Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 54 of 211
Found at i:16387757 original size:64 final size:64
Alignment explanation
Indices: 16387676--16387889 Score: 302
Period size: 64 Copynumber: 3.3 Consensus size: 64
16387666 ATATATTACG
* *
16387676 TATTGTCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACGTA
1 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
* * * *** * *
16387740 TAGTGCCAAATTGAATTGTATATGTATACTTATAATGTCGAATTGAATTGTATATTTATACTTA
1 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
* * *
16387804 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTTGAACTGAATTGTATATGCATACTTA
1 TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
*
16387868 TATTACCGAATTGAATTGTATA
1 TATTGCCGAATTGAATTGTATA
16387890 TGCATACTTA
Statistics
Matches: 128, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 128 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (64 bp):
TATTGCCGAATTGAATTGTATAGGTATACACCTATTGTCGAATTGAATTGTATATGTATACTTA
Found at i:16387922 original size:32 final size:32
Alignment explanation
Indices: 16387716--16387923 Score: 110
Period size: 32 Copynumber: 6.5 Consensus size: 32
16387706 CCTATTGTCG
* * * * *
16387716 AATTGAATTGTATATGTATACGTATAGTGCCA
1 AATTGAATTATATATGCATACTTATATTACCA
* * * ** *
16387748 AATTGAATTGTATATGTATACTTATAATGTCG
1 AATTGAATTATATATGCATACTTATATTACCA
* ** * *
16387780 AATTGAATTGTATATTTATACTTATATTGCCG
1 AATTGAATTATATATGCATACTTATATTACCA
* * * *** ****
16387812 AATTGAATTGTATAGGTATACACCTATTGTTG
1 AATTGAATTATATATGCATACTTATATTACCA
* * *
16387844 AACTGAATTGTATATGCATACTTATATTACCG
1 AATTGAATTATATATGCATACTTATATTACCA
* * *
16387876 AATTGAATTGTATATGCATACTTATGTTTCCA
1 AATTGAATTATATATGCATACTTATATTACCA
* *
16387908 AATTTATTTATATATG
1 AATTGAATTATATATG
16387924 TATTTATATA
Statistics
Matches: 146, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 146 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (32 bp):
AATTGAATTATATATGCATACTTATATTACCA
Found at i:16387936 original size:96 final size:96
Alignment explanation
Indices: 16387751--16387926 Score: 226
Period size: 96 Copynumber: 1.8 Consensus size: 96
16387741 AGTGCCAAAT
* ** ** *
16387751 TGAATTGTATATGTATACTTATAATGTCGAATTGAATTGTATATTTATACTTATATTGCCGAATT
1 TGAATTGTATATGCATACTTATAATACCGAATTGAATTGTATATGCATACTTATATTGCCAAATT
* *
16387816 GAATTGTATAGGTATACACCTATTGTTGAAC
66 GAATTATATAGGTATACACATATTGTTGAAC
* * *
16387847 TGAATTGTATATGCATACTTATATTACCGAATTGAATTGTATATGCATACTTATGTTTCCAAATT
1 TGAATTGTATATGCATACTTATAATACCGAATTGAATTGTATATGCATACTTATATTGCCAAATT
* * *
16387912 TATTTATATATGTAT
66 GAATTATATAGGTAT
16387927 TTATATATTG
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 67 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (96 bp):
TGAATTGTATATGCATACTTATAATACCGAATTGAATTGTATATGCATACTTATATTGCCAAATT
GAATTATATAGGTATACACATATTGTTGAAC
Found at i:16388175 original size:41 final size:43
Alignment explanation
Indices: 16388069--16388187 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
16388059 GAGTTGTAAT
16388069 TTCGTGTAAGACCATGTTTGGGACATTGGCATCGAAGTGAGAA
1 TTCGTGTAAGACCATGTTTGGGACATTGGCATCGAAGTGAGAA
** *
16388112 AACGTGTAAGACCATGTTTGGGACATTGGCATCG-TGT-ATG-A
1 TTCGTGTAAGACCATGTTTGGGACATTGGCATCGAAGTGA-GAA
* * * * *
16388153 TTCGTATAAGACCCTGTCTGGGACAGTCGCATCGA
1 TTCGTGTAAGACCATGTTTGGGACATTGGCATCGA
16388188 TATGTTTTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 29 0.45
42 3 0.05
43 32 0.50
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
TTCGTGTAAGACCATGTTTGGGACATTGGCATCGAAGTGAGAA
Found at i:16388738 original size:41 final size:41
Alignment explanation
Indices: 16388701--16388788 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
16388691 CTAAAGCGTC
* *
16388701 GCAAATGCTCGGGGATTTAGTGGCATTTTTAAAAAAGCACT
1 GCAAATGCTCGAGGATTTAGCGGCATTTTTAAAAAAGCACT
* * ** *
16388742 TCTAATGCTCGAGGATTTAGCGGCATTTTTAGGAAAGCGCT
1 GCAAATGCTCGAGGATTTAGCGGCATTTTTAAAAAAGCACT
16388783 GCAAAT
1 GCAAAT
16388789 ATTGCAGTAC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (41 bp):
GCAAATGCTCGAGGATTTAGCGGCATTTTTAAAAAAGCACT
Found at i:16393373 original size:43 final size:43
Alignment explanation
Indices: 16393313--16393403 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
16393303 CTTTGGGTTC
* * *
16393313 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
16393355 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
16393398 ATTACC
1 ATTACC
