Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 124 of 175
Found at i:38815065 original size:24 final size:23
Alignment explanation
Indices: 38815024--38815068 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
38815014 CACGTTAGCG
38815024 AACAAAATATATAAATATAAAGA
1 AACAAAATATATAAATATAAAGA
* *
38815047 AACAAATATTTATATATATAAA
1 AACAAA-ATATATAAATATAAA
38815069 ATAAAATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AACAAAATATATAAATATAAAGA
Found at i:38815867 original size:27 final size:27
Alignment explanation
Indices: 38815835--38815886 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
38815825 AAAAATAAAA
* *
38815835 TTTAAATAATGTATCTAGTGGAGTTTT
1 TTTAAAAAATGTATCTAATGGAGTTTT
*
38815862 TTTAAAAAATGTATTTAATGGAGTT
1 TTTAAAAAATGTATCTAATGGAGTT
38815887 AAAGTATACG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (27 bp):
TTTAAAAAATGTATCTAATGGAGTTTT
Found at i:38820438 original size:18 final size:18
Alignment explanation
Indices: 38820417--38820453 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
38820407 TGAGTTTTCG
38820417 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
38820435 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
38820453 A
1 A
38820454 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:38820700 original size:30 final size:31
Alignment explanation
Indices: 38820666--38820725 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
38820656 AAATCTTTTA
*
38820666 TTTTCCCCCAAAATTTTTACTCTC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCTCTTCCCAC
* *
38820696 TTTTCCCCTAAAACTTTTATTCTCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCTCTTCCCA
38820726 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCTCTTCCCAC
Found at i:38820830 original size:17 final size:17
Alignment explanation
Indices: 38820803--38820860 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
38820793 ACTCCCCCTA
38820803 TTTACTTTCCCTCAAACT
1 TTTA-TTTCCCTCAAACT
*
38820821 TTTATTTCCC-AAAACTT
1 TTTATTTCCCTCAAAC-T
*
38820838 TTTATTTTCCTCCTAAACT
1 TTTATTTCCCT-C-AAACT
38820857 TTTA
1 TTTA
38820861 CTTCTCACCC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 4 0.12
17 16 0.48
18 4 0.12
19 5 0.15
20 4 0.12
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATTTCCCTCAAACT
Found at i:38822505 original size:17 final size:19
Alignment explanation
Indices: 38822485--38822534 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
38822475 ATTTATTAAA
38822485 TAAATTAATTTT-TCAAT-
1 TAAATTAATTTTCTCAATC
38822502 TAAA-TAATTTTCTCAATC
1 TAAATTAATTTTCTCAATC
*
38822520 TAATTCTAATTTTCT
1 TAAAT-TAATTTTCT
38822535 TAAAGTCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.25
17 9 0.32
18 3 0.11
20 9 0.32
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAATTAATTTTCTCAATC
Found at i:38832881 original size:25 final size:24
Alignment explanation
Indices: 38832846--38832967 Score: 86
Period size: 25 Copynumber: 4.9 Consensus size: 24
38832836 AATCTTATGG
* *
38832846 AAAGCCTTTGTGGCGTATTATCTAA
1 AAAGCCATTGTGGCGTAATAT-TAA
*
38832871 AAATCCATTGTGGC-TAATATTATGA
1 AAAGCCATTGTGGCGTAATATTA--A
*
38832896 AAAGCCTTTGTGGCGTAATATGTAA
1 AAAGCCATTGTGGCGTAATAT-TAA
* * *
38832921 AAAGCCTTTGAGGC-TAATCTTATGA
1 AAAGCCATTGTGGCGTAATATTA--A
* * *
38832946 AAAGCCTTTGTGGTGTATTATT
1 AAAGCCATTGTGGCGTAATATT
38832968 TGGAATGCCT
Statistics
Matches: 79, Mismatches: 11, Indels: 13
0.77 0.11 0.13
Matches are distributed among these distances:
23 4 0.05
24 10 0.13
25 52 0.66
26 11 0.14
27 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.36
Consensus pattern (24 bp):
AAAGCCATTGTGGCGTAATATTAA
Found at i:38832994 original size:100 final size:100
Alignment explanation
Indices: 38832820--38833012 Score: 253
Period size: 100 Copynumber: 1.9 Consensus size: 100
38832810 GAATTACCTG
* * * *
38832820 AAAAGCCTTTGGGGATAATCTTATGGAAAGCCTTTGTGGCGTATTATCTAAAAATCCATTGTGGC
1 AAAAGCCTTTGAGGATAATCTTATGAAAAGCCTTTGTGGCGTATTATCTAAAAATCCATTATGAC
*
38832885 TAATATTATGAAAAGCCTTTGTGGCGTAATATGTA
66 TAATATTATGAAAAACCTTTGTGGCGTAATATGTA
* * *** *
38832920 AAAAGCCTTTGAGGCTAATCTTATGAAAAGCCTTTGTGGTGTATTAT-TTGGAATGCCTTTATGA
1 AAAAGCCTTTGAGGATAATCTTATGAAAAGCCTTTGTGGCGTATTATCTAAAAAT-CCATTATGA
* *
38832984 CTAATCTTATGAAAAACTTTTGTGGCGTA
65 CTAATATTATGAAAAACCTTTGTGGCGTA
38833013 TTATTTGGAA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 4 0.05
100 75 0.95
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (100 bp):
AAAAGCCTTTGAGGATAATCTTATGAAAAGCCTTTGTGGCGTATTATCTAAAAATCCATTATGAC
TAATATTATGAAAAACCTTTGTGGCGTAATATGTA
Found at i:38833022 original size:50 final size:50
Alignment explanation
Indices: 38832835--38833018 Score: 210
Period size: 50 Copynumber: 3.7 Consensus size: 50
38832825 CCTTTGGGGA
* * * *
38832835 TAATCTTATGGAAAGCCTTTGTGGCGTATTATCTAAAAAT-CCATTGTGGC
1 TAATCTTATGAAAAGCCTTTGTGGCGTATTAT-TTAAAATGCCTTTATGGC
* * * *
38832885 TAATATTATGAAAAGCCTTTGTGGCGTAATATGTAAAAAGCCTTTGA-GGC
1 TAATCTTATGAAAAGCCTTTGTGGCGTATTATTTAAAATGCCTTT-ATGGC
* ** *
38832935 TAATCTTATGAAAAGCCTTTGTGGTGTATTATTTGGAATGCCTTTATGAC
1 TAATCTTATGAAAAGCCTTTGTGGCGTATTATTTAAAATGCCTTTATGGC
* *
38832985 TAATCTTATGAAAAACTTTTGTGGCGTATTATTT
1 TAATCTTATGAAAAGCCTTTGTGGCGTATTATTT
38833019 GGAAAGACTG
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 5 0.04
50 107 0.96
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (50 bp):
TAATCTTATGAAAAGCCTTTGTGGCGTATTATTTAAAATGCCTTTATGGC
Found at i:38845475 original size:12 final size:12
Alignment explanation
Indices: 38845458--38845484 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38845448 CCCATAGCAG
38845458 TTGAGTTGTTCT
1 TTGAGTTGTTCT
38845470 TTGAGTTGTTCT
1 TTGAGTTGTTCT
38845482 TTG
1 TTG
38845485 CCACATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.26, T:0.59
Consensus pattern (12 bp):
TTGAGTTGTTCT
Found at i:38846475 original size:65 final size:67
Alignment explanation
Indices: 38846398--38846525 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 67
38846388 TATCGATACT
* * * *
38846398 TTTAAATA-TTTTT-CACATATATATTTATAATCTAATTTTTAGTTTCATGATGAATTATATAAA
1 TTTAAATATTTTTTACACACACATATTTATAATCTAATTTTTAGTTTCATAATAAATTATATAAA
38846461 CA
66 CA
* * * *
38846463 TTTAAATGTTTTTTACACACACATATTTATAGTTTAATTTTTAGTTTCTTAATAAATTATATA
1 TTTAAATATTTTTTACACACACATATTTATAATCTAATTTTTAGTTTCATAATAAATTATATA
38846526 TTATTTTGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 7 0.13
66 5 0.09
67 41 0.77
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.51
Consensus pattern (67 bp):
TTTAAATATTTTTTACACACACATATTTATAATCTAATTTTTAGTTTCATAATAAATTATATAAA
CA
Found at i:38856242 original size:15 final size:15
Alignment explanation
Indices: 38856224--38856258 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
38856214 TGGTTTAAAT
38856224 TTATATATTATCATC
1 TTATATATTATCATC
*
38856239 TTATATATTATTATC
1 TTATATATTATCATC
38856254 -TATAT
1 TTATAT
38856259 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:38862589 original size:87 final size:87
Alignment explanation
Indices: 38862443--38862782 Score: 527
Period size: 87 Copynumber: 3.9 Consensus size: 87
38862433 TCAGTGAAAA
* *
38862443 ATCGAAAAGAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
*
38862508 TCCTGCGTTAACAGTGGAGCAG
66 TCCTGCATTAACAGTGGAGCAG
* *
38862530 ATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCT
1 ATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
* * *
38862595 TCATGCATTAACAGCGAAGCAG
66 TCCTGCATTAACAGTGGAGCAG
* * * * * *
38862617 ATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTAGAGCTAGTTAAAGATAACAAATCTTGCCT
1 ATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
** *
38862682 TCCTGTGTTAATAGTGGAGCAG
66 TCCTGCATTAACAGTGGAGCAG
38862704 ATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
1 ATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
38862769 TCCTGCATTAACAG
66 TCCTGCATTAACAG
38862783 CTCTTGCCTT
Statistics
Matches: 224, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 224 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (87 bp):
ATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
TCCTGCATTAACAGTGGAGCAG
Found at i:38862733 original size:174 final size:174
Alignment explanation
Indices: 38862443--38862783 Score: 583
Period size: 174 Copynumber: 2.0 Consensus size: 174
38862433 TCAGTGAAAA
* * * * * *
38862443 ATCGAAAAGAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTAGAGCTAGTTAAAGATAACAAATCTTGCCT
38862508 TCCTGCGTTAACAGTGGAGCAGATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGG
66 TCCTGCGTTAACAGTGGAGCAGATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGG
*
38862573 TCAAAGATAGCAGATCTTGCCTTCATGCATTAACAGCGAAGCAG
131 TCAAAGATAACAGATCTTGCCTTCATGCATTAACAGCGAAGCAG
38862617 ATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTAGAGCTAGTTAAAGATAACAAATCTTGCCT
1 ATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTAGAGCTAGTTAAAGATAACAAATCTTGCCT
* *
38862682 TCCTGTGTTAATAGTGGAGCAGATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGG
66 TCCTGCGTTAACAGTGGAGCAGATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGG
* *
38862747 TTAAAGATAACAGATCTTGCCTTCCTGCATTAACAGC
131 TCAAAGATAACAGATCTTGCCTTCATGCATTAACAGC
38862784 TCTTGCCTTC
Statistics
Matches: 156, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
174 156 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (174 bp):
ATCGAAAACAAAGCCTTGCCTCCATCGGTTACAGTAGAGCTAGTTAAAGATAACAAATCTTGCCT
TCCTGCGTTAACAGTGGAGCAGATCGAAAAGAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGG
