATTTAAATCAATTATTTTTTATACACTTGCATCAAAC
2066203 TA
1 TA
2066205 CACCTGAGTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (52 bp):
TAACATTATATACATATTTAAATCAATTATTTTTTATACACTTGCATCAAAC
Found at i:2066188 original size:26 final size:26
Alignment explanation
Indices: 2066107--2066188 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
2066097 GTTAACATTA
*
2066107 TATACATATTTAAATCAATTGTTTTT
1 TATACATATTTAAATCAATTATTTTT
* ** * ** *
2066133 TATAC--ACTTGCATCAAACTAACATTA
1 TATACATATTTAAATC-AA-TTATTTTT
2066159 TATACATATTTAAATCAATTATTTTT
1 TATACATATTTAAATCAATTATTTTT
2066185 TATA
1 TATA
2066189 TACTTGCATC
Statistics
Matches: 37, Mismatches: 15, Indels: 8
0.62 0.25 0.13
Matches are distributed among these distances:
24 6 0.16
25 2 0.05
26 21 0.57
27 2 0.05
28 6 0.16
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.46
Consensus pattern (26 bp):
TATACATATTTAAATCAATTATTTTT
Found at i:2067848 original size:31 final size:29
Alignment explanation
Indices: 2067779--2067852 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
2067769 ACAAAATAAT
**
2067779 AACATAAGTGACTAAAACGTAACATTTTA
1 AACATAAGTGACTAAAACGTAACATGGTA
2067808 AACATAAGTGACTAAAACGTAACATGAGGTA
1 AACATAAGTGACTAAAACGTAACAT--GGTA
*
2067839 AACAAAAGTGACTA
1 AACATAAGTGACTA
2067853 TTTTTGTAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 25 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGTA
Found at i:2068857 original size:19 final size:19
Alignment explanation
Indices: 2068811--2068858 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
2068801 GTATATATTT
2068811 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
2068829 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
2068848 TAAGTTTTATT
1 TAAATTTTATT
2068859 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:2068920 original size:43 final size:43
Alignment explanation
Indices: 2068872--2068964 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
2068862 ATTCTAGAAA
* * *
2068872 TATTTT-TATTTTATTTTTTAGTAGTTTACTAGAATAAGGGAAT
1 TATTTTCT-TTTTATGTTTTAGTAGTTTACTAGAATAAAGGAAC
*
2068915 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAAGGAAC
1 TATTTTCTTTTTATGTTTTAGTAGTTTACTAGAATAAAGGAAC
2068958 TATTTTC
1 TATTTTC
2068965 CCAATTAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.54
Consensus pattern (43 bp):
TATTTTCTTTTTATGTTTTAGTAGTTTACTAGAATAAAGGAAC
Found at i:2073192 original size:62 final size:62
Alignment explanation
Indices: 2073126--2073991 Score: 1669
Period size: 62 Copynumber: 14.0 Consensus size: 62
2073116 CACGTATCTC
* *
2073126 TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073188 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073250 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073312 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073374 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073436 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073498 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073560 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073622 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073684 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073746 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073808 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
2073870 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
** * * *
2073932 TTCATGCAGCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAGTACG
1 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACG
2073992 TTGAGTTTAG
Statistics
Matches: 797, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 797 1.00
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.34
Consensus pattern (62 bp):
TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
Found at i:2075236 original size:12 final size:11
Alignment explanation
Indices: 2075219--2075300 Score: 55
Period size: 11 Copynumber: 7.4 Consensus size: 11
2075209 GTGGAGGCAA
2075219 AAAAAAAAGGAC
1 AAAAAAAA-GAC
2075231 AAAAAAAAGAC
1 AAAAAAAAGAC
*
2075242 AAAAAAAGGTA-
1 AAAAAAAAG-AC
*
2075253 AAAAAACGAGA-
1 AAAAAA-AAGAC
2075264 AAATAAAAAG-C
1 AAA-AAAAAGAC
*
2075275 AAAAAAAAAACC
1 AAAAAAAAGA-C
*
2075287 AAATAAAAGA-
1 AAAAAAAAGAC
2075297 AAAA
1 AAAA
2075301 CCTCTACTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
10 8 0.14