16393404 TTGTAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:16393855 original size:43 final size:42
Alignment explanation
Indices: 16393746--16393876 Score: 149
Period size: 43 Copynumber: 3.1 Consensus size: 42
16393736 TAATTTTTTT
* *
16393746 TAAAAGTTATGTT-TTTAGCGGCGTTTTTG-TGACAAGCGCCGC
1 TAAAAG-TATGTTCTTTAGCGGCGTTTGTGAT-AAAAGCGCCGC
* * * *
16393788 TAAAGGTTTGTTCTATAGCGGCGTTTGTGATAAAAGTGCCGC
1 TAAAAGTATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* *
16393830 TAAAAGTCATGTTCTTTAGCGGCGTTTGAGACAAAAGCGCCGC
1 TAAAAGT-ATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
16393873 TAAA
1 TAAA
16393877 GTTAGCGGCA
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
41 5 0.07
42 34 0.46
43 35 0.47
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TAAAAGTATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
Found at i:16396306 original size:86 final size:86
Alignment explanation
Indices: 16396137--16396298 Score: 270
Period size: 86 Copynumber: 1.9 Consensus size: 86
16396127 CCAACAAGTG
*
16396137 GTGGCTCGTCCACAAAACCCAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACG
1 GTGGCTCGTCCACAAAACCCAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACA
16396202 AGTGGCAGTAACTACAAATAT
66 AGTGGCAGTAACTACAAATAT
* *** *
16396223 GTGGCTCGTCCACAAAACCCAGTGGCAGTTTGTTTAATCTGTGAATATGTTGTGTACTCACAACA
1 GTGGCTCGTCCACAAAACCCAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACA
16396288 AGTGGCAGTAA
66 AGTGGCAGTAA
16396299 TTGCAAATGT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (86 bp):
GTGGCTCGTCCACAAAACCCAGTGGCAATTTGTTTAATCTACAAATATGTTGTGCACTCACAACA
AGTGGCAGTAACTACAAATAT
Found at i:16397436 original size:15 final size:15
Alignment explanation
Indices: 16397411--16397445 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16397401 GACTCTATTT
*
16397411 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
16397425 TAATTAATATTAAGA
1 TAATTAATATTAAGA
16397440 TAATTA
1 TAATTA
16397446 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:16403826 original size:5 final size:5
Alignment explanation
Indices: 16403816--16403873 Score: 73
Period size: 5 Copynumber: 11.4 Consensus size: 5
16403806 GCAACCCAAT
* *
16403816 TTTTA TTTTA TTTT- TTGTTT TTTTA TTTTT TTATTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA
16403867 TTTTA TT
1 TTTTA TT
16403874 ATTTATTACT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
4 2 0.04
5 39 0.83
6 6 0.13
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:16403839 original size:8 final size:8
Alignment explanation
Indices: 16403821--16403877 Score: 62
Period size: 8 Copynumber: 7.0 Consensus size: 8
16403811 CCAATTTTTA
16403821 TTTTA-TT
1 TTTTATTT
*
16403828 TTTTGTTT
1 TTTTATTT
16403836 TTTTATTT
1 TTTTATTT
*
16403844 TTTTATTA
1 TTTTATTT
16403852 TTTTATTTT
1 TTTTA-TTT
16403861 ATTTTATTT
1 -TTTTATTT
*
16403870 TATTATTT
1 TTTTATTT
16403878 ATTACTTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
7 4 0.10
8 28 0.67
9 5 0.12
10 5 0.12
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTATTT
Found at i:16403852 original size:26 final size:26
Alignment explanation
Indices: 16403814--16403876 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
16403804 AGGCAACCCA
*
16403814 ATTTTTATT-TTATTTT-TTGTTTTTTT
1 ATTTTT-TTATTATTTTATT-TTATTTT
16403840 ATTTTTTTATTATTTTATTTTATTTT
1 ATTTTTTTATTATTTTATTTTATTTT
*
16403866 ATTTTATTATT
1 ATTTTTTTATT
16403877 TATTACTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 2 0.06
26 29 0.88
27 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (26 bp):
ATTTTTTTATTATTTTATTTTATTTT
Found at i:16403860 original size:23 final size:24
Alignment explanation
Indices: 16403816--16403877 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
16403806 GCAACCCAAT
*
16403816 TTTTATTTTATT-TTTTG-TTTTT
1 TTTTATTTTATTATTTTGATTTTA
*
16403838 TTATTTTTTTATTATTTT-ATTTTA
1 TT-TTATTTTATTATTTTGATTTTA
16403862 TTTTATTTTATTATTT
1 TTTTATTTTATTATTT
16403878 ATTACTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 2 0.06
23 22 0.65
24 10 0.29
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (24 bp):
TTTTATTTTATTATTTTGATTTTA
Found at i:16404063 original size:22 final size:23
Alignment explanation
Indices: 16404035--16404098 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
16404025 GCCCAGAATG
* *
16404035 CCTGCAGCCAAACTACCC-TATT
1 CCTGCAGCCAAACCACCCTTATC
