Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 62 of 208
Found at i:17923796 original size:26 final size:26
Alignment explanation
Indices: 17923760--17923838 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
17923750 GGGACAAAGG
*
17923760 CCTCGAATCCTGTCTTTGACGGTGAT
1 CCTCGAATCCTGTCTTTGACGGCGAT
17923786 CCTCGAATCCTGTCTTTGACGGCGAT
1 CCTCGAATCCTGTCTTTGACGGCGAT
17923812 CCTCGAATCCTGTCTTTGACGGCGAT
1 CCTCGAATCCTGTCTTTGACGGCGAT
17923838 C
1 C
17923839 ATAGCGTGTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.15, C:0.30, G:0.23, T:0.32
Consensus pattern (26 bp):
CCTCGAATCCTGTCTTTGACGGCGAT
Found at i:17932930 original size:41 final size:40
Alignment explanation
Indices: 17932885--17932984 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
17932875 CCATAATAAT
17932885 TAAAGCAATAGTGGCATTTATGAT-AAAAACACCGCAAAAGG
1 TAAAGCAATAGTGGCATTT-T-ATCAAAAACACCGCAAAAGG
* * * * *
17932926 TAAAGCATTAGCGG-AGTTTTCTCATAAACGCCGCAAAAGG
1 TAAAGCAATAGTGGCA-TTTTATCAAAAACACCGCAAAAGG
*
17932966 T-GAGCAATAGTGGCATTTT
1 TAAAGCAATAGTGGCATTTT
17932985 TTGTCCAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
39 14 0.29
40 19 0.40
41 15 0.31
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (40 bp):
TAAAGCAATAGTGGCATTTTATCAAAAACACCGCAAAAGG
Found at i:17933271 original size:76 final size:74
Alignment explanation
Indices: 17933061--17933281 Score: 209
Period size: 75 Copynumber: 2.9 Consensus size: 74
17933051 ACCTTGATCG
* * **
17933061 TTTTCCCTAAATTAG-T-TCCCCTTCCCAAAATCCCTAAGTATTTTTCCCAAAATCCTTCCCTTT
1 TTTTCCCCAAATTAGTTCTCCCCTTCCCGAAATCCCTAAGT-TTTTTCCC-AAATCCTT-TATTT
*
17933124 TTGCCCAATTCA
63 TTCCCCAATTCA
* * * *
17933136 TTTCCCCCAAATTAATTC-CCCC-TCCACGAAATCCCT-AGTTTTATCCAAAAATCCCTTTATTT
1 TTTTCCCCAAATTAGTTCTCCCCTTCC-CGAAATCCCTAAGTTTTTTCC-CAAAT-CCTTTA-TT
* *
17933198 TTTCCCCATTTTA
62 TTTCCCCAATTCA
* * *
17933211 TTTTCCCCAAATCAGTTCTCCCCTTCCCGAAATCCCTAACTTTTTTCCCAATTCCTTTTATTTTT
1 TTTTCCCCAAATTAGTTCTCCCCTTCCCGAAATCCCTAAGTTTTTTCCCAAATCC-TTTATTTTT
17933276 CCCCAA
65 CCCCAA
17933282 ATTAGTTCCC
Statistics
Matches: 117, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
74 10 0.09
75 61 0.52
76 35 0.30
77 11 0.09
ACGTcount: A:0.23, C:0.34, G:0.03, T:0.39
Consensus pattern (74 bp):
TTTTCCCCAAATTAGTTCTCCCCTTCCCGAAATCCCTAAGTTTTTTCCCAAATCCTTTATTTTTC
CCCAATTCA
Found at i:17933297 original size:60 final size:61
Alignment explanation
Indices: 17933206--17933320 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 61
17933196 TTTTTCCCCA
*
17933206 TTTTATTTTCCCCAAATCAGTTCTCCCCTT-CCCGAAATCCCTAACTTTTTTCCCAATTCC
1 TTTTATTTTCCCCAAATCAGTTCTCCCCTTCCCCGAAATCCCTAACTCTTTTCCCAATTCC
* *
17933266 TTTTATTTTTCCCCAAATTAGTTC-CCCCTTCCCCGAAATCCCTGACTCTTTTCCC
1 TTTTA-TTTTCCCCAAATCAGTTCTCCCCTTCCCCGAAATCCCTAACTCTTTTCCC
17933321 CAACGTCAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
60 11 0.22
61 39 0.78
ACGTcount: A:0.18, C:0.37, G:0.04, T:0.40
Consensus pattern (61 bp):
TTTTATTTTCCCCAAATCAGTTCTCCCCTTCCCCGAAATCCCTAACTCTTTTCCCAATTCC
Found at i:17933361 original size:25 final size:25
Alignment explanation
Indices: 17933329--17933411 Score: 114
Period size: 25 Copynumber: 3.3 Consensus size: 25
17933319 CCCAACGTCA
17933329 GCTGCATCATCGTCGGCAGCCCTCT
1 GCTGCATCATCGTCGGCAGCCCTCT
* *
17933354 GCTGCATCATCATCGGTAGCCCTCT
1 GCTGCATCATCGTCGGCAGCCCTCT
* *
17933379 GCTGCCTC-TCCGTCAGCAGCCCTCT
1 GCTGCATCAT-CGTCGGCAGCCCTCT
17933404 GCTGCATC
1 GCTGCATC
17933412 GCCGTGTAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 1 0.02
25 49 0.98
ACGTcount: A:0.12, C:0.41, G:0.22, T:0.25
Consensus pattern (25 bp):
GCTGCATCATCGTCGGCAGCCCTCT
Found at i:17934701 original size:11 final size:11
Alignment explanation
Indices: 17934680--17934708 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
17934670 AATATTTAAC
17934680 TTTTA-ATAAT
1 TTTTATATAAT
17934690 TTTTATATAAT
1 TTTTATATAAT
17934701 TTTTATAT
1 TTTTATAT
17934709 TTCTTTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTATATAAT
Found at i:17934791 original size:20 final size:19
Alignment explanation
Indices: 17934780--17934849 Score: 88
Period size: 20 Copynumber: 3.6 Consensus size: 19
17934770 TTATTTTTAT
17934780 AATTTATA-TTTTTTATAG
1 AATTTATATTTTTTTATAG
17934798 AATTTATATATTTTTTATAG
1 AATTTATAT-TTTTTTATAG
**
17934818 AATTTATATATATTTTTATTT
1 AATTTATAT-T-TTTTTATAG
17934839 AATTTATATTT
1 AATTTATATTT
17934850 AGGCTGACCG
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.17
19 1 0.02
20 22 0.47
21 16 0.34
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
AATTTATATTTTTTTATAG
Found at i:17935175 original size:59 final size:59
Alignment explanation
Indices: 17934967--17935302 Score: 485
Period size: 59 Copynumber: 5.6 Consensus size: 59
17934957 GGAACCCTAA
* * *
17934967 TTTGATTAATTAGTTAAATAATCATAATTCATAATAATTCTATGAATAATTAATTAATTAATT
1 TTTGATTAATTAATTAAATAATCATATTTCATAATAATTTTATGAAT-A-T--TTAATTAATT
* *
17935030 TTTGATTAATTAATTAAATAATCATATTTCATAATAATTCTATGAATA-GTAATTAATT
1 TTTGATTAATTAATTAAATAATCATATTTCATAATAATTTTATGAATATTTAATTAATT
* * * *
17935088 ATCGATTAATTAAATAAATAATCATATTTCATAATAATTTTATGAATATTTATTTAATT
1 TTTGATTAATTAATTAAATAATCATATTTCATAATAATTTTATGAATATTTAATTAATT
* * *
17935147 TTTGATTAATTAATTAAATAATCGTATTTCATAATAACTTTATGAATATTTATTTAATT
1 TTTGATTAATTAATTAAATAATCATATTTCATAATAATTTTATGAATATTTAATTAATT
* *
17935206 TTCGATTAATTAATTAAATAATCATATTTCATAATAATTTTATGAATAATTAATTAATT
1 TTTGATTAATTAATTAAATAATCATATTTCATAATAATTTTATGAATATTTAATTAATT
* *
17935265 TTTGATTAACTAAATAAATAATCATATTTCATAATAAT
1 TTTGATTAATTAATTAAATAATCATATTTCATAATAAT
17935303 GATTATTGTA
Statistics
Matches: 250, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
58 53 0.21
59 151 0.60
62 1 0.00
63 45 0.18
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (59 bp):
TTTGATTAATTAATTAAATAATCATATTTCATAATAATTTTATGAATATTTAATTAATT
Found at i:17938123 original size:115 final size:115
Alignment explanation
Indices: 17937912--17938124 Score: 347
Period size: 115 Copynumber: 1.8 Consensus size: 115
17937902 NNNNNNNNNN
* * *
17937912 TTATGTCTGATTCTGACACGAAAAAAAAAGAAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCC
1 TTATATCTGACTCTGACACGAAAAAAAAAGAAAAAAAAAATTTTACTGTTCACTGGGTGCCAGCC
17937977 ATTGACAGGCCAGCACCCAAAAAAAATTTTTTAAATTTTTTTTCATATTT
66 ATTGACAGGCCAGCACCCAAAAAAAATTTTTTAAATTTTTTTTCATATTT
* *
17938027 TTATATCTGACTCTGACACG-AAAAAAAAGAAAAAAAAACTTTTTACTGTTTACTGGGTGCCAGC
1 TTATATCTGACTCTGACACGAAAAAAAAAGAAAAAAAAA-ATTTTACTGTTCACTGGGTGCCAGC
*
17938091 CATTGACAGGCCAGCACCCAAACTAAAATTTTTT
65 CATTGACAGGCCAGCACCCAAA-AAAAATTTTTT
17938125 TTTCTTTTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
114 18 0.20
115 62 0.69
116 10 0.11
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (115 bp):
TTATATCTGACTCTGACACGAAAAAAAAAGAAAAAAAAAATTTTACTGTTCACTGGGTGCCAGCC
ATTGACAGGCCAGCACCCAAAAAAAATTTTTTAAATTTTTTTTCATATTT
Found at i:17944015 original size:43 final size:43
Alignment explanation
Indices: 17943945--17944035 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
17943935 TTTATTACAG
* * *
17943945 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGATCATGACCT
1 TTAGCGACACTTTTCCCACAAACGCCGCTAAAGAACATGACCT
*
17943988 TTAGCGACACTTTTCCCA-AAACTGCCGCTATAGAACATGACCT
1 TTAGCGACACTTTTCCCACAAAC-GCCGCTAAAGAACATGACCT
17944031 TTAGC
1 TTAGC
17944036 AGCGTTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (43 bp):
TTAGCGACACTTTTCCCACAAACGCCGCTAAAGAACATGACCT
Found at i:17951733 original size:24 final size:22
Alignment explanation
Indices: 17951703--17951747 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
17951693 TTGATAAATT
17951703 AAAATTAAAAATTTAATTATTAAA
1 AAAATTAAAAA-TTAATT-TTAAA
*
17951727 AAAATTAAATATTAATTTTAA
1 AAAATTAAAAATTAATTTTAA
17951748 GTTATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTAAAAATTAATTTTAAA
Found at i:17951734 original size:16 final size:16
Alignment explanation
Indices: 17951698--17951741 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
17951688 GATGTTTGAT
17951698 AAATTAAA-ATT-AAA
1 AAATTAAATATTAAAA
* *
17951712 AATTTAATTATTAAAA
1 AAATTAAATATTAAAA
17951728 AAATTAAATATTAA
1 AAATTAAATATTAA
17951742 TTTTAAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 15 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATTAAATATTAAAA
Found at i:17952410 original size:9 final size:10
Alignment explanation
Indices: 17952391--17952445 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
17952381 GACATGTAAC
17952391 AAAAAATTAT
1 AAAAAATTAT
17952401 AAAAAA-TAT
1 AAAAAATTAT
*
17952410 --AAAATTGT
1 AAAAAATTAT
17952418 AATAAGAAGTTAT
1 AA-AA-AA-TTAT
17952431 AAAAAATTAT
1 AAAAAATTAT
17952441 AAAAA
1 AAAAA
17952446 TTGTATAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 4 0.11
8 2 0.05
9 3 0.08
10 15 0.41
11 4 0.11
12 4 0.11
13 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.27
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:17952419 original size:30 final size:32
Alignment explanation
Indices: 17952385--17952450 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 32
17952375 TGATATGACA
17952385 TGTAACAAAAAATTATAAAAAA-TAT-AAAAT
1 TGTAACAAAAAATTATAAAAAATTATAAAAAT
* * *
17952415 TGTAATAAGAAGTTATAAAAAATTATAAAAAT
1 TGTAACAAAAAATTATAAAAAATTATAAAAAT
17952447 TGTA
1 TGTA
17952451 TAATGCATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 19 0.61
31 3 0.10
32 9 0.29
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (32 bp):
TGTAACAAAAAATTATAAAAAATTATAAAAAT
Found at i:17952665 original size:20 final size:21
Alignment explanation
Indices: 17952631--17952698 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 21
17952621 CTTCTTTTGG
17952631 TACGATAATTTTTATAGTTTTTT
1 TACGAT-A-TTTTATAGTTTTTT
*
17952654 TACGA-ATTTTATA-TTTCTT
1 TACGATATTTTATAGTTTTTT
* *
17952673 TAC-ATTTTTTTATAGTTTTGT
1 TACGA-TATTTTATAGTTTTTT
17952694 TACGA
1 TACGA
17952699 CTTTATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
18 1 0.03
19 8 0.22
20 14 0.38
21 8 0.22
22 1 0.03
23 5 0.14
ACGTcount: A:0.25, C:0.07, G:0.09, T:0.59
Consensus pattern (21 bp):
TACGATATTTTATAGTTTTTT
Found at i:17952720 original size:40 final size:40
Alignment explanation
Indices: 17952639--17952723 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
