Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 61 of 250
Found at i:18861783 original size:5 final size:5
Alignment explanation
Indices: 18861773--18861829 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
18861763 CTCTTGCTTC
*
18861773 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
18861820 TCTTT TCTTT
1 TCTTT TCTTT
18861830 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:18861813 original size:15 final size:14
Alignment explanation
Indices: 18861773--18861829 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
18861763 CTCTTGCTTC
*
18861773 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
18861788 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
18861803 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
18861820 TCTTTTCTTT
1 TCTTTTCTTT
18861830 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:18861830 original size:21 final size:21
Alignment explanation
Indices: 18861773--18861840 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
18861763 CTCTTGCTTC
* *
18861773 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
18861794 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
18861815 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
18861835 CTCTTT
1 -TCTTT
18861841 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:18863993 original size:20 final size:20
Alignment explanation
Indices: 18863970--18864008 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18863960 CACAACCAAA
* *
18863970 TACCAAATTTTTAAAAATTT
1 TACCAAATTCTCAAAAATTT
18863990 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
18864009 ACGAAAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:18870026 original size:24 final size:24
Alignment explanation
Indices: 18869999--18870056 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
18869989 TTGGAGGCCT
18869999 AGCCTCTTTT-AATAACTGGGGCAA
1 AGCC-CTTTTGAATAACTGGGGCAA
*
18870023 AGCCCTTTTTGATTAACTGGGGCAA
1 AGCCC-TTTTGAATAACTGGGGCAA
18870048 AGCCCTTTT
1 AGCCCTTTT
18870057 CGGTAAACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 1 0.03
24 12 0.39
25 18 0.58
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (24 bp):
AGCCCTTTTGAATAACTGGGGCAA
Found at i:18870043 original size:25 final size:25
Alignment explanation
Indices: 18870011--18870081 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
18870001 CCTCTTTTAA
18870011 TAACTGGGGCAAAGCCCTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTTGAT
* *
18870036 TAACTGGGGCAAAGCCCTTTTCGGT
1 TAACTGGGGCAAAGCCCTTTTTGAT
* *
18870061 AAACT-GGGCAAAACCCTTTTT
1 TAACTGGGGCAAAGCCCTTTTT
18870082 TGCACTTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 14 0.34
25 27 0.66
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTTGAT
Found at i:18870154 original size:21 final size:21
Alignment explanation
Indices: 18870129--18870187 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
18870119 TATAATGAGT
*
18870129 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
18870150 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
18870171 ATATCATGT-CATATCAT
1 ATATCATGTGCATATCAT
18870188 GTATATCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:18870173 original size:10 final size:10
Alignment explanation
Indices: 18870129--18870195 Score: 82
Period size: 10 Copynumber: 6.6 Consensus size: 10
18870119 TATAATGAGT
18870129 ATATCATGTGC
1 ATATCATGT-C
* **
18870140 ATCTCATAAC
1 ATATCATGTC
18870150 ATATCATGTGC
1 ATATCATGT-C
18870161 ATATCATGTC
1 ATATCATGTC
18870171 ATATCATGTC
1 ATATCATGTC
18870181 ATATCATGT-
1 ATATCATGTC
18870190 ATATCA
1 ATATCA
18870196 AAATCTCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
9 6 0.12
10 27 0.55
11 16 0.33
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.37
Consensus pattern (10 bp):
ATATCATGTC
Found at i:18870684 original size:30 final size:31
Alignment explanation
Indices: 18870650--18870746 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
18870640 AGCTCACTCC
*
18870650 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
18870680 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
18870710 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
18870740 TAGCTCA
1 TAGCTCA
18870747 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:18872479 original size:12 final size:12
Alignment explanation
Indices: 18872462--18872517 Score: 71
Period size: 13 Copynumber: 4.6 Consensus size: 12
18872452 TATACAAGTC
18872462 AAAAAAATTCGAA
1 AAAAAAATTCG-A
18872475 AAAAAAATTC-A
1 AAAAAAATTCGA
18872486 AAAAAATATTCGA
1 AAAAAA-ATTCGA
18872499 AAAAAAA-TCTGA
1 AAAAAAATTC-GA
18872511 AAAAAAA
1 AAAAAAA
18872518 AGTGTTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.22
12 14 0.35
13 17 0.43
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAAAAATTCGA
Found at i:18872480 original size:13 final size:13
Alignment explanation
Indices: 18872462--18872518 Score: 75
Period size: 12 Copynumber: 4.5 Consensus size: 13
18872452 TATACAAGTC
18872462 AAAAAAATTCGAA
1 AAAAAAATTCGAA
18872475 AAAAAAATTC-AA
1 AAAAAAATTCGAA
*
18872487 AAAAATATTCG-A
1 AAAAAAATTCGAA
18872499 AAAAAAA-TCTGAA
1 AAAAAAATTC-GAA
18872512 AAAAAAA
1 AAAAAAA
18872519 GTGTTTAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
11 2 0.05
12 19 0.49
13 18 0.46
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (13 bp):
AAAAAAATTCGAA
Found at i:18874684 original size:13 final size:13
Alignment explanation
Indices: 18874657--18874689 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
18874647 ATTGTAGATT
18874657 AAAAAAAATTGAA
1 AAAAAAAATTGAA
18874670 AAAAACAAATT-AA
1 AAAAA-AAATTGAA
18874683 AAAAAAA
1 AAAAAAA
18874690 CAAATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 12 0.63
14 5 0.26
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAAAAAATTGAA
Found at i:18876986 original size:17 final size:18
Alignment explanation
Indices: 18876947--18876988 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
18876937 AAGAAGAAAA
18876947 ACAAAA-AGATGAGTGAT
1 ACAAAAGAGATGAGTGAT
*
18876964 AAAAAAGAGA-GAGTGAT
1 ACAAAAGAGATGAGTGAT
*
18876981 TCAAAAGA
1 ACAAAAGA
18876989 AAAAGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.24, T:0.14
Consensus pattern (18 bp):
ACAAAAGAGATGAGTGAT
Found at i:18881543 original size:30 final size:30
Alignment explanation
Indices: 18881509--18881605 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
18881499 AGCTCACTCC
18881509 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
18881539 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
18881569 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
18881599 TAGCTCA
1 TAGCTCA
18881606 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:18882535 original size:23 final size:21
Alignment explanation
Indices: 18882509--18882551 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18882499 TTATGAACTA
18882509 TTTTAATACATTAGTGTGAACAT
1 TTTTAAT-CATT-GTGTGAACAT
* *
18882532 TTTTTATTATTGTGTGAACA
1 TTTTAATCATTGTGTGAACA
18882552 CCTAGATGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 3 0.17
23 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (21 bp):
TTTTAATCATTGTGTGAACAT
Found at i:18883386 original size:9 final size:10
Alignment explanation
Indices: 18883379--18883435 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
18883369 AAGAGAAAAT
18883379 AAAGAAAAGA
1 AAAGAAAAGA
18883389 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
18883401 AAAGAAGA-A
1 AAAGAAAAGA
18883410 AAAGAAAATGA
1 AAAGAAAA-GA
18883421 AATA-AAAAGA
1 AA-AGAAAAGA
18883431 AAAGA
1 AAAGA
18883436 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:18883403 original size:6 final size:5
Alignment explanation
Indices: 18883379--18883435 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
18883369 AAGAGAAAAT
*
18883379 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
18883426 AAAGA AAAGA
1 AAAGA AAAGA
18883436 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:18883410 original size:15 final size:14
Alignment explanation
Indices: 18883379--18883435 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
18883369 AAGAGAAAAT
18883379 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
18883395 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
18883410 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
18883426 AAAGAAAAGA
1 AAAGAAAAGA
18883436 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:18883515 original size:11 final size:12
Alignment explanation
Indices: 18883483--18883513 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
18883473 TTGAGAGAAC
18883483 TTGAAAAAGCCT
1 TTGAAAAAGCCT
18883495 TTGAAAAAGCCT
1 TTGAAAAAGCCT
18883507 TTGAAAA
1 TTGAAAA
18883514 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:18883550 original size:30 final size:31
Alignment explanation
Indices: 18883516--18883597 Score: 78
Period size: 30 Copynumber: 2.7 Consensus size: 31
18883506 TTTGAAAAGC
* * *
18883516 AAAAAGAAAATTAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATCAAAAAGAAATATGAGAGTA
* * *
18883546 AAAAAGAGAA-CGAAAAGAAATTTGAGAGTA
1 AAAAAGAAAATCAAAAAGAAATATGAGAGTA
* *
18883576 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATCAAAAAGAAAT
18883598 TGAAACAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
29 8 0.20
30 23 0.57
31 9 0.22
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATCAAAAAGAAATATGAGAGTA
Found at i:18885739 original size:30 final size:31
Alignment explanation
Indices: 18885705--18885801 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
18885695 AGCTCACTCC
*
18885705 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
18885735 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
18885765 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
18885795 TAGCTCA
1 TAGCTCA
18885802 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:18886731 original size:22 final size:20
Alignment explanation
Indices: 18886699--18886747 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
18886689 GCCAAATTTA
18886699 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
18886722 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
18886742 TGAACA
1 TGAACA