TCAAAGATAACAGATCTTGCCTTCATGCATTAACAGCGAAGCAG
Found at i:38862787 original size:23 final size:23
Alignment explanation
Indices: 38862754--38862806 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
38862744 TGGTTAAAGA
*
38862754 TAACAGATCTTGCCTTCCTGCAT
1 TAACAGCTCTTGCCTTCCTGCAT
38862777 TAACAGCTCTTGCCTTCCTGCAT
1 TAACAGCTCTTGCCTTCCTGCAT
38862800 TAACAGC
1 TAACAGC
38862807 AAAGCAGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (23 bp):
TAACAGCTCTTGCCTTCCTGCAT
Found at i:38862927 original size:88 final size:87
Alignment explanation
Indices: 38862778--38862997 Score: 341
Period size: 88 Copynumber: 2.5 Consensus size: 87
38862768 TTCCTGCATT
*
38862778 AACAGCTCTTGCCTTCCTGCATTAACAGCAAAGCAGATCGAAGACACAAACCTTACCTCTCTCGG
1 AACAGATCTTGCCTTCCTGCATTAACAGC-AAGCAGATCGAAGACACAAACCTTACCTCTCTCGG
*
38862843 TTGTAGCAGAGCTGGTTGAAGAC
65 GTGTAGCAGAGCTGGTTGAAGAC
*
38862866 AACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGG
1 AACAGATCTTGCCTTCCTGCATTAACAGC-AAGCAGATCGAAGACACAAACCTTACCTCTCTCGG
38862931 GTGTAGCAGAGCTGGTTGAAGAC
65 GTGTAGCAGAGCTGGTTGAAGAC
* * * * *
38862954 AACAGATATTGCCCTCCTGCATCAACAACAGAGCAGGTCGAAGA
1 AACAGATCTTGCCTTCCTGCATTAACAGCA-AGCAGATCGAAGA
38862998 TGGCAGATTT
Statistics
Matches: 122, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
87 1 0.01
88 121 0.99
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (87 bp):
AACAGATCTTGCCTTCCTGCATTAACAGCAAGCAGATCGAAGACACAAACCTTACCTCTCTCGGG
TGTAGCAGAGCTGGTTGAAGAC
Found at i:38862954 original size:43 final size:43
Alignment explanation
Indices: 38862817--38862954 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
38862807 AAAGCAGATC
* *
38862817 GAAGACACAAACCTTACCTCTCTCGGTTGTAGCAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGATGTAGCAGAGCTGGTT
* * * * * * *
38862860 GAAGACAACAGATCTTGCCT-TC-CTGCAT-TAACAGCGAAGCAGATC
1 GAAGAC-ACAAACCTTGCCTCTCTC-GGATGTAGCA--G-AGCTGGTT
*
38862905 GAAGACACAAACCTTGCCTCTCTCGGGTGTAGCAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGATGTAGCAGAGCTGGTT
38862948 GAAGACA
1 GAAGACA
38862955 ACAGATATTG
Statistics
Matches: 70, Mismatches: 17, Indels: 16
0.68 0.17 0.16
Matches are distributed among these distances:
42 5 0.07
43 22 0.31
44 23 0.33
45 15 0.21
46 5 0.07
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTCTCGGATGTAGCAGAGCTGGTT
Found at i:38864895 original size:15 final size:15
Alignment explanation
Indices: 38864877--38864911 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
38864867 TGGTTTAAAT
38864877 TTATATATTATCATC
1 TTATATATTATCATC
*
38864892 TTATATATTATTATC
1 TTATATATTATCATC
38864907 -TATAT
1 TTATAT
38864912 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:38865786 original size:107 final size:107
Alignment explanation
Indices: 38865600--38865803 Score: 327
Period size: 107 Copynumber: 1.9 Consensus size: 107
38865590 TCAAAACGAG
* * * *
38865600 GCAATATTTTGCTTTTGGAAAATCGAGAAAACGTGCTCTAACGTGCTGGGTTTCGATTTCTCATT
1 GCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTAGGTTTCGATTTCTCATT
* * *
38865665 CGACTAAATAGCCAAATATCCTTTTTAAACTTTTAAAGTAAA
66 CAACTAAATAGCCAAATATCCTCTTAAAACTTTTAAAGTAAA
* *
38865707 GCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTAGTTTTCGATTTCTCGTT
1 GCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTAGGTTTCGATTTCTCATT
38865772 CAACTAAATAGCCAAATATCCTCTTAAAACTT
66 CAACTAAATAGCCAAATATCCTCTTAAAACTT
38865804 CAAAGTATGG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 88 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (107 bp):
GCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTAGGTTTCGATTTCTCATT
CAACTAAATAGCCAAATATCCTCTTAAAACTTTTAAAGTAAA
Found at i:38866581 original size:13 final size:13
Alignment explanation
Indices: 38866565--38866589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38866555 TAATACATAT
38866565 TTTTAAAAAAATA
1 TTTTAAAAAAATA
38866578 TTTTAAAAAAAT
1 TTTTAAAAAAAT
38866590 CTAGATACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTTAAAAAAATA
Found at i:38877095 original size:18 final size:17
Alignment explanation
Indices: 38877072--38877136 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 17
38877062 TATTCTTAGT
38877072 TTATTATCATTAATTTTA
1 TTATTATC-TTAATTTTA
38877090 TTATTATTCTTATGATTCTTA
1 TTATTA-TCTTA--ATT-TTA
* *
38877111 TTATTATTTTCATTTTCA
1 TTATTATCTTAATTTT-A
38877129 TTATTATC
1 TTATTATC
38877137 GTTGTTCTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.05
18 20 0.51
19 2 0.05
20 6 0.15
21 9 0.23
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATTATCTTAATTTTA
Found at i:38877096 original size:6 final size:6
Alignment explanation
Indices: 38877011--38877135 Score: 52
Period size: 6 Copynumber: 21.7 Consensus size: 6
38877001 TATTTCATAT
* * * * *
38877011 TTATTT TTATTA TTAATA CTT-TTA TTATT- TT-TTA TTTTTC CT-TTA
1 TTATTA TTATTA TTATTA -TTATTA TTATTA TTATTA TTATTA TTATTA
* * * *
38877056 TT-TTA TTATTC TTAGT- TTATTA TCATTAA TT-TTA TTATTA TTCTTA
1 TTATTA TTATTA TTATTA TTATTA TTATT-A TTATTA TTATTA TTATTA
* *
38877102 TGATTC TTATTA TTATT- TTCATT- TTCATTA TTAT
1 TTATTA TTATTA TTATTA TT-ATTA TT-ATTA TTAT
38877136 CGTTGTTCTG
Statistics
Matches: 91, Mismatches: 18, Indels: 20
0.71 0.14 0.16
Matches are distributed among these distances:
4 2 0.02
5 23 0.25
6 60 0.66
7 6 0.07
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (6 bp):
TTATTA
Found at i:38878857 original size:6 final size:6
Alignment explanation
Indices: 38878848--38878933 Score: 106
Period size: 6 Copynumber: 14.7 Consensus size: 6
38878838 CTGATTTTGG
* *
38878848 TTTTAT TTTTAC TTTTAC TTTTAT TTTTAT TTTTAT TTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* *
38878895 TTTTAT TTTCA- TTTTAT TTTT-T CTTTTAG TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT TTTT
38878934 TTCTTAGACT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
5 10 0.14
6 60 0.86
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:38878934 original size:18 final size:16
Alignment explanation
Indices: 38878866--38878935 Score: 86
Period size: 17 Copynumber: 4.1 Consensus size: 16
38878856 TTACTTTTAC
38878866 TTTTATTTTTATTTTTAT
1 TTTTA-TTTTATTTTT-T
38878884 TTTTATTTTATTTTTAT
1 TTTTATTTTATTTTT-T
*
38878901 TTTCATTTTATTTTTT
1 TTTTATTTTATTTTTT
38878917 CTTTTAGTTTTATTTTTT
1 -TTTTA-TTTTATTTTTT
38878935 T
1 T
38878936 CTTAGACTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.02
17 31 0.65
18 16 0.33
ACGTcount: A:0.14, C:0.03, G:0.01, T:0.81
Consensus pattern (16 bp):
TTTTATTTTATTTTTT
Found at i:38882059 original size:27 final size:26
Alignment explanation
Indices: 38882029--38882188 Score: 167
Period size: 27 Copynumber: 6.0 Consensus size: 26
38882019 AAAATTACCA
*
38882029 AAATACCCCCATAGGGTAAATTGATCG
1 AAATACCCCCATAGGGTAAAATGA-CG
* *
38882056 AAATACTCCCATAGGATAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAC-G
***
38882083 AAATACATTCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGA-CG
* * *
38882110 AAATACCCCTATAGGTTAAAATGACTA
1 AAATACCCCCATAGGGTAAAATGAC-G
* *
38882137 AAATACCCCCATAAGGTAGAATGATCG
1 AAATACCCCCATAGGGTAAAATGA-CG
*
38882164 AAATACCCTCATAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
38882189 TGTTATACCT
Statistics
Matches: 108, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.03
27 103 0.95
28 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.22
Consensus pattern (26 bp):
AAATACCCCCATAGGGTAAAATGACG
Found at i:38882160 original size:81 final size:81
Alignment explanation
Indices: 38882018--38882188 Score: 204
Period size: 81 Copynumber: 2.1 Consensus size: 81
38882008 GAGAGGTCAA
* * * *
38882018 TAAAATTACCAAAATACCCCCATAGGGTAAATTGATCGAAATACTCCCATAGGATAAAATGA-CT
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGATCAAAATACCCCCATAGGATAAAATGATC-
*
38882082 GAAATACATTCATAGGG
65 GAAATACACTCATAGGG
* * * *
38882099 TAAAATGACCGAAATACCCCTATAGGTTAAAATGA-CTAAAATACCCCCATAAGG-TAGAATGAT
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGATC-AAAATACCCCCAT-AGGATAAAATGAT
*
38882162 CGAAATACCCTCATAGGG
64 CGAAATACACTCATAGGG
38882180 TAAAATGAC
1 TAAAATGAC
38882189 TGTTATACCT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.01
81 72 0.94
82 4 0.05
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.22
Consensus pattern (81 bp):
TAAAATGACCAAAATACCCCCATAGGGTAAAATGATCAAAATACCCCCATAGGATAAAATGATCG
AAATACACTCATAGGG
Found at i:38882197 original size:54 final size:52
Alignment explanation
Indices: 38882029--38882190 Score: 198
Period size: 54 Copynumber: 3.0 Consensus size: 52
38882019 AAAATTACCA
38882029 AAATACCCCCATAGGGTAAATTGATCGAAATACTCCCATAGGATAAAATGACTG
1 AAATACCCCCATAGGGTAAA-TGATCGAAATAC-CCCATAGGATAAAATGACTG
*** * * *
38882083 AAATACATTCATAGGGTAAAATGACCGAAATACCCCTATAGGTTAAAATGACTA
1 AAATACCCCCATAGGGT-AAATGATCGAAATACCCC-ATAGGATAAAATGACTG
* *
38882137 AAATACCCCCATAAGGTAGAATGATCGAAATACCCTCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTA-AATGATCGAAATACCC-CATAGGATAAAATGACTG
38882191 TTATACCTCT
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
53 4 0.04
54 83 0.91
55 4 0.04
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (52 bp):
AAATACCCCCATAGGGTAAATGATCGAAATACCCCATAGGATAAAATGACTG
Found at i:38892262 original size:59 final size:54
Alignment explanation
Indices: 38892190--38892324 Score: 155
Period size: 54 Copynumber: 2.4 Consensus size: 54
38892180 TAGGGTCTGA
* * * * *
38892190 ATTTAGCCTGGACTGGTAATTCAGATCCAA-ACTCATTTGAGTAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGA--CAATACTC-TATGAGT--TTAT-ATTACAGGGG
*