16404057 CCTGCAGCC-AACCACCCTTATC
1 CCTGCAGCCAAACCACCCTTATC
*
16404079 CCTGCACCCAAGCACCACCC
1 CCTGCAGCCAA--ACCACCC
16404099 CTCTACACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.20
22 20 0.57
23 1 0.03
25 7 0.20
ACGTcount: A:0.25, C:0.50, G:0.09, T:0.16
Consensus pattern (23 bp):
CCTGCAGCCAAACCACCCTTATC
Found at i:16405807 original size:15 final size:15
Alignment explanation
Indices: 16405782--16405816 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16405772 GACTCTATTT
*
16405782 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
16405796 TAATTAATATTAAGA
1 TAATTAATATTAAGA
16405811 TAATTA
1 TAATTA
16405817 CTAAGGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:16412233 original size:27 final size:26
Alignment explanation
Indices: 16412188--16412238 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
16412178 TTACATTATG
16412188 TTTAAATTATAAAAAAAATTAAAAAT
1 TTTAAATTATAAAAAAAATTAAAAAT
**
16412214 TTTAAATATATATTAAAAATTAAAA
1 TTTAAAT-TATAAAAAAAATTAAAA
16412239 GAAAGCCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
TTTAAATTATAAAAAAAATTAAAAAT
Found at i:16412668 original size:19 final size:18
Alignment explanation
Indices: 16412646--16412717 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 18
16412636 TTTTAGACTC
16412646 AATTTTTTAAATAATTTTA
1 AATTTTTT-AATAATTTTA
*
16412665 AATTTTTTTAT-ATGTTTA
1 AATTTTTTAATAAT-TTTA
*
16412683 TAA-TTTTTAATAATTTTTT
1 -AATTTTTTAATAA-TTTTA
*
16412702 ATTTTTTTAA-AATTTT
1 AATTTTTTAATAATTTT
16412718 TCATATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.14
18 16 0.36
19 21 0.48
20 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (18 bp):
AATTTTTTAATAATTTTA
Found at i:16412689 original size:26 final size:27
Alignment explanation
Indices: 16412656--16412717 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
16412646 AATTTTTTAA
*
16412656 ATAATTTTAA-ATTTTTTTATATGTTT
1 ATAATTTTAATAATTTTTTATATGTTT
* *
16412682 ATAATTTTTAATAATTTTTTATTTTTTT
1 ATAA-TTTTAATAATTTTTTATATGTTT
*
16412710 AAAATTTT
1 ATAATTTT
16412718 TCATATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.13
27 10 0.33
28 16 0.53
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (27 bp):
ATAATTTTAATAATTTTTTATATGTTT
Found at i:16412707 original size:18 final size:18
Alignment explanation
Indices: 16412647--16412717 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
16412637 TTTAGACTCA
*
16412647 ATTTTTTAAATAATTTTAA
1 ATTTTTT-AATAATTTTAT
*
16412666 ATTTTTTTAT-ATGTTTAT
1 ATTTTTTAATAAT-TTTAT
* *
16412684 AATTTTTAATAATTTTTT
1 ATTTTTTAATAATTTTAT
16412702 ATTTTTTTAA-AATTTT
1 A-TTTTTTAATAATTTT
16412718 TCATATTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
17 2 0.05
18 25 0.58
19 16 0.37
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (18 bp):
ATTTTTTAATAATTTTAT
Found at i:16423675 original size:40 final size:40
Alignment explanation
Indices: 16423611--16423717 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
16423601 GATAAAGCAG
**
16423611 GAAAACGCTTCCTCAAGGAAGCGC-TT-TGTCCACGTGGGCA
1 GAAAACGCTTCCTTGAGGAAGCGCTTTGTGTCCACGT-GG-A
**
16423651 GAAAACGCTTCCTTGAGGGCGCGCTTTGTGTCCACGTGGA
1 GAAAACGCTTCCTTGAGGAAGCGCTTTGTGTCCACGTGGA
* * *
16423691 CAAAACGATTCCTTGAGGAAGCACTTT
1 GAAAACGCTTCCTTGAGGAAGCGCTTT
16423718 CCCCATTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 43 0.77
41 4 0.07
42 9 0.16
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
GAAAACGCTTCCTTGAGGAAGCGCTTTGTGTCCACGTGGA
Found at i:16423789 original size:16 final size:16
Alignment explanation
Indices: 16423770--16423813 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
16423760 GGTTTTGGGG
*
16423770 TTTTTGAATTTTTAGA
1 TTTTAGAATTTTTAGA
**
16423786 TTTTAGGGTTTTTAGA
1 TTTTAGAATTTTTAGA
*
16423802 TTTTAGAGTTTT
1 TTTTAGAATTTT
16423814 AAGGAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTTAGAATTTTTAGA
Found at i:16423804 original size:24 final size:24
Alignment explanation
Indices: 16423756--16423814 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
16423746 GCAATTAGAG
* *
16423756 TTAGGGTTTTGGGGTTTTTGAATTT
1 TTAGAGTTTTAGGGTTTTTGAA-TT
16423781 TTAGA-TTTTAGGGTTTTT-AGATT
1 TTAGAGTTTTAGGGTTTTTGA-ATT
16423804 TTAGAGTTTTA
1 TTAGAGTTTTA
16423815 AGGAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 8 0.27
24 18 0.60
25 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (24 bp):
TTAGAGTTTTAGGGTTTTTGAATT