18886748 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:18889378 original size:58 final size:58
Alignment explanation
Indices: 18889310--18889427 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
18889300 ACAGTCCTCC
18889310 CACGACTTCAAATTCTTTTGAATGATGGCCCAGAGCAAAGTAGATAGGACTCTATTGA
1 CACGACTTCAAATTCTTTTGAATGATGGCCCAGAGCAAAGTAGATAGGACTCTATTGA
18889368 CACGACTTCAAATTCTTTTGAATGATGGCCCAGAGCAAAGTAGATAGGACTCTATTGA
1 CACGACTTCAAATTCTTTTGAATGATGGCCCAGAGCAAAGTAGATAGGACTCTATTGA
18889426 CA
1 CA
18889428 ACTTCTGTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (58 bp):
CACGACTTCAAATTCTTTTGAATGATGGCCCAGAGCAAAGTAGATAGGACTCTATTGA
Found at i:18893945 original size:16 final size:18
Alignment explanation
Indices: 18893911--18893945 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18893901 TCACGAAGTA
18893911 ATATTTTTTTGTATATAT
1 ATATTTTTTTGTATATAT
*
18893929 ATATTTTTTTGTTTATA
1 ATATTTTTTTGTATATA
18893946 AACTACTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
ATATTTTTTTGTATATAT
Found at i:18894233 original size:14 final size:14
Alignment explanation
Indices: 18894197--18894224 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18894187 AAGGAATGGT
18894197 CGAAATGGTATGAA
1 CGAAATGGTATGAA
18894211 CGAAATGGTATGAA
1 CGAAATGGTATGAA
18894225 TGAATTGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (14 bp):
CGAAATGGTATGAA
Found at i:18912835 original size:19 final size:19
Alignment explanation
Indices: 18912813--18912888 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
18912803 TGAAAGACAA
18912813 AAAAAAGAGAAAAAGAAAG
1 AAAAAAGAGAAAAAGAAAG
* * *
18912832 AAAAAATAGCAAAAGAGAG
1 AAAAAAGAGAAAAAGAAAG
** *
18912851 TGAAAAGA-AAATGAGAAA-
1 AAAAAAGAGAAA-AAGAAAG
18912869 AGAAAAAGATGAAAAAGAAA
1 A-AAAAAGA-GAAAAAGAAA
18912889 AGGAAAGTGA
Statistics
Matches: 41, Mismatches: 12, Indels: 7
0.68 0.20 0.12
Matches are distributed among these distances:
18 2 0.05
19 31 0.76
20 5 0.12
21 3 0.07
ACGTcount: A:0.72, C:0.01, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAAAAGAGAAAAAGAAAG
Found at i:18912882 original size:14 final size:14
Alignment explanation
Indices: 18912851--18912889 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
18912841 CAAAAGAGAG
*
18912851 TGAAAAGAAAATGA
1 TGAAAAGAAAAAGA
18912865 -GAAAAGAAAAAGA
1 TGAAAAGAAAAAGA
18912878 TGAAAAAGAAAA
1 TG-AAAAGAAAA
18912890 GGAAAGTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 1 0.05
15 9 0.41
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.08
Consensus pattern (14 bp):
TGAAAAGAAAAAGA
Found at i:18914541 original size:30 final size:30
Alignment explanation
Indices: 18914446--18914542 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
18914436 AGCTCACTCC
* *
18914446 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
18914476 TAGCTCAAATTTAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
18914506 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
18914536 TAGCTCA
1 TAGCTCA
18914543 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.82
31 7 0.14
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:18921891 original size:40 final size:40
Alignment explanation
Indices: 18921831--18922013 Score: 303
Period size: 40 Copynumber: 4.6 Consensus size: 40
18921821 CAAGCTCAAT
* * * * *
18921831 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
18921871 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
18921911 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
18921951 TGCCTTCGGGTCTTAGCCCGTATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
18921991 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
18922014 GTATTCAAAT
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:18924814 original size:18 final size:19
Alignment explanation
Indices: 18924793--18924882 Score: 62
Period size: 19 Copynumber: 4.6 Consensus size: 19
18924783 AAAAGAGTGT
*
18924793 AAAAGTGAAAAATAA-AAA
1 AAAAGTGAAAAAGAAGAAA
*
18924811 AAAAGAG-AAAAGAAAGAAA
1 AAAAGTGAAAAAG-AAGAAA
18924830 AAATAG-GAAAAGAGAAGGAAA
1 AAA-AGTGAAAA-AGAA-GAAA
*
18924851 AAAAATGAGAAAAGAA-AAA
1 AAAAGTGA-AAAAGAAGAAA
*
18924870 GAAAGTGAGAAAA
1 AAAAGTGA-AAAA
18924883 TTAGTGTATT
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
17 4 0.07
18 8 0.14
19 21 0.36
20 8 0.14
21 15 0.25
22 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (19 bp):
AAAAGTGAAAAAGAAGAAA
Found at i:18924832 original size:21 final size:22
Alignment explanation
Indices: 18924806--18924867 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 22
18924796 AGTGAAAAAT
18924806 AAAAAAAAAGAGAAAAGAAA-G
1 AAAAAAAAAGAGAAAAGAAAGG
*
18924827 -AAAAAATAG-GAAAAGAGAAGG
1 AAAAAAAAAGAGAAAAGA-AAGG
*
18924848 AAAAAAAATGAGAAAAGAAA
1 AAAAAAAAAGAGAAAAGAAA
18924868 AAGAAAGTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 7 0.21
20 10 0.29
21 1 0.03
22 9 0.26
23 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (22 bp):
AAAAAAAAAGAGAAAAGAAAGG
Found at i:18930470 original size:20 final size:21
Alignment explanation
Indices: 18930445--18930487 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
18930435 GGATAAAATT
18930445 GAGCT-CAATGAGCTAGAATC
1 GAGCTCCAATGAGCTAGAATC
*
18930465 GAGCTCCATTGAGCTAGAATC
1 GAGCTCCAATGAGCTAGAATC
18930486 GA
1 GA
18930488 ACTACGTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (21 bp):
GAGCTCCAATGAGCTAGAATC
Found at i:18932620 original size:48 final size:48
Alignment explanation
Indices: 18932536--18932819 Score: 259
Period size: 48 Copynumber: 5.9 Consensus size: 48
18932526 ACATTTGGGT
* * * *
18932536 GATATGTGAACTAGTGTATGACCATGTCTGGGACATGGCGTCAGCCAC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC
* * * * ** *
18932584 GATATGAGAGCTAGTGTAAGACGATGTTTGGAACATGGCATCGGTGAT
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC
* * * *
18932632 GTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC
* * * *
18932680 -ATCATGAGAGCTAGTGTAAGAGCATGTCTGGGA-ATGGCAAC-GGCATT
1 GAT-ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-C
* * * * *
18932727 GAGACGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAACCTC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC
* * * * * *
18932775 AAAATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
18932820 AATTCACCCT
Statistics
Matches: 186, Mismatches: 45, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
46 3 0.02
47 35 0.19
48 147 0.79
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (48 bp):
GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC
Found at i:18932766 original size:95 final size:96
Alignment explanation
Indices: 18932546--18932814 Score: 296
Period size: 95 Copynumber: 2.8 Consensus size: 96
18932536 GATATGTGAA
* *
18932546 CTAGTGTATGACCATGTCTGGGACATGGCGTCAGCCACGATATGAGAGCTAGTGTAAGACGATGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCTAGTGTAAGACGATGT
* * * * *
18932611 TTGGAACATGGCATCGGTGATGTTGTGAGAG
66 CTGGAACATGGCAACGGTCATGTAGCGAGAG
* *
18932642 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATCATGAGAGCTAGTGTAAGA-GCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGAT-ATGAGAGCTAGTGTAAGACG-AT
*
18932705 GTCTGGGA-ATGGCAACGG-CAT-TGAGACGAGAG
64 GTCTGGAACATGGCAACGGTCATGT-AG-CGAGAG
* * * * * * * *
18932737 CTAGTGTAAGACCATGTCTAGGACATGGCATCAACCTCAAAATGTGAGCCAGTGTAAGACCATGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCTAGTGTAAGACGATGT
*
18932802 TTGGAACATGGCA
66 CTGGAACATGGCA
18932815 TCAGCAATTC
Statistics
Matches: 145, Mismatches: 21, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
93 1 0.01
94 3 0.02
95 74 0.51
96 67 0.46
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (96 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCTAGTGTAAGACGATGT
CTGGAACATGGCAACGGTCATGTAGCGAGAG
Found at i:18934337 original size:23 final size:23
Alignment explanation
Indices: 18934311--18934369 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
18934301 TCTACCTTCC
18934311 ATTTCCCCCCCATGTTTTTGAAT
1 ATTTCCCCCCCATGTTTTTGAAT
*** *
18934334 ATTTCCCCCATTTTTTTTTGAAT
1 ATTTCCCCCCCATGTTTTTGAAT
**
18934357 ATTTTTCCCCCAT
1 ATTTCCCCCCCAT
18934370 TTACTTTCCC
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.17, C:0.29, G:0.05, T:0.49
Consensus pattern (23 bp):
ATTTCCCCCCCATGTTTTTGAAT
Found at i:18934369 original size:25 final size:23
Alignment explanation
Indices: 18934325--18934371 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 23
18934315 CCCCCCCATG
18934325 TTTTTGAATATTTCCCCCATTTT
1 TTTTTGAATATTTCCCCCATTTT
18934348 TTTTTGAATATTTTTCCCCCATTT
1 TTTTTGAATA--TTTCCCCCATTT
18934372 ACTTTCCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.45
25 12 0.55
ACGTcount: A:0.17, C:0.21, G:0.04, T:0.57
Consensus pattern (23 bp):
TTTTTGAATATTTCCCCCATTTT
Found at i:18939755 original size:27 final size:26
Alignment explanation
Indices: 18939710--18939762 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
18939700 CCTCGCTGCA
*
18939710 TTCTGGTGGCCTCGCCACATATATCTG
1 TTCTGGTGACCTCGCCACA-ATATCTG
* *
18939737 TTCTGGTGACTTCGTCACAATATCTG
1 TTCTGGTGACCTCGCCACAATATCTG
18939763 GTAGCCTCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (26 bp):
TTCTGGTGACCTCGCCACAATATCTG
Found at i:18939778 original size:21 final size:21
Alignment explanation
Indices: 18939754--18939818 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
18939744 GACTTCGTCA
18939754 CAATATCTGGTAGCCTCGCTG
1 CAATATCTGGTAGCCTCGCTG
* * **
18939775 C-A-ATCTGGTGGCTTCGCCA
1 CAATATCTGGTAGCCTCGCTG
*
18939794 CAATATCTGGCAGCCTCGCTG
1 CAATATCTGGTAGCCTCGCTG
18939815 CAAT
1 CAAT
18939819 CTGGTGGCTT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 14 0.42
20 2 0.06
21 17 0.52
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (21 bp):
CAATATCTGGTAGCCTCGCTG
Found at i:18939796 original size:40 final size:40
Alignment explanation
Indices: 18939738--18939835 Score: 169
Period size: 40 Copynumber: 2.5 Consensus size: 40
18939728 ATATATCTGT
* * *
18939738 TCTGGTGACTTCGTCACAATATCTGGTAGCCTCGCTGCAA
1 TCTGGTGGCTTCGCCACAATATCTGGCAGCCTCGCTGCAA
18939778 TCTGGTGGCTTCGCCACAATATCTGGCAGCCTCGCTGCAA
1 TCTGGTGGCTTCGCCACAATATCTGGCAGCCTCGCTGCAA
18939818 TCTGGTGGCTTCGCCACA
1 TCTGGTGGCTTCGCCACA
18939836 TATACATATA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.17, C:0.31, G:0.24, T:0.28