38892249 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTATATTACAGGGG
38892303 ATTTAGCCTGGACTGGTAATCC
1 ATTTAGCCTGGACTGGTAATCC
38892325 CACTGTAAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
54 30 0.43
55 3 0.04
57 9 0.13
58 4 0.06
59 23 0.33
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTATATTACAGGGG
Found at i:38909638 original size:59 final size:54
Alignment explanation
Indices: 38909566--38909700 Score: 155
Period size: 54 Copynumber: 2.4 Consensus size: 54
38909556 TAGGGTCTGA
* * * * *
38909566 ATTTAGCCTGGACTGGTAATTCAGATCCAA-ACTCATTTGAGTAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGA--CAATACTC-TATGAGT--TTAT-ATTACAGGGG
*
38909625 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTATATTACAGGGG
38909679 ATTTAGCCTGGACTGGTAATCC
1 ATTTAGCCTGGACTGGTAATCC
38909701 CACTGTAAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
54 30 0.43
55 3 0.04
57 9 0.13
58 4 0.06
59 23 0.33
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTATATTACAGGGG
Found at i:38928520 original size:11 final size:11
Alignment explanation
Indices: 38928504--38928530 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38928494 GGGTGGCTAT
38928504 AGAAATTTGAG
1 AGAAATTTGAG
38928515 AGAAATTTGAG
1 AGAAATTTGAG
38928526 AGAAA
1 AGAAA
38928531 AAGTGAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.22
Consensus pattern (11 bp):
AGAAATTTGAG
Found at i:38928652 original size:11 final size:12
Alignment explanation
Indices: 38928631--38928665 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
38928621 ATTTTCATAA
38928631 TAAAATATTAAT
1 TAAAATATTAAT
38928643 TAAAAT-TTAAT
1 TAAAATATTAAT
38928654 TAAAATATTAAT
1 TAAAATATTAAT
38928666 ATTATAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAAATATTAAT
Found at i:38933022 original size:24 final size:22
Alignment explanation
Indices: 38932974--38933023 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
38932964 ATTCATTAAT
*
38932974 TCATTTACATAGTATCACATTC
1 TCATTTACATAGTATCACATAC
38932996 TCATTTAAGCATA-TATCACAATAC
1 TCATTT-A-CATAGTATCAC-ATAC
38933020 TCAT
1 TCAT
38933024 AAACATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 11 0.46
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (22 bp):
TCATTTACATAGTATCACATAC
Found at i:38939407 original size:42 final size:42
Alignment explanation
Indices: 38939352--38939479 Score: 166
Period size: 44 Copynumber: 3.0 Consensus size: 42
38939342 GCCACTACAA
38939352 AACATGACCTTTAGCGGCGCTTTCCCACAAATGCCGCTAAAC
1 AACATGACCTTTAGCGGCGCTTTCCCACAAATGCCGCTAAAC
* * * * *
38939394 AACATGACCTTTAGCGGCGTTTTCCCCACAAACGCTGCTACAG
1 AACATGACCTTTAGCGGCGCTTT-CCCACAAATGCCGCTAAAC
* *
38939437 AACATGGACCTTTAGCGGCACTTTTCCCAAAAATGCCGCTAAA
1 AACAT-GACCTTTAGCGGCGC-TTTCCCACAAATGCCGCTAAA
38939480 GCTCATGTTC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
42 22 0.31
43 20 0.28
44 27 0.38
45 3 0.04
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (42 bp):
AACATGACCTTTAGCGGCGCTTTCCCACAAATGCCGCTAAAC
Found at i:38939441 original size:43 final size:43
Alignment explanation
Indices: 38939338--38939477 Score: 160
Period size: 42 Copynumber: 3.3 Consensus size: 43
38939328 CGTTGTAGAA
* *
38939338 AAACGCCACTACAAAACATGACCTTTAGCGGCGCTTT-CCCAC
1 AAACGCCGCTACAAAACATGACCTTTAGCGGCGTTTTCCCCAC
*
38939380 AAATGCCGCTA-AACAACATGACCTTTAGCGGCGTTTTCCCCAC
1 AAACGCCGCTACAA-AACATGACCTTTAGCGGCGTTTTCCCCAC
* * * *
38939423 AAACGCTGCTACAGAACATGGACCTTTAGCGGCACTTTT-CCCAA
1 AAACGCCGCTACAAAACAT-GACCTTTAGCGGC-GTTTTCCCCAC
*
38939467 AAATGCCGCTA
1 AAACGCCGCTA
38939478 AAGCTCATGT
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.37
43 19 0.23
44 27 0.33
45 4 0.05
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTACAAAACATGACCTTTAGCGGCGTTTTCCCCAC
Found at i:38939875 original size:21 final size:21
Alignment explanation
Indices: 38939851--38939895 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
38939841 TTCTGCTTTG
* * *
38939851 CTCTACTTCCTTCGTTGCTGC
1 CTCTACTTCCCTCGCTGCTAC
*
38939872 CTCTGCTTCCCTCGCTGCTAC
1 CTCTACTTCCCTCGCTGCTAC
38939893 CTC
1 CTC
38939896 CGCTTTAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.04, C:0.44, G:0.13, T:0.38
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCTAC
Found at i:38939900 original size:21 final size:21
Alignment explanation
Indices: 38939856--38939900 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
38939846 CTTTGCTCTA
* * * *
38939856 CTTCCTTCGTTGCTGCCTCTG
1 CTTCCCTCGCTGCTACCTCCG
38939877 CTTCCCTCGCTGCTACCTCCG
1 CTTCCCTCGCTGCTACCTCCG
38939898 CTT
1 CTT
38939901 TAAGTCGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.44, G:0.16, T:0.38
Consensus pattern (21 bp):
CTTCCCTCGCTGCTACCTCCG
Found at i:38942343 original size:26 final size:26
Alignment explanation
Indices: 38942307--38942359 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
38942297 TTGAATAAAA
38942307 AGGGGTCGCTAAGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* *
38942333 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
38942359 A
1 A
38942360 ATTATTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.25, G:0.34, T:0.23
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Found at i:38942388 original size:42 final size:42
Alignment explanation
Indices: 38942336--38942570 Score: 203
Period size: 43 Copynumber: 5.6 Consensus size: 42
38942326 TTCCCCGAGG
* *
38942336 GGTTGCTAAGTGCTGATTCC-CCGAATTATTGATTCTAAATGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTATTGATTGTAAA-GT
* *
38942378 GGTTTCTAAGTGCTGATTCCACCGTA-TATTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTA-TTGATTGT-AAAGT
* * * * * * *
38942421 GGATGCTATGTGCTGATTCC-TCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTATTGATTGTAAA-GT
*
38942463 GGTTGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTAT-TATTGATTGT-AAAGT
* * * *
38942506 GGTTGCTATGTGCTGATTCC-CTGTATCACTGAATT-TAAAGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTATTG-ATTGTAAAGT
* *
38942547 GGTTCCTAAGTGCTGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
38942571 AGTAACGGAT
Statistics
Matches: 152, Mismatches: 30, Indels: 22
0.75 0.15 0.11
Matches are distributed among these distances:
41 24 0.16
42 59 0.39
43 63 0.41
44 6 0.04
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTATTGATTGTAAAGT
Found at i:38942476 original size:85 final size:83
Alignment explanation
Indices: 38942333--38942570 Score: 323
Period size: 85 Copynumber: 2.8 Consensus size: 83
38942323 AGATTCCCCG
* * * * * * *
38942333 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAATGTGGTTTCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATT-CCCGTATCACTGAATATAAA-GTGGTTCCTAAGTGCTGATTCC
38942398 ACCGTATATTTGATTGTGAA
64 ACCGTATATTTGATTGTGAA
* *
38942418 AGGGGATGCTATGTGCTGATTCCTCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCC-CGTATCACTGAATATAAA-GTGGTTCCTAAGTGCTGATTCC
*
38942483 ACCGTATCTTTGATTGTGAA
64 ACCGTATATTTGATTGTGAA
* *
38942503 AGGGGTTGCTATGTGCTGATTCCCTGTATCACTGAATTTAAAGTGGTTCCTAAGTGCTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCC-GTATCACTGAATATAAAGTGGTTCCTAAGTGCTGATTCCA
38942568 CCG
65 CCG
38942571 AGTAACGGAT
Statistics
Matches: 137, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
84 27 0.20
85 110 0.80
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (83 bp):
AGGGGTTGCTATGTGCTGATTCCCGTATCACTGAATATAAAGTGGTTCCTAAGTGCTGATTCCAC
CGTATATTTGATTGTGAA
Found at i:38948501 original size:17 final size:17
Alignment explanation
Indices: 38948481--38948528 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
38948471 TAATTAAGTT
38948481 ATATAAGTTATGATATG
1 ATATAAGTTATGATATG
* *
38948498 ATATATATTTATG-TATT
1 ATATA-AGTTATGATATG
*
38948515 ATGTAAGTTATGAT
1 ATATAAGTTATGAT
38948529 CCAAAGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.24
17 13 0.52
18 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (17 bp):
ATATAAGTTATGATATG
Found at i:38951329 original size:12 final size:12
Alignment explanation
Indices: 38951312--38951337 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38951302 AAATCTACCC
38951312 AAATCCATTTCG
1 AAATCCATTTCG
38951324 AAATCCATTTCG
1 AAATCCATTTCG
38951336 AA
1 AA
38951338 GTCGATGGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (12 bp):
AAATCCATTTCG
Found at i:38951690 original size:18 final size:18
Alignment explanation
Indices: 38951667--38951704 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
38951657 ATGATTTTTT
38951667 ACAGCGTTTTTATCATAA
1 ACAGCGTTTTTATCATAA
*
38951685 ACAGCGTTTTTCTCATAA
1 ACAGCGTTTTTATCATAA
38951703 AC
1 AC
38951705 GCCACTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (18 bp):
ACAGCGTTTTTATCATAA
Found at i:38958064 original size:19 final size:19
Alignment explanation
Indices: 38958040--38958091 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
38958030 AAAAATAAAA
38958040 AAAATTCAAAATAATTTTC
1 AAAATTCAAAATAATTTTC
* *
38958059 AAAATTTTAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTC
38958079 AAAATTCAAAATA
1 AAAATTCAAAATA
38958092 TTTATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:38958101 original size:19 final size:19
Alignment explanation
Indices: 38958039--38958101 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
38958029 AAAAAATAAA
38958039 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
* *
38958058 CAAAATTTTAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
*
38958078 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
38958097 AAAAA
1 AAAAA
38958102 CTCCAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 4 0.11