Found at i:16424028 original size:97 final size:97
Alignment explanation
Indices: 16423840--16424127 Score: 435
Period size: 97 Copynumber: 3.0 Consensus size: 97
16423830 AAATAAAGGT
*
16423840 TTAGGGTTTAGGGTTTCTT-AATTAAATTAATTATAAA-TTT-AAAAATTAGATTAGGGTTTAGT
1 TTAGGGTTTAGGGTTTCTTGAA-TAAATTAATTATAAATTTTAAAAAATTAGATTAGGATTTAGT
* *
16423902 GTTTATGATTTCTAAGGAAAAAAATCAAATAAA
65 GTTTAGGATTTTTAAGGAAAAAAATCAAATAAA
*
16423935 TTAGGGTTTAGGGTTTCTTGAATAAATTAATTATAAATTTTAAAAAATTAGATTAAGATTTAGTG
1 TTAGGGTTTAGGGTTTCTTGAATAAATTAATTATAAATTTTAAAAAATTAGATTAGGATTTAGTG
*
16424000 TTTAGGGTTTTTAAGGAAAAAAATCAAATAAA
66 TTTAGGATTTTTAAGGAAAAAAATCAAATAAA
* *
16424032 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATT-GGAGTTTAG
1 TTAGGGTTTAGGGTTTCTTGAATAAATTAATTATAAATTTT-AAAAAATTAGATTAGGA-TTTAG
*
16424096 TATTTAGGATTTTTAAGG--AAAAATCAAATAAA
64 TGTTTAGGATTTTTAAGGAAAAAAATCAAATAAA
16424128 GCTAGTTGTT
Statistics
Matches: 178, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
95 34 0.19
96 19 0.11
97 91 0.51
98 34 0.19
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.39
Consensus pattern (97 bp):
TTAGGGTTTAGGGTTTCTTGAATAAATTAATTATAAATTTTAAAAAATTAGATTAGGATTTAGTG
TTTAGGATTTTTAAGGAAAAAAATCAAATAAA
Found at i:16424712 original size:11 final size:11
Alignment explanation
Indices: 16424696--16424740 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
16424686 CTTAATAAAT
16424696 ATTTATAATTA
1 ATTTATAATTA
16424707 ATTTATAATT-
1 ATTTATAATTA
*
16424717 -TTTTTAA--A
1 ATTTATAATTA
16424725 ATTTATAATTA
1 ATTTATAATTA
16424736 ATTTA
1 ATTTA
16424741 ATTAAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
9 12 0.43
11 16 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTATAATTA
Found at i:16424740 original size:18 final size:18
Alignment explanation
Indices: 16424706--16424741 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16424696 ATTTATAATT
**
16424706 AATTTATAATTTTTTTAA
1 AATTTATAATTAATTTAA
16424724 AATTTATAATTAATTTAA
1 AATTTATAATTAATTTAA
16424742 TTAAGAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTATAATTAATTTAA
Found at i:16426324 original size:21 final size:21
Alignment explanation
Indices: 16426290--16426329 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16426280 ATGGGAAATG
*
16426290 ATTGTTTTTCTTCTTCTTTCT
1 ATTGTTTTTCTTCTCCTTTCT
16426311 ATTGTTTCTT-TTCTCCTTT
1 ATTGTTT-TTCTTCTCCTTT
16426330 TTTCTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (21 bp):
ATTGTTTTTCTTCTCCTTTCT
Found at i:16431225 original size:18 final size:18
Alignment explanation
Indices: 16431198--16431235 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16431188 GGGGAGAGGA
16431198 TTTTTCTTTTTATTTTCT
1 TTTTTCTTTTTATTTTCT
*
16431216 TTTTTTTTTTTATTTTCT
1 TTTTTCTTTTTATTTTCT
16431234 TT
1 TT
16431236 GTAATGCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTCTTTTTATTTTCT
Found at i:16431583 original size:14 final size:14
Alignment explanation
Indices: 16431566--16431595 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16431556 CTTTTGTCGA
*
16431566 TTCCTTTTTTTTCT
1 TTCCTTTCTTTTCT
16431580 TTCCTTTCTTTTCT
1 TTCCTTTCTTTTCT
16431594 TT
1 TT
16431596 TTATTTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTCCTTTCTTTTCT
Found at i:16436823 original size:14 final size:14
Alignment explanation
Indices: 16436804--16436838 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16436794 AAAAAAGATG
*
16436804 AAAAATGAAAATGA
1 AAAAATGAAAAAGA
*
16436818 AAAAATGAAAAAGT
1 AAAAATGAAAAAGA
16436832 AAAAATG
1 AAAAATG
16436839 GATAGGCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAAGA
Found at i:16438121 original size:44 final size:44
Alignment explanation
Indices: 16438067--16438169 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 44
16438057 GAAATTATAG
* * *
16438067 ATCTTGTCTCCCT-AAGTAATAGCGGAGTAGATCAAAGA-CAGCAA
1 ATCTTATCTCCCTGAAGTAACAGCGGAGCAGATCAAA-ACCAG-AA
* * * *
16438111 ATCTTATCTCCCTGATGTTACAGTGGAGCAGATTAAAACCAGAA
1 ATCTTATCTCCCTGAAGTAACAGCGGAGCAGATCAAAACCAGAA
16438155 ATCTTATCTCCCTGA
1 ATCTTATCTCCCTGA
16438170 GATTACAGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 30 0.60
45 20 0.40
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTAACAGCGGAGCAGATCAAAACCAGAA
Found at i:16438176 original size:44 final size:44
Alignment explanation
Indices: 16438109--16438409 Score: 186
Period size: 44 Copynumber: 6.7 Consensus size: 44
16438099 CAAAGACAGC
*