Consensus pattern (40 bp):
TCTGGTGGCTTCGCCACAATATCTGGCAGCCTCGCTGCAA
Found at i:18939831 original size:19 final size:19
Alignment explanation
Indices: 18939758--18939823 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
18939748 TCGTCACAAT
18939758 ATCTGGTAGCCTCGCTGCA
1 ATCTGGTAGCCTCGCTGCA
* * **
18939777 ATCTGGTGGCTTCGCCACAA
1 ATCTGGTAGCCTCGCTGC-A
*
18939797 TATCTGGCAGCCTCGCTGCA
1 -ATCTGGTAGCCTCGCTGCA
18939817 ATCTGGT
1 ATCTGGT
18939824 GGCTTCGCCA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
19 20 0.57
20 2 0.06
21 13 0.37
ACGTcount: A:0.17, C:0.30, G:0.26, T:0.27
Consensus pattern (19 bp):
ATCTGGTAGCCTCGCTGCA
Found at i:18943622 original size:39 final size:40
Alignment explanation
Indices: 18943563--18943710 Score: 119
Period size: 39 Copynumber: 3.8 Consensus size: 40
18943553 TGGATGATAA
* *
18943563 CCGGACTAAGTCCCGAAGGCATCTGCGCTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
* * *
18943602 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
* * * *
18943642 CCGGGC---GTCCAGAAGGCAAT-TGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGC-ATCTGCGCGAGTGACT-AAAT
* * * *
18943679 CCGGGCTATGTCCCAAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGT
18943711 AGTTATATCC
Statistics
Matches: 92, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
37 29 0.32
38 4 0.04
39 33 0.36
40 26 0.28
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
Found at i:18943709 original size:40 final size:40
Alignment explanation
Indices: 18943597--18943710 Score: 130
Period size: 37 Copynumber: 2.9 Consensus size: 40
18943587 GCGCTAGTGA
*
18943597 CTAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CTAATCCGGGCT-AGTCCCAAAGGCATTTGTGCGAGTTACT
* *
18943638 -AAATCCGGGC--GT-CCAGAAGGCAATTGTGCGAGTTACT
1 CTAATCCGGGCTAGTCCCA-AAGGCATTTGTGCGAGTTACT
*
18943675 CTAA-CCGGGCTATGTCCCAAAGGCATTTGAGCGAGT
1 CTAATCCGGGCTA-GTCCCAAAGGCATTTGTGCGAGT
18943711 AGTTATATCC
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
36 2 0.03
37 28 0.46
38 2 0.03
40 26 0.43
41 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CTAATCCGGGCTAGTCCCAAAGGCATTTGTGCGAGTTACT
Found at i:18952429 original size:27 final size:26
Alignment explanation
Indices: 18952391--18952448 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
18952381 GGGATGTTAC
*
18952391 ATCTGTTCTGGTGGCTTAGCCACAAT
1 ATCTGTTCTGGTGACTTAGCCACAAT
* *
18952417 ATCTGTATCTGGTGACTTCGTCACAAT
1 ATCTGT-TCTGGTGACTTAGCCACAAT
18952444 ATCTG
1 ATCTG
18952449 GTAGCCTCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (26 bp):
ATCTGTTCTGGTGACTTAGCCACAAT
Found at i:18955073 original size:19 final size:19
Alignment explanation
Indices: 18955049--18955088 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18955039 AGCTCCCATA
18955049 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
18955068 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
18955087 TA
1 TA
18955089 TTAGCTCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:18956791 original size:13 final size:12
Alignment explanation
Indices: 18956759--18956790 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
18956749 TATACAAGTT
18956759 AAAAAAAATTCG
1 AAAAAAAATTCG
18956771 AAAAAAAATTCG
1 AAAAAAAATTCG
18956783 AAAAAAAA
1 AAAAAAAA
18956791 AGTGATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.12
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:18962015 original size:19 final size:19
Alignment explanation
Indices: 18961991--18962030 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18961981 AGCTCCCATG
18961991 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
18962010 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
18962029 TA
1 TA
18962031 TTAGCTCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:18965005 original size:46 final size:45
Alignment explanation
Indices: 18964955--18965128 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
18964945 TGGTTGAGCA
18964955 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
18965001 TCCGAACTCGTTGAGTTGAGT--GAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
18965046 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
18965092 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18965129 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 9 0.08
45 25 0.23
46 62 0.58
47 9 0.08
48 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:18968063 original size:15 final size:15
Alignment explanation
Indices: 18968043--18968106 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
18968033 GTATCTTGGG
18968043 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
18968058 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
18968073 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
18968088 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
18968101 TTTCTT
1 TTTCTT
18968107 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:18976717 original size:27 final size:26
Alignment explanation
Indices: 18976673--18976724 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
18976663 CTCGCTGCAA
*
18976673 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
18976700 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
18976725 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:18977981 original size:24 final size:23
Alignment explanation
Indices: 18977941--18977997 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
18977931 TTTTCTTTTC
18977941 TTTT-TTTTTCAATTTTTTGTCT
1 TTTTCTTTTTCAATTTTTTGTCT
* *
18977963 TTTTCTTTTTCACTCTTTTTTTCT
1 TTTTCTTTTTCAAT-TTTTTGTCT
* *
18977987 TGTACTTTTTC
1 TTTTCTTTTTC
18977998 TTTCAATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 4 0.14
23 8 0.28
24 17 0.59
ACGTcount: A:0.07, C:0.16, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTTCTTTTTCAATTTTTTGTCT
Found at i:18983554 original size:76 final size:76
Alignment explanation
Indices: 18983428--18983580 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
18983418 TAAATCCACA
18983428 ATAAGTGATAAATTTTGGACTAGGCTATGTAGGTCACGTAGCCATAGCTAAATTTGGGCTAAGTG
1 ATAAGTGATAAATTTTGGACTAGGCTATGTAGGTCACGTAGCCATAGCTAAATTTGGGCTAAGTG
18983493 GGCCACACGAG
66 GGCCACACGAG
18983504 ATAAGTGATAAATTTTGGACTAGGCTATGTAGGTCACGTAGCCATAGCTAAATTTGGGCTAAGTG
1 ATAAGTGATAAATTTTGGACTAGGCTATGTAGGTCACGTAGCCATAGCTAAATTTGGGCTAAGTG
*
18983569 GGCCACATGAG
66 GGCCACACGAG
18983580 A
1 A
18983581 GTGTGGGCCC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (76 bp):
ATAAGTGATAAATTTTGGACTAGGCTATGTAGGTCACGTAGCCATAGCTAAATTTGGGCTAAGTG
GGCCACACGAG
Found at i:18983556 original size:40 final size:40
Alignment explanation
Indices: 18983436--18983558 Score: 102
Period size: 40 Copynumber: 3.2 Consensus size: 40
18983426 CAATAAGTGA
18983436 TAAATTTTGGACTAGGCTATGTAGGTCACGTAGCCATAGC
1 TAAATTTTGGACTAGGCTATGTAGGTCACGTAGCCATAGC
* * * *
18983476 TAAA-TTT-G----GGCTAAGTGGGCCACACG-AG--ATAAGTGA
1 TAAATTTTGGACTAGGCTATGTAGG--TCACGTAGCCAT-A--GC
18983512 TAAATTTTGGACTAGGCTATGTAGGTCACGTAGCCATAGC
1 TAAATTTTGGACTAGGCTATGTAGGTCACGTAGCCATAGC
18983552 TAAATTT
1 TAAATTT
18983559 GGGCTAAGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 28
0.63 0.08 0.29
Matches are distributed among these distances:
33 2 0.03
34 10 0.16
35 2 0.03
36 9 0.15
37 3 0.05
38 2 0.03
39 3 0.05
40 16 0.26
41 2 0.03
42 10 0.16
43 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (40 bp):
TAAATTTTGGACTAGGCTATGTAGGTCACGTAGCCATAGC
Found at i:18984020 original size:23 final size:23
Alignment explanation
Indices: 18983972--18984024 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
18983962 ACGTTTGCCG
** *
18983972 CTATTAGCAGCTTTGTTGCGTCA
1 CTATTAGCAGCTTTACTACGTCA
*
18983995 CTATTAGCAGCTTTACTACGTTA
1 CTATTAGCAGCTTTACTACGTCA
18984018 CTATTAG
1 CTATTAG
18984025 AAACTATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (23 bp):
CTATTAGCAGCTTTACTACGTCA
Found at i:18985250 original size:27 final size:27
Alignment explanation
Indices: 18985220--18985299 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
18985210 ACAAAGGAAA
*
18985220 CAGTAAATGTGGCAAAGCCACCAGTAT
1 CAGTAAATGTGGCATAGCCACCAGTAT
*
18985247 CAGTAATTGTGGCATAGCCACCAGTAAT
1 CAGTAAATGTGGCATAGCCACCAGT-AT
* * *
18985275 -AGTGAATGTGACATAGTCACCAGTA
1 CAGTAAATGTGGCATAGCCACCAGTA
18985300 CAATACTTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.02
27 43 0.93
28 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (27 bp):
CAGTAAATGTGGCATAGCCACCAGTAT
Found at i:18985457 original size:27 final size:27
Alignment explanation
Indices: 18985427--18985487 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
18985417 TACGAAACAT
18985427 AAGGGTATAATC-GTCATTTTACCATAC
1 AAGGGTATAA-CGGTCATTTTACCATAC
* *
18985454 AAGGGTATTACGGTCATTTTACCCTAC
1 AAGGGTATAACGGTCATTTTACCATAC
18985481 AAGGGTA
1 AAGGGTA
18985488 GTATAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (27 bp):
AAGGGTATAACGGTCATTTTACCATAC
Found at i:18985499 original size:27 final size:27
Alignment explanation
Indices: 18985439--18985503 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
18985429 GGGTATAATC
* *
18985439 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTAGTACA
* *
18985466 GTCATTTTACCCTACAAGGGTAGTATA
1 GTCATTTTACCATACAAGGGTAGTACA
*
18985493 GTTATTTTACC
1 GTCATTTTACC
18985504 TATTTTAAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTAGTACA
Found at i:18986752 original size:12 final size:12
Alignment explanation
Indices: 18986735--18986760 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18986725 GGGAATTATG
18986735 GAGAAGAGAAAA
1 GAGAAGAGAAAA
18986747 GAGAAGAGAAAA
1 GAGAAGAGAAAA
18986759 GA
1 GA
18986761 AAAACTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
GAGAAGAGAAAA
Found at i:18988723 original size:11 final size:11
Alignment explanation
Indices: 18988707--18988732 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18988697 AGAAGAAAAA
18988707 GAAAATGATGG
1 GAAAATGATGG
18988718 GAAAATGATGG
1 GAAAATGATGG
18988729 GAAA
1 GAAA
18988733 GGAAGTGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (11 bp):
GAAAATGATGG
Found at i:18993636 original size:29 final size:29
Alignment explanation
Indices: 18993603--18993704 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 29