19 15 0.42
20 17 0.47
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:38963035 original size:16 final size:17
Alignment explanation
Indices: 38962996--38963036 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
38962986 CACGTAAAAC
* *
38962996 TAATCTAATTTTTTATA
1 TAATTTAATATTTTATA
38963013 TAA-TTAATATTTTA-A
1 TAATTTAATATTTTATA
38963028 TAATTTAAT
1 TAATTTAAT
38963037 TATTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 4 0.19
16 14 0.67
17 3 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTTAATATTTTATA
Found at i:38963111 original size:22 final size:22
Alignment explanation
Indices: 38963079--38963129 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
38963069 TTTAAATTTT
* *
38963079 TTTA-ATTCATCTTATATATCTA
1 TTTATATTCATCTAAAATAT-TA
38963101 -TTATATTCATCTAAAATATTA
1 TTTATATTCATCTAAAATATTA
38963122 TTTATATT
1 TTTATATT
38963130 AATAGGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTATATTCATCTAAAATATTA
Found at i:38967909 original size:32 final size:32
Alignment explanation
Indices: 38967873--38967936 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
38967863 TAAAGAAGAA
*
38967873 AAACATATTAACAGCGGATCTAATGCAAAATC
1 AAACATATTAACAGCGGATCTAAAGCAAAATC
38967905 AAACATATTAACAGCGGATCTAAAGCAAAATC
1 AAACATATTAACAGCGGATCTAAAGCAAAATC
38967937 CATGAGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.20
Consensus pattern (32 bp):
AAACATATTAACAGCGGATCTAAAGCAAAATC
Found at i:38969764 original size:13 final size:13
Alignment explanation
Indices: 38969746--38969770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38969736 GAATTTACTT
38969746 GTGTGAAAATTTC
1 GTGTGAAAATTTC
38969759 GTGTGAAAATTT
1 GTGTGAAAATTT
38969771 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:38983762 original size:32 final size:32
Alignment explanation
Indices: 38983726--38983789 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
38983716 TAAAGAAGAA
*
38983726 AAACATATTAACAGCGGATCTAATGCAAAATC
1 AAACATATTAACAGCGGATCTAAAGCAAAATC
38983758 AAACATATTAACAGCGGATCTAAAGCAAAATC
1 AAACATATTAACAGCGGATCTAAAGCAAAATC
38983790 CATGAGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.20
Consensus pattern (32 bp):
AAACATATTAACAGCGGATCTAAAGCAAAATC
Found at i:38985612 original size:13 final size:13
Alignment explanation
Indices: 38985594--38985618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38985584 GAATTTACTT
38985594 GTGTGAAAATTTC
1 GTGTGAAAATTTC
38985607 GTGTGAAAATTT
1 GTGTGAAAATTT
38985619 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:38987509 original size:41 final size:41
Alignment explanation
Indices: 38987452--38987596 Score: 272
Period size: 41 Copynumber: 3.5 Consensus size: 41
38987442 GACTTTAAGT
38987452 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
38987493 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
38987534 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
38987575 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
38987597 ATATGTTAAA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 102 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:38989558 original size:19 final size:19
Alignment explanation
Indices: 38989534--38989570 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
38989524 ACAAACACCA
38989534 ATCGACCGACCACCACAAC
1 ATCGACCGACCACCACAAC
38989553 ATCGACCGACCACCACAA
1 ATCGACCGACCACCACAA
38989571 ACACCAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.46, G:0.11, T:0.05
Consensus pattern (19 bp):
ATCGACCGACCACCACAAC
Found at i:38993834 original size:23 final size:23
Alignment explanation
Indices: 38993807--38993916 Score: 106
Period size: 23 Copynumber: 5.0 Consensus size: 23
38993797 GGCTTTGCCG
*
38993807 ATCAGGCACTTTATGTGTTGTAT
1 ATCAGGCACTTTATGTGTCGTAT
38993830 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * **
38993853 TTCAGGCACCTCGTGTGTCG--T
1 ATCAGGCACTTTATGTGTCGTAT
* **
38993874 ATCAGGCACCTCGTG-GTCGT-T
1 ATCAGGCACTTTATGTGTCGTAT
38993895 -TCAGGCAC-TTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
38993916 A
1 A
38993917 CTGATCAGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
19 3 0.04
20 17 0.23
21 17 0.23
23 38 0.51
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:38993878 original size:21 final size:21
Alignment explanation
Indices: 38993829--38993915 Score: 88
Period size: 20 Copynumber: 4.1 Consensus size: 21
38993819 ATGTGTTGTA
* *
38993829 TATCAGGCACTTTATGTGTCG
1 TATCAGGCACCTCATGTGTCG
*
38993850 TATTTCAGGCACCTCGTGTGTCG
1 TA--TCAGGCACCTCATGTGTCG
*
38993873 TATCAGGCACCTCGTG-GTCG
1 TATCAGGCACCTCATGTGTCG
* *
38993893 TTTCAGGCA-CTTATGTGTCG
1 TATCAGGCACCTCATGTGTCG
38993913 TAT
1 TAT
38993916 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.07
20 18 0.32
21 16 0.29
23 18 0.32
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (21 bp):
TATCAGGCACCTCATGTGTCG
Found at i:38993898 original size:20 final size:21
Alignment explanation
Indices: 38993843--38993902 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
38993833 AGGCACTTTA
38993843 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCG--TTTCAGGCACCTCG
*
38993866 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTTTCAGGCACCTCG
38993887 TG-GTCGTTTCAGGCAC
1 TGTGTCGTTTCAGGCAC
38993903 TTATGTGTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 13 0.37
21 15 0.43
23 7 0.20
ACGTcount: A:0.13, C:0.27, G:0.28, T:0.32
Consensus pattern (21 bp):
TGTGTCGTTTCAGGCACCTCG
Found at i:38994183 original size:19 final size:19
Alignment explanation
Indices: 38994159--38994196 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
38994149 AGTAAAGGTA
*
38994159 ATTAAAGTT-ATGACATAAT
1 ATTAAAATTGATG-CATAAT
38994178 ATTAAAATTGATGCATAAT
1 ATTAAAATTGATGCATAAT
38994197 TAAAAGTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (19 bp):
ATTAAAATTGATGCATAAT
Found at i:38997674 original size:14 final size:13
Alignment explanation
Indices: 38997655--38997693 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
38997645 TTATGCAAGC
38997655 AACAATATAATGAT
1 AACAATA-AATGAT
*
38997669 AACAATAATATAAT
1 AACAATAA-ATGAT
38997683 AACAATAAATG
1 AACAATAAATG
38997694 TAATACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (13 bp):
AACAATAAATGAT
Found at i:38998760 original size:13 final size:15
Alignment explanation
Indices: 38998733--38998765 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
38998723 CTGATTTGTA
38998733 AAAAAATGAATAAAT
1 AAAAAATGAATAAAT
38998748 AAAAAAT-AA-AAAT
1 AAAAAATGAATAAAT
38998761 AAAAA
1 AAAAA
38998766 GAAAACAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAAAATGAATAAAT
Found at i:38999127 original size:21 final size:21
Alignment explanation
Indices: 38999101--38999141 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
38999091 TAATCTGGGC
38999101 TTGTT-TTT-GTTTTGGG-TT
1 TTGTTGTTTAGTTTTGGGCTT
38999119 TTGTTGTTTAGTTTTGGGCTT
1 TTGTTGTTTAGTTTTGGGCTT
38999140 TT
1 TT
38999142 AGCCCGGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 3 0.15
20 8 0.40
21 4 0.20
ACGTcount: A:0.02, C:0.02, G:0.27, T:0.68
Consensus pattern (21 bp):
TTGTTGTTTAGTTTTGGGCTT
Found at i:39001317 original size:10 final size:9
Alignment explanation
Indices: 39001302--39001327 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
39001292 TTTAAACCAT
39001302 AAAAAAAAC
1 AAAAAAAAC
39001311 AAAAAAAAC
1 AAAAAAAAC
39001320 AAAAAAAA
1 AAAAAAAA
39001328 GAATATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:39002675 original size:18 final size:18
Alignment explanation
Indices: 39002652--39002688 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39002642 TAGTTTACCT
39002652 ATGTATTTTACTTTTAAA
1 ATGTATTTTACTTTTAAA
39002670 ATGTATTTTACTTTTAAA
1 ATGTATTTTACTTTTAAA
39002688 A
1 A
39002689 AAGAGCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
ATGTATTTTACTTTTAAA
Found at i:39008849 original size:6 final size:6
Alignment explanation
Indices: 39008840--39008880 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
39008830 TATATATATA
39008840 TGTTGG TGTTGG TGTTGG TGTTGG TGTTGG TGTTGG TGTTG
1 TGTTGG TGTTGG TGTTGG TGTTGG TGTTGG TGTTGG TGTTG
39008881 AAGTGAGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (6 bp):
TGTTGG
Found at i:39009317 original size:16 final size:16
Alignment explanation
Indices: 39009292--39009327 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39009282 CGGTTTGCTC
*
39009292 TAATGGAATAGAGGCG
1 TAATGAAATAGAGGCG
*
39009308 TAATGAAATAGATGCG
1 TAATGAAATAGAGGCG
39009324 TAAT
1 TAAT
39009328 AGCAATTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (16 bp):
TAATGAAATAGAGGCG
Found at i:39009587 original size:18 final size:17
Alignment explanation
Indices: 39009560--39009594 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39009550 TTATTATTAA
*
39009560 ATATATTTTAATCAAAAT
1 ATATAATTTAAT-AAAAT
39009578 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
39009595 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:39009634 original size:61 final size:61
Alignment explanation
Indices: 39009569--39009885 Score: 258
Period size: 61 Copynumber: 5.3 Consensus size: 61
39009559 AATATATTTT
* * *
39009569 AATCAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAA
1 AATCAAAATATATGATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTACTTA
* * * * * * * * *
39009630 AATCATAATATATGATACT-ATAAAA-T-ATAAT-TTGAAATAATTATTAT-TAAATATATTTT
1 AATCAAAATATATGAT-TTAATAAAATTCTTAATAAT-CAAT-ATTATTATATGAATTTACTTA
* * *