16438109 AAATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTAAAACCAG
1 AAATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTAAAACTAG
** * * *
16438153 AAATCTTATCTCCCTGAGATTACAGCAGAACAGATTGAAGCTA-
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACTAG
* * *
16438196 ATAATCTTATCTCCCGGAGATTACAGTGGAGCGGATT-AAAGTA-
1 A-AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACTAG
* * * *
16438239 AAGGATCTTATCTCTCTGA-AGTTACAGTAGTGTAGATCGCATCAGATTGAAGCCAG
1 AA--ATCTTATCTCCCTGAGA-TTAC---AGTG--GA--G---CAGATTAAAACTAG
* * *
16438295 AAATCTTATCTTCCTGAGATTACAGCGGAGCAGATTAAAGCTAG
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACTAG
** * * * * *
16438339 TGATCCTATCTCCCTAATATTACAGTGGAGCGGATTAAAA-TAA
1 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACTAG
*
16438382 AAGATCTTA--TCCCTGAAATTACAGTGGA
1 AA-ATCTTATCTCCCTGAGATTACAGTGGA
16438410 ATAGACCGCA
Statistics
Matches: 199, Mismatches: 39, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
42 18 0.09
43 10 0.05
44 130 0.65
47 5 0.03
49 4 0.02
51 4 0.02
54 22 0.11
55 4 0.02
56 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACTAG
Found at i:16438362 original size:98 final size:97
Alignment explanation
Indices: 16438183--16438364 Score: 226
Period size: 98 Copynumber: 1.9 Consensus size: 97
16438173 TACAGCAGAA
* * * *
16438183 CAGATTGAAGCTAATAATCTTATCTCCCGGAGATTACAGTGGAGCGGATTAAAGTAAAGGATCTT
1 CAGATTGAAGCCAATAATCTTATCTCCCGGAGATTACAGCGGAGCAGATTAAAGT-AAGGATCCT
* *
16438248 ATCTCTCTGAAGTTACAGTAGTGTAGATCGCAT
65 ATCTCCCTGAAATTACAGTAGTGTAGATCGCAT
* *
16438281 CAGATTGAAGCCAGA-AATCTTATCTTCCTGAGATTACAGCGGAGCAGATTAAAGCT-AGTGATC
1 CAGATTGAAGCCA-ATAATCTTATCTCCCGGAGATTACAGCGGAGCAGATTAAAG-TAAG-GATC
16438344 CTATCTCCCT-AATATTACAGT
63 CTATCTCCCTGAA-ATTACAGT
16438365 GGAGCGGATT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
97 4 0.06
98 66 0.92
99 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (97 bp):
CAGATTGAAGCCAATAATCTTATCTCCCGGAGATTACAGCGGAGCAGATTAAAGTAAGGATCCTA
TCTCCCTGAAATTACAGTAGTGTAGATCGCAT
Found at i:16438689 original size:50 final size:50
Alignment explanation
Indices: 16438429--16441255 Score: 1057
Period size: 50 Copynumber: 56.1 Consensus size: 50
16438419 AGAATTTTAT
* *
16438429 ATCTTATCTCCCTGGC-GATGCAGTGGAACAGATTAAAGCCACAACGGTGT
1 ATCTTACCTCCCTGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * ** * * ** *
16438479 ATCTTGCTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACGGCGATGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * *
16438529 GTGTTACTTTCCTGGTGAAGT--AGTGGAACAGATTAAAGCCACAACGGTGA
1 ATCTTACCTCCCT-G-GCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
** * * * ** * * * * * **
16438579 AT-TTTGCTCCCCTGACATTGCGGTTAAAAATATTAAAGCTACAGCAGCAA
1 ATCTTACCT-CCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
** * *
16438629 ATCTTACCTCCAAGGCAGTGCAGTGGACCAGATTAAAGCCACGACGGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * ** * * * * **
16438679 ATCTTGCCTCCTTGACATTGCGGTTAAAAAAGACTAAAGCTACAACAGAAA
1 ATCTTACCTCCCTGGCAGTGCAG-TGGAACAGATTAAAGCCACAACGGTGA
** * * * * *
16438730 ATCTTACCTCCCAAGCGGTGCAATGGAGCAGATTAAAGACACGACGGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* ** * * ** * * * * *
16438780 ATCTTGCCTCCCTAACATTGCGATTAAAAAAGATTAAAGCTATAACAGCGA
1 ATCTTACCTCCCTGGCAGTGC-AGTGGAACAGATTAAAGCCACAACGGTGA
* *
16438831 ATCTTACTTCCCTGGC-GATGGAGTGGAACAGATTAAAGCCACAACGGTGA
1 ATCTTACCTCCCTGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * ** ** * ** *
16438881 ATCTTA-CTCCCCTGACATTGTGGTTAAAAAGATTAAAGTTACAACAGTGA
1 ATCTTACCT-CCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
** * * ** *
16438931 ATCTTACCTCCAAGGCAGTGTAGTGGACCAGATTAAAGCCACGTCTGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
** * * * ** * * * *
16438981 ATCTTGTCTCCCTGACATTGCGGTTAAAAAAAGATTAAAGCTACAACAGCGA
1 ATCTTACCTCCCTGGCAGTGCAG-T-GGAACAGATTAAAGCCACAACGGTGA
** * * **
16439033 ATCTTACCTCCAAGGTAGTGCAGTGGACCAGATTAAAGCCATGACGGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * ** * * * * *
16439083 ATCTTGCCTCTCTGACATTGCGGTTAAAAAAAGATTAAAGCTATAACAGCGA
1 ATCTTACCTCCCTGGCAGTGCAG-T-GGAACAGATTAAAGCCACAACGGTGA
* ** * * *
16439135 ATCTTACCTCCCAGGTGGTGCAGTGGAGCAGATTAAAGCCACGACGGTAA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
*** * * * * ** * * ***
16439185 ATCTTGTTTCCTTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAACGA
1 ATCTTACCTCCCTGGCAGTGCAG-TGGAACAGATTAAAGCCACAACGGTGA
* * * * *
16439236 ATTTTACCTCCCTGGCAATGCAGTGGAGCAGATTAAAGCCACAACGGCGT
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * * * *
16439286 ATCTTGCTTCCCTGACATTGCAGT-TAACAAGACTAAAGCCACAGCGGCGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAAC-AGATTAAAGCCACAACGGTGA
* * * * *
16439336 GTGTTACTTCCCTGGCAATGCAGTGGAACAGATTAAAGCCACAACGATGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* ** * * ** * * * *
16439386 ATCTT-GCTCCCCTAACATTGCGGTTAAAAAGATTAAAGCTACAGCAGTGA
1 ATCTTACCT-CCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
** * * * *
16439436 ATCTTACCTCCAAGGTAGTACAGTGGACCAGATTAAAGCCACGACGGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * ** * * * * ** *
16439486 ATCTTGCCTCCTTGACATTGCGGTTAAAAAAGATTATAGCTACTATAGCGA
1 ATCTTACCTCCCTGGCAGTGCAG-TGGAACAGATTAAAGCCACAACGGTGA
* * * * * *
16439537 ATCTTACCTCTCAGGCGGTGCAGTGGAGCAGATTAAAGCCACGACGGTAA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * ** * * * *
16439587 ATCTTGCCTCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
1 ATCTTACCTCCCTGGCAGTGCAG-TGGAACAGATTAAAGCCACAACGGTGA
* *
16439638 ATCTTACTTCCCTGGC-GATGCAATGGAACAGATTAAAGCCACAACGGTGA
1 ATCTTACCTCCCTGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * ** * * * * *
16439688 ATCTT-GCTCCACTGACATTGCGGTTAAAAAGATTAAAGCTACATCAGCGA
1 ATCTTACCTCC-CTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
** * *
16439738 ATCTTACCTCCAAGGCAGTGCAGTGGACCAGATTAAAGCCACAACGTTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * ** * * * **
16439788 ATCTTTCCTCCTTGACATTGCGGTTAAAATAGATTAAAGCTACAACAGCAA
1 ATCTTACCTCCCTGGCAGTGCAG-TGGAACAGATTAAAGCCACAACGGTGA
* * ** * *
16439839 ATCTTATCTCCCAGGTGGTGCAGTGGAGCAGATTAAAGCCACGACGGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * ** * * * * * *
16439889 ATCTTACCTCCCTGACATTGCGGTTAAAAAAGATTTAAGCTATAACAGCGA
1 ATCTTACCTCCCTGGCAGTGCAG-TGGAACAGATTAAAGCCACAACGGTGA
* *
16439940 ATCTTACTTCCCTGGC-GATGCAGTAGAACAGATTAAAGCCACAACGGTGA
1 ATCTTACCTCCCTGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * ** * * * * *
16439990 ATCTT-GCTCCCCTGACAGTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
1 ATCTTACCT-CCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
** *
16440040 ATCTTACCTCCAAGGCAGTGCAGTGG-ACTAGATTAAAGCCACAACGATGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAAC-AGATTAAAGCCACAACGGTGA
* ** ** * * * ***
16440090 ATC-TAGCCTCCCTGACA-TTTACGTTAAAAAAAGATAAAAGCTACAACAACGA
1 ATCTTA-CCTCCCTGGCAGTGCA-G-T-GGAACAGATTAAAGCCACAACGGTGA
*** * * ** *
16440142 ATCTTACCTCTAAGGTAATGCAGT-GAGTAGATTAAAGCCACGACGGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * ** * * * *
16440191 ATCTTGCCTCCCTGACATTGCGGTTAAAAAAAGATTAAAGCTACAACAGCGA
1 ATCTTACCTCCCTGGCAGTGCAG-T-GGAACAGATTAAAGCCACAACGGTGA
* * ** * * *
16440243 ATATTATCTCCAAGGCGGTGCAGTGGAGCAGATTAAAGCCACGACGGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* ** * * ** * * * *
16440293 ATCTTGCCTCCCTGATATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
1 ATCTTACCTCCCTGGCAGTGCAG-TGGAACAGATTAAAGCCACAACGGTGA
*
16440344 ATCTTACCTCCCTGGC-GATGCAGTGGAGCAGATTAAAGCCACAACGCGT--
1 ATCTTACCTCCCTGGCAG-TGCAGTGGAACAGATTAAAGCCACAACG-GTGA
* * * * * * ** * * *
16440393 ATATTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * *
16440443 GTGTTACTTCCCTGGC-GATGCAGTGGAATAGATTAAAGCCACAACGGTAA
1 ATCTTACCTCCCTGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * ** * * * * *
16440493 ATCTTA-CTCCACTGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
1 ATCTTACCTCC-CTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
** * * * *
16440543 ATCTTACCTCCAAGGCAGTACAGTAGACCAGATTAAAGCCACGACGGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * ** * * *
16440593 ATCGTGCCTCCCTGACAAAT-CGGTTAAAAAAAGATTAAAGCTACAACAGTGA
1 ATCTTACCTCCCTGGC-AGTGCAG-T-GGAACAGATTAAAGCCACAACGGTGA
** * * * *
16440645 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCTACGACGGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * ** * * *
16440695 ATCTTGCCTCCTTGTCATTGCGGTTAAAAAAGATTAAAGCTACAACAGTGA
1 ATCTTACCTCCCTGGCAGTGCAG-TGGAACAGATTAAAGCCACAACGGTGA
* * ** *
16440746 ATCTTACCTCCCTGGCAATGCAGTGGAATAGATTAAAGCCACAACGACGT
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * * * * *
16440796 ATCTTACTTCCCCGACATTGCAGT-TAACAAAACTAAAGCCACAACAGCGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAAC-AGATTAAAGCCACAACGGTGA
* * * * *
