Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 94 of 125
Found at i:18335756 original size:7 final size:7
Alignment explanation
Indices: 18335744--18335799 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
18335734 ATTTGTTTTA
18335744 TTTTATT
1 TTTTATT
18335751 TTTTA-T
1 TTTTATT
*
18335757 TTGTATT
1 TTTTATT
18335764 TTTTA-T
1 TTTTATT
18335770 TTTTATT
1 TTTTATT
18335777 TTTGTATT
1 TTT-TATT
*
18335785 TATTATT
1 TTTTATT
18335792 TATTTATT
1 T-TTTATT
18335800 ATTACTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
6 11 0.27
7 19 0.46
8 11 0.27
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.79
Consensus pattern (7 bp):
TTTTATT
Found at i:18335758 original size:21 final size:21
Alignment explanation
Indices: 18335734--18335796 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 21
18335724 GCCCATTTCA
18335734 ATTTGTTTTATTTTATTTTTT
1 ATTTGTTTTATTTTATTTTTT
*
18335755 ATTTGTATT-TTTTA-TTTTT
1 ATTTGTTTTATTTTATTTTTT
* *
18335774 ATTT-TTGTA-TTTATTATTT
1 ATTTGTTTTATTTTATTTTTT
18335793 ATTT
1 ATTT
18335797 ATTATTACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 6 0.17
19 17 0.47
20 5 0.14
21 8 0.22
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (21 bp):
ATTTGTTTTATTTTATTTTTT
Found at i:18335765 original size:13 final size:13
Alignment explanation
Indices: 18335739--18335799 Score: 79
Period size: 13 Copynumber: 4.5 Consensus size: 13
18335729 TTTCAATTTG
18335739 TTTTA-TTTTATT
1 TTTTATTTTTATT
*
18335751 TTTTATTTGTATT
1 TTTTATTTTTATT
18335764 TTTTATTTTTATT
1 TTTTATTTTTATT
18335777 TTTGTATTTATTATT
1 TTT-TATTT-TTATT
18335792 TATTTATT
1 T-TTTATT
18335800 ATTACTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
12 5 0.12
13 21 0.49
14 5 0.12
15 10 0.23
16 2 0.05
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:18335812 original size:28 final size:30
Alignment explanation
Indices: 18335781--18335849 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
18335771 TTTATTTTTG
*
18335781 TATTTAT-TATTTATTTATTATTAC-TATT
1 TATTTATATATTTATTTATTATTACTTATC
*
18335809 TATTAATATATATTTTTTTATTATTACTTATC
1 TATT--TATATATTTATTTATTATTACTTATC
18335841 TATTTATAT
1 TATTTATAT
18335850 GCCTATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 4 0.11
30 8 0.23
31 16 0.46
32 7 0.20
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (30 bp):
TATTTATATATTTATTTATTATTACTTATC
Found at i:18335897 original size:20 final size:20
Alignment explanation
Indices: 18335852--18335897 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
18335842 ATTTATATGC
18335852 CTATTATCATTATTATATAT
1 CTATTATCATTATTATATAT
* * * *
18335872 CGATTATTATTATTGTTTAT
1 CTATTATCATTATTATATAT
18335892 CTATTA
1 CTATTA
18335898 ATTAATATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (20 bp):
CTATTATCATTATTATATAT
Found at i:18336219 original size:21 final size:22
Alignment explanation
Indices: 18336193--18336233 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18336183 GGCAAGAAGC
18336193 AATTTTAG-GAATTTTTTTTAG
1 AATTTTAGTGAATTTTTTTTAG
*
18336214 AATTTTGGTGAATTTTTTTT
1 AATTTTAGTGAATTTTTTTT
18336234 TTGAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (22 bp):
AATTTTAGTGAATTTTTTTTAG
Found at i:18336698 original size:14 final size:15
Alignment explanation
Indices: 18336679--18336753 Score: 73
Period size: 15 Copynumber: 4.9 Consensus size: 15
18336669 CCTAGTTTTC
18336679 TTTTTATATTTATT-
1 TTTTTATATTTATTA
18336693 TTTTTATATTTATATA
1 TTTTTATATTTAT-TA
*
18336709 TTTATATATTTATTA
1 TTTTTATATTTATTA
* *
18336724 TTATTAT-TATTGTTA
1 TTTTTATAT-TTATTA
*
18336739 TTATTATTATTTATT
1 TTTTTA-TATTTATT
18336754 TATTAGATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
14 14 0.27
15 19 0.37
16 17 0.33
17 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (15 bp):
TTTTTATATTTATTA
Found at i:18336708 original size:8 final size:8
Alignment explanation
Indices: 18336683--18336725 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
18336673 GTTTTCTTTT
18336683 TATATTTA
1 TATATTTA
*
18336691 T-T-TTTT
1 TATATTTA
18336697 TATATTTA
1 TATATTTA
18336705 TATATTTA
1 TATATTTA
18336713 TATATTTA
1 TATATTTA
18336721 T-TATT
1 TATATT
18336726 ATTATTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 4 0.13
7 6 0.19
8 21 0.68
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TATATTTA
Found at i:18336726 original size:3 final size:3
Alignment explanation
Indices: 18336718--18336749 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18336708 ATTTATATAT
*
18336718 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18336750 TATTTATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18336728 original size:18 final size:17
Alignment explanation
Indices: 18336683--18336758 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 17
18336673 GTTTTCTTTT
18336683 TATATTTATT-TT-TT-
1 TATATTTATTATTATTA
18336697 TATATTTA-TA-TATTTA
1 TATATTTATTATTA-TTA
18336713 TATATTTATTATTATTA
1 TATATTTATTATTATTA
18336730 T-TATTGTTATTATTATTA
1 TATA-T-TTATTATTATTA
*
18336748 TTTATTTATTA
1 TATATTTATTA
18336759 GATTAGAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
13 2 0.04
14 8 0.15
15 2 0.04
16 10 0.19
17 13 0.25
18 16 0.30
19 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.68
Consensus pattern (17 bp):
TATATTTATTATTATTA
Found at i:18336790 original size:5 final size:5
Alignment explanation
Indices: 18336780--18336854 Score: 63
Period size: 5 Copynumber: 15.8 Consensus size: 5
18336770 TTTAGTATTT
* *
18336780 TTTTA TTTTA TTTTA TTTTA GTTTTA TTTTA -TTTC TTTTA -TTT- CTTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
18336828 TTTT- TTTT- CTTTA TTTT- TATTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTT
18336855 TTGTTATTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
4 17 0.29
5 35 0.60
6 6 0.10
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:18336793 original size:10 final size:10
Alignment explanation
Indices: 18336780--18336854 Score: 63
Period size: 9 Copynumber: 7.9 Consensus size: 10
18336770 TTTAGTATTT
18336780 TTTTATTTTA
1 TTTTATTTTA
18336790 TTTTATTTTA
1 TTTTATTTTA
18336800 GTTTTATTTTA
1 -TTTTATTTTA
*
18336811 -TTTCTTTTA
1 TTTTATTTTA
*
18336820 -TTT-CTTTA
1 TTTTATTTTA
18336828 TTTT-TTTT-
1 TTTTATTTTA
*
18336836 CTTTATTTT-
1 TTTTATTTTA
18336845 TATTTATTTT
1 T-TTTATTTT
18336855 TTGTTATTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
8 7 0.12
9 21 0.38
10 18 0.32
11 10 0.18
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.80
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:18336793 original size:13 final size:13
Alignment explanation
Indices: 18336775--18336867 Score: 73
Period size: 14 Copynumber: 6.6 Consensus size: 13
18336765 AATTGTTTAG
18336775 TATTTTTTTATTT
1 TATTTTTTTATTT
18336788 TATTTTATTTTAGTTT
1 TA-TTT-TTTTA-TTT
*
18336804 TATTTTATTTCTTT
1 TATTTT-TTTATTT
*
18336818 TATTTCTTTATTT
1 TATTTTTTTATTT
18336831 T-TTTTCTTTATTTT
1 TATTTT-TTTA-TTT
18336845 TATTTATTTT-TTGT
1 TATTT-TTTTATT-T
18336859 TATTATTTT
1 TATT-TTTT
18336868 CTTTAAATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
12 3 0.05
13 15 0.23
14 24 0.36
15 18 0.27
16 6 0.09
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.80
Consensus pattern (13 bp):
TATTTTTTTATTT
Found at i:18336809 original size:26 final size:25
Alignment explanation
Indices: 18336770--18336849 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 25
18336760 ATTAGAATTG
18336770 TTTAGTATTTTTTTATTTTATTTTAT
1 TTTAGTATTTTTTTA-TTTATTTTAT
*
18336796 TTTAGT-TTTATTTTATTTCTTTTAT
1 TTTAGTATTT-TTTTATTTATTTTAT
* *
18336821 TTCT-TTATTTTTTTTCTTTATTTTTAT
1 TT-TAGTA-TTTTTTTATTTA-TTTTAT
18336848 TT
1 TT
18336850 ATTTTTTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
25 15 0.33
26 19 0.42
27 11 0.24
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.79
Consensus pattern (25 bp):
TTTAGTATTTTTTTATTTATTTTAT
Found at i:18336856 original size:21 final size:20
Alignment explanation
Indices: 18336779--18336856 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 20
18336769 GTTTAGTATT
18336779 TTTTTATTTTATTTTAT-TTTA
1 TTTTTATTTT-TTTT-TCTTTA
* *
18336800 GTTTTA-TTTTATTTCTTTTA
1 TTTTTATTTTTTTTTC-TTTA
18336820 TTTCTT-TATTTTTTTTCTTTA
1 TTT-TTAT-TTTTTTTTCTTTA
18336841 TTTTTATTTATTTTTT
1 TTTTTATTT-TTTTTT
18336857 GTTATTATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
18 1 0.02
19 3 0.07
20 13 0.28
21 21 0.46
22 8 0.17
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.81
Consensus pattern (20 bp):
TTTTTATTTTTTTTTCTTTA
Found at i:18336861 original size:10 final size:9
Alignment explanation
Indices: 18336780--18336867 Score: 68
Period size: 10 Copynumber: 8.7 Consensus size: 9
18336770 TTTAGTATTT
18336780 TTTTATTTTA
1 TTTT-TTTTA
18336790 TTTTATTTTA
1 TTTT-TTTTA
18336800 GTTTTATTTTA
1 -TTTT-TTTTA
*
18336811 TTTCTTTTA
1 TTTTTTTTA
*
18336820 TTTCTTTATTT
1 TTT-TTT-TTA
18336831 TTTTTCTTTA
1 TTTTT-TTTA
18336841 TTTTTATTTA
1 TTTTT-TTTA
18336851 TTTTTTGTTA
1 TTTTTT-TTA
18336861 TTATTTT
1 TT-TTTT
18336868 CTTTAAATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
9 9 0.13
10 38 0.57
11 20 0.30
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:18336864 original size:23 final size:23
Alignment explanation
Indices: 18336802--18336867 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
18336792 TTATTTTAGT
* *
18336802 TTTATTTTATTTC-TT-TTATTTC
1 TTTATTTTTTTTCATTATT-TTTA
*
18336824 TTTATTTTTTTTCTTTATTTTTA
1 TTTATTTTTTTTCATTATTTTTA
18336847 TTTATTTTTTGTT-ATTATTTT
1 TTTATTTTTT-TTCATTATTTT
18336868 CTTTAAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 12 0.32
23 22 0.58
24 4 0.11
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTATTTTTTTTCATTATTTTTA
Found at i:18337022 original size:118 final size:115
Alignment explanation
Indices: 18336879--18337102 Score: 337
Period size: 118 Copynumber: 1.9 Consensus size: 115
18336869 TTTAAATAAA
*
18336879 TTTCAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT-AAGTTTTTT
1 TTTCAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAAATAAAG--ATTT
*
18336942 TAAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAACTTTCCTTGAAAATAAGC
63 T-AAAAAATA-TTTTGGAGAAAAGTTGAAAGTATCAACTTTCCTTGAAAATAAGC
*
18336997 TTTCTAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGATTTTA
1 TTTC-AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATAAAGATTTTA
*
18337061 AAAAATATTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTG
65 AAAAATATTTTGGAGAAAAGTTGAAAGTATCAACTTTCCTTG
18337103 TACAAAAGCA
Statistics
Matches: 99, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
115 33 0.33
116 8 0.08
117 7 0.07
118 40 0.40
119 11 0.11
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.38
Consensus pattern (115 bp):
TTTCAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTCGAAAATAAAGATTTTAA
AAAATATTTTGGAGAAAAGTTGAAAGTATCAACTTTCCTTGAAAATAAGC
Found at i:18337034 original size:58 final size:58
Alignment explanation
Indices: 18336872--18337102 Score: 312
Period size: 58 Copynumber: 4.0 Consensus size: 58
18336862 TATTTTCTTT
18336872 AAATAA-ATTTC-AAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA
1 AAATAAGATTTCTAAAAAATATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTTGA
* * *
18336929 AAATAAGTTTTTTTAAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAACTTTCCTTGA
1 AAATAAG-ATTTCT-AAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTGA
*
18336989 AAATAAGCTTTCTAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGA
1 AAATAAGATTTCTAAAAAATATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTCCTT-GA
* *
18337047 AATTAAAGATTT-TAAAAAATA-TTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAT-AAGATTTCTAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTG
18337103 TACAAAAGCA
Statistics
Matches: 157, Mismatches: 9, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
57 40 0.25
58 53 0.34
59 13 0.08
60 35 0.22
61 16 0.10
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (58 bp):
AAATAAGATTTCTAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAATTTTCCTTGA
Found at i:18343302 original size:141 final size:143
Alignment explanation
Indices: 18343116--18343497 Score: 395
Period size: 141 Copynumber: 2.7 Consensus size: 143
18343106 GGATTTTGAA
*
18343116 GCACCAAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTTGTGAAAATCT-GAACTCG
1 GCACCAAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTTGTAAAAAT-TGGAACTC-
* * *
18343180 GAA-A-AGCCAAATTACTAAAATACGCC-TATAAAGG-TTTCGTAATTTCACCCTTC-CTAGGGT
64 -AAGATAGCCAAATTACGAAAATAC-CCTTATAAAGGTTTTCGTAATTTCACACTTCTC-AAGGT
*
18343240 ACT-CATATGATTTCAGAT
126 ACTGC-TATGATTTCAAAT
* *
18343258 GCACC-AAAATCATTAAATATTATGAAATTAAGATCTGAAAAGTTTTGTAAAAATTGGAGCTCAA
1 GCACCAAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTTGTAAAAATTGGAACTCAA
* * * * *
18343322 GATAGCCAAATTACGAAAGTACCCTTATAAAGGTATTTTGGTAATTTTATACTTTTCAAGGTACT
66 GATAGCCAAATTACGAAAATACCCTTATAAAGG--TTTTCGTAATTTCACACTTCTCAAGGTACT
*
18343387 GCTATGATTTTAAAT
129 GCTATGATTTCAAAT
* * * *** * *
18343402 GCACCAAAAATCATGAAATGTTATAAAATTAAGATATGAAAAGTTTCACAAAAATTTGAGCTCAA
1 GCACCAAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTTGTAAAAATTGGAACTCAA
** *
18343467 GAATA-TTAAATTACAAAAATACCCCTTATAA
66 G-ATAGCCAAATTACGAAAATA-CCCTTATAA
18343498 GGGTATTTTG
Statistics
Matches: 203, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
139 2 0.01
140 4 0.02
141 77 0.38
142 5 0.02
144 37 0.18
145 66 0.33
146 12 0.06
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (143 bp):
GCACCAAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTTGTAAAAATTGGAACTCAA
GATAGCCAAATTACGAAAATACCCTTATAAAGGTTTTCGTAATTTCACACTTCTCAAGGTACTGC
TATGATTTCAAAT
Found at i:18345607 original size:7 final size:7
Alignment explanation
Indices: 18345587--18345638 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
18345577 AGAGAAAAAG
18345587 AAAGAAA
1 AAAGAAA
18345594 GAAAGAAA
1 -AAAGAAA
18345602 AAAGAAA
1 AAAGAAA
*
18345609 AGAGAAA
1 AAAGAAA
*
18345616 AGAG-AA
1 AAAGAAA
*
18345622 ATAGAAA
1 AAAGAAA
*
18345629 GAAGAAA
1 AAAGAAA
18345636 AAA
1 AAA
18345639 TTGATGAGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
6 5 0.13
7 26 0.68
8 7 0.18
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:18345610 original size:12 final size:12
Alignment explanation
Indices: 18345582--18345636 Score: 58
Period size: 12 Copynumber: 4.3 Consensus size: 12
18345572 ACAAAAGAGA
18345582 AAAAGAAAGAAAG
1 AAAAGAAA-AAAG
18345595 -AAAGAAAAAAG
1 AAAAGAAAAAAG
18345606 AAAAGAGAAAAGAG
1 AAAAGA-AAAA-AG
*
18345620 AAATAGAAAGAAG
1 AAA-AGAAAAAAG
18345633 AAAA
1 AAAA
18345637 AATTGATGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
11 4 0.11
12 13 0.35
13 9 0.24
14 8 0.22
15 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:18345964 original size:27 final size:26
Alignment explanation
Indices: 18345932--18345985 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
18345922 GATGTGCAAA
18345932 AAAAAAAAAGTGAAAAAAAAGTAAAAAGC
1 AAAAAAAAA--GAAAAAAAAG-AAAAAGC
18345961 AAAAAAAAAGAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAAAAGAAAAAG
18345986 ATGACTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.24
27 10 0.40
29 9 0.36
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (26 bp):
AAAAAAAAAGAAAAAAAAGAAAAAGC
Found at i:18345983 original size:18 final size:18
Alignment explanation
Indices: 18345929--18345984 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
18345919 AAAGATGTGC
**
18345929 AAAAAA-AAAAAAGTGAA
1 AAAAAAGAAAAAAAAGAA
**
18345946 AAAAAAGTAAAAAGCA-AA
1 AAAAAAG-AAAAAAAAGAA
18345964 AAAAAAGAAAAAAAAGAA
1 AAAAAAGAAAAAAAAGAA
18345982 AAA
1 AAA
18345985 GATGACTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 12 0.39
18 14 0.45
19 5 0.16
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.04
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAGAA
Found at i:18347169 original size:22 final size:22
Alignment explanation
Indices: 18347136--18347215 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
18347126 TCTAAATTTT
* *
18347136 TTTTAG-TGTGAATCTTTGAAA
1 TTTTAGATATGAATCTTTAAAA
* *
18347157 TTTTAGATATGAAACTCTAAAA
1 TTTTAGATATGAATCTTTAAAA
* *
18347179 TTTTTCAAATAAGAATCTTTAAAA
1 -TTTT-AGATATGAATCTTTAAAA
* *
18347203 TTTTGGATGTGAA
1 TTTTAGATATGAA
18347216 ACCAAAAAGT
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
21 6 0.14
22 16 0.36
23 8 0.18
24 14 0.32
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (22 bp):
TTTTAGATATGAATCTTTAAAA
Found at i:18347195 original size:46 final size:45
Alignment explanation
Indices: 18347081--18347388 Score: 211
Period size: 46 Copynumber: 6.8 Consensus size: 45
18347071 GGCATAGTCA
* *
18347081 CTAAAATCTTTTAAATGAGAATATTTGAAATTTT-GAT-TATAAAGCT
1 CTAAAAT-TTTTAAATGAGAATCTTTGAAATTTTAGATGT-GAAA-CT
* * * * *
18347127 CTAAATTTTTTTTAGTGTGAATCTTTGAAATTTTAGATATGAAACT
1 CTAAA-ATTTTTAAATGAGAATCTTTGAAATTTTAGATGTGAAACT
* * *
18347173 CTAAAATTTTTCAAATAAGAATCTTTAAAATTTTGGATGTGAAAC-
1 CTAAAATTTTT-AAATGAGAATCTTTGAAATTTTAGATGTGAAACT
* * * * *
18347218 CAAAAAGTTTTTGAAA-AAGAA-CTTTTGAAACTTTGGATGTGAATCT
1 CTAAAA-TTTTT-AAATGAGAATC-TTTGAAATTTTAGATGTGAAACT
* * * * **
18347264 CTAAAATTTTTCAAATGTGAATTTTTAAAATTTTGGATGTGAATTT
1 CTAAAATTTTT-AAATGAGAATCTTTGAAATTTTAGATGTGAAACT
* * * * *
18347310 TTAAATTTTTTTTAATGAGAATCTTT-AACA-TTTAGGTGTGAATCT
1 CTAAA-ATTTTTAAATGAGAATCTTTGAA-ATTTTAGATGTGAAACT
*
18347355 CT-AAATTTTTGAATGAGAATCTTTG-AATTTTAGA
1 CTAAAATTTTTAAATGAGAATCTTTGAAATTTTAGA
18347389 GATGAGCCTT
Statistics
Matches: 210, Mismatches: 39, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
42 1 0.00
43 24 0.11
44 3 0.01
45 57 0.27
46 112 0.53
47 12 0.06
48 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (45 bp):
CTAAAATTTTTAAATGAGAATCTTTGAAATTTTAGATGTGAAACT
Found at i:18347315 original size:21 final size:22
Alignment explanation
Indices: 18347240--18347319 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
18347230 GAAAAAGAAC
* *
18347240 TTTTGAAACTTTGGATGTGAAT
1 TTTTAAAATTTTGGATGTGAAT
* * **
18347262 CTCTAAAATTTTTCAAATGTGAAT
1 TTTTAAAA-TTTT-GGATGTGAAT
18347286 TTTTAAAATTTTGGATGTGAAT
1 TTTTAAAATTTTGGATGTGAAT
*
18347308 TTTTAAATTTTT
1 TTTTAAAATTTT
18347320 TTTAATGAGA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 24 0.53
23 7 0.16
24 14 0.31
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (22 bp):
TTTTAAAATTTTGGATGTGAAT
Found at i:18347350 original size:91 final size:91
Alignment explanation
Indices: 18347127--18347378 Score: 246
Period size: 91 Copynumber: 2.8 Consensus size: 91
18347117 TTATAAAGCT
* * * * * *
18347127 CTAAATTTTTTTTAGTGTGAATCTTTGAAATTTTAGATATGAAACTCTAAAATTTTTCAAATAAG
1 CTAAATTTTTTTTAATGAGAATCTTTGAAACTTTAGGTGTGAATCTCTAAAATTTTTCAAATAAG
18347192 AATCTTTAAAATTTTGGATGTGAAAC
66 AATCTTTAAAATTTTGGATGTGAAAC
* ** * ** *
18347218 CAAAAAGTTTTTGAAAAAGAA-CTTTTGAAACTTT-GGATGTGAATCTCTAAAATTTTTCAAATG
1 CTAAATTTTTTTTAATGAGAATC-TTTGAAACTTTAGG-TGTGAATCTCTAAAATTTTTCAAATA
* * **
18347281 TGAATTTTTAAAATTTTGGATGTGAATTT
64 AGAATCTTTAAAATTTTGGATGTGAA-AC
* * *
18347310 TTAAATTTTTTTTAATGAGAATCTTT--AACATTTAGGTGTGAATCTCT-AAATTTTT-GAATGA
1 CTAAATTTTTTTTAATGAGAATCTTTGAAAC-TTTAGGTGTGAATCTCTAAAATTTTTCAAATAA
18347371 GAATCTTT
65 GAATCTTT
18347379 GAATTTTAGA
Statistics
Matches: 128, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
89 11 0.09
90 13 0.10
91 84 0.66
92 19 0.15
93 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (91 bp):
CTAAATTTTTTTTAATGAGAATCTTTGAAACTTTAGGTGTGAATCTCTAAAATTTTTCAAATAAG
AATCTTTAAAATTTTGGATGTGAAAC
Found at i:18347375 original size:22 final size:23
Alignment explanation
Indices: 18347324--18347394 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 23
18347314 ATTTTTTTTA
*
18347324 ATGAGAATCTTTAACA-TTTAG-G
1 ATGAGAATCTCTAA-ATTTTAGAG
* *
18347346 -TGTGAATCTCTAAATTTTTGA-
1 ATGAGAATCTCTAAATTTTAGAG
* *
18347367 ATGAGAATCTTTGAATTTTAGAG
1 ATGAGAATCTCTAAATTTTAGAG
18347390 ATGAG
1 ATGAG
18347395 CCTTGAAATC
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
20 1 0.03
21 15 0.39
22 17 0.45
23 5 0.13
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (23 bp):
ATGAGAATCTCTAAATTTTAGAG
Found at i:18347703 original size:17 final size:17
Alignment explanation
Indices: 18347649--18347703 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
18347639 AACTTTGAGC
18347649 TCTTGAGAATTTGAAAA
1 TCTTGAGAATTTGAAAA
* * *
18347666 ACTTGAGAATCTT-CAAT
1 TCTTGAGAAT-TTGAAAA
*
18347683 TCTTGTGAATTTGAAAA
1 TCTTGAGAATTTGAAAA
18347700 TCTT
1 TCTT
18347704 ACAAATATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 2 0.07
17 25 0.86
18 2 0.07
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (17 bp):
TCTTGAGAATTTGAAAA
Found at i:18347860 original size:18 final size:18
Alignment explanation
Indices: 18347837--18347895 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
18347827 AATTTGAAAT
18347837 TCTTGCAAATCTTTAAAA
1 TCTTGCAAATCTTTAAAA
* *
18347855 TCTTGCAAAAT-TTTGAAT
1 TCTTGC-AAATCTTTAAAA
*
18347873 TCTTGCAAA-CTTGAAAA
1 TCTTGCAAATCTTTAAAA
18347890 TTCTTG
1 -TCTTG
18347896 TAAAACTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 7 0.21
18 22 0.67
19 4 0.12
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (18 bp):
TCTTGCAAATCTTTAAAA
Found at i:18347874 original size:36 final size:37
Alignment explanation
Indices: 18347829--18347900 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 37
18347819 TTCTTTTGAA
*
18347829 TTTGAAATTCTTGCAAATCTTTAAAA-TCTTGCAAAAT
1 TTTGAAATTCTTGCAAA-CTTGAAAATTCTTGCAAAAT
*
18347866 TTTG-AATTCTTGCAAACTTGAAAATTCTTGTAAAA