39009689 AATTAAAATATATGGTTTAATAAAATTCTTAATAATCAATATTTTTATATGAATTTACTTA
1 AATCAAAATATATGATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTACTTA
* * * * * * * * *
39009750 AATCATAATATATGATAGT-ATAAAA-T-ATAAT-TTGAAATAATTATTAT-TAAATATATTTT
1 AATCAAAATATATGAT-TTAATAAAATTCTTAATAAT-CAAT-ATTATTATATGAATTTACTTA
* * *
39009809 AATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAA
1 AATCAAAATATATGATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTACTTA
*
39009870 AATCATAATATATGAT
1 AATCAAAATATATGAT
39009886 ACTATAAAAT
Statistics
Matches: 190, Mismatches: 50, Indels: 32
0.70 0.18 0.12
Matches are distributed among these distances:
58 4 0.02
59 68 0.36
60 32 0.17
61 82 0.43
62 4 0.02
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (61 bp):
AATCAAAATATATGATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTACTTA
Found at i:39009712 original size:59 final size:59
Alignment explanation
Indices: 39009546--39009954 Score: 278
Period size: 59 Copynumber: 6.8 Consensus size: 59
39009536 ATATTTTAAC
* * * * *
39009546 ATAATTATTATTAAATATATTTTAATCAAAATATATAATTTAATAAAATTCTTAATAAT-CA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-T-ATAAT-TTGAA
* * * * ** * * *
39009607 AT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAATATAATTTGAA
1 ATAATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAATATAATTTGAA
* * * *
39009666 ATAATTATTATTAAATATATTTTAATTAAAATATATGGTTTAATAAAATTCTTAATAAT-CA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-T-ATAAT-TTGAA
* * * * * * * *
39009727 AT-ATTTTTATATGAATTTACTTAAATCATAATATATGATAGT-ATAAAATATAATTTGAA
1 ATAATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAATATAATTTGAA
* * *
39009786 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT-CA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-T-ATAAT-TTGAA
* * * * ** * * *
39009847 AT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAATATAATTTGAA
1 ATAATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TTAATAAAATATAATTTGAA
39009906 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
39009955 TTAAAATAAT
Statistics
Matches: 258, Mismatches: 69, Indels: 44
0.70 0.19 0.12
Matches are distributed among these distances:
58 6 0.02
59 103 0.40
60 47 0.18
61 97 0.38
62 5 0.02
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (59 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATATAATTTGAA
Found at i:39009821 original size:18 final size:17
Alignment explanation
Indices: 39009798--39009834 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
39009788 AATTATTATT
39009798 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
39009814 AAATATATGATTTAATA
1 AAATATATGATTTAATA
39009831 AAAT
1 AAAT
39009835 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:39009941 original size:18 final size:17
Alignment explanation
Indices: 39009918--39009954 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
39009908 AATTATTATT
39009918 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
39009934 AAATATATGATTTAATA
1 AAATATATGATTTAATA
39009951 AAAT
1 AAAT
39009955 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:39009964 original size:120 final size:120
Alignment explanation
Indices: 39009546--39009955 Score: 766
Period size: 120 Copynumber: 3.4 Consensus size: 120
39009536 ATATTTTAAC
* *
39009546 ATAATTATTATTAAATATATTTTAATCAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
39009611 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
39009666 ATAATTATTATTAAATATATTTTAATTAAAATATATGGTTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
* * *
39009731 TTTTATATGAATTTACTTAAATCATAATATATGATAGTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
39009786 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
39009851 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
39009906 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
39009956 TAAAATAATT
Statistics
Matches: 280, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 280 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:39009990 original size:47 final size:46
Alignment explanation
Indices: 39009937--39010177 Score: 175
Period size: 47 Copynumber: 5.3 Consensus size: 46
39009927 TTAATTAAAA
*
39009937 TATATG-ATTTAATAAAATTTAAAATAATTATTACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATTA-TAATAAATTTTCT
* *
39009984 TATATGAATTTGTATAATTTAAAATAATTATTAT--TAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * *
39010029 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
* *
39010075 TATATGAATTTATATAATTTAAAATAATTA--ATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * * *
39010120 TA-AT-AATGATATATAATTTCATAA-AATTCTTAATAATAAATATTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
39010166 TATATGAATTTA
1 TATATGAATTTA
39010178 CTAAAATCAT
Statistics
Matches: 152, Mismatches: 20, Indels: 44
0.70 0.09 0.20
Matches are distributed among these distances:
43 6 0.04
44 46 0.30
45 18 0.12
46 13 0.09
47 59 0.39
48 10 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATTATAATAAATTTTCT
Found at i:39010011 original size:101 final size:98
Alignment explanation
Indices: 39009894--39010177 Score: 312
Period size: 91 Copynumber: 3.0 Consensus size: 98
39009884 ATACTATAAA
* *
39009894 ATATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTT-A
1 ATATAATTTAAAATAATTATTATTAAATATAATTTAA-TAAAATATAT-ATTT-ATAAAATTTCA
39009958 AAATAATTATT-ACTAATAAATTTTCTTATATGAATTT
63 AAA-AATTATTGA-TAATAAATTTTCTTATATGAATTT
* *
39009995 GTATAATTTAAAATAATTATTATTAAATATAATTTAAT--AATA-ATA--TAT--AATTTCATAA
1 ATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
*
39010053 AATTCTTGATAATAAATTTTCTTATATGAATTT
66 AATTATTGATAATAAATTTTCTTATATGAATTT
* * *
39010086 ATATAATTTAAAATAATTAATATTAAATATAATTTAAT--AAT-GATA--TAT--AATTTCATAA
1 ATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
* * *
39010144 AATTCTTAATAATAAATATTCTTATATGAATTT
66 AATTATTGATAATAAATTTTCTTATATGAATTT
39010177 A
1 A
39010178 CTAAAATCAT
Statistics
Matches: 171, Mismatches: 9, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
91 122 0.71
92 4 0.02
93 2 0.01
94 1 0.01
96 1 0.01
97 2 0.01
98 4 0.02
100 1 0.01
101 34 0.20
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (98 bp):
ATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
AATTATTGATAATAAATTTTCTTATATGAATTT
Found at i:39010046 original size:44 final size:43
Alignment explanation
Indices: 39009996--39010138 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 43
39009986 TATGAATTTG
39009996 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
39010040 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
39010087 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
39010131 TATAATTT
1 TATAATTT
39010139 CATAAAATTC
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.39
45 10 0.13
46 10 0.13
47 22 0.28
48 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:39010067 original size:91 final size:91
Alignment explanation
Indices: 39009962--39010177 Score: 369
Period size: 91 Copynumber: 2.4 Consensus size: 91
39009952 AATTTAAAAT
* * * *
39009962 AATTATTACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
39010027 TTTAATAATAATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
39010053 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
*
39010118 TTTAATAATGATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
39010144 AATTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
39010178 CTAAAATCAT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 117 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:39018991 original size:33 final size:32
Alignment explanation
Indices: 39018954--39019046 Score: 113
Period size: 33 Copynumber: 3.0 Consensus size: 32
39018944 TATTAGTCTA
* *
39018954 GGCCTAAGCCCTATACAGTAACAGTACAGTGTG
1 GGCCTTAGCCCAATACAGTAACAGTACAGTG-G
*
39018987 GGCCTTAGCCCAAAACAGTAACAGTAC----G
1 GGCCTTAGCCCAATACAGTAACAGTACAGTGG
39019015 GGCCTTAGCCCAATACAGTAACCAGTACAGTG
1 GGCCTTAGCCCAATACAGTAA-CAGTACAGTG
39019047 CAATAATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
28 21 0.41
29 6 0.12
33 24 0.47
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (32 bp):
GGCCTTAGCCCAATACAGTAACAGTACAGTGG
Found at i:39019017 original size:28 final size:28
Alignment explanation
Indices: 39018973--39019042 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
39018963 CCTATACAGT
**
39018973 AACAGT-ACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTACGGGCCTTAGCCCAA
39019000 AACAGTAACAGTACGGGCCTTAGCCCAA
1 AACAGTAACAGTACGGGCCTTAGCCCAA
*
39019028 TACAGTAACCAGTAC
1 AACAGTAA-CAGTAC
39019043 AGTGCAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 6 0.16
28 26 0.68
29 6 0.16
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.17
Consensus pattern (28 bp):
AACAGTAACAGTACGGGCCTTAGCCCAA
Found at i:39019173 original size:26 final size:26
Alignment explanation
Indices: 39019144--39019194 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
39019134 ACACACCAAT
*
39019144 ATCACATCAAAGCTGCCAGTAATAGA
1 ATCACAGCAAAGCTGCCAGTAATAGA
*
39019170 ATCACAGCGAAGCTGCCAGTAATAG
1 ATCACAGCAAAGCTGCCAGTAATAG
39019195 TATATGTGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
ATCACAGCAAAGCTGCCAGTAATAGA
Found at i:39019466 original size:53 final size:52
Alignment explanation
Indices: 39019377--39019613 Score: 259
Period size: 53 Copynumber: 4.5 Consensus size: 52
39019367 TTCATCTCTA
** *
39019377 AGGGTATAACAGTCATTTAACCCTAT-GTGGGTATTTCAGTCATTTGACCCTTCG
1 AGGGTATTTCAGTCATTT-ACCCT-TCG-GGGTATTTCAGTCATTTTACCCTTCG