17952629 GGTACGATAA
* * *
17952639 TTTTTATAGTTTTTTTACGAATTTTATATTTCTTTACATT
1 TTTTTATAGTTTTGTTACGAATTTTAAATTTCTATACATT
*
17952679 TTTTTATAGTTTTGTTACGACTTTATAAAATTT-TATA-ATT
1 TTTTTATAGTTTTGTTACGAATTT-T-AAATTTCTATACATT
17952719 TTTTT
1 TTTTT
17952724 CTATAGTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 30 0.77
41 4 0.10
42 5 0.13
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (40 bp):
TTTTTATAGTTTTGTTACGAATTTTAAATTTCTATACATT
Found at i:17952751 original size:9 final size:9
Alignment explanation
Indices: 17952733--17952798 Score: 53
Period size: 9 Copynumber: 7.0 Consensus size: 9
17952723 TCTATAGTTC
*
17952733 TATATATTT
1 TATATTTTT
17952742 TATATTTTT
1 TATATTTTT
*
17952751 TATAATATTT
1 TAT-ATTTTT
17952761 TATAATATTTT
1 TAT-AT-TTTT
*
17952772 TACGA-TTTT
1 TA-TATTTTT
17952781 TATATTTTT
1 TATATTTTT
*
17952790 TAAATTTTT
1 TATATTTTT
17952799 CATTAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 1 0.02
9 29 0.62
10 11 0.23
11 6 0.13
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
TATATTTTT
Found at i:17952753 original size:49 final size:47
Alignment explanation
Indices: 17952700--17952818 Score: 130
Period size: 49 Copynumber: 2.4 Consensus size: 47
17952690 TTGTTACGAC
* * *
17952700 TTTATAAAATTTTATAATTTTTTTCTATAGTTCTATATATTTTATATTT
1 TTTATAAAATTTTATAATTTTTTACGAT--TTCTATATATTTTAAATTT
* * *
17952749 TTTATAATATTTTATAATATTTTTACGATTTTTATATTTTTTAAATTT
1 TTTATAAAATTTTATAAT-TTTTTACGATTTCTATATATTTTAAATTT
* *
17952797 TTCATTAAAATTTAATAATTTT
1 TTTA-TAAAATTTTATAATTTT
17952819 GTAACTTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 22 0.37
49 29 0.49
50 8 0.14
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (47 bp):
TTTATAAAATTTTATAATTTTTTACGATTTCTATATATTTTAAATTT
Found at i:17952758 original size:19 final size:19
Alignment explanation
Indices: 17952736--17952791 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
17952726 ATAGTTCTAT
*
17952736 ATATTTTATATTTTTTATA
1 ATATTTTATATTTTTTACA
*
17952755 ATATTTTATAATATTTTTACG
1 ATATTTTAT-AT-TTTTTACA
17952776 AT-TTTTATATTTTTTA
1 ATATTTTATATTTTTTA
17952792 AATTTTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 6 0.18
19 11 0.33
20 8 0.24
21 8 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
ATATTTTATATTTTTTACA
Found at i:17952763 original size:10 final size:10
Alignment explanation
Indices: 17952700--17952771 Score: 60
Period size: 10 Copynumber: 7.3 Consensus size: 10
17952690 TTGTTACGAC
*
17952700 TTTATAAAAT
1 TTTATAATAT
17952710 TTTATAAT-T
1 TTTATAATAT
* *
17952719 TTTTTCTATAGT
1 TTTAT-AATA-T
*
17952731 TCTAT-ATAT
1 TTTATAATAT
*
17952740 TTTAT-ATTT
1 TTTATAATAT
17952749 TTTATAATAT
1 TTTATAATAT
17952759 TTTATAATAT
1 TTTATAATAT
17952769 TTT
1 TTT
17952772 TACGATTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
9 18 0.36
10 28 0.56
12 4 0.08
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:17953479 original size:3 final size:3
Alignment explanation
Indices: 17953467--17953503 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
17953457 TAAGGTCAAA
17953467 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17953504 AATTTTCAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:17953969 original size:18 final size:20
Alignment explanation
Indices: 17953938--17953975 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
17953928 CAAATCAGAA
17953938 ATAAATAAATAAACAAAAAT
1 ATAAATAAATAAACAAAAAT
17953958 ATAAAT-AA-AAACAAAAAT
1 ATAAATAAATAAACAAAAAT
17953976 TATTAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
ATAAATAAATAAACAAAAAT
Found at i:17959418 original size:27 final size:27
Alignment explanation
Indices: 17959388--17959441 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
17959378 CAGAAAGAGG
17959388 TCAATT-TTTTTCAATTTTTTAAGGGGT
1 TCAATTGTTTTTCAA-TTTTTAAGGGGT
17959415 TCAATTGTTTTTCAATTTTTAAGGGGT
1 TCAATTGTTTTTCAATTTTTAAGGGGT
17959442 CCAAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.22, C:0.07, G:0.17, T:0.54
Consensus pattern (27 bp):
TCAATTGTTTTTCAATTTTTAAGGGGT
Found at i:17959453 original size:28 final size:27
Alignment explanation
Indices: 17959389--17959454 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
17959379 AGAAAGAGGT
*
17959389 CAATTTTTTTCAATTTTTTAAGGGGTT
1 CAATTTTTTTCAATTTTTTAAGGGGTC
17959416 CAATTGTTTTTCAA-TTTTTAAGGGGTC
1 CAATT-TTTTTCAATTTTTTAAGGGGTC
17959443 CAAAATTTTTTT
1 C--AATTTTTTT
17959455 TACTAACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
27 18 0.51
28 13 0.37
29 4 0.11
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (27 bp):
CAATTTTTTTCAATTTTTTAAGGGGTC
Found at i:17960154 original size:20 final size:20
Alignment explanation
Indices: 17960129--17960210 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
17960119 TGAGTGTAAA
*
17960129 ATTAAAAAATTTCAAAAATT
1 ATTAAAAAATTTCAAAAAAT
*
17960149 ATTAAAAAAATTCTAAAAAAT
1 ATTAAAAAATTTC-AAAAAAT
*
17960170 ATATAAAAATTTTC---AAAT
1 AT-TAAAAAATTTCAAAAAAT
* *
17960188 GTGAAAAAA-TTCAAAAAAT
1 ATTAAAAAATTTCAAAAAAT
17960207 ATTA
1 ATTA
17960211 TTTATTAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
16 3 0.06
17 5 0.10
18 5 0.10
19 6 0.12
20 12 0.25
21 8 0.17
22 9 0.19
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
ATTAAAAAATTTCAAAAAAT
Found at i:17960158 original size:21 final size:21
Alignment explanation
Indices: 17960131--17960186 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
17960121 AGTGTAAAAT
*
17960131 TAAAAAATTTCAAAAATTAT-
1 TAAAAAATTTCAAAAAATATA
*
17960151 TAAAAAAATTCTAAAAAATATA
1 TAAAAAATTTC-AAAAAATATA
*
17960173 TAAAAATTTTCAAA
1 TAAAAAATTTCAAA
17960187 TGTGAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.33
21 11 0.37
22 9 0.30
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAAAATTTCAAAAAATATA
Found at i:17960510 original size:39 final size:40
Alignment explanation
Indices: 17960467--17960595 Score: 100
Period size: 40 Copynumber: 3.2 Consensus size: 40
17960457 AAAACGCTGA
* *
17960467 TATAGATCAAGAATTAGCGGCGCTATTTGAAAAA-GCCAC
1 TATAGATCAACAATTAGCGACGCTATTTGAAAAACGCCAC
* ** * *
17960506 TATAGGTTGACCATTAGCGACGCTATTTGAAAAACGCCGC
1 TATAGATCAACAATTAGCGACGCTATTTGAAAAACGCCAC
* * * * * * *
17960546 TATAGGTCGACCATTAGCGGCACT-TCTTTAAAAACGCCGC
1 TATAGATCAACAATTAGCGACGCTAT-TTGAAAAACGCCAC
*
17960586 TATATATCAA
1 TATAGATCAA
17960596 GCATTAGTGA
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
39 29 0.39
40 45 0.61
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (40 bp):
TATAGATCAACAATTAGCGACGCTATTTGAAAAACGCCAC
Found at i:17960560 original size:40 final size:40
Alignment explanation
Indices: 17960479--17960589 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
17960469 TAGATCAAGA
* *
17960479 ATTAGCGGCGCTATTTGAAAAA-GCCACTATAGGTTGACC
1 ATTAGCGGCGCTATTTGAAAAACGCCGCTATAGGTCGACC
*
17960518 ATTAGCGACGCTATTTGAAAAACGCCGCTATAGGTCGACC
1 ATTAGCGGCGCTATTTGAAAAACGCCGCTATAGGTCGACC
* *
17960558 ATTAGCGGCACT-TCTTTAAAAACGCCGCTATA
1 ATTAGCGGCGCTAT-TTGAAAAACGCCGCTATA
17960590 TATCAAGCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 22 0.34
40 42 0.66
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (40 bp):
ATTAGCGGCGCTATTTGAAAAACGCCGCTATAGGTCGACC
Found at i:17960692 original size:40 final size:40
Alignment explanation
Indices: 17960648--17960728 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
17960638 AGCTTTTGTG
*
17960648 GCATTAGCGGCGCTTCCTG-AAAAACACCGCTATATATCGA
1 GCATTAGCGGCGCTT-CTGAAAAAACACCGCTATAGATCGA
* * * *
17960688 GCATTAGCGGGGCTTTTGAAAAAACGCCGCTGTAGATCGA
1 GCATTAGCGGCGCTTCTGAAAAAACACCGCTATAGATCGA
17960728 G
1 G
17960729 ATTTAGAGCG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.06
40 33 0.94
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
GCATTAGCGGCGCTTCTGAAAAAACACCGCTATAGATCGA
Found at i:17960796 original size:9 final size:9
Alignment explanation
Indices: 17960782--17960807 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17960772 ATGTTGAGCT
17960782 TTAGTGGCA
1 TTAGTGGCA
17960791 TTAGTGGCA
1 TTAGTGGCA
17960800 TTAGTGGC
1 TTAGTGGC
17960808 GCTTTTTAAA
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:0.19, C:0.12, G:0.35, T:0.35
Consensus pattern (9 bp):
TTAGTGGCA
Found at i:17961005 original size:30 final size:31
Alignment explanation
Indices: 17960946--17961004 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
17960936 ATTTGAAAGT
17960946 AAAAAATATAAAAATATATTTGTTAAAAATG
1 AAAAAATATAAAAATATATTTGTTAAAAATG
*
17960977 AAAAAA-ATTAAAATACTATTAT-TTAAAA
1 AAAAAATATAAAAATA-TATT-TGTTAAAA
17961005 TAATTTAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 8 0.32
31 16 0.64
32 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (31 bp):
AAAAAATATAAAAATATATTTGTTAAAAATG
Found at i:17961030 original size:14 final size:14
Alignment explanation
Indices: 17961008--17961068 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
17960998 TTTAAAATAA
*
17961008 TTTAATGTTTAGAG
1 TTTAGTGTTTAGAG
*
17961022 TTTAGTGTTTACAG
1 TTTAGTGTTTAGAG
17961036 TTTAG-GTTGTAG-G
1 TTTAGTGTT-TAGAG
*
17961049 TTTA-TGGTTTAGTG
1 TTTAGT-GTTTAGAG
17961063 TTTAGT
1 TTTAGT
17961069 TTGGGTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.28
14 27 0.69
15 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.26, T:0.52
Consensus pattern (14 bp):
TTTAGTGTTTAGAG
Found at i:17961096 original size:21 final size:20
Alignment explanation
Indices: 17961054--17961111 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
17961044 GTAGGTTTAT
*
17961054 GGTTTAGTGTTTA--GTTTG
1 GGTTTAATGTTTAGGGTTTG
*
17961072 GGTTTTAA-GTTTTGGGTTTAG
1 GG-TTTAATGTTTAGGGTTT-G
17961093 GGTTTAATGTTTAGGGTTT
1 GGTTTAATGTTTAGGGTTT
17961112 TTGGGTTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 6 0.19
19 4 0.12
20 9 0.28
21 13 0.41
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.53
Consensus pattern (20 bp):
GGTTTAATGTTTAGGGTTTG
Found at i:17967203 original size:71 final size:71
Alignment explanation
Indices: 17967115--17967253 Score: 278
Period size: 71 Copynumber: 2.0 Consensus size: 71
17967105 TAATATCAAA
17967115 AGTTTGCAGTCTGTTCACGATTAATGCCATATCGCCTAAAAAAAAGATGGCGCAAAAAAAAAACT
1 AGTTTGCAGTCTGTTCACGATTAATGCCATATCGCCTAAAAAAAAGATGGCGCAAAAAAAAAACT
17967180 CTATCG
66 CTATCG