11 26 0.46
12 22 0.39
ACGTcount: A:0.78, C:0.07, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAAAAAAGAC
Found at i:2075736 original size:7 final size:6
Alignment explanation
Indices: 2075710--2075772 Score: 51
Period size: 6 Copynumber: 10.2 Consensus size: 6
2075700 TACTTCACTT
*
2075710 GAAAAA -AAAAC G-AAAA GAAAAA TGAAAAAA TGAAAAA -AGAAAA GAAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA -G-AAAAA -GAAAAA GA-AAAA G-AAAAA
2075760 GAAAAA GAAAAA G
1 GAAAAA GAAAAA G
2075773 GAGAGGCCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
5 9 0.19
6 20 0.42
7 11 0.23
8 8 0.17
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:2075736 original size:12 final size:12
Alignment explanation
Indices: 2075710--2075771 Score: 63
Period size: 13 Copynumber: 4.9 Consensus size: 12
2075700 TACTTCACTT
*
2075710 GAAAA-AAAAAC
1 GAAAAGAAAAAA
2075721 GAAAAGAAAAATGA
1 GAAAAGAAAAA--A
*
2075735 AAAAATGAAAAAA
1 GAAAA-GAAAAAA
2075748 GAAAAGAAAAAA
1 GAAAAGAAAAAA
2075760 GAAAAAGAAAAA
1 G-AAAAGAAAAA
2075772 GGAGAGGCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
11 5 0.12
12 13 0.30
13 15 0.35
14 4 0.09
15 6 0.14
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.03
Consensus pattern (12 bp):
GAAAAGAAAAAA
Found at i:2076836 original size:45 final size:45
Alignment explanation
Indices: 2076785--2076944 Score: 108
Period size: 45 Copynumber: 3.4 Consensus size: 45
2076775 TCCCTGACTA
* *
2076785 CAGTGGAGTACATTGAAGCTGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCAGATAACTCTATCTCCCTGTATTTGG
* * * * * * *
2076830 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCATGTGA-CT-A
1 CAGTGGAATACATTGAAG--C--AGAT---A-ACTCTATCTCCCTGT-ATTTGG
* * *
2076882 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCAGTATTTGG
1 CAGTGGAATACATTGAAGCAGATAACTCTATCTCCCTGTATTTGG
*
2076927 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
2076945 ATTGCAGATC
Statistics
Matches: 83, Mismatches: 21, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
43 1 0.01
44 11 0.13
45 33 0.40
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
52 17 0.20
53 12 0.14
54 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGTGGAATACATTGAAGCAGATAACTCTATCTCCCTGTATTTGG
Found at i:2076915 original size:97 final size:95
Alignment explanation
Indices: 2076751--2076946 Score: 338
Period size: 97 Copynumber: 2.0 Consensus size: 95
2076741 GCAGCGAAGC
* *
2076751 AGATCAAAGATGTCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCTGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
2076816 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCAGTATTTGGCAGTGGAATAGATTGA
*
2076846 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
2076911 ATCTCCCAGTATTTGGCAGTGGAATAGATTGA
64 ATCTCCCAGTATTTGGCAGTGGAATAGATTGA
2076943 AGAT
1 AGAT
2076947 TGCAGATCTT
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 26 0.27
97 69 0.73
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCAGTATTTGGCAGTGGAATAGATTGA
Found at i:2077109 original size:46 final size:46
Alignment explanation
Indices: 2076913--2077109 Score: 136
Period size: 46 Copynumber: 4.4 Consensus size: 46
2076903 ATAACTCTAT
* *
2076913 CTCCCAGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * ** * *
2076959 CTTCTTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
*** * * ** * * *
2077005 CTCCCTG-A--CCACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
2077047 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
*
2077093 CTTCCTGTATTTGGCAG
1 CTCCCTGTATTTGGCAG
2077110 CGAAGCAGAT
Statistics
Matches: 104, Mismatches: 39, Indels: 16
0.65 0.25 0.10
Matches are distributed among these distances:
41 3 0.03
42 10 0.10
43 10 0.10
44 2 0.02
45 20 0.19
46 55 0.53
47 4 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:2077193 original size:135 final size:134
Alignment explanation
Indices: 2076846--2077215 Score: 659
Period size: 134 Copynumber: 2.7 Consensus size: 134
2076836 AATAGATTGA
* *
2076846 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACCACAGTGGAGTACATTGAAGCCGATAACTCT
* *
2076911 ATCTCCCAGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCTTGTATTTGGCAG
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
2076976 CGAAGC
129 CGAAGC
2076982 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