* *
39019431 AGGGTATTT-TGATCATTGTACCCTTCGGGGTATTTCGGTCATTTTACCCTTCG
1 AGGGTATTTCAG-TCATT-TACCCTTCGGGGTATTTCAGTCATTTTACCCTTCG
* * * *
39019484 AGGGTATTTCAGTTATTTCACCCTTCAAGGGCATTTCAGTCATTTTACCTTTCG
1 AGGGTATTTCAGTCATTT-ACCCTTC-GGGGTATTTCAGTCATTTTACCCTTCG
39019538 -GGGTATTTCAGTCATTTTACCCTTCGGGGTATTTC-GATCATTTTACCCTTCG
1 AGGGTATTTCAGTCA-TTTACCCTTCGGGGTATTTCAG-TCATTTTACCCTTCG
*
39019590 A-GATATTTCAGTCATTTTACCCTT
1 AGGGTATTTCAGTCA-TTTACCCTT
39019614 TCGATCATTT
Statistics
Matches: 158, Mismatches: 16, Indels: 20
0.81 0.08 0.10
Matches are distributed among these distances:
51 1 0.01
52 45 0.28
53 66 0.42
54 45 0.28
55 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (52 bp):
AGGGTATTTCAGTCATTTACCCTTCGGGGTATTTCAGTCATTTTACCCTTCG
Found at i:39019472 original size:26 final size:26
Alignment explanation
Indices: 39019386--39019613 Score: 264
Period size: 26 Copynumber: 8.6 Consensus size: 26
39019376 AAGGGTATAA
*
39019386 CAGTCATTTAACCCTAT-GTGGGTATTT
1 CAGTCATTTTACCCT-TCG-GGGTATTT
*
39019413 CAGTCATTTGACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCG-GGGTATTT
* *
39019440 -TGATCATTGTACCCTTCGGGGTATTT
1 CAG-TCATTTTACCCTTCGGGGTATTT
*
39019466 CGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCG-GGGTATTT
* * * *
39019493 CAGTTATTTCACCCTTCAAGGGCATTT
1 CAGTCATTTTACCCTTC-GGGGTATTT
*
39019520 CAGTCATTTTACCTTTCGGGGTATTT
1 CAGTCATTTTACCCTTCGGGGTATTT
39019546 CAGTCATTTTACCCTTCGGGGTATTT
1 CAGTCATTTTACCCTTCGGGGTATTT
* *
39019572 C-GATCATTTTACCCTTCGAGATATTT
1 CAG-TCATTTTACCCTTCGGGGTATTT
39019598 CAGTCATTTTACCCTT
1 CAGTCATTTTACCCTT
39019614 TCGATCATTT
Statistics
Matches: 174, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.01
26 92 0.53
27 81 0.47
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.41
Consensus pattern (26 bp):
CAGTCATTTTACCCTTCGGGGTATTT
Found at i:39019496 original size:80 final size:79
Alignment explanation
Indices: 39019386--39019613 Score: 266
Period size: 80 Copynumber: 2.9 Consensus size: 79
39019376 AAGGGTATAA
* * * *
39019386 CAGTCATTTAACCCTAT-GTGGGTATTTCAGTCATTTGACCCTTCGAGGGTATTT-TGATCATTG
1 CAGTCATTTTACCCT-TCG-GGGTATTTCAGTCATTTCACCCTTCGAGGGCATTTCAG-TCATTG
39019449 TACCCTTCGGGGTATTT
63 TACCCTTCGGGGTATTT
* * * *
39019466 CGGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTCACCCTTCAAGGGCATTTCAGTCATTTTA
1 CAGTCATTTTACCCTTCG-GGGTATTTCAGTCATTTCACCCTTCGAGGGCATTTCAGTCATTGTA
*
39019531 CCTTTCGGGGTATTT
65 CCCTTCGGGGTATTT
* ** *
39019546 CAGTCATTTTACCCTTCGGGGTATTTC-GATCATTTTACCCTTCGA-GATATTTCAGTCATTTTA
1 CAGTCATTTTACCCTTCGGGGTATTTCAG-TCATTTCACCCTTCGAGGGCATTTCAGTCATTGTA
39019609 CCCTT
65 CCCTT
39019614 TCGATCATTT
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
78 21 0.16
79 23 0.18
80 83 0.65
81 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.41
Consensus pattern (79 bp):
CAGTCATTTTACCCTTCGGGGTATTTCAGTCATTTCACCCTTCGAGGGCATTTCAGTCATTGTAC
CCTTCGGGGTATTT
Found at i:39019631 original size:43 final size:44
Alignment explanation
Indices: 39019569--39019654 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 44
39019559 CTTCGGGGTA
39019569 TTTCGATCATTTTACCCTTCGA-GATATTTCAGTCATTTTACCC
1 TTTCGATCATTTTACCCTTCGAGGATATTTCAGTCATTTTACCC
* * *
39019612 TTTCGATCATTTTATCCTTCGAGGTTATTTCGGTCATTTTACC
1 TTTCGATCATTTTACCCTTCGAGGATATTTCAGTCATTTTACC
39019655 ATGAATCGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 21 0.54
44 18 0.46
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.47
Consensus pattern (44 bp):
TTTCGATCATTTTACCCTTCGAGGATATTTCAGTCATTTTACCC
Found at i:39025530 original size:35 final size:35
Alignment explanation
Indices: 39025484--39025553 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
39025474 GAATATCACC
39025484 ATAGGAGGGGAGAAGAGATTTTATTCAAGCTTTCT
1 ATAGGAGGGGAGAAGAGATTTTATTCAAGCTTTCT
*
39025519 ATAGGAGGGGAGAAGAGATTTTATTTAAGCTTTCT
1 ATAGGAGGGGAGAAGAGATTTTATTCAAGCTTTCT
39025554 CTTTGCATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.33
Consensus pattern (35 bp):
ATAGGAGGGGAGAAGAGATTTTATTCAAGCTTTCT
Found at i:39037408 original size:20 final size:21
Alignment explanation
Indices: 39037383--39037423 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
39037373 CCGGGGACTT
39037383 AAAAACATAAA-AATTACAAA
1 AAAAACATAAACAATTACAAA
*
39037403 AAAAACTTAAATCAATTACAA
1 AAAAACATAAA-CAATTACAA
39037424 TAACTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAACATAAACAATTACAAA
Found at i:39037438 original size:13 final size:13
Alignment explanation
Indices: 39037417--39037449 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
39037407 ACTTAAATCA
*
39037417 ATTACAATAACTT
1 ATTATAATAACTT
39037430 ATTATAATAACTT
1 ATTATAATAACTT
39037443 ATTATAA
1 ATTATAA
39037450 GCTTTAGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTATAATAACTT
Found at i:39043578 original size:4 final size:4
Alignment explanation
Indices: 39043569--39043618 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
39043559 GGATTACTTG
* * * *
39043569 TACA TACA TACA TACA TACA TACA TTCA TACA TACA CACA CACA CACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
39043617 TA
1 TA
39043619 TATATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (4 bp):
TACA
Found at i:39052499 original size:17 final size:17
Alignment explanation
Indices: 39052477--39052513 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
39052467 GCGGAAGAAT
39052477 GAACTCGAAAGATGAAC
1 GAACTCGAAAGATGAAC
39052494 GAACTCGAAAGATGAAC
1 GAACTCGAAAGATGAAC
39052511 GAA
1 GAA
39052514 AGCCACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.24, T:0.11
Consensus pattern (17 bp):
GAACTCGAAAGATGAAC
Found at i:39058551 original size:22 final size:22
Alignment explanation
Indices: 39058523--39058566 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
39058513 TAACTTATAA
39058523 AATAATAACAATCTTCCTCCAT
1 AATAATAACAATCTTCCTCCAT
39058545 AATAATAACAATCTTCCTCCAT
1 AATAATAACAATCTTCCTCCAT
39058567 TCCTTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAATAACAATCTTCCTCCAT
Found at i:39061746 original size:18 final size:19
Alignment explanation
Indices: 39061708--39061750 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
39061698 AGAATAAGAA
* *
39061708 AAATATAATGTGGACATTG
1 AAATGTAATGTGGAAATTG
39061727 AAATGTAATGT-GAAATTG
1 AAATGTAATGTGGAAATTG
39061745 AAATGT
1 AAATGT
39061751 GTAATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (19 bp):
AAATGTAATGTGGAAATTG
Found at i:39066296 original size:5 final size:5
Alignment explanation
Indices: 39066286--39066326 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
39066276 GATTATGTTT
*
39066286 TTATA TTATA TTATTA ATATA TTATA TTATA TTATA -TATA T
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA T
39066327 ACATAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.12
5 24 0.75
6 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:39066327 original size:16 final size:15
Alignment explanation
Indices: 39066285--39066327 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
39066275 TGATTATGTT
39066285 TTTATAT-TATATTA
1 TTTATATATATATTA
*
39066299 TTAATATATTATATTA
1 TTTATATA-TATATTA
39066315 TATTATATATATA
1 T-TTATATATATA
39066328 CATAAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.25
16 12 0.50
17 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTATATATATATTA
Found at i:39066355 original size:14 final size:14
Alignment explanation
Indices: 39066331--39066376 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
39066321 ATATATACAT
*
39066331 AAAACAAAAGAAAG
1 AAAAGAAAAGAAAG
*
39066345 AATAGAAAAGAAAG
1 AAAAGAAAAGAAAG
39066359 AAAAGAAACAGAATAG
1 AAAAGAAA-AGAA-AG
39066375 AA
1 AA
39066377 GAGACGAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 19 0.70
15 4 0.15
16 4 0.15
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.04
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:39066396 original size:25 final size:25
Alignment explanation
Indices: 39066339--39066396 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
39066329 ATAAAACAAA
39066339 AGAAAGAATAGAAAAGAAAGAAAAG
1 AGAAAGAATAGAAAAGAAAGAAAAG
* *
39066364 A-AACAGAATAGAAGAG-ACGAAACAG
1 AGAA-AGAATAGAAAAGAAAGAAA-AG
39066389 AGAAAGAA
1 AGAAAGAA
39066397 ACAGAGAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 7 0.25
25 19 0.68
26 2 0.07
ACGTcount: A:0.67, C:0.05, G:0.24, T:0.03
Consensus pattern (25 bp):
AGAAAGAATAGAAAAGAAAGAAAAG
Found at i:39066993 original size:29 final size:30
Alignment explanation
Indices: 39066934--39066991 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
39066924 TCCGAGCCTT
*
39066934 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
39066964 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
39066992 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:39067383 original size:46 final size:44
Alignment explanation
Indices: 39067324--39067438 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
39067314 ACAGGACAGA
* *
39067324 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
39067370 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
39067414 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
39067439 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:39067419 original size:44 final size:45
Alignment explanation
Indices: 39067324--39067457 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
39067314 ACAGGACAGA
* *
39067324 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
39067370 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