17967186 AGTTTGCAGTCTGTTCACGATTAATGCCATATCGCCTAAAAAAAAGATGGCGCAAAAAAAAAACT
1 AGTTTGCAGTCTGTTCACGATTAATGCCATATCGCCTAAAAAAAAGATGGCGCAAAAAAAAAACT
17967251 CTA
66 CTA
17967254 CCGGGGCAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (71 bp):
AGTTTGCAGTCTGTTCACGATTAATGCCATATCGCCTAAAAAAAAGATGGCGCAAAAAAAAAACT
CTATCG
Found at i:17967520 original size:14 final size:15
Alignment explanation
Indices: 17967494--17967526 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17967484 TCCCAAGCTG
17967494 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
17967509 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
17967523 GGAA
1 GGAA
17967527 AAACGTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:17969025 original size:88 final size:87
Alignment explanation
Indices: 17968868--17969175 Score: 436
Period size: 88 Copynumber: 3.5 Consensus size: 87
17968858 ATAACAAATA
* * * *
17968868 TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTACCTACCTGGGTTGTAGCG
1 TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC-
17968933 GAGCAGGTTAAAAATAGCAGATC
65 GAGCAGGTTAAAAATAGCAGATC
*
17968956 TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGGCACCAGCCTTGCCTCCCTGGGTTGCAGCA
1 TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC-
17969021 GAGCAGGTTAAAAATAGCAGATC
65 GAGCAGGTTAAAAATAGCAGATC
* * * * *
17969044 TTGCCTTCTTGTACCGATAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCACTGGGTTGCAGCG
1 TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCG
*
17969109 AAGCAGGTTAAAAATAACAGATC
66 -AGCAGGTTAAAAATAGCAGATC
* * ** * *
17969132 TTGCCTTCCTACACCGACAGTGAAATAGATCGATGACCCCAGCC
1 TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
17969176 CTATCTCCCT
Statistics
Matches: 196, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 1 0.01
88 195 0.99
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (87 bp):
TTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCG
AGCAGGTTAAAAATAGCAGATC
Found at i:17969269 original size:44 final size:44
Alignment explanation
Indices: 17969176--17969274 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 44
17969166 GACCCCAGCC
* * * *
17969176 CTATCTCCCTAGACAGCAGTGGAATATGTTGAAGATTGTAAGTT
1 CTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGGAAGTT
*
17969220 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATGGCGAA--T
1 CTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGG-GAAGTT
17969263 CTTATCTCCCTG
1 C-TATCTCCCTG
17969275 AAGTTACAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 2 0.04
44 44 0.92
45 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (44 bp):
CTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATGGGAAGTT
Found at i:17969308 original size:44 final size:43
Alignment explanation
Indices: 17969260--17969904 Score: 249
Period size: 44 Copynumber: 14.9 Consensus size: 43
17969250 GAAGATGGCG
*
17969260 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* ** *
17969304 AATCTTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * *
17969348 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
** * * * *** * *
17969386 CGGGTCTTATCTCCTTGAAGTTGCAATGGAGTA-ACCCAAGAAAGCG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA--T
*
17969432 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* *
17969476 AATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * * * *
17969520 GATCTTATTTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * * * * *
17969560 AGTCTTATCTCCCTAAAGTTGCAGTGGAACAAACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * *
17969603 AAGCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGC-A-
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCAAT
* *
17969649 AATCTTATCTCCCTGAAGTTACAGTGGAGCATATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* ** *
17969693 AAT-TGTATCTCCCTGAAGTTGCAATGGAGTGGATTAAAATCACA-
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * * * *
17969737 GATCTTATCTCTCTGAAGTTGTAG-AGAGTAGA-T--CGC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
** * *** * *
17969775 CGGGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACCCAAGAAAGC
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * * *
17969821 AAGTCTTATCTCCCTGAAGTTGTAGTGGACCAGACTCAAGAAAT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * * * *
17969865 CAAGTCTTATCCCCCTGAAATTGTAGTGGGGCAGACTAAA
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
17969905 TAAACAAATC
Statistics
Matches: 448, Mismatches: 104, Indels: 97
0.69 0.16 0.15
Matches are distributed among these distances:
37 2 0.00
39 4 0.01
40 61 0.14
41 17 0.04
42 5 0.01
43 28 0.06
44 210 0.47
45 110 0.25
46 8 0.02
47 1 0.00
48 1 0.00
49 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:17969513 original size:172 final size:172
Alignment explanation
Indices: 17969257--17969686 Score: 571
Period size: 172 Copynumber: 2.5 Consensus size: 172
17969247 GTTGAAGATG
* * *
17969257 GCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTAAAG
1 GCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAG
**
17969322 TTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATC
66 TTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATC
* * * ** *
17969387 GGGTCTTATCTCCTTGAAGTTGCAATGGAGTAACCCAAGAAA
131 GAGTCTTATCTCCCTAAAGTTGCAATGGAACAAACCAAGAAA
17969429 GCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAG
1 GCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAG
* *
17969494 TCGCAGTGGAGCAGATTAAAATCACAGATCTTATTTCTCTGAAGTTGCAGAGAGCAGATCGCATC
66 TTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATC
* * * *
17969559 TAGTCTTATCTCCCTAAAGTTGCAGTGGAACAAACTAAGTAA
131 GAGTCTTATCTCCCTAAAGTTGCAATGGAACAAACCAAGAAA
* * * * *
17969601 GCAAGCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGC-A-AATCTTATCTCCC
1 GCGAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCAATAATCTTATCTCCC
* *
17969662 TGAAGTTACAGTGGAGCATATTAAA
61 TGAAGTTGCAGTGGAGCAGATTAAA
17969687 GCCAATAATT
Statistics
Matches: 228, Mismatches: 25, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
171 3 0.01
172 183 0.80
173 38 0.17
174 2 0.01
175 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (172 bp):
GCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATC
GAGTCTTATCTCCCTAAAGTTGCAATGGAACAAACCAAGAAA
Found at i:17969710 original size:217 final size:218
Alignment explanation
Indices: 17969434--17969847 Score: 627
Period size: 217 Copynumber: 1.9 Consensus size: 218
17969424 AGAAAGCGAG
*
17969434 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTCGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTCGCA
* * *
17969499 GTGGAGCAGATTAAAATCACAGATCTTATTTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTC
66 ATGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGAGTC
* *
17969564 TTATCTCCCTAAAGTTGCAGTGGAACA-AACTAAGTAAGCAAGCCTTATC-CTCCTGAAGTTGTA
131 TTATCTCCCTAAAGTTGCAGTGGAACAGAACCAAGAAAGCAAGCCTTATCTC-CCTGAAGTTGTA
17969627 GTGAGGCAGACTGAAGATGGCAAA
195 GTGAGGCAGACTGAAGATGGCAAA
* *
17969651 TCTTATCTCCCTGAAGTTACAGTGGAGCATATTAAAGCCAATAAT-TGTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCT-TATCTCCCTGAAGTCGC
** * * *
17969715 AATGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGTAGAGAGTAGATCGCATCGGGT
65 AATGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGAGT
* ** * *
17969780 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACCCAAGAAAGCAAGTCTTATCTCCCTGAAGTTGTA
130 CTTATCTCCCTAAAGTTGCAGTGGAACAGAACCAAGAAAGCAAGCCTTATCTCCCTGAAGTTGTA
17969845 GTG
195 GTG
17969848 GACCAGACTC
Statistics
Matches: 176, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
216 1 0.01
217 141 0.80
218 33 0.19
219 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (218 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCCCTGAAGTCGCA
ATGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGAGTC
TTATCTCCCTAAAGTTGCAGTGGAACAGAACCAAGAAAGCAAGCCTTATCTCCCTGAAGTTGTAG
TGAGGCAGACTGAAGATGGCAAA
Found at i:17970474 original size:19 final size:19
Alignment explanation
Indices: 17970450--17970541 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
17970440 AATCTTCAAG
17970450 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
17970469 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17970488 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
17970507 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
17970526 GATATGCAGTCTTAGA
1 GATATGCAATCTTAGA
17970542 AGATATGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:17970494 original size:38 final size:38
Alignment explanation
Indices: 17970450--17970564 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
17970440 AATCTTCAAG
17970450 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
17970488 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
* *
17970526 GATATGCAGTCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
17970565 GATTTAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 50 0.70
41 8 0.11
42 13 0.18
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:17970665 original size:27 final size:27
Alignment explanation
Indices: 17970635--17970776 Score: 169
Period size: 27 Copynumber: 5.3 Consensus size: 27
17970625 TTTGATAGAT
* *
17970635 GGTATTTCAGTTATTTTACCCATTGAG
1 GGTATTTCGGTCATTTTACCCATTGAG
* * *
17970662 GGTATTTCGGTTACTTTACCCACTGAG
1 GGTATTTCGGTCATTTTACCCATTGAG
* *
17970689 GGTATTTCGGTCATTTTACCAATCGAG
1 GGTATTTCGGTCATTTTACCCATTGAG
* * *
17970716 GGTATTTCGATCATTTTACCTATCGAG
1 GGTATTTCGGTCATTTTACCCATTGAG
*
17970743 GGTATTTTGGTCATTTTACCC-TTCGAG
1 GGTATTTCGGTCATTTTACCCATT-GAG
17970770 GGTATTT
1 GGTATTT
17970777 AAATAATTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 99 0.99
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
GGTATTTCGGTCATTTTACCCATTGAG
Found at i:17973456 original size:43 final size:43
Alignment explanation
Indices: 17973394--17973476 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
17973384 AAGTGTGTAT
* *
17973394 AATTCAAAAATAAGGTCACACGGTCATGTCACCAGACCGTGCGC
1 AATTCAAAAATAAGGTCACACAGCCATGTCA-CAGACCGTGCGC
*
17973438 AATTC-AAAAT-AGGTTCACACAGCCGTGTCACAGACCGTG
1 AATTCAAAAATAAGG-TCACACAGCCATGTCACAGACCGTG
17973477 TGTGATTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 12 0.34
43 18 0.51
44 5 0.14