1 TTTGAAATTCTTGCAAACTTGAAAATTCTTGCAAAA
18347901 CTAAAATTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 7 0.22
36 21 0.66
37 4 0.12
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (37 bp):
TTTGAAATTCTTGCAAACTTGAAAATTCTTGCAAAAT
Found at i:18347996 original size:17 final size:17
Alignment explanation
Indices: 18347955--18348006 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
18347945 ATCTTTCATC
18347955 CTTG-GAAACCTGAAAATT
1 CTTGTGAAA-CTG-AAATT
*
18347973 -TTATGAAACTGAAATT
1 CTTGTGAAACTGAAATT
*
18347989 CTTGTGAACCTGAAATT
1 CTTGTGAAACTGAAATT
18348006 C
1 C
18348007 AAATTTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 5 0.17
17 20 0.69
18 4 0.14
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (17 bp):
CTTGTGAAACTGAAATT
Found at i:18348138 original size:17 final size:17
Alignment explanation
Indices: 18348085--18348138 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
18348075 AATCTTTGCC
* *
18348085 TTGTGAATCTTTAATTT
1 TTGTGAAACTTTAAATT
*
18348102 CTTGAGAAACTTTGAAATT
1 -TTGTGAAACTTT-AAATT
*
18348121 TTGTGAACCTTTAAATT
1 TTGTGAAACTTTAAATT
18348138 T
1 T
18348139 AATGACAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 6 0.20
18 20 0.67
19 4 0.13
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (17 bp):
TTGTGAAACTTTAAATT
Found at i:18348336 original size:43 final size:43
Alignment explanation
Indices: 18348301--18348385 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
18348291 TTCTTAATTT
*
18348301 AAAATTGTTTAGCCGCTATATAGAA-AAGCCCATTTCTAATTAA
1 AAAATTGTTTAGCCGCTAT-TAAAAGAAGCCCATTTCTAATTAA
* * *
18348344 AAAATTTTTTAGCCTCTATTAAAAGAAGCCTATTTCCTAATT
1 AAAATTGTTTAGCCGCTATTAAAAGAAGCCCATTT-CTAATT
18348386 CATTTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 4 0.11
43 26 0.72
44 6 0.17
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (43 bp):
AAAATTGTTTAGCCGCTATTAAAAGAAGCCCATTTCTAATTAA
Found at i:18349813 original size:19 final size:19
Alignment explanation
Indices: 18349786--18349830 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18349776 AGTTTTTTGG
*
18349786 ATTTTTTTTTCATTT-TTTT
1 ATTTATTTTT-ATTTGTTTT
*
18349805 GTTTATTTTTATTTGTTTT
1 ATTTATTTTTATTTGTTTT
18349824 ATTTATT
1 ATTTATT
18349831 GGCTTCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (19 bp):
ATTTATTTTTATTTGTTTT
Found at i:18349855 original size:12 final size:13
Alignment explanation
Indices: 18349798--18349881 Score: 52
Period size: 13 Copynumber: 6.3 Consensus size: 13
18349788 TTTTTTTTCA
18349798 TTTT-TTTGTTTAT
1 TTTTATTTG-TTAT
18349811 TTTTATTTGTT-T
1 TTTTATTTGTTAT
*
18349823 TATTTATTGGCTTCA-
1 T-TTTATTTG-TT-AT
18349838 -TTTATTT-TTAT
1 TTTTATTTGTTAT
18349849 TTTTATTTGTTAT
1 TTTTATTTGTTAT
*
18349862 CCATTTATTTGTATAT
1 --TTTTATTTGT-TAT
18349878 TTTT
1 TTTT
18349882 TTAAATAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 21
0.69 0.05 0.26
Matches are distributed among these distances:
10 1 0.02
11 2 0.04
12 9 0.16
13 23 0.41
14 9 0.16
15 9 0.16
16 3 0.05
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (13 bp):
TTTTATTTGTTAT
Found at i:18350118 original size:38 final size:36
Alignment explanation
Indices: 18350076--18350155 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 36
18350066 AATATTTTTT
* *
18350076 AAAATCCTATCAAAATATTAGAGGATAGTTTTTAACAA
1 AAAATCCTACCAAAATATTAGAAGATA-TTTTTAA-AA
* * *
18350114 AAAATCTTACCAACATATTGGAAGATATTTTTAAAA
1 AAAATCCTACCAAAATATTAGAAGATATTTTTAAAA
18350150 ATAAAT
1 A-AAAT
18350156 TGGTTCTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 3 0.08
37 11 0.31
38 22 0.61
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.33
Consensus pattern (36 bp):
AAAATCCTACCAAAATATTAGAAGATATTTTTAAAA
Found at i:18359380 original size:51 final size:51
Alignment explanation
Indices: 18359320--18359469 Score: 203
Period size: 51 Copynumber: 2.9 Consensus size: 51
18359310 TCAACTGTAA
18359320 TTGAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAATAATG
1 TTGAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAATAATG
* * ** *
18359371 TTGAAAGATTTTTGGGATTTAATTCCAGAATCAATTGGCATTAAAAATGATG
1 TTGAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATT-AAAATAATG
** *
18359423 GGGAGAGATTTTTGGGATTTAATT-TCAGAATCAATTCTCATTAAAAT
1 TTGAGAGATTTTTGGGATTTAATTCT-AGAATCAATTCACATTAAAAT
18359470 GAAAATTAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 43 0.50
52 43 0.50
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (51 bp):
TTGAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAATAATG
Found at i:18359440 original size:52 final size:52
Alignment explanation
Indices: 18359322--18359468 Score: 206
Period size: 52 Copynumber: 2.8 Consensus size: 52
18359312 AACTGTAATT
* **
18359322 GAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATT-AAAATAATGTT
1 GAGAGATTTTTGGGATTTAATTCCAGAATCAATTCACATTAAAAATAATGGG
* ** *
18359373 GAAAGATTTTTGGGATTTAATTCCAGAATCAATTGGCATTAAAAATGATGGG
1 GAGAGATTTTTGGGATTTAATTCCAGAATCAATTCACATTAAAAATAATGGG
* *
18359425 GAGAGATTTTTGGGATTTAATTTCAGAATCAATTCTCATTAAAA
1 GAGAGATTTTTGGGATTTAATTCCAGAATCAATTCACATTAAAA
18359469 TGAAAATTAA
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
51 36 0.43
52 48 0.57
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (52 bp):
GAGAGATTTTTGGGATTTAATTCCAGAATCAATTCACATTAAAAATAATGGG
Found at i:18367686 original size:23 final size:24
Alignment explanation
Indices: 18367656--18367700 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18367646 TAAACTTTTT
*
18367656 TATGAC-AACAATTTAGCATTTGC
1 TATGACAAACAATCTAGCATTTGC
*
18367679 TATGACAAATAATCTAGCATTT
1 TATGACAAACAATCTAGCATTT
18367701 CATGGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (24 bp):
TATGACAAACAATCTAGCATTTGC
Found at i:18376122 original size:483 final size:484
Alignment explanation
Indices: 18375209--18376129 Score: 1251
Period size: 483 Copynumber: 1.9 Consensus size: 484
18375199 CAATACTATG
* * *
18375209 AGGAAAAGGCATCTAGATGTTATGAAGGTTTTAACTCTAGTCAAGAAAGATGTTCTCACTCCAAG
1 AGGAAAAGGCATATAAATGTTATGAAGGTTTTAACTCTAGTCAAGAAAGATGTTCTCAATCCAAG
* * * ** ** ** *
18375274 TGTATTCACAATCCTAATAAAATAAAGCTTTTATAAAGTTAAAGTCATGATGGAAGGAAGTTGCA
66 TGTATTCACAATCATAATAAAAGAAAGCTCTTATAAAACTAAAGTCACAATCAAAGGAACTTGCA
* * ** * * *
18375339 ATTTCTTGTTAAACCTGGGGGTGAAGCAAACTTTTTAATCCAAATCCAATGCATTTTCATCAAAG
131 ATTTCTTATGAAACCTAAGGGTGAAGCAAACTTTTCAAGCCAAATCCAATGCATCTTCATCAAAG
* *
18375404 TCTAGTTCCTTTAAAAATAACACAATGATAGGTTTTCATGAAAAAGAATAATAGTCAGGTTGGGA
196 TCTAGTTCCTTTAAAAATAACACAATGATAGGTTTTCATGAAAAAGAATAATAATCAAGTTGGGA
* ** *
18375469 GCATGAGGATCTAAATAGATAAAGTGTGAATGAAGCCTCAATTTAGTCTGCTTCAAAACTCATTG
261 GCATGAGGATCTAAATAGATAAAGTATGAATGAAGCCTCAATTTAGTCTAATTCAAAACTCATTA
* * *
18375534 ACTTGAGAAGATGAAATGATAATGAAACCTTAAGAATGAATGATATAGCTGAGGCTAAGGCTCTA
326 ACTTGAGAAGACGAAATGATAATGAAACCTTAAGAATGAATGATATAACTAAGGCTAAGGCTCTA
* ** *
18375599 AAATAGCGAAATTCAAAAAAGTCATGTGCCCAAGACAAGGCT-AAATGTAAAAAATAAATGAGAA
391 AAATAGCCAAATTCAAAAAAGTCACATGCCCAAAACAAGGCTGAAATGTAAAAAATAAATGAGAA
18375663 GTTTCATCATGGTAGATGTTAGTATTATA
456 GTTTCATCATGGTAGATGTTAGTATTATA
* * *
18375692 AGGAAAAGGCATATAAATGTTGCT-AGGGTTTTAACTTTAGTCAAGAAAGATGTTCTCAATCCAA
1 AGGAAAAGGCATATAAATGTT-ATGAAGGTTTTAACTCTAGTCAAGAAAGATGTTCTCAATCCAA
* *
18375756 GCT-TATTCACAGTCATAATAAAAGAAAGCTCTTATAAAACTAATGTCACAATCAAAGGAACTTG
65 G-TGTATTCACAATCATAATAAAAGAAAGCTCTTATAAAACTAAAGTCACAATCAAAGGAACTTG
* *
18375820 CAATTTTTTATGAAACTTAAGGGTGAAGCAAACTTTTCAAGCCAAATCCAATGCATCTTCATC-A
129 CAATTTCTTATGAAACCTAAGGGTGAAGCAAACTTTTCAAGCCAAATCCAATGCATCTTCATCAA
* * * * *
18375884 AGCTCTAGTTCTTTTGAGAATAACACAATGTTAGGTTTTCATGAGAAAGAATAATAATCAAGTTG
194 AG-TCTAGTTCCTTTAAAAATAACACAATGATAGGTTTTCATGAAAAAGAATAATAATCAAGTTG
* *
18375949 GGAGCAT-AGGGATCTAAATAGATAAAGTATGAATGAAGCTTCAATTTGGTCTAATTCAAAACTC
258 GGAGCATGA-GGATCTAAATAGATAAAGTATGAATGAAGCCTCAATTTAGTCTAATTCAAAACTC
* * * *
18376013 ATTAACTTGAGAAGACGAAATGATAAT-AAAGCTTTAAGAATGGATGATATAACTAAGGTTGAGG
322 ATTAACTTGAGAAGACGAAATGATAATGAAA-CCTTAAGAATGAATGATATAACTAAGGCTAAGG
* * * * *
18376077 CTCTAGAGTAGCCAAATTTAAACAAGTCACATGCCTAAAACAAGGCTGAAATG
386 CTCTAAAATAGCCAAATTCAAAAAAGTCACATGCCCAAAACAAGGCTGAAATG
18376130 GTTTGTTAGA
Statistics
Matches: 376, Mismatches: 56, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
482 7 0.02
483 362 0.96
484 7 0.02
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (484 bp):
AGGAAAAGGCATATAAATGTTATGAAGGTTTTAACTCTAGTCAAGAAAGATGTTCTCAATCCAAG
TGTATTCACAATCATAATAAAAGAAAGCTCTTATAAAACTAAAGTCACAATCAAAGGAACTTGCA
ATTTCTTATGAAACCTAAGGGTGAAGCAAACTTTTCAAGCCAAATCCAATGCATCTTCATCAAAG
TCTAGTTCCTTTAAAAATAACACAATGATAGGTTTTCATGAAAAAGAATAATAATCAAGTTGGGA
GCATGAGGATCTAAATAGATAAAGTATGAATGAAGCCTCAATTTAGTCTAATTCAAAACTCATTA
ACTTGAGAAGACGAAATGATAATGAAACCTTAAGAATGAATGATATAACTAAGGCTAAGGCTCTA
AAATAGCCAAATTCAAAAAAGTCACATGCCCAAAACAAGGCTGAAATGTAAAAAATAAATGAGAA
GTTTCATCATGGTAGATGTTAGTATTATA
Found at i:18378735 original size:51 final size:51
Alignment explanation
Indices: 18378675--18378824 Score: 185
Period size: 51 Copynumber: 2.9 Consensus size: 51
18378665 TCAACTGTAA
18378675 TTGAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAATAATG
1 TTGAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAATAATG
* * * ** *
18378726 TTGAAAGATTTTTGAGATTTAATTCCAGAATCAATTGGCATTAAAAATGATG
1 TTGAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATT-AAAATAATG
** **
18378778 GGGAGAGATTTTTGGGATTTAATT-TCAGAATCAATTCTTATTAAAAT
1 TTGAGAGATTTTTGGGATTTAATTCT-AGAATCAATTCACATTAAAAT
18378825 GAAAATTAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 42 0.51
52 41 0.49
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (51 bp):
TTGAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAATAATG
Found at i:18378797 original size:52 final size:51
Alignment explanation
Indices: 18378677--18378824 Score: 188
Period size: 52 Copynumber: 2.9 Consensus size: 51
18378667 AACTGTAATT
* **
18378677 GAGAGATTTTTGGGATTTAATTCTAGAATCAATTCACATTAAAATAATGTT
1 GAGAGATTTTTGGGATTTAATTCCAGAATCAATTCACATTAAAATAATGGG
* * ** *
18378728 GAAAGATTTTTGAGATTTAATTCCAGAATCAATTGGCATTAAAAATGATGGG
1 GAGAGATTTTTGGGATTTAATTCCAGAATCAATTCACATT-AAAATAATGGG
* **
18378780 GAGAGATTTTTGGGATTTAATTTCAGAATCAATTCTTATTAAAAT
1 GAGAGATTTTTGGGATTTAATTCCAGAATCAATTCACATTAAAAT
18378825 GAAAATTAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 40 0.49
52 42 0.51
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (51 bp):
GAGAGATTTTTGGGATTTAATTCCAGAATCAATTCACATTAAAATAATGGG
Found at i:18394599 original size:29 final size:29
Alignment explanation
Indices: 18394532--18394615 Score: 105
Period size: 29 Copynumber: 2.8 Consensus size: 29
18394522 TAAATAATTT
* * *
18394532 TTTAAATATCATATTAATTAATATATTTATAA
1 TTTAAATATTATATTAA--AA-ATTTTTAAAA
18394564 TTTAAATATTATATTAAAAATTTTTAAAA