16440846 GTGTTACTTCCCTGG-TGATGCAGTGGAACAGATTAAAGTCACAACGGTGA
1 ATCTTACCTCCCTGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * ** * * * *
16440896 ATCTT-GCTCCCCTGACATTACGGTTAAAAAGATTAAAGCTACAGCAGCT-A
1 ATCTTACCT-CCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAAC-GGTGA
** * * * *
16440946 ATCTTACCTCCAAGACAGTGCAGTGGAGCAGATTAAAGCCACGACGGTTA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * * ** * * * *
16440996 ACCTTGCCTCCCTGACATTGCGGTTAAAAAAAGATTAAAGCTACAACAGCGA
1 ATCTTACCTCCCTGGCAGTGCAG-T-GGAACAGATTAAAGCCACAACGGTGA
** *
16441048 ATCTTACCT-CCTAGGTGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGA
1 ATCTTACCTCCCT-GGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * ** * * *
16441098 ATCTTGCCTCCCTGACATTGCGGTTAAAAAGATTAAAGCTACAACAGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * *
16441148 ATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACACCGGTGA
1 ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
* * * * ** * * *
16441198 ATCTT-GCTTCCTCGACATTGCAGTTAAAAAAGATTAAAGCCACAATGGCGA
1 ATCTTACCTCCCT-GGCAGTGCAG-TGGAACAGATTAAAGCCACAACGGTGA
16441249 ATCTTAC
1 ATCTTAC
16441256 TTTCCAAAAG
Statistics
Matches: 1894, Mismatches: 808, Indels: 148
0.66 0.28 0.05
Matches are distributed among these distances:
48 3 0.00
49 94 0.05
50 1224 0.65
51 380 0.20
52 188 0.10
53 5 0.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (50 bp):
ATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGA
Found at i:16438765 original size:101 final size:101
Alignment explanation
Indices: 16438429--16441255 Score: 3011
Period size: 101 Copynumber: 28.1 Consensus size: 101
16438419 AGAATTTTAT
* ** * * * * *
16438429 ATCTTATCTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGTATCTTGCTTCCCCGA
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* * *
16438494 CATTGCAGTT-AAAAAGACTAAAGC--C-ACGGCGA
66 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * ** * ** * * *
16438526 TGAGTGTTACTTTCCTGGTGAAGTAGTGGAACAGATTAAAGCCACAACGGTGAATTTTG-CTCCC
1 --A-TCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCT-CC
* * *
16438590 CTGACATTGCGGTT-AAAAATATTAAAGCTACAGCAGCAA
62 CTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * *
16438629 ATCTTACCT-CCAAGGCAGTGCAGTGGACCAGATTAAAGCCACGACGGTGAATCTTGCCTCCTTG
1 ATCTTACCTCCCAA-GCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
* **
16438693 ACATTGCGGTTAAAAAAGACTAAAGCTACAACAGAAA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * *
16438730 ATCTTACCTCCCAAGCGGTGCAATGGAGCAGATTAAAGACACGACGGTGAATCTTGCCTCCCTAA
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* *
16438795 CATTGCGATTAAAAAAGATTAAAGCTATAACAGCGA
66 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* ** * * * *
16438831 ATCTTACTTCCCTGGCGATGGAGTGGAACAGATTAAAGCCACAACGGTGAATCTT-ACTCCCCTG
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTG
* * *
16438895 ACATTGTGGTT-AAAAAGATTAAAGTTACAACAGTGA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * ** * *
16438931 ATCTTACCT-CCAAGGCAGTGTAGTGGACCAGATTAAAGCCACGTCTGTGAATCTTGTCTCCCTG
1 ATCTTACCTCCCAA-GCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
16438995 ACATTGCGGTTAAAAAAAGATTAAAGCTACAACAGCGA
65 ACATTGCGGTT-AAAAAAGATTAAAGCTACAACAGCGA
* ** *
16439033 ATCTTACCT-CCAAG-GTAGTGCAGTGGACCAGATTAAAGCCATGACGGTGAATCTTGCCTCTCT
1 ATCTTACCTCCCAAGCG--GTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
*
16439096 GACATTGCGGTTAAAAAAAGATTAAAGCTATAACAGCGA
64 GACATTGCGGTT-AAAAAAGATTAAAGCTACAACAGCGA
* * * * ** *
16439135 ATCTTACCTCCCAGGTGGTGCAGTGGAGCAGATTAAAGCCACGACGGTAAATCTTGTTTCCTTGA
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
*
16439200 CATTGCGGTTAAAAAAGATTAAAGCTACAACAACGA
66 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* ** ** * * *
16439236 ATTTTACCTCCCTGGCAATGCAGTGGAGCAGATTAAAGCCACAACGGCGTATCTTGCTTCCCTGA
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* * * * * *
16439301 CATTGCAGTT-AACAAGACTAAAGCCACAGCGGCGA
66 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * ** ** * * *
16439336 GTGTTACTTCCCTGGCAATGCAGTGGAACAGATTAAAGCCACAACGATGAATCTTG-CTCCCCTA
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTG
* *
16439400 ACATTGCGGTT-AAAAAGATTAAAGCTACAGCAGTGA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * *
16439436 ATCTTACCT-CCAAG-GTAGTACAGTGGACCAGATTAAAGCCACGACGGTGAATCTTGCCTCCTT
1 ATCTTACCTCCCAAGCG--GTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
* * *