18993593 TGAATATGAC
* *
18993603 TGGGCTTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
18993632 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
18993661 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
18993689 AGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
18993705 GATACAGATA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 15 0.24
29 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:18993676 original size:58 final size:57
Alignment explanation
Indices: 18993603--18993711 Score: 146
Period size: 58 Copynumber: 1.9 Consensus size: 57
18993593 TGAATATGAC
* * * *
18993603 TGGGCTTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TAGGGCCTAATGGGCCAGATACAGGTGATT
* * *
18993661 TGGGCCTAATGGGCCATATGAATATGATAGGGCTTAATGGGCCAGATACAG
1 TGGGCCTAACGGGCCATATAAATATGATAGGGCCTAATGGGCCAGATACAG
18993712 ATATGTGAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.48
58 23 0.52
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATAGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:18993702 original size:28 final size:29
Alignment explanation
Indices: 18993590--18993704 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
18993580 GTGAGTATGA
* * *
18993590 ATATGAATATGA-CTGGGCTTAACGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* *
18993618 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
**
18993647 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATATGATTTGGGCCTAATGGGCC
* *
18993676 ATATGAATATGA-TAGGGCTTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
18993704 A
1 A
18993705 GATACAGATA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 26 0.35
29 47 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATATGATTTGGGCCTAATGGGCC
Found at i:18995011 original size:27 final size:27
Alignment explanation
Indices: 18994981--18995036 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
18994971 CACACACACC
18994981 CAGAACACTTAACCACTTAAGCAGATA
1 CAGAACACTTAACCACTTAAGCAGATA
18995008 CAGAACACTTAACCACTTAAGCAGATA
1 CAGAACACTTAACCACTTAAGCAGATA
18995035 CA
1 CA
18995037 CACTTGTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.18
Consensus pattern (27 bp):
CAGAACACTTAACCACTTAAGCAGATA
Found at i:18996887 original size:43 final size:43
Alignment explanation
Indices: 18996812--18996935 Score: 178
Period size: 43 Copynumber: 2.9 Consensus size: 43
18996802 TCTGAACTCA
* **
18996812 TTCATCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCATCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
18996854 TTCATCGGCATTATAGCCTACTAGGCCCGAAGCCCGATATTAT
1 TTCATCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
18996897 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TTCATCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
18996936 ATATTATTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 12 0.16
43 61 0.84
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (43 bp):
TTCATCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:18996975 original size:43 final size:46
Alignment explanation
Indices: 18996861--18996976 Score: 136
Period size: 43 Copynumber: 2.7 Consensus size: 46
18996851 CATTTCATCG
* * *
18996861 GCATTATAGCCTACTAGGCCCGAAGCCCG---ATATTATCTCACCG
1 GCATTAAAGCCTGCTAGGCCCGAAGCCCGATAATATTATCTCACCA
*
18996904 GCATTATAGCCTGCTAGGCCCGAAGCCCGATAATATTAT-TCACCA
1 GCATTAAAGCCTGCTAGGCCCGAAGCCCGATAATATTATCTCACCA
* *
18996949 GC-TTAAAGCTTGCTAGG-CCGAGGCCCGA
1 GCATTAAAGCCTGCTAGGCCCGAAGCCCGA
18996977 ATATCACCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
43 38 0.58
44 13 0.20
45 7 0.11
46 7 0.11
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (46 bp):
GCATTAAAGCCTGCTAGGCCCGAAGCCCGATAATATTATCTCACCA
Found at i:19002371 original size:19 final size:19
Alignment explanation
Indices: 19002330--19002373 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
19002320 TCTTTCTTTT
**
19002330 TGCATTCATTTCATGCATT
1 TGCATTCATTTCATGCACA
19002349 TGCATTGCATTTCAT-CACA
1 TGCATT-CATTTCATGCACA
19002368 TGCATT
1 TGCATT
19002374 AGATTTTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (19 bp):
TGCATTCATTTCATGCACA
Found at i:19005253 original size:27 final size:26
Alignment explanation
Indices: 19005195--19005369 Score: 156
Period size: 27 Copynumber: 6.5 Consensus size: 26
19005185 AAATTGTACA
*
19005195 GCACTAAGTGTGAG-ATTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATG-T
* *
19005221 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATG-T
*
19005248 GCACTAAGTGTGCGAATTGACCATCG-
1 GCACTAAGTGTGCGAATTGACTAT-GT
*
19005274 GCACTAAGTGTGCGAGTTTGACTATGT
1 GCACTAAGTGTGCGA-ATTGACTATGT
* * * *
19005301 AGCACTAAGTGTGCGATTTTATTACGT
1 -GCACTAAGTGTGCGAATTGACTATGT
* * *
19005328 AGCACTAAGTGTGCGAGTTGATTATAT
1 -GCACTAAGTGTGCGAATTGACTATGT
*
19005355 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
19005370 GACTCAATAT
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
26 29 0.23
27 82 0.65
28 16 0.13
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTGACTATGT
Found at i:19005311 original size:54 final size:54
Alignment explanation
Indices: 19005194--19005369 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 54
19005184 TAAATTGTAC
* **
19005194 AGCACTAAGTGTGAG-ATTGACTAT-GTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATCG-TGCACTAAGTGTGCGAGTTGAATATGT
* *
19005246 ATGCACTAAGTGTGCGAATTGACCATCG-GCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGAATTGACTATCGTGCACTAAGTGTGCGAG-TTGAATATGT
* * * * *
19005301 AGCACTAAGTGTGCGATTTTATTA-CGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATCGT-GCACTAAGTGTGCGAGTTGAATATGT
*
19005355 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19005370 GACTCAATAT
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
52 1 0.01
53 30 0.29
54 56 0.53
55 18 0.17
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATCGTGCACTAAGTGTGCGAGTTGAATATGT
Found at i:19005333 original size:81 final size:79
Alignment explanation
Indices: 19005195--19005348 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 79
19005185 AAATTGTACA
* *
19005195 GCACTAAGTGTGAGATTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTG
1 GCACTAAGTGTGAGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTG
19005260 CGAATTGACCATCG
66 CGAATTGACCATCG
* ** * *
19005274 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TAGCACTAAGT
1 GCACTAAGTGT--GAGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
19005338 GTGCGAGTTGA
63 GTGCGAATTGA
19005349 TTATATAGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 11 0.17
80 1 0.02
81 52 0.81
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (79 bp):
GCACTAAGTGTGAGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTG
CGAATTGACCATCG
Found at i:19011518 original size:27 final size:27
Alignment explanation
Indices: 19011484--19011661 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
19011474 TAAATTGTAC
19011484 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19011511 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19011537 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
19011565 GGCATTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
19011593 AGCACTAAGTGTGCGATTTTATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19011620 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19011647 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19011662 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 103 0.82
28 22 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19011625 original size:82 final size:81
Alignment explanation
Indices: 19011489--19011640 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 81
19011479 TGTACAGCAC
* *
19011489 TAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGA
1 TAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGA
19011554 ATTGACCATGCGGCAT
66 ATTGACCATGCGGCAT
** * *
19011570 TAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TAGCACTAAGTGTGC
1 TAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTGTGC
*
19011634 GAGTTGA
64 GAATTGA
19011641 TTATATAGCA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 12 0.19
82 50 0.81
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (81 bp):
TAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGA
ATTGACCATGCGGCAT
Found at i:19011658 original size:82 final size:81
Alignment explanation
Indices: 19011481--19011661 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
19011471 GAGTAAATTG
* *
19011481 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19011546 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** * *
19011562 TGCGGCATTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19011626 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19011644 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19011662 GACTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19014607 original size:17 final size:17
Alignment explanation
Indices: 19014585--19014617 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19014575 TCAAACTCCC
19014585 AAAAAAAATAAAAAAGA
1 AAAAAAAATAAAAAAGA
*
19014602 AAAAAAAATAAGAAAG
1 AAAAAAAATAAAAAAG
19014618 GATCATGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (17 bp):
AAAAAAAATAAAAAAGA
Found at i:19016726 original size:44 final size:44
Alignment explanation
Indices: 19016594--19016733 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 44
19016584 CTTATCTCCC
* * *
19016594 TAAGCAGTA-TGGAGCAGATCAAAGACAGTAAGCCTTAACCCCC
1 TAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGACTTAACCCCT
* * * * * * *
19016637 TAAGCAGTAG-GCTAACAG-GCTG--GAAATTACAGATCTTATCTCCT
1 TAAGCAGTAGTG-GAGCAGATC-GAAGACAGTA-AGA-CTTAACCCCT
19016681 TAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGACTTAACCCCT
1 TAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGACTTAACCCCT
19016725 TAAGCAGTA
1 TAAGCAGTA
19016734 AGGTAATAGG
Statistics
Matches: 71, Mismatches: 17, Indels: 17
0.68 0.16 0.16
Matches are distributed among these distances:
42 5 0.07
43 13 0.18
44 43 0.61
45 5 0.07
46 5 0.07
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (44 bp):
TAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGACTTAACCCCT
Found at i:19016745 original size:88 final size:88
Alignment explanation