1 TTTAAATATTATATTAAAAATTTTTAAAA
*
18394593 TTTAAATATTATATTAAATATTT
1 TTTAAATATTATATTAAAAATTT
18394616 AATTTTAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
29 30 0.62
30 2 0.04
32 16 0.33
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTAAATATTATATTAAAAATTTTTAAAA
Found at i:18395173 original size:23 final size:22
Alignment explanation
Indices: 18395131--18395176 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
18395121 ACGATATGAT
*
18395131 AATAAAATATAAAAATAATATA
1 AATAAAATATAAAAACAATATA
*
18395153 AATAAAATAATAAAGACAATATA
1 AATAAAAT-ATAAAAACAATATA
18395176 A
1 A
18395177 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
AATAAAATATAAAAACAATATA
Found at i:18395196 original size:23 final size:23
Alignment explanation
Indices: 18395170--18395220 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
18395160 TAATAAAGAC
* *
18395170 AATATAATTTAAAATTTAAATTT
1 AATATAATTAAAAAATTAAATTT
* *
18395193 AATAAAATTAAAAAATTATATTT
1 AATATAATTAAAAAATTAAATTT
*
18395216 TATAT
1 AATAT
18395221 TTTTATGTTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATATAATTAAAAAATTAAATTT
Found at i:18395277 original size:18 final size:18
Alignment explanation
Indices: 18395231--18395279 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
18395221 TTTTATGTTG
*
18395231 ATATAAATTATAACATATA
1 ATATAAA-TATAAAATATA
* **
18395250 ATTTTTATATAAAATATA
1 ATATAAATATAAAATATA
18395268 ATATAAATATAA
1 ATATAAATATAA
18395280 TATTTTATAT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAAATATAAAATATA
Found at i:18395302 original size:18 final size:17
Alignment explanation
Indices: 18395250--18395303 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
18395240 ATAACATATA
18395250 ATTTT-TAT-ATAAAAT
1 ATTTTATATAATAAAAT
** *
18395265 ATAATATA-AATATAAT
1 ATTTTATATAATAAAAT
18395281 ATTTTATATAATAAAAT
1 ATTTTATATAATAAAAT
*
18395298 AATTTA
1 ATTTTA
18395304 AATTGTCAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 3 0.10
16 14 0.48
17 12 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTATATAATAAAAT
Found at i:18400809 original size:20 final size:21
Alignment explanation
Indices: 18400772--18400820 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
18400762 AAAAATATGA
*
18400772 TTTCTTTTTTATTCTTTATTC
1 TTTCTTTTTTACTCTTTATTC
*
18400793 TTTCTTTTTTGCT-TTTATTC
1 TTTCTTTTTTACTCTTTATTC
18400813 -TTCTTTTT
1 TTTCTTTTT
18400821 GATTTGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 8 0.31
20 7 0.27
21 11 0.42
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTCTTTTTTACTCTTTATTC
Found at i:18403173 original size:50 final size:50
Alignment explanation
Indices: 18403103--18403203 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
18403093 ATCTATCTAA
* * *
18403103 ATATAAACCTAGAGGGAATCTTCTTTAGCACTTGGTTTCACACCCTAAAC
1 ATATAAACCTAGAAGAAATCTCCTTTAGCACTTGGTTTCACACCCTAAAC
* *
18403153 ATATAAAGCTAGAAGAAATCTCCTTTAGTACTTGGTTTCACACCCTAAAC
1 ATATAAACCTAGAAGAAATCTCCTTTAGCACTTGGTTTCACACCCTAAAC
18403203 A
1 A
18403204 CAATCTTCGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.30
Consensus pattern (50 bp):
ATATAAACCTAGAAGAAATCTCCTTTAGCACTTGGTTTCACACCCTAAAC
Found at i:18403596 original size:19 final size:19
Alignment explanation
Indices: 18403560--18403621 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 19
18403550 TACTAAACTT
*
18403560 TAAAAACAAACACAAAAAA
1 TAAAAACAAACAAAAAAAA
*
18403579 TAAAAACAAAAAATAAAAAAA
1 TAAAAAC-AAACA-AAAAAAA
*
18403600 TAAAAGATAAACAATAAAAAA
1 TAAAA-ACAAACAA-AAAAAA
18403621 T
1 T
18403622 CTTTGCAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 7 0.20
20 5 0.14
21 22 0.63
22 1 0.03
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.11
Consensus pattern (19 bp):
TAAAAACAAACAAAAAAAA
Found at i:18403599 original size:21 final size:22
Alignment explanation
Indices: 18403573--18403620 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
18403563 AAACAAACAC
18403573 AAAAAATAAAA-ACAAAAAATA
1 AAAAAATAAAAGACAAAAAATA
* *
18403594 AAAAAATAAAAGATAAACAATA
1 AAAAAATAAAAGACAAAAAATA
18403616 AAAAA
1 AAAAA
18403621 TCTTTGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.10
Consensus pattern (22 bp):
AAAAAATAAAAGACAAAAAATA
Found at i:18403604 original size:7 final size:7
Alignment explanation
Indices: 18403573--18403621 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
18403563 AAACAAACAC
18403573 AAAAAAT
1 AAAAAAT
*
18403580 -AAAAAC
1 AAAAAAT
18403586 AAAAAAT
1 AAAAAAT
18403593 AAAAAAAT
1 -AAAAAAT
*
18403601 AAAAGAT
1 AAAAAAT
*
18403608 AAACAAT
1 AAAAAAT
18403615 AAAAAAT
1 AAAAAAT
18403622 CTTTGCAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 5 0.15
7 22 0.65
8 7 0.21
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:18407778 original size:126 final size:126
Alignment explanation
Indices: 18407552--18407789 Score: 368
Period size: 126 Copynumber: 1.9 Consensus size: 126
18407542 ATTTGACAAA
* *
18407552 AGAGGAGAAAGTATTTGGGTGGATTTAGTGTTTTGGGCATTTAATGTTTGGTTTAAATTCATTGA
1 AGAGGAGAAAGTATTTGGGTGGATTTAGTGTTTTGGACATTTAATGTTTGGTTTAAATTAATTGA
* * * *
18407617 ATAGGTTGGGTGTATGGAATATAAGAGGCTAGGTATATGGGGTATAAGGGGTTGAATATGT
66 AGAGGTTAGGTGTATGGAATATAAGAAGCTAGGTATATGGGGCATAAGGGGTTGAATATGT
* * *
18407678 AGAGGTGAAAGTATTTGGGTGGGTTTGGTGTTTTGGACATTTAATGTTTGGTTTAAATTAATTGA
1 AGAGGAGAAAGTATTTGGGTGGATTTAGTGTTTTGGACATTTAATGTTTGGTTTAAATTAATTGA
* * *
18407743 AGAGGTTAGGTGTATGGAATATGAGAAGCTGGGTATGTGGGGCATAA
66 AGAGGTTAGGTGTATGGAATATAAGAAGCTAGGTATATGGGGCATAA
18407790 AGGACTAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 100 1.00
ACGTcount: A:0.27, C:0.03, G:0.34, T:0.36
Consensus pattern (126 bp):
AGAGGAGAAAGTATTTGGGTGGATTTAGTGTTTTGGACATTTAATGTTTGGTTTAAATTAATTGA
AGAGGTTAGGTGTATGGAATATAAGAAGCTAGGTATATGGGGCATAAGGGGTTGAATATGT
Found at i:18409652 original size:5 final size:5
Alignment explanation
Indices: 18409638--18409671 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
18409628 TTTTGTGAAA
*
18409638 AAAAT GAAAT AAAAT AAAAT AAAAT -AAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
18409672 TATGGCAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:18409656 original size:15 final size:14
Alignment explanation
Indices: 18409638--18409671 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18409628 TTTTGTGAAA
*
18409638 AAAATGAAATAAAAT
1 AAAATAAAAT-AAAT
18409653 AAAATAAAATAAAT
1 AAAATAAAATAAAT
18409667 AAAAT
1 AAAAT
18409672 TATGGCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:18412588 original size:64 final size:63
Alignment explanation
Indices: 18412508--18412739 Score: 222
Period size: 63 Copynumber: 3.7 Consensus size: 63
18412498 TTTTTAAGGA
* * * *
18412508 TTATTTAAGGCATTTTTAGCTAGAAAATGCCTTGAATAATCCTTTACAAAAAAATTAAATGAGG
1 TTATTTAAGGCGTTTTTGGCTAAAAAATGCCTTGAATAATCCCTTACAAAAAAATT-AATGAGG
* * **
18412572 TTATTTAAGGCGTTTTT-GTTAAAAAATGTCTTGAATAATCCCTT-CAATTAAAAATTAGGGAGG
1 TTATTTAAGGCGTTTTTGGCTAAAAAATGCCTTGAATAATCCCTTACAA--AAAAATTAATGAGG
* * * ** *
18412635 ATTATTCAAGGAGTTTTTGGCCAAAAAACACCTTGAATAATCCCTTAC-AAAAAATTGAATGGGG
1 -TTATTTAAGGCGTTTTTGGCTAAAAAATGCCTTGAATAATCCCTTACAAAAAAATT-AATGAGG
** *
18412699 TT-TTTCAATACGTTTTTGGC-AAAAAAAGCCTTGAATAATCC
1 TTATTT-AAGGCGTTTTTGGCTAAAAAATGCCTTGAATAATCC
18412740 TTTTTCATTT
Statistics
Matches: 138, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
62 24 0.17
63 48 0.35
64 42 0.30
65 23 0.17
66 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34
Consensus pattern (63 bp):
TTATTTAAGGCGTTTTTGGCTAAAAAATGCCTTGAATAATCCCTTACAAAAAAATTAATGAGG
Found at i:18412623 original size:189 final size:187
Alignment explanation
Indices: 18412184--18412645 Score: 490
Period size: 189 Copynumber: 2.4 Consensus size: 187
18412174 TCAAATTTTT
* * * * *
18412184 AATTAAAGGAGATTATTCAAGGCTTTTTTTGTCAAAAATGCCTTGAATAATCCCTTACA--AAAA
1 AATTAAATGAGGTTATTTAAGGCTTTTTGT-TAAAAAATGCCTTGAATAATCCCTTA-ATTAAAA
* * * *
18412247 A-TTGAATAGGGTTATTCAAGGCATTTCTAACCATAAACACCTTCAATAATCCCCTCCATTTTTT
64 ATTTGAGT-GGATTATTCAAGGCATTTCTAACAACAAACACCTTCAATAATCCCCTCCATTTTTT
** ** *
18412311 TTTGGGATTATTCAAGGTGTTTTGGGCTAGAAAATGCCTTGAATAATCCTTTATAAAAAA
128 TTAAGGATTATTCAAGGCATTTTGAGCTAGAAAATGCCTTGAATAATCCTTTATAAAAAA
* ** * *
18412371 AATTGAATG-GGATTATTTAAGGCCTTTTTTGCCAAAAACA--CCTTCAATAATAGCCTTAATTA
1 AATTAAATGAGG-TTATTTAAGG-C-TTTTTGTTAAAAA-ATGCCTTGAATAAT-CCCTTAATTA
* * * *
18412433 AAAATTTGAGTGGATTATTCAAGGCATTTTTTACAACAAA-AGCCTTCAATAATCTCTTCCAATT
61 AAAATTTGAGTGGATTATTCAAGGCATTTCTAACAACAAACA-CCTTCAATAATCCCCTCC-ATT
* * *
18412497 TTTTTTAAGGATTATTTAAGGCATTTTTAGCTAGAAAATGCCTTGAATAATCCTTTA-CAAAAA
124 TTTTTTAAGGATTATTCAAGGCATTTTGAGCTAGAAAATGCCTTGAATAATCCTTTATAAAAAA
*
18412560 AATTAAATGAGGTTATTTAAGGCGTTTTTGTTAAAAAATGTCTTGAATAATCCCTTCAATTAAAA
1 AATTAAATGAGGTTATTTAAGGC-TTTTTGTTAAAAAATGCCTTGAATAATCCCTT-AATTAAAA
* * *
18412625 ATTAGGGAGGATTATTCAAGG
64 ATTTGAGTGGATTATTCAAGG
18412646 AGTTTTTGGC
Statistics
Matches: 225, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
186 1 0.00
187 28 0.12
188 27 0.12
189 109 0.48
190 60 0.27
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (187 bp):
AATTAAATGAGGTTATTTAAGGCTTTTTGTTAAAAAATGCCTTGAATAATCCCTTAATTAAAAAT
TTGAGTGGATTATTCAAGGCATTTCTAACAACAAACACCTTCAATAATCCCCTCCATTTTTTTTA
AGGATTATTCAAGGCATTTTGAGCTAGAAAATGCCTTGAATAATCCTTTATAAAAAA
Found at i:18412821 original size:59 final size:59
Alignment explanation
Indices: 18412702--18412859 Score: 165
Period size: 59 Copynumber: 2.7 Consensus size: 59
18412692 AATGGGGTTT
* * * ** **
18412702 TTCAATACGTTTTT-GGCAAAAAAAGCCTTGAATAATCCTTTTTCATTTTTTTTGGGATTA
1 TTCAAGACGTTTTTAGCCAAAAACA-CCTTGAATAATCCCCTCCCA-TTTTTTTGGGATTA
* * *
18412762 TTCAAGACGTTTTTTGCCAAAAACACTTTGAATAATCCCCTCCCATTTTTTTGTGATTA
1 TTCAAGACGTTTTTAGCCAAAAACACCTTGAATAATCCCCTCCCATTTTTTTGGGATTA
** **
18412821 TTCAAGGTGTTTTTAGCCAAAAATGCCTTGAATAATCCC
1 TTCAAGACGTTTTTAGCCAAAAACACCTTGAATAATCCC
18412860 TTACAAAAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
59 46 0.56
60 28 0.34
61 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (59 bp):
TTCAAGACGTTTTTAGCCAAAAACACCTTGAATAATCCCCTCCCATTTTTTTGGGATTA
Found at i:18415448 original size:16 final size:16
Alignment explanation
Indices: 18415424--18415458 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18415414 ATACAAGCTC
* *
18415424 ATACCAATTGTTAAGG
1 ATACAAATTGTTAAAG
18415440 ATACAAATTGTTAAAG
1 ATACAAATTGTTAAAG
18415456 ATA
1 ATA
18415459 TATTATCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (16 bp):
ATACAAATTGTTAAAG
Found at i:18426695 original size:120 final size:119
Alignment explanation
Indices: 18426482--18426900 Score: 419
Period size: 120 Copynumber: 3.5 Consensus size: 119
18426472 TCACTTACTC
* * * ** *
18426482 GATCTTGGCTCAATCCAAATCATTTCATATGATTTTTGGTTTCATCCCGGTCATTTATTTTTGAC