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (43 bp):
AATTCAAAAATAAGGTCACACAGCCATGTCACAGACCGTGCGC
Found at i:17974698 original size:24 final size:24
Alignment explanation
Indices: 17974666--17974726 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 24
17974656 GTACATAATA
17974666 CCTGCTAAATACACCAGCACAAAG
1 CCTGCTAAATACACCAGCACAAAG
* * *
17974690 CCTGCTAAA-AAACCTGCTCAAAG
1 CCTGCTAAATACACCAGCACAAAG
17974713 CCTGCTAAATACAC
1 CCTGCTAAATACAC
17974727 TGACACGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.39, C:0.33, G:0.11, T:0.16
Consensus pattern (24 bp):
CCTGCTAAATACACCAGCACAAAG
Found at i:17978400 original size:13 final size:13
Alignment explanation
Indices: 17978382--17978409 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17978372 TTTATTATAG
17978382 TTTTTCATAATTT
1 TTTTTCATAATTT
17978395 TTTTTCATAATTT
1 TTTTTCATAATTT
17978408 TT
1 TT
17978410 AAAACCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTCATAATTT
Found at i:17978583 original size:13 final size:13
Alignment explanation
Indices: 17978565--17978590 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17978555 CTAGGCTTTC
17978565 TTATAATTTTTTT
1 TTATAATTTTTTT
17978578 TTATAATTTTTTT
1 TTATAATTTTTTT
17978591 CAACTTAGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATAATTTTTTT
Found at i:17979848 original size:9 final size:9
Alignment explanation
Indices: 17979831--17979861 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17979821 TCGAGTTGAT
17979831 TCGAATAAC
1 TCGAATAAC
*
17979840 TCGATTAAC
1 TCGAATAAC
17979849 TCGAATAAC
1 TCGAATAAC
17979858 TCGA
1 TCGA
17979862 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:17986188 original size:45 final size:45
Alignment explanation
Indices: 17986119--17986318 Score: 179
Period size: 45 Copynumber: 4.5 Consensus size: 45
17986109 TACACGGTGG
** * *
17986119 ATCAGCACGCAGC-ACCACCCTTATAGTCAATAGTACTC-GGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTA-TCGGGTGAA
* * *
17986163 ATCAGCACATAGCAACCACCTTTATACTCAATGGTACCGGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
* * * * * * * *
17986208 ATCAGCACATAGTAACAACCTATGTAACCATTGGTATCCGGTGAA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
* ** * * *
17986253 ATCAGCACATAGCAACCACTTTTATTTTCATTAATATCGGGTGGA
1 ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
*
17986298 ATCAGCACATAGCATCCACCT
1 ATCAGCACATAGCAACCACCT
17986319 ATATTTCCAA
Statistics
Matches: 125, Mismatches: 29, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
44 12 0.10
45 113 0.90
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTTTATAATCAATAGTATCGGGTGAA
Found at i:17986319 original size:90 final size:90
Alignment explanation
Indices: 17986156--17986320 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
17986146 CAATAGTACT
** *
17986156 CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATGGTACCGGGTGAAATCAGCACATAGT
1 CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACATAGC
17986221 AACAACCTATGTAACCATTGGTATC
66 AACAACCTATGTAACCATTGGTATC
* ** * * *
17986246 CGGTGAAATCAGCACATAGCAACCACTTTTATTTTCATTAATATCGGGTGGAATCAGCACATAGC
1 CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACATAGC
* *
17986311 ATCCACCTAT
66 AACAACCTAT
17986321 ATTTCCAATG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (90 bp):
CGGTGAAATCAGCACATAGCAACCACCTTTATACTCAATAATACCGGGTGAAATCAGCACATAGC
AACAACCTATGTAACCATTGGTATC
Found at i:17993261 original size:45 final size:45
Alignment explanation
Indices: 17993194--17993283 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
17993184 AGCACCACAG
* *
17993194 TTATAGTCAATAGTACTCGGTGAAATCAACACTTAGCAACCACCT
1 TTATACTCAATAGTACTCGGTGAAATCAACACATAGCAACCACCT
* *
17993239 TTATACTCAATGGTAC-CGGGTGAAATCAACACATAGCATCCACCT
1 TTATACTCAATAGTACTC-GGTGAAATCAACACATAGCAACCACCT
17993284 ATATTTCCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (45 bp):
TTATACTCAATAGTACTCGGTGAAATCAACACATAGCAACCACCT
Found at i:17995985 original size:25 final size:25
Alignment explanation
Indices: 17995957--17996009 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
17995947 TGAATAACTT
17995957 TAAGCTCATACGAAATGAGTAATGG
1 TAAGCTCATACGAAATGAGTAATGG
* ** *
17995982 TAAGCTTATACGAGCTGAGTATTGG
1 TAAGCTCATACGAAATGAGTAATGG
17996007 TAA
1 TAA
17996010 CCCTAATGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (25 bp):
TAAGCTCATACGAAATGAGTAATGG
Found at i:17997132 original size:23 final size:23
Alignment explanation
Indices: 17997101--17997145 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
17997091 AACAAAATTT
17997101 TATACGGTATTTCTATCATTCTA
1 TATACGGTATTTCTATCATTCTA
*
17997124 TATATGGTATTTCTATCATTCT
1 TATACGGTATTTCTATCATTCT
17997146 GTAGGAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (23 bp):
TATACGGTATTTCTATCATTCTA
Found at i:17998376 original size:30 final size:30
Alignment explanation
Indices: 17998333--17998392 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
17998323 AATTTTTTGC
*
17998333 GAGCTGAACTAAGCTC-CATTTCAGCTCAAT
1 GAGCTGAACTAAGCTCAAATTT-AGCTCAAT
17998363 GAGCTCGAA-TAAGCTCAAATTTAGCTCAAT
1 GAGCT-GAACTAAGCTCAAATTTAGCTCAAT
17998393 TCCATTTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (30 bp):
GAGCTGAACTAAGCTCAAATTTAGCTCAAT
Found at i:17999611 original size:6 final size:6
Alignment explanation
Indices: 17999602--17999712 Score: 69
Period size: 6 Copynumber: 18.0 Consensus size: 6
17999592 AATGAAAAAG
** * * * *
17999602 AAGAAA AAGAAA AAGAAA GTGAAG GAGAAA AAGAAA AAGAAA ATGCAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
** ** * * *
17999650 AAGAAA AAGAAA TCGAAA AAGTGA GAGAAA AGGAAA ACGAAGAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-A-AA AAGAAA
*
17999700 ATTGAAA AAGAAA
1 A-AGAAA AAGAAA
17999713 TTGAGATTGA
Statistics
Matches: 77, Mismatches: 25, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
6 66 0.86
7 7 0.09
8 4 0.05
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.05
Consensus pattern (6 bp):
AAGAAA
Found at i:17999613 original size:15 final size:16
Alignment explanation
Indices: 17999589--17999618 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17999579 ACATTGTAAT
17999589 AAAAATGAAAAAGAAG
1 AAAAATGAAAAAGAAG
17999605 AAAAA-GAAAAAGAA
1 AAAAATGAAAAAGAA
17999619 AGTGAAGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAAATGAAAAAGAAG
Found at i:17999635 original size:24 final size:24
Alignment explanation
Indices: 17999602--17999661 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
17999592 AATGAAAAAG
*
17999602 AAGAAAAAGAAAAAGAAAGTG-AA
1 AAGAAAAAGAAAAAGAAAATGCAA
*
17999625 GGAGAAAAAGAAAAAGAAAATGCAA
1 -AAGAAAAAGAAAAAGAAAATGCAA
17999650 AAGAAAAAGAAA
1 AAGAAAAAGAAA
17999662 TCGAAAAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 30 0.94
25 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.03
Consensus pattern (24 bp):
AAGAAAAAGAAAAAGAAAATGCAA
Found at i:17999669 original size:18 final size:18
Alignment explanation
Indices: 17999590--17999712 Score: 76
Period size: 18 Copynumber: 6.8 Consensus size: 18
17999580 CATTGTAATA
17999590 AAAATGAAAAAG---AAG
1 AAAATGAAAAAGAAAAAG
* **
17999605 AAAAAGAAAAAGAAAGTG
1 AAAATGAAAAAGAAAAAG
*
17999623 AAGGA-GAAAAAGAAAAAG
1 AA-AATGAAAAAGAAAAAG
*
17999641 AAAATGCAAAAGAAAAAG
1 AAAATGAAAAAGAAAAAG
** *
17999659 -AAATCGAAAAAGTGAGAG
1 AAAAT-GAAAAAGAAAAAG
* *
17999677 AAAAGGAAAACGAAGAAAAG
1 AAAATGAAAAAG-A-AAAAG
17999697 AAAATTGAAAAAGAAA
1 AAAA-TGAAAAAGAAA
17999713 TTGAGATTGA
Statistics
Matches: 79, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
15 11 0.14
17 5 0.06
18 43 0.54
19 6 0.08
20 8 0.10
21 6 0.08
ACGTcount: A:0.70, C:0.02, G:0.22, T:0.06
Consensus pattern (18 bp):
AAAATGAAAAAGAAAAAG
Found at i:17999721 original size:18 final size:18
Alignment explanation
Indices: 17999700--17999734 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17999690 AGAAAAGAAA
17999700 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
17999718 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
17999735 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:18005864 original size:25 final size:25
Alignment explanation
Indices: 18005799--18005980 Score: 159
Period size: 25 Copynumber: 7.3 Consensus size: 25
18005789 GGCACTTCGA
* *
18005799 ATAATTCGCCACAAAGTCTCTTCAG
1 ATAATTCGCCACAAAGGCTTTTCAG
** * * *
18005824 ATAATTTACTAGAAAGGCTTTTTAG
1 ATAATTCGCCACAAAGGCTTTTCAG
*
18005849 ATAATTCGCCACAAAGGCTTTTTAG
1 ATAATTCGCCACAAAGGCTTTTCAG
* * * *
18005874 ATAATTCACCGCAAAGGATTTTTAG
1 ATAATTCGCCACAAAGGCTTTTCAG
* *
18005899 TTAATTTGCCACAAAGGCTTTTCAG
1 ATAATTCGCCACAAAGGCTTTTCAG
** * * *
18005924 ATAATTC-AAAAATAAGGCTCTTAAG
1 ATAATTCGCCACA-AAGGCTTTTCAG
*
18005949 ATAATTCGCCATAAAGGCTTTTCAG
1 ATAATTCGCCACAAAGGCTTTTCAG
*
18005974 AAAATTC
1 ATAATTC
18005981 ACTGAAAAGG
Statistics
Matches: 122, Mismatches: 33, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
24 2 0.02
25 118 0.97
26 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (25 bp):
ATAATTCGCCACAAAGGCTTTTCAG
Found at i:18005876 original size:50 final size:51
Alignment explanation
Indices: 18005799--18005993 Score: 220
Period size: 50 Copynumber: 3.9 Consensus size: 51
18005789 GGCACTTCGA
* * *
18005799 ATAATTCGCCACAAAGTCTCTTCAGATAATTTACTAG-AAAGGCTTTTTAG
1 ATAATTCGCCACAAAGGCTTTTCAGATAATTCACTAGAAAAGGCTTTTTAG
* * * *
18005849 ATAATTCGCCACAAAGGCTTTTTAGATAATTCAC-CGCAAAGGATTTTTAG
1 ATAATTCGCCACAAAGGCTTTTCAGATAATTCACTAGAAAAGGCTTTTTAG
* * * * *
18005899 TTAATTTGCCACAAAGGCTTTTCAGATAATTCA--AAAATAAGGCTCTTAAG
1 ATAATTCGCCACAAAGGCTTTTCAGATAATTCACTAGAA-AAGGCTTTTTAG
* *
18005949 ATAATTCGCCATAAAGGCTTTTCAGAAAATTCACT-GAAAAGGCTT
1 ATAATTCGCCACAAAGGCTTTTCAGATAATTCACTAGAAAAGGCTT
18005994 GGTTTTGTTT
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.02
50 116 0.97
51 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (51 bp):
ATAATTCGCCACAAAGGCTTTTCAGATAATTCACTAGAAAAGGCTTTTTAG
Found at i:18005951 original size:100 final size:100
Alignment explanation
Indices: 18005800--18005982 Score: 251
Period size: 100 Copynumber: 1.8 Consensus size: 100
18005790 GCACTTCGAA
* * * * * *
18005800 TAATTCGCCACAAAGTCTCTTCAGATAATTTACTAGAAAGGCTTTTTAGATAATTCGCCACAAAG
1 TAATTCGCCACAAAGGCTCTTCAGATAATTCACAAAAAAGGCTCTTAAGATAATTCGCCACAAAG