Indices: 19016527--19017091 Score: 803
Period size: 88 Copynumber: 6.5 Consensus size: 88
19016517 CATGTCCCTA
* * * * *
19016527 GAAGACGGTGAGCTTTAACCTCCTAAGCAGTAGGGTAACAGGCTTGAAATTACAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
19016592 CCTAAGCAGTA-TGGAGCAGATC
66 CCTAAGCAGTAGTGGAGCAGATC
* *
19016614 AAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGCTAACAGGCTGGAAATTACAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
*
19016679 CTTAAGCAGTAGTGGAGCAGATC
66 CCTAAGCAGTAGTGGAGCAGATC
* * * * *
19016702 GAAGACAGTAAGACTTAACCCCTTAAGCAGTAAGGTAATAGGCTGGAAATTACAAATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
19016767 CCTAAGCAGTAGTGGAGCAGATC
66 CCTAAGCAGTAGTGGAGCAGATC
* * * *
19016790 GAAGACGGTAAGCCTGAA-CCCCTAAGAAGTAGGGTAACAGGCTGGAAATTACATATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
* *
19016854 CCTAAACAGTAGTGGAGCAGATT
66 CCTAAGCAGTAGTGGAGCAGATC
* * *
19016877 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAGAAATTACAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
* *
19016942 CCTAAGAAGTAGTGGAGTAGATC
66 CCTAAGCAGTAGTGGAGCAGATC
* * * * ** *
19016965 GAAGACGGTAAGACTTAACCCCCTAAGCAGTCGGGTAATAGGCTAAAAATTACAGATCTTATCAC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
* *
19017030 CCTAAGCAGTAGGGGAGCGGA-C
66 CCTAAGCAGTAGTGGAGCAGATC
*
19017052 GAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACA
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACA
19017092 AGTTGAAGAT
Statistics
Matches: 426, Mismatches: 50, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 183 0.43
88 243 0.57
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (88 bp):
GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
CCTAAGCAGTAGTGGAGCAGATC
Found at i:19016841 original size:175 final size:176
Alignment explanation
Indices: 19016527--19017089 Score: 817
Period size: 175 Copynumber: 3.2 Consensus size: 176
19016517 CATGTCCCTA
* * * * * *
19016527 GAAGACGGTGAGCTTTAACCTCCTAAGCAGTAGGGTAACAGGCTTGAAATTACAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAGAAATTACAGATCTTATCTC
* * *
19016592 CCTAAGCAGTA-TGGAGCAGATCAAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGCTAACAGG
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
*
19016656 CTGGAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATC
131 CTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * * *
19016702 GAAGACAGTAAGACTTAACCCCTTAAGCAGTAAGGTAATAGGCTGGAAATTACAAATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAGAAATTACAGATCTTATCTC
* *
19016767 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTGAA-CCCCTAAGAAGTAGGGTAACAGG
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
* * *
19016831 CTGGAAATTACATATCTTATCTCCCTAAACAGTAGTGGAGCAGATT
131 CTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
19016877 GAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAGAAATTACAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAGAAATTACAGATCTTATCTC
* * * * *
19016942 CCTAAGAAGTAGTGGAGTAGATCGAAGACGGTAAGACTTAACCCCCTAAGCAGTCGGGTAATAGG
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
** * * *
19017007 CTAAAAATTACAGATCTTATCACCCTAAGCAGTAGGGGAGCGGA-C
131 CTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
19017052 GAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAA
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAA
19017090 CAAGTTGAAG
Statistics
Matches: 344, Mismatches: 42, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
175 261 0.76
176 83 0.24
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (176 bp):
GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAGAAATTACAGATCTTATCTC
CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
CTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:19016994 original size:263 final size:261
Alignment explanation
Indices: 19016527--19017091 Score: 860
Period size: 263 Copynumber: 2.1 Consensus size: 261
19016517 CATGTCCCTA
* * *
19016527 GAAGACGGTGAGCTTTAACCTCCTAAGCAGTAGGGTAACAGGCTTGAAATTACAGATCTTATCTC
1 GAAGACGGTAAGCCTTAACC-CCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
* *
19016592 CCTAAGCAGTATGGAGCAGATCAAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGCTAACAGGC
65 CCTAAACAGTATGGAGCAGATCAAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGCTAACAGGC
* * *
19016657 TGGAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACAGTAAGACTTAACC
130 TAGAAATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACAGTAAGACTTAACC
* ** * *
19016722 CCTTAAGCAGTAAGGTAATAGGCTGGAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAG
195 CCCTAAGCAGTAAGGTAATAGGCTAAAAATTACAAATCTTATCACCCTAAGCAGTAGGGGAGCAG
19016787 ATC
260 A-C
* * *
19016790 GAAGACGGTAAGCCTGAACCCCTAAGAAGTAGGGTAACAGGCTGGAAATTACATATCTTATCTCC
1 GAAGACGGTAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCC
** * *
19016855 CTAAACAGTAGTGGAGCAGATTGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGC
66 CTAAACAGTA-TGGAGCAGATCAAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGCTAACAGGC
* *
19016920 TAGAAATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGGTAAGACTTAACC
130 TAGAAATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACAGTAAGACTTAACC
** * *
19016985 CCCTAAGCAGTCGGGTAATAGGCTAAAAATTACAGATCTTATCACCCTAAGCAGTAGGGGAGCGG
195 CCCTAAGCAGTAAGGTAATAGGCTAAAAATTACAAATCTTATCACCCTAAGCAGTAGGGGAGCAG
19017050 AC
260 AC
19017052 GAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACA
1 GAAGACGGTAAGCCTTAA-CCCCTAAGCAGTAGGGTAACA
19017092 AGTTGAAGAT
Statistics
Matches: 272, Mismatches: 28, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
262 69 0.25
263 203 0.75
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (261 bp):
GAAGACGGTAAGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCC
CTAAACAGTATGGAGCAGATCAAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGCTAACAGGCT
AGAAATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACAGTAAGACTTAACCC
CCTAAGCAGTAAGGTAATAGGCTAAAAATTACAAATCTTATCACCCTAAGCAGTAGGGGAGCAGA
C
Found at i:19017256 original size:45 final size:44
Alignment explanation
Indices: 19017113--19017634 Score: 294
Period size: 44 Copynumber: 11.5 Consensus size: 44
19017103 AAAACAAACT
* * *
19017113 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAATC
* * * * *
19017157 TTATCTCCTTGAAGTTGTAGTGAAGTAGGTTGAA-ATTACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGA-TACAAATC
* *
19017201 TTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-CAAATC
** *
19017246 TTATCTCCCTGAAGTTGCAGTGGAACATATTGAAGCTATAAATCACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG--AT--A-CA-A-ATC
* * * *
19017297 TTATTTCTCTGAAGTTGCAGTAGAGTAGA-TCAA-A-ACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAATC
* * **
19017338 CTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG--AT--A-CA-A-ATC
* * * * *
19017389 TTATCTCTCTGAAGTTGTAGTAGAGCAGA-TCAA-A-ACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAATC
* **
19017430 TTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG--AT--A-CA-A-ATC
* ** * * *
19017481 TTATC-CCTCTAAAGTTGCAGCAGAGCAGA-TCAA-A-ACAAACC
1 TTATCTCC-CTGAAGTTGCAGTGGAGTAGATTGAAGATACAAATC
* * * *
19017522 TTATCTCCCTGAAGTTGCAGTGGAGAAGGTTGAAG-TCACTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGAT-ACAAATC
* ** * * *
19017566 TTATCTCCTTGAAGTTATAGTGGAGCAGACTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-CAAATC
* **
19017611 TTATTTATCTGAAGTTGCAGTGGA
1 TTATCTCCCTGAAGTTGCAGTGGA
19017635 ACATATTGAA
Statistics
Matches: 364, Mismatches: 77, Indels: 73
0.71 0.15 0.14
Matches are distributed among these distances:
41 77 0.21
42 14 0.04
43 7 0.02
44 101 0.28
45 61 0.17
47 5 0.01
48 2 0.01
49 7 0.02
50 14 0.04
51 76 0.21
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAATC
Found at i:19017355 original size:41 final size:41
Alignment explanation
Indices: 19017294--19017450 Score: 143
Period size: 41 Copynumber: 3.6 Consensus size: 41
19017284 TAAATCACAG
*
19017294 ATCTTATTTCTCTGAAGTTGCAGTAGAGTAGATCAAAACAA
1 ATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATCAAAACAA
* * * *
19017335 ATCCTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACA
1 ATCTTATTTCCCTGAAGTTGCAGT---AGAG-TAG-ATC-A-AAA-CA-A
* * * *
19017385 GATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCAAAACAA
1 -ATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATCAAAACAA
19017427 ATCTTATTTCCCTGAAGTTGCAGT
1 ATCTTATTTCCCTGAAGTTGCAGT
19017451 GGAACAGATT
Statistics
Matches: 90, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
41 43 0.48
42 1 0.01
43 2 0.02
44 6 0.07
45 3 0.03
46 4 0.04
47 2 0.02
48 6 0.07
49 2 0.02
50 1 0.01
51 20 0.22
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (41 bp):
ATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATCAAAACAA
Found at i:19017361 original size:92 final size:92
Alignment explanation
Indices: 19017199--19017707 Score: 579
Period size: 92 Copynumber: 5.5 Consensus size: 92
19017189 AAATTACAAG
* ** * * *
19017199 TCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCAA-A-A-CAAATCTTATTTCCCTGAAGTTGC
*
19017264 AGTGGAACATATTGAAGCTATAAATCACAGA
62 AGTGGAACAGATTGAAGCTATAAATCACAGA
* * *
19017295 TCTTATTTCTCTGAAGTTGCAGTAGAGTAGATCAAAACAAATCCTATTTCCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTG
19017360 GAACAGATTGAAGCTATAAATCACAGA
66 GAACAGATTGAAGCTATAAATCACAGA
*
19017387 TCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTG
19017452 GAACAGATTGAAGCTATAAATCACAGA
66 GAACAGATTGAAGCTATAAATCACAGA
* * * * *
19017479 TCTTATCCCTCTAAAGTTGCAGCAGAGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTG
*
19017544 GAGA-AGGTTGAAG-------TCACTAG-
66 GA-ACAGATTGAAGCTATAAATCAC-AGA
** * * * **
19017564 TCTTATCTC-CTTGAAGTTATAGTGGAGCAGACTGAAGATAGCGAATCTTATTTATCTGAAGTTG
1 TCTTATCTCTC-TGAAGTTGCAGTAGAGCAGA-TCAA-A-A-CAAATCTTATTTCCCTGAAGTTG
* *
19017628 CAGTGGAACATATTGAAGCTATAAATAAACAGA
61 CAGTGGAACAGATTGAAGCTATAAAT-CACAGA
* * *
19017661 TCTTATCTTTCTGAAGTTGCAGTAGAGTAGATCAAAACAAACCTTAT
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTAT
19017708 CTCTCTCAAG
Statistics
Matches: 353, Mismatches: 42, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
84 1 0.00
85 27 0.08
86 5 0.01
87 1 0.00
88 2 0.01
89 32 0.09
92 209 0.59
93 10 0.03