1 GATCTTGGCTCAGTCCAAATCATTTCTTATGACTCATGGTTTCATCCCAGTCATTTATTTTTGAC
* *
18426547 CTCGACTCGATCTTGGTCGTTTTATTTTTGACTCGTGGTTTCATCCCAGTCACCT
66 CTCGACTCGATCTTGGTCGTTTCATTTTTGACTCGTGGTTTCATCTC-GTCACCT
* * * *
18426602 GATCTTAGCTCAGTCTAGATCATTTCTTATGACTCATGGTTTCATCTCAGTCATTTATTTTTGAC
1 GATCTTGGCTCAGTCCAAATCATTTCTTATGACTCATGGTTTCATCCCAGTCATTTATTTTTGAC
* * * * *
18426667 CCCGACTCGATCTTGGTTGTTTCATTTTTGACAT-ATGGTTTTATCTCGATCACTT
66 CTCGACTCGATCTTGGTCGTTTCATTTTTGAC-TCGTGGTTTCATCTCG-TCACCT
* * * * * * * * * *
18426722 GATCTTCGCTGAGTCCAGATCATTTTTTATGACTTATGGTTTCATCTCAGTTAGTTATTCTCGAC
1 GATCTTGGCTCAGTCCAAATCATTTCTTATGACTCATGGTTTCATCCCAGTCATTTATTTTTGAC
* * * * * * * *
18426787 CTCGATTTGGTCCTAGTCGCTTGATTTTTGACTCGTGGTTTCATCTTGGTCACCT
66 CTCGACTCGATCTTGGTCGTTTCATTTTTGACTCGTGGTTTCATC-TCGTCACCT
* * * * *
18426842 AATTTTGGCTCAGTCCAAATTACTTT-TTATGACTCGTGGTTTCATCCCAGTTATTTATT
1 GATCTTGGCTCAGTCCAAATCA-TTTCTTATGACTCATGGTTTCATCCCAGTCATTTATT
18426901 CTTATCTTTG
Statistics
Matches: 245, Mismatches: 49, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
119 2 0.01
120 237 0.97
121 6 0.02
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.44
Consensus pattern (119 bp):
GATCTTGGCTCAGTCCAAATCATTTCTTATGACTCATGGTTTCATCCCAGTCATTTATTTTTGAC
CTCGACTCGATCTTGGTCGTTTCATTTTTGACTCGTGGTTTCATCTCGTCACCT
Found at i:18427183 original size:3 final size:3
Alignment explanation
Indices: 18427171--18427222 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
18427161 TACATAGTAC
*
18427171 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18427218 ATT AT
1 ATT AT
18427223 ACTTTCTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18428143 original size:16 final size:16
Alignment explanation
Indices: 18428119--18428149 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18428109 ATTTGATTTG
18428119 ATTTGATTTTAAATTC
1 ATTTGATTTTAAATTC
*
18428135 ATTTTATTTTAAATT
1 ATTTGATTTTAAATT
18428150 TTAAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTTGATTTTAAATTC
Found at i:18429254 original size:25 final size:25
Alignment explanation
Indices: 18429226--18429281 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
18429216 TTTTATTTCA
18429226 TTTTTTCATTGCTTTCATTTGTTTTT
1 TTTTTTCATTGCTTTC-TTTGTTTTT
** *
18429252 TTTTTTTTTTGTTTTCTTTGTTTTT
1 TTTTTTCATTGCTTTCTTTGTTTTT
18429277 TTTTT
1 TTTTT
18429282 GTTTTCTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.04, C:0.07, G:0.07, T:0.82
Consensus pattern (25 bp):
TTTTTTCATTGCTTTCTTTGTTTTT
Found at i:18429277 original size:20 final size:22
Alignment explanation
Indices: 18429252--18429302 Score: 79
Period size: 20 Copynumber: 2.4 Consensus size: 22
18429242 ATTTGTTTTT
*
18429252 TTTTTTTTTTGTTTTCT-TT-G
1 TTTTTTTTTTGTTTTCTCTTCA
18429272 TTTTTTTTTTGTTTTCTCTTCA
1 TTTTTTTTTTGTTTTCTCTTCA
18429294 TTTTTTTTT
1 TTTTTTTTT
18429303 CATTCTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 17 0.61
21 2 0.07
22 9 0.32
ACGTcount: A:0.02, C:0.08, G:0.06, T:0.84
Consensus pattern (22 bp):
TTTTTTTTTTGTTTTCTCTTCA
Found at i:18429286 original size:25 final size:26
Alignment explanation
Indices: 18429238--18429302 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 26
18429228 TTTTCATTGC
*
18429238 TTTCATTTGTTTTTTTTTTTTTTTGT
1 TTTCATTTGTTTTTTTTTTGTTTTGT
*
18429264 TTTC-TTTGTTTTTTTTTTGTTTTCT
1 TTTCATTTGTTTTTTTTTTGTTTTGT
*
18429289 CTTCATTT-TTTTTT
1 TTTCATTTGTTTTTT
18429303 CATTCTTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 28 0.80
26 7 0.20
ACGTcount: A:0.03, C:0.08, G:0.06, T:0.83
Consensus pattern (26 bp):
TTTCATTTGTTTTTTTTTTGTTTTGT
Found at i:18429297 original size:18 final size:18
Alignment explanation
Indices: 18429276--18429318 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
18429266 TCTTTGTTTT
18429276 TTTTTTGTT-TTCTCTTCA
1 TTTTTTGTTATTCT-TTCA
*
18429294 TTTTTTTTTCATTCTTTCA
1 TTTTTTGTT-ATTCTTTCA
18429313 TTTTTT
1 TTTTTT
18429319 TTCTGAGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 10 0.45
20 4 0.18
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTTTGTTATTCTTTCA
Found at i:18429787 original size:7 final size:7
Alignment explanation
Indices: 18429775--18429810 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
18429765 ATAACCATTT
18429775 TTTTATC
1 TTTTATC
18429782 TTTTATC
1 TTTTATC
18429789 -TTTATC
1 TTTTATC
18429795 -TTT-TC
1 TTTTATC
18429800 TTTTATC
1 TTTTATC
18429807 TTTT
1 TTTT
18429811 TTTTTCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.07
6 12 0.44
7 13 0.48
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTATC
Found at i:18429803 original size:18 final size:17
Alignment explanation
Indices: 18429780--18429818 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
18429770 CATTTTTTTA
18429780 TCTTTTATCTTTATCTTT
1 TCTTTTATCTTT-TCTTT
*
18429798 TCTTTTATCTTTTTTTT
1 TCTTTTATCTTTTCTTT
18429815 TCTT
1 TCTT
18429819 AAAATGCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTTTATCTTTTCTTT
Found at i:18429811 original size:13 final size:13
Alignment explanation
Indices: 18429775--18429815 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
18429765 ATAACCATTT
18429775 TTTTATCTTTTATC
1 TTTTATCTTTT-TC
18429789 -TTTATC-TTTTC
1 TTTTATCTTTTTC
18429800 TTTTATCTTTTT-
1 TTTTATCTTTTTC
18429812 TTTT
1 TTTT
18429816 CTTAAAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 13 0.52
13 10 0.40
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATCTTTTTC
Found at i:18429966 original size:26 final size:25
Alignment explanation
Indices: 18429920--18429968 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
18429910 AGTTATTATA
*
18429920 AGAAAAAGGTCATGTGAAATGAATG
1 AGAAAAAGGTCATATGAAATGAATG
18429945 AGAAAAATGGTCATAT-AGAATGAA
1 AGAAAAA-GGTCATATGA-AATGAA
18429969 CCTATTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.51, C:0.04, G:0.24, T:0.20
Consensus pattern (25 bp):
AGAAAAAGGTCATATGAAATGAATG
Found at i:18432024 original size:20 final size:22
Alignment explanation
Indices: 18431981--18432033 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
18431971 TATAAAAAAG
18431981 ATAAAAAAAATAAAATGGGTTAAA
1 ATAAAAAAAATAAAA--GGTTAAA
18432005 ATAAAAAAAATAAAA-G-TAAA
1 ATAAAAAAAATAAAAGGTTAAA
*
18432025 ATGAAAAAA
1 ATAAAAAAA
18432034 GGAAACTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 12 0.43
21 1 0.04
24 15 0.54
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (22 bp):
ATAAAAAAAATAAAAGGTTAAA
Found at i:18432463 original size:21 final size:21
Alignment explanation
Indices: 18432437--18432484 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
18432427 AGTTCTTTCT
*
18432437 AAATCTAGAAAAAAATCTAAA
1 AAATCTAGAAAAAAATCCAAA
*
18432458 AAATCTCGAAAAAAATCCAAA
1 AAATCTAGAAAAAAATCCAAA
18432479 AAATCT
1 AAATCT
18432485 TCAAACCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.62, C:0.15, G:0.04, T:0.19
Consensus pattern (21 bp):
AAATCTAGAAAAAAATCCAAA
Found at i:18432571 original size:12 final size:12
Alignment explanation
Indices: 18432550--18432583 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
18432540 CTAACTCCAA
*
18432550 AAACCCAAATTT
1 AAACCTAAATTT
18432562 AAACCTAAATTT
1 AAACCTAAATTT
18432574 AAACCTAAAT
1 AAACCTAAAT
18432584 CAAACCCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (12 bp):
AAACCTAAATTT
Found at i:18432902 original size:17 final size:18
Alignment explanation
Indices: 18432880--18432917 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18432870 TAAAAAAAAG
*
18432880 AAAGAA-AAAATAAGGAA
1 AAAGAACAAAAAAAGGAA
*
18432897 AAAGAACAAAAAAATGAA
1 AAAGAACAAAAAAAGGAA
18432915 AAA
1 AAA
18432918 AATGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (18 bp):
AAAGAACAAAAAAAGGAA
Found at i:18432917 original size:10 final size:9
Alignment explanation
Indices: 18432904--18432929 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
18432894 GAAAAAGAAC
18432904 AAAAAAATG
1 AAAAAAATG
18432913 AAAAAAATG
1 AAAAAAATG
18432922 AAAAAAAT
1 AAAAAAAT
18432930 AATAATATGA
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:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAAAAAATG
Found at i:18432933 original size:3 final size:3
Alignment explanation
Indices: 18432927--18432988 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
18432917 AAATGAAAAA
* * * * *
18432927 AAT AAT AAT -AT GAT -AT AAT AAT AAT GAT AAC AAC AAT -GT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18432971 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
18432989 TTATAAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 7 0.14
3 42 0.86
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18433715 original size:115 final size:115
Alignment explanation
Indices: 18433221--18433784 Score: 441
Period size: 115 Copynumber: 5.0 Consensus size: 115
18433211 GGTGACCATA
* * * * * * * * * * * *
18433221 ATAAAACCACAAGTTAAAATGACGCGACCAAGATCGAGTCGAGGTCAAAAATAAACTAGACAAAA
1 ATAAAACCACGAGTCAAAATGAAGTGAACAAGACCAAGTCGAGGTTAAAAATGATCGAGATAAAA
* * * *
18433286 CCATGAATCAT-AAAGAATGATCTGGACTGAGCCAAAATCAAGTGATTGGG
66 CCATGAATCATGAAA-AATGATCTGGACTAAGCCAAGATCAAGTGATCGAG
* *
18433336 ATGAAAA-CACGAGTC--AA--AA-TGACCAAGACCAAGTCGAGGTCAAAAATGAT-GAAGATAA
1 AT-AAAACCACGAGTCAAAATGAAGTGAACAAGACCAAGTCGAGGTTAAAAATGATCG-AGATAA
* * * ** *
18433394 AACCATGAATCATGATAAATGACCTAGA-TTGGACAAGATCAAGTGATCGAG
64 AACCATGAATCATGAAAAATGATCTGGACTAAGCCAAGATCAAGTGATCGAG
* * * * * * * * *
18433445 ACAAAACCATGAGTCAAAATGAAGCG-ACTAGGATCGAGTCGAGGTCAAAGATGATTGAGATAAA
1 ATAAAACCACGAGTCAAAATGAAGTGAAC-AAGACCAAGTCGAGGTTAAAAATGATCGAGATAAA
* * ** * ** *
18433509 ATCATGAATCATGAAAAATAATCTGGACTGGGTCAAGATCAAGCAACCGAG
65 ACCATGAATCATGAAAAATGATCTGGACTAAGCCAAGATCAAGTGATCGAG
* * * * * * ** * *
18433560 ATGAAACCATGATTCAAAATGAATTAAACTAGACTGAGTCGAGGTTGAAAATGATCGAGATGAAA
1 ATAAAACCACGAGTCAAAATGAAGTGAACAAGACCAAGTCGAGGTTAAAAATGATCGAGATAAAA
* * *
18433625 CCATGAATCATGAGAAATGATCTAGACTAAGCCAAGATCAAGTGATCGGG
66 CCATGAATCATGAAAAATGATCTGGACTAAGCCAAGATCAAGTGATCGAG
* * **
18433675 ATAAAACCACGAATCAAAATGAAGTGAACAAGACCAAGTCGAGGTTAAAAATGA-CTGGGACGAA
1 ATAAAACCACGAGTCAAAATGAAGTGAACAAGACCAAGTCGAGGTTAAAAATGATC-GAGATAAA
* * *
18433739 ACCATGAATCAT-ATGAAATGATCTGGATTAAGCTAAGATCAAGTGA
65 ACCATGAATCATGA-AAAATGATCTGGACTAAGCCAAGATCAAGTGA
18433785 ATGATGCAAG
Statistics
Matches: 357, Mismatches: 77, Indels: 30
0.77 0.17 0.06
Matches are distributed among these distances:
108 4 0.01
109 25 0.07
110 53 0.15
111 5 0.01
113 5 0.01
114 54 0.15
115 205 0.57
116 6 0.02
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (115 bp):
ATAAAACCACGAGTCAAAATGAAGTGAACAAGACCAAGTCGAGGTTAAAAATGATCGAGATAAAA
CCATGAATCATGAAAAATGATCTGGACTAAGCCAAGATCAAGTGATCGAG
Found at i:18433779 original size:230 final size:229
Alignment explanation
Indices: 18433223--18433781 Score: 514
Period size: 224 Copynumber: 2.5 Consensus size: 229