39067414 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
39067458 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:39072528 original size:5 final size:5
Alignment explanation
Indices: 39072518--39072558 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
39072508 GATTATGTTT
*
39072518 TTATA TTATA TTATTA ATATA TTATA TTATA TTATA -TATA T
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA T
39072559 ACATAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.12
5 24 0.75
6 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:39072559 original size:16 final size:15
Alignment explanation
Indices: 39072517--39072559 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
39072507 TGATTATGTT
39072517 TTTATAT-TATATTA
1 TTTATATATATATTA
*
39072531 TTAATATATTATATTA
1 TTTATATA-TATATTA
39072547 TATTATATATATA
1 T-TTATATATATA
39072560 CATAAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.25
16 12 0.50
17 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTATATATATATTA
Found at i:39072587 original size:14 final size:14
Alignment explanation
Indices: 39072563--39072608 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
39072553 ATATATACAT
*
39072563 AAAACAAAAGAAAG
1 AAAAGAAAAGAAAG
*
39072577 AATAGAAAAGAAAG
1 AAAAGAAAAGAAAG
39072591 AAAAGAAACAGAATAG
1 AAAAGAAA-AGAA-AG
39072607 AA
1 AA
39072609 GAGACGAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 19 0.70
15 4 0.15
16 4 0.15
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.04
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:39072628 original size:25 final size:25
Alignment explanation
Indices: 39072571--39072628 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
39072561 ATAAAACAAA
39072571 AGAAAGAATAGAAAAGAAAGAAAAG
1 AGAAAGAATAGAAAAGAAAGAAAAG
* *
39072596 A-AACAGAATAGAAGAG-ACGAAACAG
1 AGAA-AGAATAGAAAAGAAAGAAA-AG
39072621 AGAAAGAA
1 AGAAAGAA
39072629 ACAGAGAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 7 0.25
25 19 0.68
26 2 0.07
ACGTcount: A:0.67, C:0.05, G:0.24, T:0.03
Consensus pattern (25 bp):
AGAAAGAATAGAAAAGAAAGAAAAG
Found at i:39073224 original size:29 final size:30
Alignment explanation
Indices: 39073165--39073222 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
39073155 TCCGAGCCTT
*
39073165 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
39073195 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
39073223 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:39073614 original size:46 final size:44
Alignment explanation
Indices: 39073555--39073669 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
39073545 ACAGGACAGA
* *
39073555 ACAGAAATGAGCCATGTAAGTCCATATTAGAAGTATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AA-TATGGCATTGGAG
* *
39073601 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
39073645 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
39073670 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 33 0.54
45 1 0.02
46 27 0.44
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:39078084 original size:17 final size:17
Alignment explanation
Indices: 39078057--39078090 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
39078047 TTAAGAAATA
39078057 AAAAAACGAAAAAGAAAG
1 AAAAAACG-AAAAGAAAG
39078075 AAAAAA-GAAAAGAAAG
1 AAAAAACGAAAAGAAAG
39078091 GGAGAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 1 0.06
18 6 0.38
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAACGAAAAGAAAG
Found at i:39081513 original size:188 final size:192
Alignment explanation
Indices: 39081192--39081571 Score: 588
Period size: 188 Copynumber: 2.0 Consensus size: 192
39081182 TTTGCTGATA
* *
39081192 GTGCGTCCTGCTTGGAGCATTATCTCTATACAAATTTCAACCCTCATTTGGGACAAAAAAACCCA
1 GTGCGTCCTACTTGGAGCATTATCTCTATACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
* * * *
39081257 TCATATATATCCTAAGATATATTTTCAAAACTCATCTCGTCAATATTAATGCATTGTGATAAATA
66 TCACATATATCCTAAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
* * *
39081322 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGTACAATTTTAAAAACTAATATT
131 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
* * *
39081384 GTGCGTCCTACTTGGAGCGTTATCTCTCTACAAA-TTCAACTCTCACTTGGGAC-AAAAAACCCA
1 GTGCGTCCTACTTGGAGCATTATCTCTATACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
* *
39081447 -C-CATATATCCTGAGATATATTTTCAGAACCCATCTCATCAATATTAATGCACTGTGATAAATA
66 TCACATATATCCTAAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
* *
39081510 ATTTACTAAAATATTGGATCAAACTAGTATTAAGAATGTGAAAAAATTTAAAAACTAATATT
131 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
39081572 TCATCCCAAA
Statistics
Matches: 172, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
188 113 0.66
189 1 0.01
190 10 0.06
191 17 0.10
192 31 0.18
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (192 bp):
GTGCGTCCTACTTGGAGCATTATCTCTATACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
TCACATATATCCTAAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
Found at i:39082159 original size:15 final size:15
Alignment explanation
Indices: 39082128--39082185 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
39082118 TTTAAGAAAA
39082128 AATTATAATA-AACAT
1 AATTATAATATAA-AT
39082143 AATTATAATATAAAT
1 AATTATAATATAAAT
* *
39082158 AA-TA-CATCTAAAT
1 AATTATAATATAAAT
*
39082171 AATTATAATTTAAAT
1 AATTATAATATAAAT
39082186 TTAAATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 9 0.25
14 4 0.11
15 21 0.58
16 2 0.06
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTATAATATAAAT
Found at i:39082203 original size:5 final size:5
Alignment explanation
Indices: 39082193--39082219 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
39082183 AATTTAAATT
39082193 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
39082220 TAATGGTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:39087119 original size:29 final size:30
Alignment explanation
Indices: 39087084--39087151 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
39087074 TAGTATATTG
*
39087084 TAAAATTATACTTTAATC-TTTAAAAATAA
1 TAAAATTATAATTTAATCTTTTAAAAATAA
* * *
39087113 TAAAATTTTAATTTAATCTTTTCAAAATTA
1 TAAAATTATAATTTAATCTTTTAAAAATAA
39087143 TAAATATTA
1 TAAA-ATTA
39087152 AAAATATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.50
30 13 0.41
31 3 0.09
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (30 bp):
TAAAATTATAATTTAATCTTTTAAAAATAA
Found at i:39089511 original size:14 final size:15
Alignment explanation
Indices: 39089492--39089522 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39089482 GGAACATTGG
39089492 AAATGAA-TTTTTTA
1 AAATGAAGTTTTTTA
39089506 AAATGAAGTTTTTTA
1 AAATGAAGTTTTTTA
39089521 AA
1 AA
39089523 GTAAATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (15 bp):
AAATGAAGTTTTTTA
Found at i:39103883 original size:17 final size:17
Alignment explanation
Indices: 39103856--39103889 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
39103846 TTAAGAAATA
39103856 AAAAAACGAAAAAGAAAG
1 AAAAAACG-AAAAGAAAG
39103874 AAAAAA-GAAAAGAAAG
1 AAAAAACGAAAAGAAAG
39103890 GGAGAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 1 0.06
18 6 0.38
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAACGAAAAGAAAG
Found at i:39107306 original size:188 final size:192
Alignment explanation
Indices: 39106985--39107364 Score: 588
Period size: 188 Copynumber: 2.0 Consensus size: 192
39106975 TTTGCTGATA
* *
39106985 GTGCGTCCTGCTTGGAGCATTATCTCTATACAAATTTCAACCCTCATTTGGGACAAAAAAACCCA
1 GTGCGTCCTACTTGGAGCATTATCTCTATACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
* * * *
39107050 TCATATATATCCTAAGATATATTTTCAAAACTCATCTCGTCAATATTAATGCATTGTGATAAATA
66 TCACATATATCCTAAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
* * *
39107115 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGTACAATTTTAAAAACTAATATT
131 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
* * *
39107177 GTGCGTCCTACTTGGAGCGTTATCTCTCTACAAA-TTCAACTCTCACTTGGGAC-AAAAAACCCA
1 GTGCGTCCTACTTGGAGCATTATCTCTATACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
* *
39107240 -C-CATATATCCTGAGATATATTTTCAGAACCCATCTCATCAATATTAATGCACTGTGATAAATA
66 TCACATATATCCTAAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
* *
39107303 ATTTACTAAAATATTGGATCAAACTAGTATTAAGAATGTGAAAAAATTTAAAAACTAATATT
131 ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
39107365 TCATCCCAAA
Statistics
Matches: 172, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
188 113 0.66
189 1 0.01
190 10 0.06
191 17 0.10
192 31 0.18
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (192 bp):
GTGCGTCCTACTTGGAGCATTATCTCTATACAAATTTCAACCCTCACTTGGGACAAAAAAACCCA
TCACATATATCCTAAGATATATTTTCAAAACCCATCTCATCAATATTAATGCACTGTGATAAATA
ATTTACTAAAATATCGGATCAAACTAGTATTAAAAATGTGAAAAAATTTAAAAACTAATATT
Found at i:39107951 original size:15 final size:15
Alignment explanation
Indices: 39107920--39107977 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
39107910 TTTAAGAAAA
39107920 AATTATAATA-AACAT
1 AATTATAATATAA-AT
39107935 AATTATAATATAAAT
1 AATTATAATATAAAT
* *
39107950 AA-TA-CATCTAAAT
1 AATTATAATATAAAT
*
39107963 AATTATAATTTAAAT
1 AATTATAATATAAAT
39107978 TTAAATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 9 0.25
14 4 0.11
15 21 0.58
16 2 0.06
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTATAATATAAAT
Found at i:39107995 original size:5 final size:5
Alignment explanation
Indices: 39107985--39108011 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
39107975 AATTTAAATT