94 2 0.01
95 4 0.01
96 33 0.09
97 26 0.07
98 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (92 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTG
GAACAGATTGAAGCTATAAATCACAGA
Found at i:19017430 original size:184 final size:181
Alignment explanation
Indices: 19017121--19017720 Score: 669
Period size: 184 Copynumber: 3.3 Consensus size: 181
19017111 CTTTATCTCC
* * * * * * * *
19017121 CTGAAGTTGCAGTGGAGCAGATTGAAGAAACAAACCTTATCTCCTTGAAGTTGTAGTGAAGTAGG
1 CTGAAGTTGCAGTAGAGTAGA-T-CA-AAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGAAGA
* * * * ** ** * * *
19017186 TTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGCAAATCTTATC
63 TTGAAGTCACTAGTCTTATCTCCTTGAAGTTATAGTAGAGCAGACTCAAGATAGCAAATCTTATT
19017251 TCCCTGAAGTTGCAGTGGAACATATTGAAGCTATAAATCACAGATCTTATTTCT
128 TCCCTGAAGTTGCAGTGGAACATATTGAAGCTATAAATCACAGATCTTATTTCT
*
19017305 CTGAAGTTGCAGTAGAGTAGATCAAAACAAATCC-TATTTCCCTGAAGTTGCAGTGGA-ACAGAT
1 CTGAAGTTGCAGTAGAGTAGATCAAAACAAA-CCTTATCTCCCTGAAGTTGCAGTGGAGA-AGAT
*
19017368 TGAAGCTATAAATCAC-AGATCTTATCT-CTCTGAAGTTGTAGTAGAGCAGA-TCAA-A-A-CAA
64 TGAAG-------TCACTAG-TCTTATCTCCT-TGAAGTTATAGTAGAGCAGACTCAAGATAGCAA
* **
19017427 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACAGATCTTATCCCT
120 ATCTTATTTCCCTGAAGTTGCAGTGGAACATATTGAAGCTATAAATCACAGATCTTATTTCT
* * * *
19017489 CTAAAGTTGCAGCAGAGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGAAGGTTG
1 CTGAAGTTGCAGTAGAGTAGATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTG
* * * **
19017554 AAGTCACTAGTCTTATCTCCTTGAAGTTATAGTGGAGCAGACTGAAGATAGCGAATCTTATTTAT
66 AAGTCACTAGTCTTATCTCCTTGAAGTTATAGTAGAGCAGACTCAAGATAGCAAATCTTATTTCC
*
19017619 CTGAAGTTGCAGTGGAACATATTGAAGCTATAAATAAACAGATCTTATCTT-T
131 CTGAAGTTGCAGTGGAACATATTGAAGCTATAAAT-CACAGATCTTAT-TTCT
* *
19017671 CTGAAGTTGCAGTAGAGTAGATCAAAACAAACCTTATCTCTCTCAAGTTG
1 CTGAAGTTGCAGTAGAGTAGATCAAAACAAACCTTATCTCCCTGAAGTTG
19017721 TAGTACAACA
Statistics
Matches: 354, Mismatches: 41, Indels: 44
0.81 0.09 0.10
Matches are distributed among these distances:
177 30 0.08
178 7 0.02
179 1 0.00
180 1 0.00
181 78 0.22
182 60 0.17
183 3 0.01
184 138 0.39
185 2 0.01
186 1 0.00
187 6 0.02
188 27 0.08
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (181 bp):
CTGAAGTTGCAGTAGAGTAGATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTG
AAGTCACTAGTCTTATCTCCTTGAAGTTATAGTAGAGCAGACTCAAGATAGCAAATCTTATTTCC
CTGAAGTTGCAGTGGAACATATTGAAGCTATAAATCACAGATCTTATTTCT
Found at i:19017459 original size:41 final size:41
Alignment explanation
Indices: 19017386--19017542 Score: 136
Period size: 41 Copynumber: 3.6 Consensus size: 41
19017376 TAAATCACAG
* *
19017386 ATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCAAAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAA
* * *
19017427 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T----C-A-AAA-CA-A
* *
19017477 GATCTTATC-CCTCTAAAGTTGCAGCAGAGCAGATCAAAACAA
1 -ATCTTATCTCC-CTGAAGTTGCAGTAGAGCAGATCAAAACAA
*
19017519 ACCTTATCTCCCTGAAGTTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGT
19017543 GGAGAAGGTT
Statistics
Matches: 91, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
41 45 0.49
42 4 0.04
43 2 0.02
44 3 0.03
45 1 0.01
46 2 0.02
47 1 0.01
48 3 0.03
49 2 0.02
50 4 0.04
51 24 0.26
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (41 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACAA
Found at i:19019109 original size:3 final size:3
Alignment explanation
Indices: 19019101--19019582 Score: 109
Period size: 3 Copynumber: 160.0 Consensus size: 3
19019091 TTTCAAATTA
* *
19019101 ATT ATT ATT ATT ATT ATT TTCT ATT ATT A-T ATTT ATT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT A-TT ATT ATT ATT ATT
* * ** * * *
19019147 -TT ATT ACTT -TT ACT ACT AAC ATA ATAT ATTT ATT -TCT GTT ATT TTCT
1 ATT ATT A-TT ATT ATT ATT ATT ATT AT-T A-TT ATT AT-T ATT ATT AT-T
* * * * * *
19019194 ATT ATT GTC ATT ATT AAT ATAT ACT ATT ATT ATT A-T ATT GTT GTT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
19019239 ATT ATT ATT ATT ATC ACT ATT ATCT TTT TTT ATT ATT GTT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
* *
19019285 ATT ATT ATT -TT -TT ACT ATCT AAT A-T ATT ATT ATT ACCTT -TT -TT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT A--TT ATT ATT
* * * *
19019328 ATT ATT ATT ACT ACT ATT -GT ATT ATT ACT ATT ATT A-T ATT -TT CATCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -AT-T
* *
19019375 A-T ATTT ATT -TT CTT ATT ATTT ATCT AGTT TTT ATTT ATCT AGTT A-T
1 ATT A-TT ATT ATT ATT ATT A-TT AT-T A-TT ATT A-TT AT-T A-TT ATT
* * * * *
19019421 ATTT CTT ATCT GTT CA-T ATT -TT GTT ATT ATT A-C ATT -TT AGGT ATT
1 A-TT ATT AT-T ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
* * * *
19019466 A-T ATCT A-T ATT -TAT ATTT ATGT ATT AAT ATC ATC ATT -TT ACT ATT
1 ATT AT-T ATT ATT AT-T A-TT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
** * * * * *
19019511 CCT ATT -TT ATT ATT ATT ATT ACT ATT ATT TTT ATT ACT ATT ACT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19019558 ATT A-T ATT ATT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
19019583 TTTTACCTAT
Statistics
Matches: 354, Mismatches: 71, Indels: 108
0.66 0.13 0.20
Matches are distributed among these distances:
2 49 0.14
3 251 0.71
4 47 0.13
5 7 0.02
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:19019287 original size:28 final size:28
Alignment explanation
Indices: 19019240--19019345 Score: 92
Period size: 28 Copynumber: 3.7 Consensus size: 28
19019230 ATTGTTGTTA
*
19019240 TTATTATTATTA-TCACTATTATCTTTTT
1 TTATTATTATTACT-ATTATTATCTTTTT
*
19019268 TTATTATTGTTACTATTATTAT-TATTTT
1 TTATTATTATTACTATTATTATCT-TTTT
* * *
19019296 TTACTATCTAATA-TATTATTATTACCTTTT
1 TTATTAT-TATTACTATTATTA-T-CTTTTT
*
19019326 TTATTATTATTACTACTATT
1 TTATTATTATTACTATTATT
19019346 GTATTATTAC
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
27 1 0.02
28 36 0.58
29 9 0.15
30 16 0.26
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.62
Consensus pattern (28 bp):
TTATTATTATTACTATTATTATCTTTTT
Found at i:19019352 original size:17 final size:17
Alignment explanation
Indices: 19019330--19019367 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
19019320 CCTTTTTTAT
*
19019330 TATTATTACTACTATTG
1 TATTATTACTACTATTA
*
19019347 TATTATTACTATTATTA
1 TATTATTACTACTATTA
19019364 TATT
1 TATT
19019368 TTCATCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTATTACTACTATTA
Found at i:19019431 original size:17 final size:17
Alignment explanation
Indices: 19019409--19019441 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19019399 TAGTTTTTAT
19019409 TTATCTAGTT-ATATTTC
1 TTATCT-GTTCATATTTC
19019426 TTATCTGTTCATATTT
1 TTATCTGTTCATATTT
19019442 TGTTATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.61
Consensus pattern (17 bp):
TTATCTGTTCATATTTC
Found at i:19019548 original size:41 final size:41
Alignment explanation
Indices: 19019503--19019596 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
19019493 TATCATCATT
* *
19019503 TTACTATTCCTA-TTTTATTATTATTATTACTATTATT-TTTA
1 TTACTATTACTACTATTA-TATTATTATTA-TATTATTATTTA
*
19019544 TTACTATTACTACTATTATATTATTATTATATTATTATTTT
1 TTACTATTACTACTATTATATTATTATTATATTATTATTTA
19019585 TTACCTATTACT
1 TTA-CTATTACT
19019597 CTTTAAATAC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
40 7 0.15
41 28 0.60
42 12 0.26
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (41 bp):
TTACTATTACTACTATTATATTATTATTATATTATTATTTA
Found at i:19019730 original size:15 final size:15
Alignment explanation
Indices: 19019712--19019745 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19019702 GTATTAATAC
*
19019712 CATTAATATTATTAT
1 CATTAATATTACTAT
*
19019727 CATTACTATTACTAT
1 CATTAATATTACTAT
19019742 CATT
1 CATT
19019746 TTTTAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (15 bp):
CATTAATATTACTAT
Found at i:19024541 original size:37 final size:36
Alignment explanation
Indices: 19024497--19024636 Score: 99
Period size: 36 Copynumber: 3.8 Consensus size: 36
19024487 TTGTTCATCA
*
19024497 TCTTTTCTTTCTTCAGTCTCTTTCTCTTTTTCAATT
1 TCTTTTCTTTCTTCAATCTCTTTCTCTTTTTCAATT
*
19024533 GTCTTTTCTTGC-TCAAAATCT-TTTC-CTTTTTCAATT
1 -TCTTTTCTTTCTTC--AATCTCTTTCTCTTTTTCAATT
* * * **
19024569 TATTTTTCCTTTCTTTCACTCTCTTTTTCTTTTTCGCTT
1 T-CTTTT-CTTTC-TTCAATCTCTTTCTCTTTTTCAATT
* * *
19024608 TCTCGTTCTTT-TTCAATTTCTTTTTCTTT
1 TCT-TTTCTTTCTTCAATCTCTTTCTCTTT
19024637 CATTTTTCTC
Statistics
Matches: 82, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
35 1 0.01
36 33 0.40
37 22 0.27
38 12 0.15
39 14 0.17
ACGTcount: A:0.09, C:0.24, G:0.04, T:0.64
Consensus pattern (36 bp):
TCTTTTCTTTCTTCAATCTCTTTCTCTTTTTCAATT
Found at i:19024634 original size:18 final size:18
Alignment explanation
Indices: 19024499--19024636 Score: 89
Period size: 18 Copynumber: 7.4 Consensus size: 18
19024489 GTTCATCATC
* *
19024499 TTTTCTTTCTTCAGTCTCT
1 TTTTCTTT-TTCAATTTCT
*
19024518 TTCTCTTTTTCAATTGTC-
1 TTTTCTTTTTCAATT-TCT
** **
19024536 TTTTCTTGCTCAAAATCT
1 TTTTCTTTTTCAATTTCT
* *
19024554 TTTCCTTTTTCAATTTAT
1 TTTTCTTTTTCAATTTCT
* *
19024572 TTTTCCTTTCTTTCACTCTCT
1 TTTT-C-TT-TTTCAATTTCT
**
19024593 TTTTCTTTTTCGCTTTCT
1 TTTTCTTTTTCAATTTCT
**
19024611 CGTTCTTTTTCAATTTCT
1 TTTTCTTTTTCAATTTCT
19024629 TTTTCTTT
1 TTTTCTTT
19024637 CATTTTTCTC
Statistics
Matches: 88, Mismatches: 26, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
17 2 0.02
18 59 0.67
19 12 0.14
20 3 0.03
21 12 0.14
ACGTcount: A:0.09, C:0.23, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTTCTTTTTCAATTTCT
Found at i:19027173 original size:24 final size:24
Alignment explanation
Indices: 19027091--19027176 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
19027081 AAGAAATTTC
* *
19027091 AGCACTATGTGTGCGTTG-TTATGT
1 AGCACTATGTGTGCG-AGATTATAT
* * * * *
19027115 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
19027140 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
19027164 AGCACTATGTGTG
1 AGCACTATGTGTG
19027177 TGAGGAAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 31 0.65
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:19035474 original size:46 final size:46
Alignment explanation
Indices: 19035418--19035587 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