18433213 TGACCATAAT
* * * * * *
18433223 AAAACCAC-AAGTTAAAATGACGCGACCAAGATCGAGTCGAGGTCAAAAATAAACT-AGACAAAA
1 AAAACCACGAA-TCAAAATGAAGCGACTAAGACCAAGTCGAGGTCAAAAAT-GACTGAGACAAAA
* * ** ** * * * *
18433286 CCATGAATCAT-AAAGAATGATCTGGACTGAGC-CAAAATCAAGTGATTGGGATGAAAACACGAG
64 CCATGAATCATGAAA-AATAATCTGGACT-AGCTCAAGATCAAGCAACCGAGATGAAACCATGAT
* * **
18433349 TCAAAATG-----ACCAAGACCAAGTCGAGGTCAAAAATGATGAAGATAAAACCATGAATCATGA
127 TCAAAATGAATTAAACTAGACTGAGTCGAGGTCAAAAATGATGAAGATAAAACCATGAATCATGA
* **
18433409 TAAATGACCTAGATTGGACAAGATCAAGTGATCGAGAC
192 GAAATGACCTAGATAAGACAAGATCAAGTGATCGAGAC
* * * * * * * * *
18433447 AAAACCATGAGTCAAAATGAAGCGACTAGGATCGAGTCGAGGTCAAAGATGATTGAGATAAAATC
1 AAAACCACGAATCAAAATGAAGCGACTAAGACCAAGTCGAGGTCAAAAATGACTGAGACAAAACC
* *
18433512 ATGAATCATGAAAAATAATCTGGACTGGGTCAAGATCAAGCAACCGAGATGAAACCATGATTCAA
66 ATGAATCATGAAAAATAATCTGGACTAGCTCAAGATCAAGCAACCGAGATGAAACCATGATTCAA
** *
18433577 AATGAATTAAACTAGACTGAGTCGAGGTTGAAAATGATCG-AGATGAAACCATGAATCATGAGAA
131 AATGAATTAAACTAGACTGAGTCGAGGTCAAAAATGAT-GAAGATAAAACCATGAATCATGAGAA
* * * *
18433641 ATGATCTAGACTAAGCCAAGATCAAGTGATCGGGAT
195 ATGACCTAGA-TAAGACAAGATCAAGTGATCGAGAC
* * * *
18433677 AAAACCACGAATCAAAATGAAGTGAAC-AAGACCAAGTCGAGGTTAAAAATGACTGGGACGAAAC
1 AAAACCACGAATCAAAATGAAGCG-ACTAAGACCAAGTCGAGGTCAAAAATGACTGAGACAAAAC
* * *
18433741 CATGAATCAT-ATGAAATGATCTGGATTAAGCT-AAGATCAAG
65 CATGAATCATGA-AAAATAATCTGGACT-AGCTCAAGATCAAG
18433782 TGAATGATGC
Statistics
Matches: 266, Mismatches: 55, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
223 3 0.01
224 100 0.38
225 4 0.02
229 55 0.21
230 100 0.38
231 4 0.02
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.19
Consensus pattern (229 bp):
AAAACCACGAATCAAAATGAAGCGACTAAGACCAAGTCGAGGTCAAAAATGACTGAGACAAAACC
ATGAATCATGAAAAATAATCTGGACTAGCTCAAGATCAAGCAACCGAGATGAAACCATGATTCAA
AATGAATTAAACTAGACTGAGTCGAGGTCAAAAATGATGAAGATAAAACCATGAATCATGAGAAA
TGACCTAGATAAGACAAGATCAAGTGATCGAGAC
Found at i:18444254 original size:19 final size:19
Alignment explanation
Indices: 18444204--18444254 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
18444194 AAGTATACAA
* * *
18444204 AATGAAAAGGAAAATAAGT
1 AATGAAAGGGAATATAAGC
**
18444223 AAT-AAAGTAAATATAAGC
1 AATGAAAGGGAATATAAGC
18444241 AATGAAAGGGAATA
1 AATGAAAGGGAATA
18444255 AAATAACTTC
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.18
Consensus pattern (19 bp):
AATGAAAGGGAATATAAGC
Found at i:18444619 original size:20 final size:20
Alignment explanation
Indices: 18444589--18444626 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18444579 TTAGAGGATA
18444589 AAAATTATTTTTGTTTATTTG
1 AAAATTATTTTT-TTTATTTG
18444610 AAAA-TATTTTTTTTATT
1 AAAATTATTTTTTTTATT
18444627 ATTATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
AAAATTATTTTTTTTATTTG
Found at i:18444858 original size:19 final size:19
Alignment explanation
Indices: 18444829--18444875 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
18444819 AAAATGGGTT
18444829 AAAAT-AAAATAAAATCAA
1 AAAATAAAAATAAAATCAA
*
18444847 AAAATAAAAATAAAATGAA
1 AAAATAAAAATAAAATCAA
*
18444866 AAAAGAAAAA
1 AAAATAAAAA
18444876 CCTGTGATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (19 bp):
AAAATAAAAATAAAATCAA
Found at i:18445218 original size:31 final size:31
Alignment explanation
Indices: 18445154--18445235 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
18445144 AACTTAGCTG
* * **
18445154 AACTCCATTGAAAAATTCAACCTCATTGGAA
1 AACTTCATAGAAAAATTCAACCTCATTAAAA
**
18445185 AACTTCATAGAAAAATTCAACCTTGTTAAAA
1 AACTTCATAGAAAAATTCAACCTCATTAAAA
*
18445216 AACTTCACCAG-AAAATTCAA
1 AACTTCA-TAGAAAAATTCAA
18445236 AGTTCTTCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 41 0.95
32 2 0.05
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (31 bp):
AACTTCATAGAAAAATTCAACCTCATTAAAA
Found at i:18445708 original size:18 final size:16
Alignment explanation
Indices: 18445662--18445709 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
18445652 CAAATTGGAT
*
18445662 CAAAAAAAGGAAAGAA
1 CAAAAAAAGAAAAGAA
*
18445678 CTAAAGAAAGAAAAGGAA
1 C-AAAAAAAGAAAA-GAA
18445696 CAAAAAAATGAAAA
1 CAAAAAAA-GAAAA
18445710 AAAATAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 16 0.62
18 9 0.35
ACGTcount: A:0.73, C:0.06, G:0.17, T:0.04
Consensus pattern (16 bp):
CAAAAAAAGAAAAGAA
Found at i:18445846 original size:52 final size:52
Alignment explanation
Indices: 18445764--18445879 Score: 144
Period size: 52 Copynumber: 2.2 Consensus size: 52
18445754 AAAAACCTAT
* * ** * *
18445764 CTAATTGGGCCCTGACATAAATGGGTCTAATTGGGTTCGAGCA-CGGATGAGC
1 CTAATTGGGCCCAGACACAAATGGACCTAATTGGGTTCGAACATC-AATGAGC
* *
18445816 CTAATTGGGCCCAGACACAAATGGACCTAATTGTGTTCGAACATCAATGGGC
1 CTAATTGGGCCCAGACACAAATGGACCTAATTGGGTTCGAACATCAATGAGC
18445868 CTAATTGGGCCC
1 CTAATTGGGCCC
18445880 GAATACAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 54 0.98
53 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (52 bp):
CTAATTGGGCCCAGACACAAATGGACCTAATTGGGTTCGAACATCAATGAGC
Found at i:18445882 original size:26 final size:26
Alignment explanation
Indices: 18445764--18445889 Score: 87
Period size: 26 Copynumber: 4.8 Consensus size: 26
18445754 AAAAACCTAT
* *
18445764 CTAATTGGGCCCTG-ACATAAATGGGT
1 CTAATTGGGCCC-GAACACAAATGGGC
** * ** *
18445790 CTAATTGGGTTCGAGCACGGATGAGC
1 CTAATTGGGCCCGAACACAAATGGGC
*
18445816 CTAATTGGGCCC-AGACACAAATGGAC
1 CTAATTGGGCCCGA-ACACAAATGGGC
* **
18445842 CTAATTGTGTTCGAACATC-AATGGGC
1 CTAATTGGGCCCGAACA-CAAATGGGC
*
18445868 CTAATTGGGCCCGAATACAAAT
1 CTAATTGGGCCCGAACACAAAT
18445890 AGGTGTCTAC
Statistics
Matches: 72, Mismatches: 23, Indels: 10
0.69 0.22 0.10
Matches are distributed among these distances:
25 3 0.04
26 67 0.93
27 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (26 bp):
CTAATTGGGCCCGAACACAAATGGGC
Found at i:18450178 original size:19 final size:20
Alignment explanation
Indices: 18450154--18450219 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 20
18450144 GGTTTCGAGT
*
18450154 TTTCACCTCGAGTTT-AGAA
1 TTTCACCTAGAGTTTCAGAA
*
18450173 TTTCACTTAGAGTTTCAGAA
1 TTTCACCTAGAGTTTCAGAA
* * *
18450193 TTT-ACCTAGGGTTTAAG-G
1 TTTCACCTAGAGTTTCAGAA
18450211 TTTCACCTA
1 TTTCACCTA
18450220 AAATTTAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 3 0.08
19 29 0.74
20 7 0.18
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (20 bp):
TTTCACCTAGAGTTTCAGAA
Found at i:18450241 original size:13 final size:13
Alignment explanation
Indices: 18450223--18450316 Score: 80
Period size: 13 Copynumber: 7.1 Consensus size: 13
18450213 TCACCTAAAA
18450223 TTTAGGGTTTCAT
1 TTTAGGGTTTCAT
*
18450236 TTTAGGGTTTCAC
1 TTTAGGGTTTCAT
*
18450249 TTTAGGGTTTTAT
1 TTTAGGGTTTCAT
** *
18450262 TTTAGTATTTTAT
1 TTTAGGGTTTCAT
* *
18450275 TTTGGGGTTTTATTT
1 TTTAGGGTTTCA--T
*
18450290 TTTAGGGTTTCAC
1 TTTAGGGTTTCAT
**
18450303 TTTAAAGTTTCAT
1 TTTAGGGTTTCAT
18450316 T
1 T
18450317 AATTTATGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
13 54 0.83
15 11 0.17
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.57
Consensus pattern (13 bp):
TTTAGGGTTTCAT
Found at i:18450252 original size:26 final size:26
Alignment explanation
Indices: 18450223--18450316 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 26
18450213 TCACCTAAAA
18450223 TTTAGGGTTTCATTTTAGGGTTTCAC
1 TTTAGGGTTTCATTTTAGGGTTTCAC
* ** * *
18450249 TTTAGGGTTTTATTTTAGTATTTTAT
1 TTTAGGGTTTCATTTTAGGGTTTCAC
* *
18450275 TTTGGGGTTTTATTTTTTAGGGTTTCAC
1 TTTAGGGTTTCA--TTTTAGGGTTTCAC
**
18450303 TTTAAAGTTTCATT
1 TTTAGGGTTTCATT
18450317 AATTTATGAA
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
26 34 0.65
28 18 0.35
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.57
Consensus pattern (26 bp):
TTTAGGGTTTCATTTTAGGGTTTCAC
Found at i:18450502 original size:29 final size:30
Alignment explanation
Indices: 18450438--18450507 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
18450428 TTCCTTTTTC
18450438 ATTAA-AATTTTATTATTATTACTATTATTT
1 ATTAATAA-TTTATTATTATTACTATTATTT
* * *
18450468 ATTAATCATTTATTATT-TTATTTTTATTGT
1 ATTAATAATTTATTATTATTACTATTATT-T
18450498 -TTAATAATTT
1 ATTAATAATTT
18450508 CCTAACATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 18 0.53
30 15 0.44
31 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (30 bp):
ATTAATAATTTATTATTATTACTATTATTT
Found at i:18450956 original size:7 final size:7
Alignment explanation
Indices: 18450923--18450954 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
18450913 TTTTTTTGCA
18450923 TATTTAT
1 TATTTAT
18450930 TATTTAT
1 TATTTAT
18450937 TATTTAT
1 TATTTAT
18450944 TATTT-T
1 TATTTAT
18450950 TATTT
1 TATTT
18450955 TTAATAAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TATTTAT
Found at i:18452019 original size:18 final size:18
Alignment explanation
Indices: 18451996--18452030 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18451986 ACTAAGACTG
*
18451996 CAAAAGCAAAAATAAAAA
1 CAAAAGCAAAAAGAAAAA
*
18452014 CAAAAGCCAAAAGAAAA
1 CAAAAGCAAAAAGAAAA
18452031 GATAACTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.14, G:0.09, T:0.03
Consensus pattern (18 bp):
CAAAAGCAAAAAGAAAAA
Found at i:18452799 original size:22 final size:23
Alignment explanation
Indices: 18452768--18452816 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
18452758 TATATTTTGG
18452768 TTTTATTATTT-ATTAATTT-ATAA
1 TTTTATTATTTGA--AATTTAATAA
18452791 TTTTA-TATTTGAAATTTAATAA
1 TTTTATTATTTGAAATTTAATAA
18452813 TTTT
1 TTTT
18452817 TTTGTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.21
22 13 0.54
23 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTATTATTTGAAATTTAATAA
Found at i:18453495 original size:612 final size:618
Alignment explanation
Indices: 18452646--18453760 Score: 1686
Period size: 612 Copynumber: 1.8 Consensus size: 618
18452636 TTTATAATTA
18452646 AAAAAATTAAAAGATTAATAATTTAATATGATATATATATAGGGATTTTAGATGAAAAATTTTAA
1 AAAAAATTAAAAGATTAATAATTTAATATGATATATATATAGGGATTTTAGATGAAAAATTTTAA
18452711 TAAATTTTTTTGTATAAGTTAGATGGAAAATAATTAAAATTAAATGTTATATTTTGGTTTTATTA
66 TAAATTTTTTTGTATAAGTTAGA-GGAAAATAATTAAAATTAAATGTTATATTTTGGTTTTATTA
* *
18452776 TTTATTAATTTATAATTTTATATTTGAAATTTAATAATTTTTTTGTTGTTTTGGTATTTATATTG
130 TTTA-TAATTTACAATTTGATATTTGAAATTTAATAATTTTTTTGTTGTTTTGGTATTTATATTG
** * *
18452841 TTGTCAATTCTTTTGCTATTAAATTAATTCTTATTAATTTATTTTTATTTTTGTGTAATTATTGA
194 TCATCAATTCTTTTGCTATTAAATTAATTCTTATTAATTTATTTTAATTTTTGTGTAATTATTAA
* **
18452906 ATATTCTATTTATTATATAATATATTGAAAGTAATTTGTGAATAAATTTTTTTTACATCAATTAG
259 AGATTCTATTTATTATATAATATATTGAAAGTAATTTGTG-ATAAAAATTTTTTACATCAATTAG
*
18452971 TGTATCAAAAAGATTAAGTTACTTAACAAATTTAACATTTTACGATCTATTACTCTGAAGATTAA
323 TGTATCAAAAAGATTAAGTTACTTAACAAATTTAACATTTTAAGATCTATTACTCTGAAGATTAA
* * **
18453036 AAA-TTAAAAATTACAAAATTTAACATAGATTCAATTTTTGATGAT-GAAATAAGTAACATTAAT