* *
18005865 GCTTTTTAGATAATTCACCGCAAAGGATTTTTAGT
66 GCTTTTCAGAAAATTCACCGCAAAGGATTTTTAGT
* * *
18005900 TAATTTGCCACAAAGGCTTTTCAGATAATTCA-AAAATAAGGCTCTTAAGATAATTCGCCATAAA
1 TAATTCGCCACAAAGGCTCTTCAGATAATTCACAAAA-AAGGCTCTTAAGATAATTCGCCACAAA
18005964 GGCTTTTCAGAAAATTCAC
65 GGCTTTTCAGAAAATTCAC
18005983 TGAAAAGGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 2 0.03
100 69 0.97
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (100 bp):
TAATTCGCCACAAAGGCTCTTCAGATAATTCACAAAAAAGGCTCTTAAGATAATTCGCCACAAAG
GCTTTTCAGAAAATTCACCGCAAAGGATTTTTAGT
Found at i:18007945 original size:32 final size:32
Alignment explanation
Indices: 18007904--18007968 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
18007894 TTTCCTTTAC
18007904 ATCGTTGCTCACACGAGTTGTGAAATGGGTCT
1 ATCGTTGCTCACACGAGTTGTGAAATGGGTCT
18007936 ATCGTTGCTCACACGAGTTGTGAAATGGGTCT
1 ATCGTTGCTCACACGAGTTGTGAAATGGGTCT
18007968 A
1 A
18007969 CTCACACGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (32 bp):
ATCGTTGCTCACACGAGTTGTGAAATGGGTCT
Found at i:18007983 original size:26 final size:27
Alignment explanation
Indices: 18007911--18007983 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 27
18007901 TACATCGTTG
18007911 CTCACACGAGTTGTGAAATGGGTCTATCGTT
1 CTCACACGAGTTGTGAAATGGGTCTA----T
18007942 GCTCACACGAGTTGTGAAATGGGTCTA-
1 -CTCACACGAGTTGTGAAATGGGTCTAT
*
18007969 CTCACACGAGCTGTG
1 CTCACACGAGTTGTG
18007984 GGTCGAAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 14 0.35
32 26 0.65
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (27 bp):
CTCACACGAGTTGTGAAATGGGTCTAT
Found at i:18013924 original size:35 final size:35
Alignment explanation
Indices: 18013860--18013926 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
18013850 CTGTATGCCT
*
18013860 CACATGGCTGAAACACACACCTGTATCTCAGGGGA
1 CACATGGCTGAAACACACACCCGTATCTCAGGGGA
** * *
18013895 CACATGGCTGAGTCACATACCCGTGTCTCAGG
1 CACATGGCTGAAACACACACCCGTATCTCAGG
18013927 CCATGTGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (35 bp):
CACATGGCTGAAACACACACCCGTATCTCAGGGGA
Found at i:18017252 original size:33 final size:33
Alignment explanation
Indices: 18017210--18017275 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
18017200 AAAGCTTCTT
18017210 GAATTGCACCTCCTATTTCTGCTTGTGTTGCTG
1 GAATTGCACCTCCTATTTCTGCTTGTGTTGCTG
18017243 GAATTGCACCTCCTATTTCTGCTTGTGTTGCTG
1 GAATTGCACCTCCTATTTCTGCTTGTGTTGCTG
18017276 CAATCTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.42
Consensus pattern (33 bp):
GAATTGCACCTCCTATTTCTGCTTGTGTTGCTG
Found at i:18020173 original size:11 final size:11
Alignment explanation
Indices: 18020157--18020193 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
18020147 AAGAGAGAAT
*
18020157 GATGCTTGATG
1 GATGCTTGAGG
18020168 GATGCTTGAGG
1 GATGCTTGAGG
*
18020179 GATGATTGAGG
1 GATGCTTGAGG
18020190 GATG
1 GATG
18020194 ATGAATGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.05, G:0.43, T:0.30
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:18025919 original size:39 final size:39
Alignment explanation
Indices: 18025860--18025934 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
18025850 ACCACCTGTG
*
18025860 TTTATTATCCTGGCAGACTACCCTGTGTTTAGTGTCCCA
1 TTTATTATCCCGGCAGACTACCCTGTGTTTAGTGTCCCA
* *
18025899 TTTATTATCCCGGC-GAACTACCTTGTGTTTCGTGTC
1 TTTATTATCCCGGCAG-ACTACCCTGTGTTTAGTGTC
18025935 TCGATGGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (39 bp):
TTTATTATCCCGGCAGACTACCCTGTGTTTAGTGTCCCA
Found at i:18027686 original size:16 final size:17
Alignment explanation
Indices: 18027665--18027699 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18027655 TTCACTTAAC
*
18027665 TTAACA-TTACAACAAA
1 TTAACATTTAAAACAAA
18027681 TTAACATTTAAAACAAA
1 TTAACATTTAAAACAAA
18027698 TT
1 TT
18027700 TGTATTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAACATTTAAAACAAA
Found at i:18031036 original size:41 final size:41
Alignment explanation
Indices: 18030982--18031059 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
18030972 CTTTCACAAC
* *
18030982 ATTAACCAAAAAGGCTTCCCATAAAATAGACCACAAATAAG
1 ATTAACCAAAAAGGCTTCCCAGAAAATACACCACAAATAAG
* * * *
18031023 ATTAGCCACAAAGGCTTTCCAGATAATACACCACAAA
1 ATTAACCAAAAAGGCTTCCCAGAAAATACACCACAAA
18031060 GGCTTTCTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.47, C:0.24, G:0.10, T:0.18
Consensus pattern (41 bp):
ATTAACCAAAAAGGCTTCCCAGAAAATACACCACAAATAAG
Found at i:18037071 original size:8 final size:8
Alignment explanation
Indices: 18037058--18037083 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18037048 TAATGTTGAA
18037058 GCCCCCAC
1 GCCCCCAC
18037066 GCCCCCAC
1 GCCCCCAC
18037074 GCCCCCAC
1 GCCCCCAC
18037082 GC
1 GC
18037084 TCTCACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.73, G:0.15, T:0.00
Consensus pattern (8 bp):
GCCCCCAC
Found at i:18038668 original size:35 final size:35
Alignment explanation
Indices: 18038629--18038699 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
18038619 GATTTATAGG
* *
18038629 TATTCTGATTATGACTCCCATGTTAAGCATGCCAT
1 TATTCTAATTATGACTCCCATGTTAAACATGCCAT
* * *
18038664 TATTCTAATTCTGATTCGCATGTTAAACATGCCAT
1 TATTCTAATTATGACTCCCATGTTAAACATGCCAT
18038699 T
1 T
18038700 GTGTTAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (35 bp):
TATTCTAATTATGACTCCCATGTTAAACATGCCAT
Found at i:18043742 original size:25 final size:25
Alignment explanation
Indices: 18043714--18043802 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
18043704 TAGTACTTCA
18043714 CCACAAAGGCGTTTCACAACATTAG
1 CCACAAAGGCGTTTCACAACATTAG
* * * *
18043739 CCAC-AACG-GTTTCCCATATAATACG
1 CCACAAAGGCGTTTCACA-ACATTA-G
* *
18043764 CCACAAAGGCTTTTCACAAGATTAG
1 CCACAAAGGCGTTTCACAACATTAG
18043789 CCACAAAGGC-TTTC
1 CCACAAAGGCGTTTC
18043803 CAGATAATAC
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
23 7 0.14
24 11 0.22
25 20 0.39
26 7 0.14
27 6 0.12
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (25 bp):
CCACAAAGGCGTTTCACAACATTAG
Found at i:18043773 original size:50 final size:50
Alignment explanation
Indices: 18043714--18043832 Score: 168
Period size: 50 Copynumber: 2.4 Consensus size: 50
18043704 TAGTACTTCA
* * *
18043714 CCACAAAGGCGTTTCACAACATTAGCCACAACGG-TTTCCCATATAATACG
1 CCACAAAGGCTTTTCACAACATTAGCCACAAAGGCTTT-CCAGATAATACG
*
18043764 CCACAAAGGCTTTTCACAAGATTAGCCACAAAGGCTTTCCAGATAATACG
1 CCACAAAGGCTTTTCACAACATTAGCCACAAAGGCTTTCCAGATAATACG
* *
18043814 CTATAAAGGCTTTTCACAA
1 CCACAAAGGCTTTTCACAA
18043833 TGTTAGTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 59 0.95
51 3 0.05
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (50 bp):
CCACAAAGGCTTTTCACAACATTAGCCACAAAGGCTTTCCAGATAATACG
Found at i:18045697 original size:25 final size:25
Alignment explanation
Indices: 18045666--18045733 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 25
18045656 GTTTACATTA
*
18045666 GCCACAAAGGCTTTCTAGATAATAC
1 GCCACAAAGGCTTTCCAGATAATAC
* *
18045691 GCTACAAAAGGTTTTCCAGATAATAC
1 GCCAC-AAAGGCTTTCCAGATAATAC
18045717 GCCACAAA-GCTTTCCAG
1 GCCACAAAGGCTTTCCAG
18045734 GTAACCTATC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.22
25 7 0.19
26 22 0.59
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (25 bp):
GCCACAAAGGCTTTCCAGATAATAC
Found at i:18048052 original size:21 final size:20
Alignment explanation
Indices: 18048009--18048051 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
18047999 CAGAAAATTA
*
18048009 TTTCTGGAAATTGATTTACT
1 TTTCTGGAAAATGATTTACT
18048029 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
18048049 TTT
1 TTT
18048052 TTGGTGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:18051014 original size:50 final size:50
Alignment explanation
Indices: 18050951--18051052 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
18050941 ACCTTTGGTG
* *
18050951 TCGCCCTGCTTTATCCAACTTCCAATGGACTCGGCTGGCCTTTTGATCTT
1 TCGCCCTGCTTTATCCAACTTCCAATGGACTCAGCTGACCTTTTGATCTT
18051001 TCGCCCTGCTTTATCCAACTTCCAATGGACTCAGCTGACCTTTTGATCTT
1 TCGCCCTGCTTTATCCAACTTCCAATGGACTCAGCTGACCTTTTGATCTT
18051051 TC
1 TC
18051053 TATTATTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (50 bp):
TCGCCCTGCTTTATCCAACTTCCAATGGACTCAGCTGACCTTTTGATCTT
Found at i:18056140 original size:21 final size:21
Alignment explanation
Indices: 18056114--18056181 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
18056104 GGAGCATAAA
*
18056114 CAGGGGCACGTATGTACAATT
1 CAGGGGCACATATGTACAATT
* * *
18056135 CAGGGGTACCA-AAGTACAAAT
1 CAGGGGCA-CATATGTACAATT
**
18056156 -AGGGGCACATATGTGTAATT
1 CAGGGGCACATATGTACAATT
18056176 CAGGGG
1 CAGGGG
18056182 TATCAAAGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.34
21 20 0.57
22 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (21 bp):
CAGGGGCACATATGTACAATT
Found at i:18056176 original size:41 final size:41
Alignment explanation
Indices: 18056115--18056257 Score: 196
Period size: 41 Copynumber: 3.5 Consensus size: 41
18056105 GAGCATAAAC
* *
18056115 AGGGGCACGTATGTACAATTCAGGGGTACCAAAGTACAAAT
1 AGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAT
* * *
18056156 AGGGGCACATATGTGTAATTCAGGGGTATCAAAGTATAAAT
1 AGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAT
* * * *
18056197 AAGGGCACGTATGTGCAATTCAGGAGTACCAAAGTACAAAC
1 AGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAT
*
18056238 AGGGGAACATATGTGCAATT
1 AGGGGCACATATGTGCAATT
18056258 TAGGTAATAA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.22
Consensus pattern (41 bp):
AGGGGCACATATGTGCAATTCAGGGGTACCAAAGTACAAAT
Found at i:18058629 original size:46 final size:46
Alignment explanation
Indices: 18058538--18058629 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 46
18058528 GCAATCAGCC
** *
18058538 TTGAATACCAAAAAATCCCAATCTCTAAACAATTCAAGTAACAAAT
1 TTGAATACCAAAAAATCCCAATCTCTAAACAAAACAAGAAACAAAT
* * * *
18058584 TTGAATTCCAAAAAATCCTAGTCTCTTAACAAAACAA-AAACCAAAT
1 TTGAATACCAAAAAATCCCAATCTCTAAACAAAACAAGAAA-CAAAT
18058630 ATACCAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 2 0.05
46 36 0.95
ACGTcount: A:0.50, C:0.22, G:0.04, T:0.24
Consensus pattern (46 bp):
TTGAATACCAAAAAATCCCAATCTCTAAACAAAACAAGAAACAAAT
Found at i:18059150 original size:28 final size:28
Alignment explanation