19035408 TGGTTGAGCA
19035418 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
19035464 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * * *
19035509 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
*
19035557 CCCGAGA-TCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCAC
19035588 TTAGGGGCGG
Statistics
Matches: 101, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 55 0.54
47 26 0.26
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:19035574 original size:93 final size:93
Alignment explanation
Indices: 19035415--19035585 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
19035405 GGATGGTTGA
* * *
19035415 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
19035480 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
19035508 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGA-TCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGA-ACTCGTTGAG
19035572 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
19035586 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19036496 original size:20 final size:20
Alignment explanation
Indices: 19036459--19036501 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
19036449 CTGTTCTGAC
* *
19036459 TTTAAAAATTCATAATAAAT
1 TTTAAAAAATAATAATAAAT
* *
19036479 TTTAAAAAATAATTATAAGT
1 TTTAAAAAATAATAATAAAT
19036499 TTT
1 TTT
19036502 TATTTATATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAAAAATAATAATAAAT
Found at i:19038843 original size:40 final size:39
Alignment explanation
Indices: 19038799--19038994 Score: 268
Period size: 39 Copynumber: 4.9 Consensus size: 39
19038789 AGTGACCATA
*
19038799 TCCGGACTAAGATCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTGGTGCGAGTTACTAAT
*
19038839 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAT
* *
19038878 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAT
* *
19038917 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTAAT
* * *
19038956 AACCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTA
1 -TCCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTA
19038995 TAACCGGGCT
Statistics
Matches: 143, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 76 0.53
40 67 0.47
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAT
Found at i:19038860 original size:39 final size:40
Alignment explanation
Indices: 19038762--19039017 Score: 292
Period size: 40 Copynumber: 6.5 Consensus size: 40
19038752 AATGATGTCT
* * * *
19038762 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAT-TCC
*
19038802 GGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTGGTGCGAGTTACTAATTCC
19038842 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTCC
*
19038881 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTCC
* * *
19038920 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT-TCC
* * *
19038960 GGGCTATGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT-TCC
* *
19039000 GGGCTATGTCCCAAAGGC
1 GGGCTAAGTCCCGAAGGC
19039018 CTATATCCGG
Statistics
Matches: 196, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
39 76 0.39
40 111 0.57
41 9 0.05
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTCC
Found at i:19038908 original size:78 final size:80
Alignment explanation
Indices: 19038762--19039017 Score: 308
Period size: 79 Copynumber: 3.2 Consensus size: 80
19038752 AATGATGTCT
* * * * * *
19038762 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTGG
1 GGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTGG
*
19038825 TGCGAGTTACTAATTCC
64 TGCGAGTTACTAAATCC
*
19038842 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGT
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTGGT
19038904 GCGAGTTACTAAATCC
65 GCGAGTTACTAAATCC
* * * *
19038920 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTGGTG
19038985 CGAGTTACTATAA-CC
66 CGAGTTACTA-AATCC
* *
19039000 GGGCTATGTCCCAAAGGC
1 GGGCTAAGTCCCGAAGGC
19039018 CTATATCCGG
Statistics
Matches: 155, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
78 37 0.24
79 59 0.38
80 57 0.37
81 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTGGTG
CGAGTTACTAAATCC
Found at i:19046400 original size:47 final size:46
Alignment explanation
Indices: 19046283--19046455 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
19046273 GGATGGTTGA
19046283 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
19046330 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
19046373 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
19046423 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
19046456 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 24
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.28
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:19046452 original size:93 final size:92
Alignment explanation
Indices: 19046283--19046452 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
19046273 GGATGGTTGA
* *
19046283 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
19046348 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
19046375 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
19046440 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
19046453 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 34 0.46
93 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19047960 original size:27 final size:27
Alignment explanation
Indices: 19047930--19048550 Score: 876
Period size: 27 Copynumber: 23.2 Consensus size: 27
19047920 ATCAAGAAAG
*
19047930 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19047957 TTACCGAAATA-CCCTGTAAGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
19047983 TTACCGAAATACCCCTGTA-GGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048009 TTACCGAAATACACCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
19048036 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048063 TTACCGAAATA-CCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048089 TTACCGAAATA-CCCTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
19048115 TTACAGAAATACCCTTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048142 TTACCGAAATACCCATGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
19048169 TTACTAAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048196 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048223 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
**
19048250 TTATAGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048277 TTACCGAAATACCCATGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
19048304 TTA-CTAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048330 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048357 TTACCAAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048384 TTACCGAAATACCCCTGTAGGGTAAAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** *
19048411 TTAGTGAAATACCCCTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048438 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19048465 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
**
19048492 TTACTAAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * * *
19048519 TTACC-AAGATACCCTTATGGGGTAAAA
1 TTACCGAA-ATACCCCTGTAGGGTAGAA
19048546 TTACC
1 TTACC
19048551 ATTTTGCCCC
Statistics
Matches: 537, Mismatches: 52, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
26 121 0.23
27 416 0.77
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
TTACCGAAATACCCCTGTAGGGTAGAA
Found at i:19048824 original size:27 final size:27
Alignment explanation
Indices: 19048774--19048883 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 27
19048764 TGGAGGAAGC
**
19048774 GTTCTGGTGGCTATTTCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
* *
19048801 ATTTCTGGT-GTTATGCCACAAATATCT
1 -GTTCTGGTGGCTATGCCACAAATATCT
*
19048828 GTTCTGGTGGCTCTGCCAC-AATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
* * * *
19048854 GTATATAGTGACTCTGCCAC-AATATCT
1 GT-TCTGGTGGCTATGCCACAAATATCT
19048881 GTT
1 GTT
19048884 GACTGATCGA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 17 0.24
27 46 0.66
28 7 0.10
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAATATCT
Found at i:19049217 original size:27 final size:27
Alignment explanation
Indices: 19049187--19049243 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
19049177 ATTCTGTTAA
* **
19049187 GTGGCTTTGCCACGTTATCTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTG
19049214 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
19049241 GTG
1 GTG
19049244 CTTCGTCACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:19049412 original size:31 final size:31
Alignment explanation
Indices: 19049377--19049448 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
19049367 TTGCATTCAC
* * * * *
19049377 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTA
*
19049408 ATTCTGATTCTAATTCTGTCACCTAATTCTA
1 ATTCTGATTCTAATTCTGTCACCTAATACTA
19049439 ATTCTGATTC
1 ATTCTGATTC
19049449 ACATTTTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTAATACTA
Found at i:19051882 original size:27 final size:27
Alignment explanation
Indices: 19051498--19051876 Score: 566
Period size: 27 Copynumber: 14.1 Consensus size: 27
19051488 ATCAAAAAAG
19051498 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19051525 TTACCGAAATA-CCCTGTAAGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
19051551 TTACTGAAATACCCCTGTAGGGTAAAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
19051578 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19051605 TTACCGAAATA-CCCTGTACGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
19051631 TTACCGAAATA-CCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
19051657 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
19051684 TTACCAAAATACCCATGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
19051711 TTACTAAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19051738 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19051765 TTATCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
19051792 TTATCGAAATACCCCTGTAGGATAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
19051819 TTACCGAAATACCCCTGTACGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
19051846 TTACTAAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