388 AAACTAAAAAATTAAAAAATTTAACATAGATTCAATTTTCAATGATAG-AATAAGTAACATTAAT
*
18453099 ATTTC-ATAATATAAGTTTATTTTGTTTTTATACAAAATAGCAAGCATGCCTCCATGTTATTTTA
452 ATTTCTA-AATATAAGTTTATTTTATTTTTATACAAAATAGCAAGCATGCCTCCATGTTATTTTA
18453163 ATTTGTAATTTAATTTTAATTAAATTATATATATATGTAATTTTAAACCTTTTTTTAGATAAATT
516 ATTTGTAATTTAATTTTAATTAAATTATATATATATGTAATTTTAAACCTTTTTTTAGATAAATT
18453228 AGTTAGAGGGGGTAATTGAAGATTTCTAATTTGAAAAC
581 AGTTAGAGGGGGTAATTGAAGATTTCTAATTTGAAAAC
** * *
18453266 AAAAAATTAAGTGATTGAAT-A-TTAAT-TGTTATATA-ATA-GGATTTTAGATGAAAATTTTTT
1 AAAAAATTAAAAGATT-AATAATTTAATATGATATATATATAGGGATTTTAGATGAAAA--ATTT
* * * * *
18453326 TAA-AATTTTTTTTTGTAT-AGTTAG-GTAAAGTAATTAAAATTAAATGTTATATTTTGTTTTTG
63 TAATAA-ATTTTTTTGTATAAGTTAGAGGAAAATAATTAAAATTAAATGTTATATTTTGGTTTTA
*
18453388 TTAATTTA-AATTTACAATTTGA-ATTTGAATTTTAAATAA-TTTTTTGTTGTTTTGGTATTTAA
127 TT-ATTTATAATTTACAATTTGATATTTGAAATTT-AATAATTTTTTTGTTGTTTTGGTATTT-A
18453450 TATTGTCATC-ATTC-TTTGCTATTAAATTAATTCTTATTAATTTATTTTAATTTTTGTGTAATT
189 TATTGTCATCAATTCTTTTGCTATTAAATTAATTCTTATTAATTTATTTTAATTTTTGTGTAATT
* *
18453513 ATTAAAGATTCTATTTATTATATAATATATTGAAAGTTATTTGTGATAAAAATTTTTTACATTAA
254 ATTAAAGATTCTATTTATTATATAATATATTGAAAGTAATTTGTGATAAAAATTTTTTACATCAA
** * * * *
18453578 TTAGTGTATCAAAAAGATTAAGTTACTTAATGAATTTAGCGTTTTAAGATCTATTACTTTTAAGA
319 TTAGTGTATCAAAAAGATTAAGTTACTTAACAAATTTAACATTTTAAGATCTATTACTCTGAAGA
*
18453643 TTAAAAACTAAAAAATTAAAAAATTTAACGTAGATTCAATTTTCAATGATAGAATAAGTAACATT
384 TTAAAAACTAAAAAATTAAAAAATTTAACATAGATTCAATTTTCAATGATAGAATAAGTAACATT
* *
18453708 ATTATTTCTAAATATAAGTTTATTTTATTTTTATACAAAATAGTAAGCATGCC
449 AATATTTCTAAATATAAGTTTATTTTATTTTTATACAAAATAGCAAGCATGCC
18453761 ATCACGTGAA
Statistics
Matches: 449, Mismatches: 36, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
611 82 0.18
612 188 0.42
613 37 0.08
614 26 0.06
615 36 0.08
616 21 0.05
617 11 0.02
618 25 0.06
619 5 0.01
620 15 0.03
621 3 0.01
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (618 bp):
AAAAAATTAAAAGATTAATAATTTAATATGATATATATATAGGGATTTTAGATGAAAAATTTTAA
TAAATTTTTTTGTATAAGTTAGAGGAAAATAATTAAAATTAAATGTTATATTTTGGTTTTATTAT
TTATAATTTACAATTTGATATTTGAAATTTAATAATTTTTTTGTTGTTTTGGTATTTATATTGTC
ATCAATTCTTTTGCTATTAAATTAATTCTTATTAATTTATTTTAATTTTTGTGTAATTATTAAAG
ATTCTATTTATTATATAATATATTGAAAGTAATTTGTGATAAAAATTTTTTACATCAATTAGTGT
ATCAAAAAGATTAAGTTACTTAACAAATTTAACATTTTAAGATCTATTACTCTGAAGATTAAAAA
CTAAAAAATTAAAAAATTTAACATAGATTCAATTTTCAATGATAGAATAAGTAACATTAATATTT
CTAAATATAAGTTTATTTTATTTTTATACAAAATAGCAAGCATGCCTCCATGTTATTTTAATTTG
TAATTTAATTTTAATTAAATTATATATATATGTAATTTTAAACCTTTTTTTAGATAAATTAGTTA
GAGGGGGTAATTGAAGATTTCTAATTTGAAAAC
Found at i:18455495 original size:20 final size:20
Alignment explanation
Indices: 18455457--18455495 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18455447 AGCAATATAA
18455457 TAAAAGTTTATGAGCCTTTGG
1 TAAAAGTTTAT-AGCCTTTGG
18455478 TAAAAGTATTAT-GCCTTT
1 TAAAAGT-TTATAGCCTTT
18455496 ATAGATAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (20 bp):
TAAAAGTTTATAGCCTTTGG
Found at i:18457887 original size:14 final size:14
Alignment explanation
Indices: 18457868--18457905 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
18457858 TACCTATTGG
18457868 TCTTTTCATTTTTT
1 TCTTTTCATTTTTT
*
18457882 TCTTTT-GTTTTTT
1 TCTTTTCATTTTTT
*
18457895 TTTTTTCATTT
1 TCTTTTCATTT
18457906 CTTTGTTACG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.82
Consensus pattern (14 bp):
TCTTTTCATTTTTT
Found at i:18458010 original size:13 final size:13
Alignment explanation
Indices: 18457994--18458018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18457984 ATTTTCTTGC
18457994 TACTTTTTTTTTT
1 TACTTTTTTTTTT
18458007 TACTTTTTTTTT
1 TACTTTTTTTTT
18458019 GTTCACGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (13 bp):
TACTTTTTTTTTT
Found at i:18464409 original size:3 final size:3
Alignment explanation
Indices: 18464401--18464437 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18464391 TTTGTATATC
18464401 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18464438 AAGACATTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18465244 original size:99 final size:101
Alignment explanation
Indices: 18465061--18465240 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 101
18465051 TTATTAATAA
* * *
18465061 ATTAATTTTAGAAGATAAAAAGATATATATTTAAATTATATATAAATTATTAGAAAATTAATTTT
1 ATTAATTTTAGAAGATAAAAAAATATATATTCAAATTATATATAAATTATTAGAAAATTAAGTTT
*
18465126 CAATAACTAATAATTTTAAAAATTTTTATTTATCTG
66 CAACAACTAATAATTTTAAAAATTTTTATTTATCTG
*
18465162 ATTAATTTT-GACAGATAAAAAAATATATATTCATA-T-TATATAAATTATTAGAAAATT-AGTT
1 ATTAATTTTAGA-AGATAAAAAAATATATATTCAAATTATATATAAATTATTAGAAAATTAAGTT
**
18465223 TGGACAACTAATAATTTT
65 TCAACAACTAATAATTTT
18465241 TAAATTTATG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
98 18 0.25
99 21 0.30
100 3 0.04
101 29 0.41
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (101 bp):
ATTAATTTTAGAAGATAAAAAAATATATATTCAAATTATATATAAATTATTAGAAAATTAAGTTT
CAACAACTAATAATTTTAAAAATTTTTATTTATCTG
Found at i:18465276 original size:226 final size:235
Alignment explanation
Indices: 18464928--18465387 Score: 622
Period size: 226 Copynumber: 2.0 Consensus size: 235
18464918 ATTATTAAAA
*
18464928 ATTAATTTTAAAAGATAAAAAGATATATATATTCAGATTATATATATCTAAATTATTTGAAAATT
1 ATTAATTTTAAAAGATAAAAAGATATATATATTCA-ATTATATATA-CTAAATTATTAGAAAATT
* * * * * *
18464993 AATTTTGGATAACTAATAATTTTTGAATTTATTTATTTATTTGATGAATAGCATAAAATTATTAA
64 AAGTTTGGACAACTAATAATTTTTAAATTTATGTATTTATTTGATAAATACCATAAAATTATTAA
*
18465058 TAAA-TTAATTTTA-GAAGATAAAAAGATATATATTTA-A-AT-TATATATAAATTATTAGAAAA
129 -AAACTTAATTTTATG-AGATAAAAAGATATATA-TTAGATATATATATATAAATTATTAAAAAA
18465118 TTAATTTTCAATAACTAATA-ATTTTAAAAATTTTTATTTATCTG
191 TTAATTTTCAATAACTAATATATTTTAAAAATTTTTATTTATCTG
* *
18465162 ATTAATTTTGACAGATAAAAA-A-ATATATATTC-A-TAT-TATA-TAAATTATTAGAAAATT-A
1 ATTAATTTTAAAAGATAAAAAGATATATATATTCAATTATATATACTAAATTATTAGAAAATTAA
18465220 GTTTGGACAACTAATAATTTTTAAATTTATGGTATTTATTTGATAAATACCATAAAATTATTAAA
66 GTTTGGACAACTAATAATTTTTAAATTTAT-GTATTTATTTGATAAATACCATAAAATTATTAAA
* *
18465285 AACTTAATTTTATGTGATAAAAAGATATATATTAGATTATATATATTTAAATTATTAAAAAATTA
130 AACTTAATTTTATGAGATAAAAAGATATATATTAGA-TATATATATATAAATTATTAAAAAATTA
* * * *
18465350 ATTTTGAATAATTAATATTTTTTAAATATTTTTATTTA
194 ATTTTCAATAACTAATATATTTTAAAAATTTTTATTTA
18465388 GAGGATAAAT
Statistics
Matches: 202, Mismatches: 16, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
225 34 0.17
226 72 0.36
227 1 0.00
228 6 0.03
229 40 0.20
230 19 0.09
232 10 0.05
233 1 0.00
234 19 0.09
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (235 bp):
ATTAATTTTAAAAGATAAAAAGATATATATATTCAATTATATATACTAAATTATTAGAAAATTAA
GTTTGGACAACTAATAATTTTTAAATTTATGTATTTATTTGATAAATACCATAAAATTATTAAAA
ACTTAATTTTATGAGATAAAAAGATATATATTAGATATATATATATAAATTATTAAAAAATTAAT
TTTCAATAACTAATATATTTTAAAAATTTTTATTTATCTG
Found at i:18465386 original size:130 final size:125
Alignment explanation
Indices: 18465175--18465409 Score: 276
Period size: 130 Copynumber: 1.8 Consensus size: 125
18465165 AATTTTGACA
* *
18465175 GATAAAAAAATATATATTCATATTATATAAATTATTAGAAAATTAGTTTGGACAACTAATAATTT
1 GATAAAAAAATATATATTCATATTATATAAATTATTAAAAAATTAGTTTGAACAACTAATAATTT
***
18465240 TTAAATTTATGGTATTTATTTGATAAATACCATAAAATTATTAAAAACTTAATTTTATGT
66 TTAAATTTATGGTATTTAGAGGATAAATACCATAAAATTATTAAAAACTTAATTTTATGT
* * * * *
18465300 GATAAAAAGATATATATTAGATTATATATATTTAAATTATTAAAAAATTAATTTTGAATAATTAA
1 GATAAAAAAATATATATT-CA-TAT-TATA--TAAATTATTAAAAAATT-AGTTTGAACAACTAA
* * *
18465365 TATTTTTTAAATATT-T-TTATTTAGAGGATAAATACTATAAAATTA
60 TAATTTTTAAAT-TTATGGTATTTAGAGGATAAATACCATAAAATTA
18465410 GAAATTGTGC
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
125 17 0.19
126 1 0.01
127 3 0.03
128 4 0.04
130 40 0.44
131 23 0.26
132 2 0.02
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (125 bp):
GATAAAAAAATATATATTCATATTATATAAATTATTAAAAAATTAGTTTGAACAACTAATAATTT
TTAAATTTATGGTATTTAGAGGATAAATACCATAAAATTATTAAAAACTTAATTTTATGT
Found at i:18466098 original size:22 final size:21
Alignment explanation
Indices: 18466044--18466098 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
18466034 ACTAAATTTG
*
18466044 ATAT-TTTTAAATTTAAAAAG
1 ATATATTTTAAATTTAAAAAA
*
18466064 ATATATATCTAAATTATAAAAAA
1 ATATAT-TTTAAATT-TAAAAAA
18466087 AT-TAATTTTAAA
1 ATAT-ATTTTAAA
18466099 AGATAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 4 0.14
21 1 0.04
22 13 0.46
23 10 0.36
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATATATTTTAAATTTAAAAAA
Found at i:18466184 original size:15 final size:15
Alignment explanation
Indices: 18466164--18466193 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18466154 AAAGATAAAA
*
18466164 ATATATATTTAAATT
1 ATATATATGTAAATT
18466179 ATATATATGTAAATT
1 ATATATATGTAAATT
18466194 GTTAGAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATATATATGTAAATT
Found at i:18466199 original size:58 final size:58
Alignment explanation
Indices: 18466064--18466210 Score: 235
Period size: 57 Copynumber: 2.6 Consensus size: 58
18466054 ATTTAAAAAG
* *
18466064 ATATATATCTAAATTATAAAAAAATTAATTTTAAAAGATAAAACATATATATTTAAAT
1 ATATATATCTAAATTATTAGAAAATTAATTTTAAAAGATAAAACATATATATTTAAAT
18466122 -TATATATCTAAATTATTAGAAAATTAATTTTAAAAGATAAAA-ATATATATTTAAATT
1 ATATATATCTAAATTATTAGAAAATTAATTTTAAAAGATAAAACATATATATTTAAA-T
* *
18466179 ATATATATGTAAATTGTTAGAAAATTAATTTT
1 ATATATATCTAAATTATTAGAAAATTAATTTT
18466211 GGATAACAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
56 13 0.16
57 41 0.49
58 29 0.35
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (58 bp):
ATATATATCTAAATTATTAGAAAATTAATTTTAAAAGATAAAACATATATATTTAAAT
Found at i:18466982 original size:144 final size:145
Alignment explanation
Indices: 18466663--18467059 Score: 449
Period size: 144 Copynumber: 2.7 Consensus size: 145
18466653 AGAAATATAA
*
18466663 AAATTACCAAAATACCCCTATAAAAGATATTTTTGTAATTTAACATTTTCGAGCTCAAATTTTCA
1 AAATTACCAAAAT-CCCCTATAAGAGATATTTTTGTAATTTAACATTTTCGAGCTCAAATTTTCA
* * * **
18466728 TGAAAC-TTTCAAATTTTAATTTTATAACATTTCATGATTTTTTGTGCATTTGAAATCACAATTG
65 TAAAACTTTTCAAATTTTAATTTTATAAAATTTCATGATTTTTTATGCATTTGAAATCACAACAG
* * *
18466792 TAACTTGAAAAGTATG
130 TAACCTAAAAAATATG
* ** *
18466808 AAATTACCAAAATCCCCTATAAGAGATATTTTTGTAATTTAACCTTCCCGAGCT-AGATTTTCAT
1 AAATTACCAAAATCCCCTATAAGAGATATTTTTGTAATTTAACATTTTCGAGCTCAAATTTTCAT
* * * *
18466872 AAAACTTTTCAAATTTTAATTTCATAATATTTCATGATTTTTTATGTATTTGAAATCATAACAGT
66 AAAACTTTTCAAATTTTAATTTTATAAAATTTCATGATTTTTTATGCATTTGAAATCACAACAGT
* *
18466937 ACCCTAAAAAATGTG
131 AACCTAAAAAATATG
* * * * * * * * **
18466952 AAATTACTAAAATACTCT-TATAGGGGTATTTTCGTTATTTAACTTTTTTCGTTCTCAAATTTTC
1 AAATTACCAAAATCCCCTATA-AGAGATATTTTTGTAATTTAAC-ATTTTCGAGCTCAAATTTTC
* * * *