Indices: 18059108--18059180 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
18059098 GCTGATAAAC
18059108 AGAGTGAAAGGAGAATGACTGTTCTGATG
1 AGAGTG-AAGGAGAATGACTGTTCTGATG
* * *
18059137 AGAGTGAAGGAGAACGATTGTTGTGATG
1 AGAGTGAAGGAGAATGACTGTTCTGATG
*
18059165 AGATTGAAGGAGAATG
1 AGAGTGAAGGAGAATG
18059181 GAAAATATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 33 0.85
29 6 0.15
ACGTcount: A:0.36, C:0.04, G:0.37, T:0.23
Consensus pattern (28 bp):
AGAGTGAAGGAGAATGACTGTTCTGATG
Found at i:18060171 original size:28 final size:28
Alignment explanation
Indices: 18060138--18060200 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
18060128 GACAGAGAGA
* *
18060138 AAGGAGAATGATTGTTGTGATGAGAATG
1 AAGGAGAATGACTGTTGTGATAAGAATG
*
18060166 AAGGAGAATGACTGTTGTGATAAGAGTG
1 AAGGAGAATGACTGTTGTGATAAGAATG
18060194 AAGGAGA
1 AAGGAGA
18060201 GTGGAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.02, G:0.37, T:0.24
Consensus pattern (28 bp):
AAGGAGAATGACTGTTGTGATAAGAATG
Found at i:18061714 original size:26 final size:26
Alignment explanation
Indices: 18061678--18061741 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
18061668 ACGAACTTTC
18061678 TCAAAATTTTACCGAGGGTTAA-ATCG
1 TCAAAATTTTACCGAGGG-TAAGATCG
* *
18061704 TCAAAATTTTACCGAGGGTAAGTTTG
1 TCAAAATTTTACCGAGGGTAAGATCG
18061730 TCAAAATTTTAC
1 TCAAAATTTTAC
18061742 TATTGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 3 0.09
26 32 0.91
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCGAGGGTAAGATCG
Found at i:18080042 original size:9 final size:9
Alignment explanation
Indices: 18080028--18080145 Score: 70
Period size: 9 Copynumber: 13.6 Consensus size: 9
18080018 TGAGATATAT
18080028 TTATGTAAG
1 TTATGTAAG
*
18080037 TTATGTAAC
1 TTATGTAAG
*
18080046 TTATGATATG
1 TTATG-TAAG
* * *
18080056 ATATAT-AT
1 TTATGTAAG
18080064 TTATGT-AG
1 TTATGTAAG
18080072 -TATGTAAG
1 TTATGTAAG
18080080 TTATGTAAG
1 TTATGTAAG
*
18080089 TTATG-ACAT
1 TTATGTA-AG
*
18080098 TTATGATATG
1 TTATG-TAAG
* * *
18080108 ATATAT-AT
1 TTATGTAAG
18080116 TTATGT-A-
1 TTATGTAAG
18080123 TTATGTAAG
1 TTATGTAAG
18080132 TTATGTAAG
1 TTATGTAAG
18080141 TTATG
1 TTATG
18080146 AAATTTGAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
7 11 0.13
8 14 0.17
9 48 0.59
10 8 0.10
11 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:18080063 original size:36 final size:34
Alignment explanation
Indices: 18080016--18080084 Score: 102
Period size: 36 Copynumber: 2.0 Consensus size: 34
18080006 TAAGTATAAT
18080016 TATGAGATATATTTATGTAAGTTATGTAACTTATGA
1 TATGAGATATATTTATGT-AG-TATGTAACTTATGA
* *
18080052 TATGATATATATTTATGTAGTATGTAAGTTATG
1 TATGAGATATATTTATGTAGTATGTAACTTATG
18080085 TAAGTTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 12 0.39
35 2 0.06
36 17 0.55
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (34 bp):
TATGAGATATATTTATGTAGTATGTAACTTATGA
Found at i:18080067 original size:18 final size:17
Alignment explanation
Indices: 18080016--18080123 Score: 67
Period size: 18 Copynumber: 6.2 Consensus size: 17
18080006 TAAGTATAAT
*
18080016 TATGAGATATATTTATG
1 TATGATATATATTTATG
* * * *
18080033 TAAGTTATGTAACTTATG
1 TATGATATAT-ATTTATG
18080051 ATATGATATATATTTATG
1 -TATGATATATATTTATG
* *
18080069 TA-G-TATGTAAGTTATG
1 TATGATATAT-ATTTATG
* * *
18080085 TAAGTTATGACATTTATG
1 TATGATAT-ATATTTATG
18080103 ATATGATATATATTTATG
1 -TATGATATATATTTATG
18080121 TAT
1 TAT
18080124 TATGTAAGTT
Statistics
Matches: 67, Mismatches: 17, Indels: 14
0.68 0.17 0.14
Matches are distributed among these distances:
15 4 0.06
16 9 0.13
17 12 0.18
18 29 0.43
19 13 0.19
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (17 bp):
TATGATATATATTTATG
Found at i:18080090 original size:52 final size:52
Alignment explanation
Indices: 18080028--18080146 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
18080018 TGAGATATAT
18080028 TTATGTAAGTTATGTA-ACTTATGATATGATATATATTTATGTAGTATGTAAG
1 TTATGTAAGTTATG-ACACTTATGATATGATATATATTTATGTAGTATGTAAG
* *
18080080 TTATGTAAGTTATGACATTTATGATATGATATATATTTATGTATTATGTAAG
1 TTATGTAAGTTATGACACTTATGATATGATATATATTTATGTAGTATGTAAG
18080132 TTATGTAAGTTATGA
1 TTATGTAAGTTATGA
18080147 AATTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 1 0.02
52 63 0.98
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (52 bp):
TTATGTAAGTTATGACACTTATGATATGATATATATTTATGTAGTATGTAAG
Found at i:18081868 original size:29 final size:29
Alignment explanation
Indices: 18081821--18081876 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
18081811 GGCAAAATAT
18081821 TTATAAAATTACAAATATT-TTATAAAACC
1 TTATAAAATTACAAATATTGTT-TAAAACC
*
18081850 TTATCAAATTA-AAACTATTGTTTAAAA
1 TTATAAAATTACAAA-TATTGTTTAAAA
18081877 ATATGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.12
29 19 0.79
30 2 0.08
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (29 bp):
TTATAAAATTACAAATATTGTTTAAAACC
Found at i:18082510 original size:24 final size:25
Alignment explanation
Indices: 18082473--18082526 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
18082463 CTTACACGGT
* *
18082473 GATGCGGCAAAGGAGTGT-GATGGC
1 GATGCGACAAAGGAGGGTCGATGGC
*
18082497 GATGCGACAGAGGAGGGTCGATGGC
1 GATGCGACAAAGGAGGGTCGATGGC
18082522 GATGC
1 GATGC
18082527 AGCAAACGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.24, C:0.15, G:0.46, T:0.15
Consensus pattern (25 bp):
GATGCGACAAAGGAGGGTCGATGGC
Found at i:18085119 original size:14 final size:14
Alignment explanation
Indices: 18085100--18085127 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18085090 AGAAAAAGAA
18085100 ACTCCCCATGTATG
1 ACTCCCCATGTATG
18085114 ACTCCCCATGTATG
1 ACTCCCCATGTATG
18085128 TCAACGTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (14 bp):
ACTCCCCATGTATG
Found at i:18085280 original size:6 final size:6
Alignment explanation
Indices: 18085264--18085309 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
18085254 ATGTTCCCTG
*
18085264 TAAAAA T-AAAA TAAAAA TAAAAA TAAAATA GTAAAAA TAATAA TAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA-A -TAAAAA TAAAAA TAA
18085310 TAGGAAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
5 5 0.14
6 24 0.67
7 2 0.06
8 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:18091153 original size:15 final size:15
Alignment explanation
Indices: 18091135--18091180 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
18091125 CTAAAACACT
*
18091135 AAACCATAAGCCCTA
1 AAACCATAAACCCTA
18091150 AAACCATAAACCCTA
1 AAACCATAAACCCTA
18091165 AATA-C-TAAACCCTA
1 AA-ACCATAAACCCTA
18091179 AA
1 AA
18091181 CCTTAAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 11 0.38
15 17 0.59
16 1 0.03
ACGTcount: A:0.52, C:0.30, G:0.02, T:0.15
Consensus pattern (15 bp):
AAACCATAAACCCTA
Found at i:18091166 original size:7 final size:7
Alignment explanation
Indices: 18091116--18091208 Score: 60
Period size: 7 Copynumber: 13.0 Consensus size: 7
18091106 TTATCAAAAC
18091116 CCCTAAA
1 CCCTAAA
*
18091123 CTCTAAAA
1 CCCT-AAA
*
18091131 CACTAAA
1 CCCTAAA
* *
18091138 CCATAAG
1 CCCTAAA
18091145 CCCTAAAA
1 CCCT-AAA
*
18091153 CCATAAA
1 CCCTAAA
18091160 CCCTAAA
1 CCCTAAA
**
18091167 TACTAAA
1 CCCTAAA
18091174 CCCTAAA
1 CCCTAAA
*
18091181 CCTTAAA
1 CCCTAAA
* *
18091188 TCATAAA
1 CCCTAAA
*
18091195 CCTTAAA
1 CCCTAAA
*
18091202 CCTTAAA
1 CCCTAAA
18091209 ATAAAATGAT
Statistics
Matches: 66, Mismatches: 18, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
7 55 0.83
8 11 0.17
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:18091180 original size:21 final size:21
Alignment explanation
Indices: 18091150--18091208 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
18091140 ATAAGCCCTA
*
18091150 AAACCATAAACCCTAAAT-ACT
1 AAACCATAAACCTTAAATCA-T
*
18091171 AAACCCTAAACCTTAAATCAT
1 AAACCATAAACCTTAAATCAT
*
18091192 AAACCTTAAACCTTAAA
1 AAACCATAAACCTTAAA
18091209 ATAAAATGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCATAAACCTTAAATCAT
Found at i:18091187 original size:14 final size:14
Alignment explanation
Indices: 18091116--18091208 Score: 71
Period size: 14 Copynumber: 6.5 Consensus size: 14
18091106 TTATCAAAAC
*
18091116 CCCTAAACTCTAAAA
1 CCCTAAAC-CTTAAA
* * *
18091131 CACTAAACCATAAG
1 CCCTAAACCTTAAA
*
18091145 CCCTAAAACCATAAA
1 CCCT-AAACCTTAAA
*
18091160 CCCTAAATAC-TAAA
1 CCCTAAA-CCTTAAA
18091174 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
* *
18091188 TCATAAACCTTAAA
1 CCCTAAACCTTAAA
*
18091202 CCTTAAA
1 CCCTAAA
18091209 ATAAAATGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 41 0.65
15 21 0.33
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.20
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:18091630 original size:124 final size:124
Alignment explanation
Indices: 18091410--18091638 Score: 368
Period size: 124 Copynumber: 1.8 Consensus size: 124
18091400 GTTTTTCATG
* * * *
18091410 TATAACCTTTGTGGCATTTCCAGTCAAAACGCCACTAAAAACTTAATTCCCTATAGTGAAACGAC
1 TATAACCTTTGCGGCATTTCCAGTCAAAACACCACCAAAAACTTAACTCCCTATAGTGAAACGAC
*
18091475 GCTGTTTAAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACGCCACTAATA
66 GCCGTTTAAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACGCCACTAATA
* * * *
18091534 TATAACCTTTGCGGCATTTTCTGTCGAAACACCACCAAAAACTTAACTCCCTGTAGTGAAACGAC
1 TATAACCTTTGCGGCATTTCCAGTCAAAACACCACCAAAAACTTAACTCCCTATAGTGAAACGAC
*
18091599 GCCGTTTAAGTCAAATTGGTATTGCATTTTTGCGGCATTT
66 GCCGTTTAAGTCAAATTGGTATTGCAATTTTGCGGCATTT
18091639 TCGGTCAAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
124 95 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (124 bp):
TATAACCTTTGCGGCATTTCCAGTCAAAACACCACCAAAAACTTAACTCCCTATAGTGAAACGAC
GCCGTTTAAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACGCCACTAATA
Found at i:18091690 original size:86 final size:86
Alignment explanation
Indices: 18091541--18091720 Score: 279
Period size: 86 Copynumber: 2.1 Consensus size: 86
18091531 ATATATAACC
* * * **
18091541 TTTGCGGCATTTTCTGTCGAAACACCACCAAAAACTTAACTCCCTGTAGTGAAACGACGCCGTTT
1 TTTGCGGCATTTTCGGTCAAAACACCACCAAAAACTTAACTCCCTATAGTGAAACGAAACCGTTT
*
18091606 AAGTCAAATTGGTATTGCATT
66 AAGTCAAATTGGTATTGCAAT
* * *
18091627 TTTGCGGCATTTTCGGTCAAAACACCACTAAAAATTTAATTCCCTATAGTGAAACGAAACCGTTT
1 TTTGCGGCATTTTCGGTCAAAACACCACCAAAAACTTAACTCCCTATAGTGAAACGAAACCGTTT