2077047 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
2077112 AAGC
131 AAGC
* *
2077116 AGATCAAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACACTGAAGCCGATAATTCTA
1 AGATC-AAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTA
2077181 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
65 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
2077216 NNNNNNNNNN
Statistics
Matches: 227, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
134 108 0.48
135 92 0.41
136 27 0.12
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (134 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGC
Found at i:2083985 original size:42 final size:41
Alignment explanation
Indices: 2083939--2084021 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 41
2083929 TACCTGTAGG
2083939 GAAAAAAACAGTGGGCTGTAAATGGGTGTTCACAACCAAAT
1 GAAAAAAACAGTGGGCTGTAAATGGGTGTTCACAACCAAAT
*
2083980 NGAAAAAAACAGTGGGTTGTAAATGGGTGTTCACAACCAAAT
1 -GAAAAAAACAGTGGGCTGTAAATGGGTGTTCACAACCAAAT
2084022 TCAAACCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.20
Consensus pattern (41 bp):
GAAAAAAACAGTGGGCTGTAAATGGGTGTTCACAACCAAAT
Found at i:2085475 original size:19 final size:19
Alignment explanation
Indices: 2085429--2085476 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
2085419 GTATATATTT
2085429 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
2085447 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
2085466 TAAGTTTTATT
1 TAAATTTTATT
2085477 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:2085538 original size:43 final size:42
Alignment explanation
Indices: 2085490--2085581 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 42
2085480 ATTCTAGAAA
2085490 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAA-GGAAC
* *
2085533 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGAAC
2085575 TATTTTC
1 TATTTTC
2085582 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 12 0.26
43 33 0.72
44 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (42 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGAAC
Found at i:2089432 original size:20 final size:21
Alignment explanation
Indices: 2089407--2089446 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2089397 AGACGAGCAA
2089407 TACTCC-AAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2089427 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2089447 TTGAGCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2096252 original size:17 final size:16
Alignment explanation
Indices: 2096218--2096280 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 16
2096208 GGGCTTGCAA
*
2096218 GTGAGCTCTCAAGTTTG
1 GTGAGCTCGC-AGTTTG
2096235 GTGAGCTCGCAGTCTTG
1 GTGAGCTCGCAGT-TTG
* * *
2096252 GTAAGCTCACATTTTTTG
1 GTGAGCTCGCA--GTTTG
2096270 GTGAGCTCGCA
1 GTGAGCTCGCA
2096281 ATCCGCAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
16 3 0.08
17 21 0.57
18 12 0.32
19 1 0.03
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (16 bp):
GTGAGCTCGCAGTTTG
Found at i:2103643 original size:19 final size:18
Alignment explanation
Indices: 2103621--2103656 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2103611 ATAAAACTTA
2103621 TCTAACTAAATAAGATTTG
1 TCTAACTAAATAA-ATTTG
*
2103640 TCTACCTAAATAAATTT
1 TCTAACTAAATAAATTT
2103657 AAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (18 bp):
TCTAACTAAATAAATTTG
Found at i:2109875 original size:21 final size:21
Alignment explanation
Indices: 2109825--2109875 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
2109815 ACTATGCTTT
*
2109825 TGTAATCTAGTTCATTTTGAA
1 TGTAATTTAGTTCATTTTGAA
* * *
2109846 CGTAGTTTAGTTTATGTTTG-A
1 TGTAATTTAGTTCAT-TTTGAA
2109867 TGTAATTTA
1 TGTAATTTA
2109876 ATGGTGATAG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (21 bp):
TGTAATTTAGTTCATTTTGAA
Found at i:2115218 original size:42 final size:42
Alignment explanation
Indices: 2115171--2115255 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
2115161 AATCTGCACA
*
2115171 CATAGTCCTCTTTCCTTTGTACAACAAAACCCTCTGGCTGCT
1 CATAGTCCTCTTTCCCTTGTACAACAAAACCCTCTGGCTGCT
**
2115213 CATAGTCCTCTTTCCCTTGTGTAACAAAACCCTCTGGCTGCT
1 CATAGTCCTCTTTCCCTTGTACAACAAAACCCTCTGGCTGCT
2115255 C
1 C
2115256 CATGTAAAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (42 bp):
CATAGTCCTCTTTCCCTTGTACAACAAAACCCTCTGGCTGCT
Done.