19051873 TTAC
1 TTAC
19051877 TAAAATGGAT
Statistics
Matches: 321, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
26 74 0.23
27 247 0.77
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
TTACCGAAATACCCCTGTAGGGTAGAA
Found at i:19052771 original size:49 final size:47
Alignment explanation
Indices: 19052694--19052828 Score: 121
Period size: 49 Copynumber: 2.8 Consensus size: 47
19052684 ATAAATTTCA
* * * *
19052694 GCACTATGTGTGCGTGGTTATGCGGCACTATGTGTGCA-AAAACTACATG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAGAAAAC-AC--G
* * *
19052743 GCACTATGTGTGCGAGATTATATAGCACTATGTGTGTGAGGAAACACG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTG-CAGAAAACACG
* *
19052791 GCACTATGTGTGCGA-ATGAGTAAGAGCACTATGTGTGC
1 GCACTATGTGTGCGAGATTA-T-ACAGCACTATGTGTGC
19052829 GGACCTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
47 3 0.04
48 17 0.24
49 45 0.62
50 3 0.04
51 4 0.06
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (47 bp):
GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAGAAAACACG
Found at i:19052775 original size:24 final size:24
Alignment explanation
Indices: 19052693--19052778 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
19052683 AATAAATTTC
* * **
19052693 AGCACTATGTGTGCGTGGTTATGC
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
19052717 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
19052742 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
19052766 AGCACTATGTGTG
1 AGCACTATGTGTG
19052779 TGAGGAAACA
Statistics
Matches: 47, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 31 0.66
25 16 0.34
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:19066486 original size:60 final size:59
Alignment explanation
Indices: 19066349--19066497 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 59
19066339 CTATTCAAAA
* *
19066349 ATCAGAGT-TAATTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAG
1 ATCAGAGTAT-ATTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG
* * * *
19066409 TATCAGAGTATACTGGGCCTAGCCCATGTCAGTATCAATCTGGGCCGTAGCCCTATTACA-
1 -ATCAGAGTATATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAG
*
19066469 AGTC-GAGATATATTGGGCCTTGCCCATAT
1 A-TCAGAG-TATATTGGGCCTAGCCCATAT
19066498 TAACACAGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
59 4 0.05
60 50 0.67
61 20 0.27
62 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (59 bp):
ATCAGAGTATATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG
Found at i:19068025 original size:31 final size:31
Alignment explanation
Indices: 19067990--19068053 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
19067980 CCTTTTCATA
19067990 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCTGAAGCCT
***
19068021 TTTCATATTTCATGTTACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCTGAAGCCT
19068052 TT
1 TT
19068054 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCTGAAGCCT
Found at i:19068291 original size:25 final size:25
Alignment explanation
Indices: 19068263--19068322 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
19068253 CAGAAGGCCT
* *
19068263 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACAGGGGAAAA
*
19068288 AGCCCTTTTTGATAAACAGGGGAAAA
1 AGCCC-TTTTAATAAACAGGGGAAAA
19068314 AGCCCTTTT
1 AGCCCTTTT
19068323 CGGTAAACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.47
26 15 0.50
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACAGGGGAAAA
Found at i:19068316 original size:26 final size:25
Alignment explanation
Indices: 19068280--19068348 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
19068270 TTTAATAACT
*
19068280 GGGGCAAAAGCCCTTTTTGATAAAC
1 GGGGAAAAAGCCCTTTTTGATAAAC
* *
19068305 AGGGGAAAAAGCCCTTTTCGGTAAAC
1 -GGGGAAAAAGCCCTTTTTGATAAAC
* *
19068331 TGGGACAAAGCCCTTTTT
1 GGGGAAAAAGCCCTTTTT
19068349 TGTAACTAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 15 0.41
26 22 0.59
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (25 bp):
GGGGAAAAAGCCCTTTTTGATAAAC
Found at i:19068353 original size:25 final size:25
Alignment explanation
Indices: 19068276--19068371 Score: 81
Period size: 25 Copynumber: 3.8 Consensus size: 25
19068266 CTCTTTTAAT
*
19068276 AACTGGGGCAAAAGCCC-TTTTTGATA
1 AACTGGGAC-AAAGCCCTTTTTTG-TA
* * **
19068302 AACAGGGGAAAAAGCCCTTTTCGGTA
1 AAC-TGGGACAAAGCCCTTTTTTGTA
19068328 AACTGGGACAAAGCCCTTTTTTGT-
1 AACTGGGACAAAGCCCTTTTTTGTA
*
19068352 AACTAGGG-CATAGCCCTTTT
1 AACT-GGGACAAAGCCCTTTT
19068372 GCATTTCCTC
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
24 15 0.26
25 20 0.35
26 15 0.26
27 7 0.12
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGACAAAGCCCTTTTTTGTA
Found at i:19068544 original size:24 final size:24
Alignment explanation
Indices: 19068502--19068547 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19068492 ATAATTAAAC
* * *
19068502 CCTAGGGGTATAATGGTCATTTTA
1 CCTAGGGGCAAAATAGTCATTTTA
19068526 CCTAGGGGCAAAATAGTCATTT
1 CCTAGGGGCAAAATAGTCATTT
19068548 CCATACTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (24 bp):
CCTAGGGGCAAAATAGTCATTTTA
Found at i:19076348 original size:25 final size:25
Alignment explanation
Indices: 19076320--19076404 Score: 111
Period size: 26 Copynumber: 3.4 Consensus size: 25
19076310 CTGGAGGCCT
*
19076320 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTGATAAACTGGGGCAAA
19076345 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTGATAAACTGGGGCAAA
*
19076371 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-GATAAACTGGGGCAAA
19076396 AGCCCTTTT
1 AGCCCTTTT
19076405 CTGTAATTGG
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.45
26 29 0.53
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:19076405 original size:25 final size:26
Alignment explanation
Indices: 19076333--19076428 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
19076323 CTCTTTTAAT
* *
19076333 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
19076359 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
19076385 AACTGGGGC-AAAGCCCTTTTCTGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
* *
19076409 AATTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
19076429 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.28
25 14 0.22
26 33 0.51
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:19080373 original size:33 final size:35
Alignment explanation
Indices: 19080316--19080386 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 35
19080306 CGTATCCTAG
*
19080316 CTACAGTCTCAGTCTTCTAAAGTTTTCAGT-TTTCC
1 CTACAGTCTCAGTCTTCTAAAG-TTTCAGTATTACC
* *
19080351 CTACTGTCTCA-T-TTCTATAGTTTCAGTATTACC
1 CTACAGTCTCAGTCTTCTAAAGTTTCAGTATTACC
19080384 CTA
1 CTA
19080387 ACTACAGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 7 0.22
33 14 0.44
34 1 0.03
35 10 0.31
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (35 bp):
CTACAGTCTCAGTCTTCTAAAGTTTCAGTATTACC
Found at i:19083734 original size:29 final size:29
Alignment explanation
Indices: 19083692--19083750 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
19083682 GTTACAACTC
*
19083692 CTTTAATGCCGTTCTA-AGCACCAGCAGCT
1 CTTTAATGCCGTTCCATA-CACCAGCAGCT
*
19083721 CTTTAATGCTGTTCCATACACCAGCAGCT
1 CTTTAATGCCGTTCCATACACCAGCAGCT
19083750 C
1 C
19083751 AATTAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (29 bp):
CTTTAATGCCGTTCCATACACCAGCAGCT
Found at i:19085594 original size:22 final size:22
Alignment explanation
Indices: 19085569--19085635 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
19085559 TTTGTGTCTT
19085569 TAATTATGTCATAGTTTGAACA
1 TAATTATGTCATAGTTTGAACA
19085591 TAATTA-GT-ATGAGTCTT-----
1 TAATTATGTCAT-AGT-TTGAACA
19085608 TAATTATGTCATAGTTTGAACA
1 TAATTATGTCATAGTTTGAACA
*
19085630 TCATTA
1 TAATTA
19085636 ATATATGTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 18
0.65 0.02 0.33
Matches are distributed among these distances:
17 8 0.23
18 5 0.14
19 2 0.06
20 2 0.06
21 5 0.14
22 13 0.37
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (22 bp):
TAATTATGTCATAGTTTGAACA
Found at i:19085598 original size:39 final size:39
Alignment explanation
Indices: 19085555--19085635 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
19085545 TTTAGTTATT
* *
19085555 TTAGTTTGTGTCTTTAATTATGTCATAGTTTGAACATAA
1 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATAA
*
19085594 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
1 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATAA
19085633 TTA
1 TTA
19085636 ATATATGTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (39 bp):
TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATAA
Found at i:19087687 original size:16 final size:15
Alignment explanation
Indices: 19087655--19087698 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
19087645 CGTAGCTTCG
*
19087655 AAAAAAAAAAGTT--
1 AAAAAAAAAAATTGC
19087668 AAAAAAAAAAATTGC
1 AAAAAAAAAAATTGC
19087683 AAAAAAAAAAATTGC
1 AAAAAAAAAAATTGC
19087698 A
1 A
19087699 TACGGTCTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 12 0.43
15 16 0.57
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.14
Consensus pattern (15 bp):
AAAAAAAAAAATTGC
Found at i:19089961 original size:23 final size:22
Alignment explanation
Indices: 19089861--19089968 Score: 83
Period size: 23 Copynumber: 4.6 Consensus size: 22
19089851 GAGCAAAAAA
19089861 ATGAAAAGAATAAAGAAAGAGTG
1 ATGAAAAGAA-AAAGAAAGAGTG
* * *
19089884 AAGAAAAGAAGAAAACAAAAAGATG
1 ATGAAAAG-A-AAAAGAAAGAG-TG
* *
19089909 AGTGATAA-AAAAAGAGAGAGTG
1 A-TGAAAAGAAAAAGAAAGAGTG
*
19089931 ATTCAAAAGAAAAAGAAACGAGTG
1 A-TGAAAAGAAAAAGAAA-GAGTG
19089955 ATGAAAATGAAAAA
1 ATGAAAA-GAAAAA
19089969 AAGAATTTGT
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
22 7 0.11
23 28 0.43
24 22 0.34
25 4 0.06
26 4 0.06
ACGTcount: A:0.63, C:0.03, G:0.23, T:0.11
Consensus pattern (22 bp):
ATGAAAAGAAAAAGAAAGAGTG
Found at i:19095925 original size:24 final size:25
Alignment explanation
Indices: 19095898--19095951 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
19095888 ATGAGTGATA
*
19095898 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
19095922 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
19095946 AAAAAA
1 AAAAAA
19095952 AGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Done.