18091692 AAGTCAAATTGGTATTGCAAT
66 AAGTCAAATTGGTATTGCAAT
18091713 TTTGCGGC
1 TTTGCGGC
18091721 GTTTATGAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (86 bp):
TTTGCGGCATTTTCGGTCAAAACACCACCAAAAACTTAACTCCCTATAGTGAAACGAAACCGTTT
AAGTCAAATTGGTATTGCAAT
Found at i:18091800 original size:210 final size:210
Alignment explanation
Indices: 18091417--18091844 Score: 608
Period size: 210 Copynumber: 2.0 Consensus size: 210
18091407 ATGTATAACC
* * ** *
18091417 TTTGTGGCATTTCCAGTCAAAACGCCACTAAAAACTTAATTCCCTATAGTGAAACGACGCTGTTT
1 TTTGCGGCATTTCCAGTCAAAACACCACTAAAAACTTAATTCCCTATAGTGAAACGAAACCGTTT
* *
18091482 AAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACGCCACTAATATATAACCTTTGCG
66 AAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACACCACTAATATATAACCTTTGCC
* *
18091547 GCATTTTCTGTCGAAACACCACCAAAAACTTAACTCCCTGTAGTGAAACGACGCCGTTTAAGTCA
131 GCATTTTCTGTCAAAACACCACAAAAAACTTAACTCCCTGTAGTGAAACGACGCCGTTTAAGTCA
*
18091612 AATTGGTATTGCATT
196 AATTGGTATTGCAAT
* * *
18091627 TTTGCGGCATTTTCGGTCAAAACACCACTAAAAATTTAATTCCCTATAGTGAAACGAAACCGTTT
1 TTTGCGGCATTTCCAGTCAAAACACCACTAAAAACTTAATTCCCTATAGTGAAACGAAACCGTTT
* * * *
18091692 AAGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATGATCTTTGCC
66 AAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACACCACTAATATATAACCTTTGCC
* * * * *
18091757 GCGTTTT-TAGTCAAAACGCCACAAAAAATTTAA-TGCTCTGTAGTGAAACGACGTCGTTTAAGT
131 GCATTTTCT-GTCAAAACACCACAAAAAACTTAACT-CCCTGTAGTGAAACGACGCCGTTTAAGT
**
18091820 TGAATTGGTATTGCAAT
194 CAAATTGGTATTGCAAT
18091837 TTTGCGGC
1 TTTGCGGC
18091845 GTTTATGAAA
Statistics
Matches: 192, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
209 2 0.01
210 190 0.99
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (210 bp):
TTTGCGGCATTTCCAGTCAAAACACCACTAAAAACTTAATTCCCTATAGTGAAACGAAACCGTTT
AAGTCAAATTGGTATTGCAATTTTGCGGCATTTATGAAAAACACCACTAATATATAACCTTTGCC
GCATTTTCTGTCAAAACACCACAAAAAACTTAACTCCCTGTAGTGAAACGACGCCGTTTAAGTCA
AATTGGTATTGCAAT
Found at i:18091805 original size:124 final size:123
Alignment explanation
Indices: 18091627--18091938 Score: 408
Period size: 124 Copynumber: 2.5 Consensus size: 123
18091617 GTATTGCATT
* * * * * *
18091627 TTTGCGGCATTTTCGGTCAAAACACCACTAAAAATTTAATTCCCTATAGTGAAACGAAACCGTTT
1 TTTGCCGCATTTTCAGTCAAAACGCCACAAAAAATTTAATT-CCTGTAGTGAAACGACACCGTTT
*
18091692 AAGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATGATC
65 AAGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATGACC
* * * **
18091751 TTTGCCGCGTTTTTAGTCAAAACGCCACAAAAAATTTAATGCTCTGTAGTGAAACGACGTCGTTT
1 TTTGCCGCATTTTCAGTCAAAACGCCACAAAAAATTTAATTC-CTGTAGTGAAACGACACCGTTT
** * *
18091816 AAGTTGAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAGCGCCACTAATGTATGACC
65 AAGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATGACC
** * * * *
18091875 TTTGTGGCATTTTCAGTCAAAACGCCATAAAAAAATTATTTCCTGTAGTGAAACGGCACCGTTT
1 TTTGCCGCATTTTCAGTCAAAACGCCACAAAAAATTTAATTCCTGTAGTGAAACGACACCGTTT
18091939 TGCAAAATTT
Statistics
Matches: 160, Mismatches: 27, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
123 20 0.12
124 140 0.88
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (123 bp):
TTTGCCGCATTTTCAGTCAAAACGCCACAAAAAATTTAATTCCTGTAGTGAAACGACACCGTTTA
AGTCAAATTGGTATTGCAATTTTGCGGCGTTTATGAAAAACACCACTAATGTATGACC
Found at i:18093408 original size:3 final size:3
Alignment explanation
Indices: 18093388--18093453 Score: 55
Period size: 3 Copynumber: 21.3 Consensus size: 3
18093378 GGGTTCCTTG
** *
18093388 TTA TTAA TTA TT- TTA TTA TTA AAA TTAA TTA TTT TTA TTA -TA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
18093433 TTTA TTA TTA TTAA TTA TTA T
1 -TTA TTA TTA TT-A TTA TTA T
18093454 CATATTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 4 0.08
3 35 0.69
4 12 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:18093437 original size:18 final size:17
Alignment explanation
Indices: 18093388--18093451 Score: 76
Period size: 18 Copynumber: 3.7 Consensus size: 17
18093378 GGGTTCCTTG
18093388 TTATTAATTATTTTATTA
1 TTATTAATTA-TTTATTA
* * *
18093406 TTA-AAATTAATTATTT
1 TTATTAATTATTTATTA
18093422 TTATTATATTATTTATTA
1 TTATTA-ATTATTTATTA
18093440 TTATTAATTATT
1 TTATTAATTATT
18093452 ATCATATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 8 0.21
17 12 0.32
18 18 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAATTATTTATTA
Found at i:18093439 original size:21 final size:21
Alignment explanation
Indices: 18093388--18093450 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
18093378 GGGTTCCTTG
18093388 TTATTAATTA-TTTTATTATTA
1 TTATTAATTATTTTTATTA-TA
**
18093409 AAATTAATTATTTTTATTATA
1 TTATTAATTATTTTTATTATA
* *
18093430 TTATTTATTATTATTAATTAT
1 TTATTAATTATT-TTTATTAT
18093451 TATCATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTAATTATTTTTATTATA
Found at i:18093446 original size:31 final size:32
Alignment explanation
Indices: 18093388--18093451 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
18093378 GGGTTCCTTG
18093388 TTATTAATTATTTTATTATTAAAATTAATTATTT
1 TTATTAATTATTTTATTATT--AATTAATTATTT
18093422 TTATTATATTA-TTTATTATT-ATTAATTATT
1 TTATTA-ATTATTTTATTATTAATTAATTATT
18093452 ATCATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 10 0.34
34 15 0.52
35 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (32 bp):
TTATTAATTATTTTATTATTAATTAATTATTT
Found at i:18093618 original size:13 final size:15
Alignment explanation
Indices: 18093593--18093624 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18093583 TATACGTATG
18093593 TTTTGTTTTTTTA-T
1 TTTTGTTTTTTTACT
18093607 TTTTG-TTTTTTACT
1 TTTTGTTTTTTTACT
18093621 TTTT
1 TTTT
18093625 TATATATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTGTTTTTTTACT
Found at i:18093661 original size:18 final size:18
Alignment explanation
Indices: 18093615--18093661 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
18093605 ATTTTTGTTT
18093615 TTTACTTTTTTATATATAC
1 TTTA-TTTTTTATATATAC
18093634 TTTATATTTTATATATATAC
1 TTTAT-TTTT-TATATATAC
18093654 TTT-TTTTT
1 TTTATTTTT
18093662 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.19
19 9 0.35
20 12 0.46
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATTTTTTATATATAC
Found at i:18093669 original size:18 final size:20
Alignment explanation
Indices: 18093628--18093670 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
18093618 ACTTTTTTAT
*
18093628 ATATACTTTATATTTTATAT
1 ATATACTTTATATTTTATAA
*
18093648 ATATACTTT-T-TTTTGTAA
1 ATATACTTTATATTTTATAA
18093666 ATATA
1 ATATA
18093671 TACACATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 1 0.05
20 9 0.43
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATACTTTATATTTTATAA
Found at i:18093669 original size:20 final size:20
Alignment explanation
Indices: 18093626--18093673 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
18093616 TTACTTTTTT
*
18093626 ATATATACTTTATATTTTAT
1 ATATATACTTTATATTTTAA
*
18093646 ATATATACTTT-TTTTTGTAA
1 ATATATACTTTATATTT-TAA
18093666 ATATATAC
1 ATATATAC
18093674 ACATGTACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATATACTTTATATTTTAA
Found at i:18097914 original size:6 final size:7
Alignment explanation
Indices: 18097891--18097931 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
18097881 AAAAGTGATG
18097891 TGAAAAA
1 TGAAAAA
18097898 TGAAAAGA
1 TGAAAA-A
18097906 TG-AAAA
1 TGAAAAA
18097912 TGAAAAA
1 TGAAAAA
18097919 TGAAAAA
1 TGAAAAA
*
18097926 AGAAAA
1 TGAAAA
18097932 TGGATAGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 3 0.10
7 25 0.81
8 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (7 bp):
TGAAAAA
Found at i:18097915 original size:21 final size:20
Alignment explanation
Indices: 18097891--18097933 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
18097881 AAAAGTGATG
*
18097891 TGAAAAATGAAAAGATGAAAA
1 TGAAAAATGAAAA-AAGAAAA
18097912 TGAAAAATGAAAAAAGAAAA
1 TGAAAAATGAAAAAAGAAAA
18097932 TG
1 TG
18097934 GATAGGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.14
Consensus pattern (20 bp):
TGAAAAATGAAAAAAGAAAA
Found at i:18099449 original size:132 final size:132
Alignment explanation
Indices: 18099288--18102023 Score: 3908
Period size: 132 Copynumber: 20.7 Consensus size: 132
18099278 CATAGACAGC
* * * *
18099288 GGAGCAGATCAAAGATAGTGAATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
18099353 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATATTGTCTCCCTAAGCAGTA
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18099418 GT
131 GT
*
18099420 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAG-A
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
18099484 ATTTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAGGATTTTAGATCTTGTCTCCCTAAGCAGT
66 A-TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
18099549 AGT
130 AGT
* *
18099552 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAGGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * **
18099617 ATTCTACTTCCTTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTACCTCCCTAAGCAGTA
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18099682 GT
131 GT
* * *
18099684 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCCGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
*
18099749 ATTCTACTTCTCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18099814 GT
131 GT
* *
18099816 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAGGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
18099881 ATTCTACTACCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGA--TTGCCTCCCTACGTAGTA
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18099944 GT
131 GT
* * * *
18099946 GGAGCAGATCAAAGATGGCAGATTGTACCTCCCTGTGGTTACAGTGAAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
*
18100011 ATTCTACTTCCTTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18100076 GT
131 GT
* *
18100078 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
18100143 ATTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
66 ATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
18100207 AGT
130 AGT
* * * *
18100210 GGGGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
18100275 ATTCTACTTCCCTGGGCAGCAATGGAATAGATAGAAGATTACAGATCTTATCTCCCTAGGCAGTA