39107985 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
39108012 TAATGGTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:39112902 original size:29 final size:30
Alignment explanation
Indices: 39112867--39112934 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
39112857 TAGTATATTG
*
39112867 TAAAATTATACTTTAATC-TTTAAAAATAA
1 TAAAATTATAATTTAATCTTTTAAAAATAA
* * *
39112896 TAAAATTTTAATTTAATCTTTTCAAAATTA
1 TAAAATTATAATTTAATCTTTTAAAAATAA
39112926 TAAATATTA
1 TAAA-ATTA
39112935 AAAATATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.50
30 13 0.41
31 3 0.09
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (30 bp):
TAAAATTATAATTTAATCTTTTAAAAATAA
Found at i:39118109 original size:15 final size:15
Alignment explanation
Indices: 39118089--39118118 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39118079 GAAGTGTCCA
*
39118089 AAATATGTTTAATTT
1 AAATATATTTAATTT
39118104 AAATATATTTAATTT
1 AAATATATTTAATTT
39118119 GGGTTGGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATATATTTAATTT
Found at i:39120801 original size:19 final size:19
Alignment explanation
Indices: 39120777--39120816 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
39120767 GTTAAAACTC
* *
39120777 TATTTTAGAGTAATTAAAA
1 TATTTTAAAATAATTAAAA
*
39120796 TATTTTAAAATAATTTAAA
1 TATTTTAAAATAATTAAAA
39120815 TA
1 TA
39120817 ATATTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TATTTTAAAATAATTAAAA
Found at i:39127450 original size:2 final size:2
Alignment explanation
Indices: 39127443--39127480 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
39127433 AATGGTTATA
39127443 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
39127481 ATTGAAACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:39129028 original size:24 final size:24
Alignment explanation
Indices: 39128988--39129034 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
39128978 AAAGGGAAAT
*
39128988 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
39129012 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
39129035 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:39130788 original size:291 final size:291
Alignment explanation
Indices: 39130264--39130849 Score: 1154
Period size: 291 Copynumber: 2.0 Consensus size: 291
39130254 TATGAATGTT
39130264 AGATAAAAATGGAGTGTCTGAAAATTAATTAGTAAACTCCGGTAATGCCTCATACCCTATTTCGG
1 AGATAAAAATGGAGTGTCTGAAAATTAATTAGTAAACTCCGGTAATGCCTCATACCCTATTTCGG
39130329 TGTCGAATACGGGTAAGGGGTGTTACATATACATTTAGTGACTTGTTGTGATATACAATTTAACA
66 TGTCGAATACGGGTAAGGGGTGTTACATATACATTTAGTGACTTGTTGTGATATACAATTTAACA
39130394 CACGACTGTGTGTCACACATAATTACACAATTCGCCAAATGATGAGTACCATTCACAGACAGCCG
131 CACGACTGTGTGTCACACATAATTACACAATTCGCCAAATGATGAGTACCATTCACAGACAGCCG
39130459 ATATGTCAGTTTACTATTCTTTGGCGTATACAATACACCCATATGACCATTCAGACAAAACTTCT
196 ATATGTCAGTTTACTATTCTTTGGCGTATACAATACACCCATATGACCATTCAGACAAAACTTCT
39130524 TCATGTTAGCCACATACCCAGATCCATAGTC
261 TCATGTTAGCCACATACCCAGATCCATAGTC
39130555 AGATAAAAATGGAGTGTCTGAAAATTAATTAGTAAACTCCGGTAATGCCTCATACCCTATTTCGG
1 AGATAAAAATGGAGTGTCTGAAAATTAATTAGTAAACTCCGGTAATGCCTCATACCCTATTTCGG
39130620 TGTCGAATACGGGTAAGGGGTGTTACATATACATTTAGTGACTTGTTGTGATATACAATTTAACA
66 TGTCGAATACGGGTAAGGGGTGTTACATATACATTTAGTGACTTGTTGTGATATACAATTTAACA
* *
39130685 CATGACTGTGTGTCACACATAATTACACAATTCGCCAAATGATGAGTACTATTCACAGACAGCCG
131 CACGACTGTGTGTCACACATAATTACACAATTCGCCAAATGATGAGTACCATTCACAGACAGCCG
39130750 ATATGTCAGTTTACTATTCTTTGGCGTATACAATACACCCATATGACCATTCAGACAAAACTTCT
196 ATATGTCAGTTTACTATTCTTTGGCGTATACAATACACCCATATGACCATTCAGACAAAACTTCT
39130815 TCATGTTAGCCACATACCCAGATCCATAGTC
261 TCATGTTAGCCACATACCCAGATCCATAGTC
39130846 AGAT
1 AGAT
39130850 TCATATCATT
Statistics
Matches: 293, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
291 293 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (291 bp):
AGATAAAAATGGAGTGTCTGAAAATTAATTAGTAAACTCCGGTAATGCCTCATACCCTATTTCGG
TGTCGAATACGGGTAAGGGGTGTTACATATACATTTAGTGACTTGTTGTGATATACAATTTAACA
CACGACTGTGTGTCACACATAATTACACAATTCGCCAAATGATGAGTACCATTCACAGACAGCCG
ATATGTCAGTTTACTATTCTTTGGCGTATACAATACACCCATATGACCATTCAGACAAAACTTCT
TCATGTTAGCCACATACCCAGATCCATAGTC
Found at i:39134133 original size:78 final size:78
Alignment explanation
Indices: 39134040--39134472 Score: 726
Period size: 78 Copynumber: 5.6 Consensus size: 78
39134030 AACTAATAGT
* **
39134040 GGATAATATATGTATATACATGTATATGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGAT-ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
39134105 TATATATAAAGTTC
65 TATATATAAAGTTC
39134119 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
39134184 ATATATAAAG-TC
66 ATATATAAAGTTC
* * **
39134196 AGATATATATGTATATACACGAATAAATTCTTGAATTTAGTTAAAAGTATGCCTGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
39134261 ATATATAAAGTTC
66 ATATATAAAGTTC
*
39134274 GGATATATATGTATGTACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
39134339 ATATATAAAGTTC
66 ATATATAAAGTTC
* *
39134352 GGATGTATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTAAGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
39134417 ATATATAAAGTTC
66 ATATATAAAGTTC
** *
39134430 GGATATACGTGTATATACATGAATAAGTT-TTGAATTTAGTTAA
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAA
39134473 TGTTGAATGT
Statistics
Matches: 334, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
77 87 0.26
78 243 0.73
79 4 0.01
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (78 bp):
GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
ATATATAAAGTTC
Found at i:39134209 original size:155 final size:156
Alignment explanation
Indices: 39134045--39134472 Score: 725
Period size: 155 Copynumber: 2.8 Consensus size: 156
39134035 ATAGTGGATA
* **
39134045 ATATATGTATATACATGTATATGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
1 ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
39134110 ATAAAGTTCGGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGT
66 ATAAAGTTCGGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGT
39134175 TATATTTATATATATAAAG-TCAGAT
131 TATATTTATATATATAAAGTTCAGAT
* **
39134200 ATATATGTATATACACGAATAAATTCTTGAATTTAGTTAAAAGTATGCCTGTTATATTTATATAT
1 ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
*
39134265 ATAAAGTTCGGATATATATGTATGTACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGT
66 ATAAAGTTCGGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGT
*
39134330 TATATTTATATATATAAAGTTCGGAT
131 TATATTTATATATATAAAGTTCAGAT
* *
39134356 GTATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTAAGTATGTTATATTTATATAT
1 ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
** *
39134421 ATAAAGTTCGGATATACGTGTATATACATGAATAAGTT-TTGAATTTAGTTAA
66 ATAAAGTTCGGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAA
39134473 TGTTGAATGT
Statistics
Matches: 255, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
155 156 0.61
156 99 0.39
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (156 bp):
ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
ATAAAGTTCGGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGT
TATATTTATATATATAAAGTTCAGAT
Found at i:39134465 original size:233 final size:234
Alignment explanation
Indices: 39134040--39134472 Score: 744
Period size: 233 Copynumber: 1.9 Consensus size: 234
39134030 AACTAATAGT
* **
39134040 GGATAATATATGTATATACATGTATATGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGATAATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
*
39134105 TATATATAAAGTTCGGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATG
66 TATATATAAAGTTCGGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTAAG
*
39134170 TATGTTATATTTATATATATAAAGTCAGATATATATGTATATACACGAATAAATTCTTGAATTTA
131 TATGTTATATTTATATATATAAAGTCAGATATACATGTATATACACGAATAAATTCTTGAATTTA
39134235 GTTAAAAGTATGCCTGTTATATTTATATATATAAAGTTC
196 GTTAAAAGTATGCCTGTTATATTTATATATATAAAGTTC
*
39134274 GGAT-ATATATGTATGTACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGATAATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
*
39134338 TATATATAAAGTTCGGATGTATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTAAG
66 TATATATAAAGTTCGGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTAAG
* * * *
39134403 TATGTTATATTTATATATATAAAGTTCGGATATACGTGTATATACATGAATAAGTT-TTGAATTT
131 TATGTTATATTTATATATATAAAG-TCAGATATACATGTATATACACGAATAAATTCTTGAATTT
39134467 AGTTAA
195 AGTTAA
39134473 TGTTGAATGT
Statistics
Matches: 187, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
233 157 0.84
234 30 0.16
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (234 bp):
GGATAATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
TATATATAAAGTTCGGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTAAG
TATGTTATATTTATATATATAAAGTCAGATATACATGTATATACACGAATAAATTCTTGAATTTA
GTTAAAAGTATGCCTGTTATATTTATATATATAAAGTTC
Found at i:39135212 original size:41 final size:41
Alignment explanation
Indices: 39135167--39135323 Score: 228
Period size: 41 Copynumber: 3.8 Consensus size: 41
39135157 CATTTCGGAC
* **
39135167 TATAAGTCTAGCAGGCTAAAAGCCGGTG-TACTGAATCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGAT-CTGAATCAGGT
39135208 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
*
39135249 TATAAGCCTAGAAGGCTAAGTGCCGGTGATCTGAATCAGGCT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGG-T
*
39135291 T-TAAGCCTAACAGGCTAAGTGCCGGTGAATCTG
1 TATAAGCCTAGCAGGCTAAGTGCCGGTG-ATCTG
39135324 TTTAAATTAA
Statistics
Matches: 107, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
41 99 0.93
42 8 0.07
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT
Done.