18467016 ATCAAACTTTTCAGATCTCAATTTTATAAAATTTCATGATTTTT
64 ATAAAACTTTTCAAATTTTAATTTTATAAAATTTCATGATTTTT
18467060 AGTGTTTTAA
Statistics
Matches: 211, Mismatches: 37, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
143 15 0.07
144 132 0.63
145 19 0.09
146 45 0.21
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.42
Consensus pattern (145 bp):
AAATTACCAAAATCCCCTATAAGAGATATTTTTGTAATTTAACATTTTCGAGCTCAAATTTTCAT
AAAACTTTTCAAATTTTAATTTTATAAAATTTCATGATTTTTTATGCATTTGAAATCACAACAGT
AACCTAAAAAATATG
Found at i:18482498 original size:21 final size:21
Alignment explanation
Indices: 18482469--18482518 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
18482459 CTTTTTTGTA
*
18482469 AAAAAAATAAATAAATAAACT
1 AAAAAAATAAAAAAATAAACT
* * *
18482490 AAAATAATAAAAAAATTACCT
1 AAAAAAATAAAAAAATAAACT
18482511 AAAAAAAT
1 AAAAAAAT
18482519 TTTGCTCTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAAAATAAAAAAATAAACT
Found at i:18483939 original size:30 final size:32
Alignment explanation
Indices: 18483901--18483973 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 32
18483891 TTTAAAATGT
**
18483901 AATGACTTGGACTGAGCCAAAATAAAAAA-AA
1 AATGACTTGGACTGAAACAAAATAAAAAATAA
* * *
18483932 AAT-ACTTGGATTGAAATAAATTAAAAAATAA
1 AATGACTTGGACTGAAACAAAATAAAAAATAA
18483963 AATGACTTGGA
1 AATGACTTGGA
18483974 TTAAACTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 20 0.57
31 8 0.23
32 7 0.20
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.23
Consensus pattern (32 bp):
AATGACTTGGACTGAAACAAAATAAAAAATAA
Found at i:18484060 original size:33 final size:32
Alignment explanation
Indices: 18483955--18484060 Score: 95
Period size: 33 Copynumber: 3.2 Consensus size: 32
18483945 AAATAAATTA
* **
18483955 AAAAATAAAATGACTTGGATTAAACTGAAGTTG
1 AAAAATAAAATGACTTGTATTAAACCAAAG-TG
* * * *
18483988 AAAAATTAAAATAATTTGTATTAAATCAAAGTA
1 AAAAA-TAAAATGACTTGTATTAAACCAAAGTG
* *
18484021 AGAAAATAAAATGACTCGTATTGAACCAAAGTCG
1 A-AAAATAAAATGACTTGTATTAAACCAAAGT-G
18484055 AAAAAT
1 AAAAAT
18484061 CAATGACCTA
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
33 33 0.58
34 24 0.42
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (32 bp):
AAAAATAAAATGACTTGTATTAAACCAAAGTG
Found at i:18484171 original size:33 final size:33
Alignment explanation
Indices: 18484133--18484223 Score: 85
Period size: 33 Copynumber: 2.7 Consensus size: 33
18484123 AATGAGATAG
* *
18484133 CTTGGACTGAGTCAAAGTTGAAAAGTAAGATGA
1 CTTGGACTGAGTCAAAGTTGAAAAGCAAGACGA
* * * *
18484166 CTTGGATTGAGCCAAAATCT-AAAAGCGAGACGA
1 CTTGGACTGAGTCAAAGT-TGAAAAGCAAGACGA
* *
18484199 CTTTGACTAAGTCAAAGTTTGAAAA
1 CTTGGACTGAGTCAAAG-TTGAAAA
18484224 TGAGACAACT
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
33 38 0.86
34 6 0.14
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (33 bp):
CTTGGACTGAGTCAAAGTTGAAAAGCAAGACGA
Found at i:18484229 original size:33 final size:33
Alignment explanation
Indices: 18484192--18484259 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
18484182 ATCTAAAAGC
* * **
18484192 GAGACGACTTTGACTAAGTCAAAGTTTGAAAAT
1 GAGACAACTTAGACTAAGAAAAAGTTTGAAAAT
18484225 GAGACAACTTAGACTAAGAAAAAGTTTGAAAAT
1 GAGACAACTTAGACTAAGAAAAAGTTTGAAAAT
18484258 GA
1 GA
18484260 AATGACTTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.24
Consensus pattern (33 bp):
GAGACAACTTAGACTAAGAAAAAGTTTGAAAAT
Found at i:18484385 original size:33 final size:33
Alignment explanation
Indices: 18484343--18484486 Score: 121
Period size: 33 Copynumber: 4.4 Consensus size: 33
18484333 GACTAACCCT
* *
18484343 AAGTCAAAAAATGAAATGACTTAGACTAAGCCA
1 AAGTAAAAAAATGAAATGACTTAGACTGAGCCA
* * * * * *
18484376 AAATAAAAAAATTACATGACTTAGATTGACCCT
1 AAGTAAAAAAATGAAATGACTTAGACTGAGCCA
* * * *
18484409 AAGTAGAAAAATGGAATAACTTGGACTGAGCCA
1 AAGTAAAAAAATGAAATGACTTAGACTGAGCCA
* * * *
18484442 AAGTCAAAAAATGATATGACTT--ACTGAACCT
1 AAGTAAAAAAATGAAATGACTTAGACTGAGCCA
*
18484473 AAGTTAAAAAATGA
1 AAGTAAAAAAATGA
18484487 TAAGAGTTGG
Statistics
Matches: 85, Mismatches: 26, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
31 20 0.24
33 65 0.76
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.22
Consensus pattern (33 bp):
AAGTAAAAAAATGAAATGACTTAGACTGAGCCA
Found at i:18484451 original size:66 final size:66
Alignment explanation
Indices: 18484338--18484486 Score: 169
Period size: 66 Copynumber: 2.3 Consensus size: 66
18484328 TGACAGACTA
* *
18484338 ACCCTAAGTCAAAAAATGAAATGACTTAGACTAAGCCAAAATAAAAAAATTACATGACTTAGATT
1 ACCCTAAGTCAAAAAATGAAATAACTTAGACTAAGCCAAAATAAAAAAATGACATGACTTAGATT
18484403 G
66 G
* * * * * * *
18484404 ACCCTAAGT-AGAAAAATGGAATAACTTGGACTGAGCCAAAGTCAAAAAATGATATGACTT--AC
1 ACCCTAAGTCA-AAAAATGAAATAACTTAGACTAAGCCAAAATAAAAAAATGACATGACTTAGAT
18484466 TG
65 TG
* *
18484468 AACCTAAGTTAAAAAATGA
1 ACCCTAAGTCAAAAAATGA
18484487 TAAGAGTTGG
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
64 18 0.26
65 2 0.03
66 50 0.71
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (66 bp):
ACCCTAAGTCAAAAAATGAAATAACTTAGACTAAGCCAAAATAAAAAAATGACATGACTTAGATT
G
Found at i:18484515 original size:33 final size:33
Alignment explanation
Indices: 18484340--18484515 Score: 96
Period size: 33 Copynumber: 5.4 Consensus size: 33
18484330 ACAGACTAAC
* * *
18484340 CCTAAGTCAAAAAATGA-AATGACTTAGACTAAG
1 CCTAAATCAAAAAATGATAA-GACTTGGACTGAG
* * * * * * * *
18484373 CCAAAATAAAAAAATTACATGACTTAGATTGAC
1 CCTAAATCAAAAAATGATAAGACTTGGACTGAG
*
18484406 CCTAAGT-AGAAAAATGGA-ATA-ACTTGGACTGAG
1 CCTAAATCA-AAAAAT-GATA-AGACTTGGACTGAG
* *
18484439 CC-AAAGTCAAAAAATGATATGACTT--ACTGAA
1 CCTAAA-TCAAAAAATGATAAGACTTGGACTGAG
* * * *
18484470 CCTAAGTTAAAAAATGATAAGAGTTGGATTGAG
1 CCTAAATCAAAAAATGATAAGACTTGGACTGAG
18484503 CCTAAATCAAAAA
1 CCTAAATCAAAAA
18484516 TGAAATCAAA
Statistics
Matches: 106, Mismatches: 26, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
31 23 0.22
32 7 0.07
33 73 0.69
34 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (33 bp):
CCTAAATCAAAAAATGATAAGACTTGGACTGAG
Found at i:18488071 original size:15 final size:15
Alignment explanation
Indices: 18488051--18488104 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
18488041 GGATTTCATC
18488051 TTAGGGTTTGAAATT
1 TTAGGGTTTGAAATT
*
18488066 TTAGGGTTTGAAAAGT
1 TTAGGGTTTG-AAATT
18488082 TTAGGGTTTTG--ATT
1 TTAGGG-TTTGAAATT
18488096 TTAGGGTTT
1 TTAGGGTTT
18488105 AGAGATTAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 3 0.09
14 8 0.23
15 10 0.29
16 10 0.29
17 4 0.11
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (15 bp):
TTAGGGTTTGAAATT
Found at i:18488086 original size:16 final size:15
Alignment explanation
Indices: 18488051--18488090 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
18488041 GGATTTCATC
*
18488051 TTAGGGTTTGAAATT
1 TTAGGGTTTGAAAGT
18488066 TTAGGGTTTGAAAAGT
1 TTAGGGTTTG-AAAGT
18488082 TTAGGGTTT
1 TTAGGGTTT
18488091 TGATTTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (15 bp):
TTAGGGTTTGAAAGT
Found at i:18488099 original size:30 final size:28
Alignment explanation
Indices: 18488063--18488362 Score: 158
Period size: 30 Copynumber: 10.2 Consensus size: 28
18488053 AGGGTTTGAA
*
18488063 ATTTTAGGGTTTGAAAAGTTTAGGGTTTTG
1 ATTTTAGGGTTT--AAGGTTTAGGGTTTTG
* ** *
18488093 ATTTTAGGGTTT-AGAGATTAGATTTTTT
1 ATTTTAGGGTTTAAG-GTTTAGGGTTTTG
* *
18488121 ATTTTAGGGTTTAAAGGGTTTAAGCTTTT-
1 ATTTTAGGGTTT-AA-GGTTTAGGGTTTTG
* * *
18488150 AGTTTTATGGTTTGGAAGATTTAGGATTTTG
1 A-TTTTAGGGTTT--AAGGTTTAGGGTTTTG
*
18488181 ATTTTAGGGTTTAGGGGGTTTAGGGTTTTG
1 ATTTTAGGGTTTA--AGGTTTAGGGTTTTG
* * *
18488211 ATTTTAGGATTTAAAGGGTTTAGAGTTTAG
1 ATTTTAGGGTTT-AA-GGTTTAGGGTTTTG
* * *
18488241 -TTTTAAGGTTTGAAAGTTTAGAGTTTTG
1 ATTTTAGGGTTT-AAGGTTTAGGGTTTTG
* * *
18488269 ATTTTAGGATTTATAAGGTTTAAGGTTTCG
1 ATTTTAGG-GTT-TAAGGTTTAGGGTTTTG
* * * *
18488299 TTTTTTAGGGCTTTGAGGGTTTAGGG-ATTA
1 -ATTTTAGGG-TTT-AAGGTTTAGGGTTTTG
* * *
18488329 ATTTTAAGGTTTGAAGGTTTGGGGTTTTC
1 ATTTTAGGGTTT-AAGGTTTAGGGTTTTG
18488358 ATTTT
1 ATTTT
18488363 TTTTAATTTT
Statistics
Matches: 206, Mismatches: 46, Indels: 37
0.71 0.16 0.13
Matches are distributed among these distances:
27 1 0.00
28 47 0.23
29 32 0.16
30 102 0.50
31 24 0.12
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.48
Consensus pattern (28 bp):
ATTTTAGGGTTTAAGGTTTAGGGTTTTG
Found at i:18488100 original size:14 final size:14
Alignment explanation
Indices: 18488081--18488132 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
18488071 GTTTGAAAAG
18488081 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
18488095 TTTAGGGTTTAGAG
1 TTTAGGGTTTTGAT
* ** *
18488109 ATTAGATTTTTTAT
1 TTTAGGGTTTTGAT
18488123 TTTAGGGTTT
1 TTTAGGGTTT
18488133 AAAGGGTTTA
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:18488162 original size:88 final size:87
Alignment explanation
Indices: 18488064--18488281 Score: 269
Period size: 88 Copynumber: 2.5 Consensus size: 87
18488054 GGGTTTGAAA
* * *
18488064 TTTTAGGGTTTGAAAAGTTTAGGGTTTTGATTTTAGGGTTTA-GAGATTAGATTTTTTATTTTAG
1 TTTTAAGGTTTG-AAAGTTTAGGGTTTTGATTTTAGGGTTTAGGAGATTAGAGTTTTGATTTTAG
*
18488128 GGTTTAAAGGGTTTA-AGCTTTTAG
65 GATTTAAAGGGTTTAGAG--TTTAG
* * * * * *
18488152 TTTTATGGTTTGGAAGATTTAGGATTTTGATTTTAGGGTTTAGGGGGTTTAGGGTTTTGATTTTA
1 TTTTAAGGTTTGAAAG-TTTAGGGTTTTGATTTTAGGGTTTA-GGAGATTAGAGTTTTGATTTTA
18488217 GGATTTAAAGGGTTTAGAGTTTAG
64 GGATTTAAAGGGTTTAGAGTTTAG
* *
18488241 TTTTAAGGTTTGAAAGTTTAGAGTTTTGATTTTAGGATTTA
1 TTTTAAGGTTTGAAAGTTTAGGGTTTTGATTTTAGGGTTTA
18488282 TAAGGTTTAA
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
87 3 0.03
88 57 0.51
89 19 0.17
90 31 0.28
91 2 0.02
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (87 bp):
TTTTAAGGTTTGAAAGTTTAGGGTTTTGATTTTAGGGTTTAGGAGATTAGAGTTTTGATTTTAGG
ATTTAAAGGGTTTAGAGTTTAG
Found at i:18488216 original size:60 final size:58
Alignment explanation
Indices: 18488063--18488281 Score: 180
Period size: 58 Copynumber: 3.7 Consensus size: 58
18488053 AGGGTTTGAA
* *
18488063 ATTTTAGGGTTTGAAA-AGTTTAGGGTTTTGATTTTAGGGTTTAGAGATTAGATTTTTT
1 ATTTTAGGGTTT-AAAGGGTTTAGGGTTTTGATTTTAGGGTTTAGAGATTAGATTTTTG
* * * *
18488121 ATTTTAGGGTTTAAAGGGTTTAAGCTTTT-AGTTTTATGGTTTGGAAGATTTAGGA-TTTTG
1 ATTTTAGGGTTTAAAGGGTTTAGGGTTTTGA-TTTTAGGGTTTAG-AGA-TTA-GATTTTTG
** * * * * *
18488181 ATTTTAGGGTTTAGGGGGTTTAGGGTTTTGATTTTAGGATTTAAAGGGTTTAGAGTTTAG
1 ATTTTAGGGTTTAAAGGGTTTAGGGTTTTGATTTTAGGGTTT--AGAGATTAGATTTTTG
* * *
18488241 -TTTTAAGGTTTGAAA--GTTTAGAGTTTTGATTTTAGGATTTA
1 ATTTTAGGGTTT-AAAGGGTTTAGGGTTTTGATTTTAGGGTTTA
18488282 TAAGGTTTAA
Statistics
Matches: 131, Mismatches: 20, Indels: 22
0.76 0.12 0.13
Matches are distributed among these distances:
56 1 0.01
57 4 0.03
58 57 0.44
59 15 0.11
60 49 0.37
61 4 0.03
62 1 0.01
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (58 bp):
ATTTTAGGGTTTAAAGGGTTTAGGGTTTTGATTTTAGGGTTTAGAGATTAGATTTTTG
Done.