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18100340 GT
131 GT
* * * * *
18100342 GGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAAGTTACAGTGGAGTATATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * *
18100407 ATTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAGGTTTTTAGATCTTGTCTCCCTAAGCAGT
66 ATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
18100471 AGT
130 AGT
* *
18100474 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAGGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
*
18100539 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGA-TTCAGATCTTGCCTTCCCTAAGCAGT
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTC-TCCCTAAGCAGT
18100603 AGT
130 AGT
*
18100606 GGAGCAGATCAAAGATGGCAGGA-TTTACCTCTTCC-GTGGTTACAGTGGAGTACATTGGAAGCC
1 GGAGCAGATCAAAGATGGC-GGATTTTACCTC--CCTGAGGTTACAGTGGAGTACATT-GAAGCC
* * *
18100669 AGTAATTCTACTTCCCTGGGGCAGCAGTGGAATAGAATGGAAGATTTTAGATCTTGTCTCCTTAA
62 AGTAATTCTACTTCCCT-GGGCAGCAGTGGAATAG-ATTGAAGATTTCAGATCTTGTCTCCCTAA
18100734 GCAGTAGT
125 GCAGTAGT
* * *
18100742 GGATCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAGGCTAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
18100807 ATTCTACTTCCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTA
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18100872 GT
131 GT
* *
18100874 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTGCAGTGTAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * *
18100939 ATTCTA-TCTCCTTGGGCGGCAGTGGAATAGATTGAAGATTTCAGATTTTGTCTCCCTAAGCAAT
66 ATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
18101003 AGT
130 AGT
* * *
18101006 GG-GCCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
1 GGAG-CAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGT
* * *
18101070 AATTCCACTTCCCTTGGCAGCAGTGGAATAGATTAAAGATTTCAGATCTTGTCTTCCC-AAGCAG
65 AATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTC-TCCCTAAGCAG
18101134 TAGT
129 TAGT
** * * *
18101138 GGAGCAGATCAAAGATGATGAATTTTACCTCCCTGTGGTTACAGTGGAGTAAATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
18101203 ATTCTACTTCCCTGGGCAGCAATGGAATAGATTAAAGATTACAGATCTTATCTCCCTAGGCAGTA
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18101268 GT
131 GT
* * * * * * *
18101270 GGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAAGTTATAGTGGAGTATATTGATGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * ** * *
18101335 ATTTTA-TCTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACATATCTTATCTCCCTAAGCAGT
66 ATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
18101399 AGT
130 AGT
* * *
18101402 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC-GTGGAGTATATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
18101466 ACTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTGAGGATTACAGATATTATCTCCCTAAGCAGT
66 ATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
*
18101530 AGA
130 AGT
* * *
18101533 GGAGCAGATCAAAGATGGTGGACTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* ** * *
18101598 ATTCTA-TCTCCCTGGGCAGCAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGAAGT
66 ATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
18101662 AGT
130 AGT
* * **
18101665 GGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTGTATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* *
18101730 ATTCTACTTCCCTGGGCAGAAGTGGAATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18101795 GT
131 GT
* * * *
18101797 GGAGTAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
18101862 ATTCTACTTCTCTGGGTAGCAGCGGAATAGATTGAAGATTTCAGATCTTGCCTTCCT--GCA-TA
66 ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
18101924 GAT
131 G-T
* * ** *
18101927 AGCGAAACAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACCGTGGAGTACATTGAAGCCA
1 -G-G-AGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* * * *
18101992 GCAATTC-AATCTCCCAGGGCAACAGTGGAATA
63 GTAATTCTACT-TCCCTGGGCAGCAGTGGAATA
18102024 AACAGAAGAA
Statistics
Matches: 2356, Mismatches: 216, Indels: 63
0.89 0.08 0.02
Matches are distributed among these distances:
129 3 0.00
130 124 0.05
131 141 0.06
132 1819 0.77
133 124 0.05
134 47 0.02
135 40 0.02
136 47 0.02
137 11 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
GGAGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA
ATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTA
GT
Found at i:18100197 original size:44 final size:44
Alignment explanation
Indices: 18100023--18100463 Score: 140
Period size: 44 Copynumber: 10.0 Consensus size: 44
18100013 TCTACTTCCT
*
18100023 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCC
1 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC
** * ** ** ** * *
18100067 TAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCC
1 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC
** * * *
18100111 TGAGGTTGCAGTGGAGTACATTGAAG---CCAGTAAT-TCTATCTCCC
1 TG-GGCAGCAGTGGAATAGATTGAAGATTTCAG--ATCT-TATCTCCC
*
18100155 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCC
1 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC
** * *** ** * * * *
18100199 TAAGCAGTAGTGGGGCAGATCAAAGATGGTGA-ATTTTACCTCCC
1 TGGGCAGCAGTGGAATAGATTGAAGAT-TTCAGATCTTATCTCCC
* * * *
18100243 TGTGGTTA-CAGTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCC
1 TG-GG-CAGCAGTGGAATAGATTGAAGATTTCAG--ATCT-TATC-TCCC
* * *
18100287 TGGGCAGCAATGGAATAGATAGAAGATTACAGATCTTATCTCCC
1 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC
* * * * ** * *
18100331 TAGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCC
1 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC
** * * *
18100375 TGAAGTTA-CAGTGGAGTATATTGAAG---CCAGTAAT-TCTATCTCCC
1 TG--GGCAGCAGTGGAATAGATTGAAGATTTCAG--ATCT-TATCTCCC
* * * *
18100419 TGGGCAGCAGTGGAATAGATTGAGGTTTTTAGATCTTGTCTCCC
1 TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC
18100463 T
1 T
18100464 AAGCAGTAGT
Statistics
Matches: 281, Mismatches: 84, Indels: 64
0.66 0.20 0.15
Matches are distributed among these distances:
41 1 0.00
42 9 0.03
43 54 0.19
44 157 0.56
45 49 0.17
46 11 0.04
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (44 bp):
TGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC
Found at i:18103536 original size:21 final size:21
Alignment explanation
Indices: 18103486--18103547 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
18103476 GGTTCCTTGT
18103486 TATTAATTA-TTTTATTATTAA
1 TATTAATTATTTTTATTA-TAA
* *
18103507 AATTAATTATTTTTATTATAC
1 TATTAATTATTTTTATTATAA
* *
18103528 TATTTATTATTATTAATTAT
1 TATTAATTATT-TTTATTAT
18103548 TATCATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTAATTATTTTTATTATAA
Found at i:18103708 original size:13 final size:15
Alignment explanation
Indices: 18103683--18103714 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18103673 TATACGTATG
18103683 TTTTGTTTTTTTA-T
1 TTTTGTTTTTTTACT
18103697 TTTTG-TTTTTTACT
1 TTTTGTTTTTTTACT
18103711 TTTT
1 TTTT
18103715 TATATATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTGTTTTTTTACT
Found at i:18103751 original size:18 final size:18
Alignment explanation
Indices: 18103705--18103751 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
18103695 ATTTTTGTTT
18103705 TTTACTTTTTTATATATAC
1 TTTA-TTTTTTATATATAC
18103724 TTTATATTTTATATATATAC
1 TTTAT-TTTT-TATATATAC
18103744 TTT-TTTTT
1 TTTATTTTT
18103752 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.19
19 9 0.35
20 12 0.46
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATTTTTTATATATAC
Found at i:18103759 original size:18 final size:20
Alignment explanation
Indices: 18103718--18103760 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
18103708 ACTTTTTTAT
*
18103718 ATATACTTTATATTTTATAT
1 ATATACTTTATATTTTATAA
*
18103738 ATATACTTT-T-TTTTGTAA
1 ATATACTTTATATTTTATAA
18103756 ATATA
1 ATATA
18103761 TACACATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 1 0.05
20 9 0.43
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATACTTTATATTTTATAA
Found at i:18103759 original size:20 final size:20
Alignment explanation
Indices: 18103716--18103763 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
18103706 TTACTTTTTT
*
18103716 ATATATACTTTATATTTTAT
1 ATATATACTTTATATTTTAA
*
18103736 ATATATACTTT-TTTTTGTAA
1 ATATATACTTTATATTT-TAA
18103756 ATATATAC
1 ATATATAC
18103764 ACATGTACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATATACTTTATATTTTAA
Found at i:18104983 original size:20 final size:21
Alignment explanation
Indices: 18104946--18104989 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
18104936 ATTATTGATA
* *
18104946 ATTTTTTATAATAATTAATATT
1 ATTTTTTAGAAT-ATTAAAATT
18104968 ATTTTTTAGAAT-TTAAAATT
1 ATTTTTTAGAATATTAAAATT
18104988 AT
1 AT
18104990 GTAATTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTTTAGAATATTAAAATT
Found at i:18108630 original size:22 final size:22
Alignment explanation
Indices: 18108602--18108651 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
18108592 AAGAAACTAA
* *
18108602 TGTTTTCTTGTTGTTTTTTCAT
1 TGTTTTCTTGTTGCTTTCTCAT
18108624 TGTTTTCTTGTTGCTTTCTCAT
1 TGTTTTCTTGTTGCTTTCTCAT
18108646 TGTTTT
1 TGTTTT
18108652 GCTGTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.04, C:0.12, G:0.14, T:0.70
Consensus pattern (22 bp):
TGTTTTCTTGTTGCTTTCTCAT
Found at i:18109211 original size:22 final size:20
Alignment explanation
Indices: 18109163--18109212 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
18109153 TTTTTTTATG
*
18109163 ATTTTTTTAATTTTTTGAGA
1 ATTTTTTTAATTTTTTGACA
*
18109183 TTGTTTTTTGAATTTGTTTGACA
1 AT-TTTTTT-AATTT-TTTGACA
18109206 ATTTTTT
1 ATTTTTT
18109213 ATATTTTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.04
21 6 0.25
22 10 0.42
23 7 0.29
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.66
Consensus pattern (20 bp):
ATTTTTTTAATTTTTTGACA
Found at i:18109509 original size:27 final size:25
Alignment explanation
Indices: 18109464--18109514 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
18109454 TAACATATTG
*
18109464 AAAATTTTAAGTACCAAATAGATAAA
1 AAAAATTTAAGTACCAAATA-ATAAA
18109490 AAAAATTTAAGTACCAAAATAATAA
1 AAAAATTTAAGTACC-AAATAATAA
18109515 TTTGGTGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (25 bp):
AAAAATTTAAGTACCAAATAATAAA
Done.