16439499 GACATTGCGGTTAAAAAAGATTATAGCTACTATAGCGA
64 GACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * *
16439537 ATCTTACCTCTCAGGCGGTGCAGTGGAGCAGATTAAAGCCACGACGGTAAATCTTGCCTCCCTGA
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
16439602 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
66 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* ** * * *
16439638 ATCTTACTTCCCTGGCGATGCAATGGAACAGATTAAAGCCACAACGGTGAATCTTG-CTCCACTG
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCC-CTG
*
16439702 ACATTGCGGTT-AAAAAGATTAAAGCTACATCAGCGA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * * *
16439738 ATCTTACCT-CCAAGGCAGTGCAGTGGACCAGATTAAAGCCACAACGTTGAATCTTTCCTCCTTG
1 ATCTTACCTCCCAA-GCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
* *
16439802 ACATTGCGGTTAAAATAGATTAAAGCTACAACAGCAA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * * *
16439839 ATCTTATCTCCCAGGTGGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTTACCTCCCTGA
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* *
16439904 CATTGCGGTTAAAAAAGATTTAAGCTATAACAGCGA
66 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* ** * * *
16439940 ATCTTACTTCCCTGGCGATGCAGTAGAACAGATTAAAGCCACAACGGTGAATCTTG-CTCCCCTG
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTG
* *
16440004 ACAGTGCGGTT-AAAAAGATTAAAGCTACAGCAGCGA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * *
16440040 ATCTTACCT-CCAAGGCAGTGCAGTGGA-CTAGATTAAAGCCACAACGATGAATCTAGCCTCCCT
1 ATCTTACCTCCCAA-GCGGTGCAGTGGAGC-AGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
* * *
16440103 GACATTTAC-GTTAAAAAAAGATAAAAGCTACAACAACGA
64 GACA-TTGCGGTT-AAAAAAGATTAAAGCTACAACAGCGA
* * * *
16440142 ATCTTACCT-CTAAG-GTAATGCAGT-GAGTAGATTAAAGCCACGACGGTGAATCTTGCCTCCCT
1 ATCTTACCTCCCAAGCG--GTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
16440204 GACATTGCGGTTAAAAAAAGATTAAAGCTACAACAGCGA
64 GACATTGCGGTT-AAAAAAGATTAAAGCTACAACAGCGA
* * *
16440243 ATATTATCT-CCAAGGCGGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTTGCCTCCCTG
1 ATCTTACCTCCCAA-GCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
*
16440307 ATATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
** * * * *
16440344 ATCTTACCTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACAACGCGT--ATATTGCTTCCCCG
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACG-GTGAATCTTGCCTCCCTG
* * * *
16440407 ACATTGCAGTT-AAAAAGATTAAAGCCACAGCGGCGA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * ** * ** * *
16440443 GTGTTACTTCCCTGGCGATGCAGTGGAATAGATTAAAGCCACAACGGTAAATCTT-ACTCCACTG
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCC-CTG
*
16440507 ACATTGCGGTT-AAAAAGATTAAAGCTACAGCAGCGA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * * * *
16440543 ATCTTACCT-CCAAGGCAGTACAGTAGACCAGATTAAAGCCACGACGGTGAATCGTGCCTCCCTG
1 ATCTTACCTCCCAA-GCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
* *
16440607 ACAAAT-CGGTTAAAAAAAGATTAAAGCTACAACAGTGA
65 AC-ATTGCGGTT-AAAAAAGATTAAAGCTACAACAGCGA
* * * *
16440645 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCCTCCTTGT
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
*
16440710 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGTGA
66 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
** ** ** ** * * * *
16440746 ATCTTACCTCCCTGGCAATGCAGTGGAATAGATTAAAGCCACAACGACGTATCTTACTTCCCCGA
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* * * *
16440811 CATTGCAGTTAACAAA-ACTAAAGCCACAACAGCGA
66 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * ** * * * *
16440846 GTGTTACTTCCCTGGTGATGCAGTGGAACAGATTAAAGTCACAACGGTGAATCTTG-CTCCCCTG
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTG
* * *
16440910 ACATTACGGTT-AAAAAGATTAAAGCTACAGCAGCTA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * *
16440946 ATCTTACCT-CCAAGACAGTGCAGTGGAGCAGATTAAAGCCACGACGGTTAACCTTGCCTCCCTG
1 ATCTTACCTCCCAAG-CGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
16441010 ACATTGCGGTTAAAAAAAGATTAAAGCTACAACAGCGA
65 ACATTGCGGTT-AAAAAAGATTAAAGCTACAACAGCGA
* * *
16441048 ATCTTACCTCCTAGGTGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
*
16441113 CATTGCGGTT-AAAAAGATTAAAGCTACAACAGTGA
66 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * * *
16441148 ATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACACCGGTGAATCTTG-CTTCCTCG
1 ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT-G
* * **
16441212 ACATTGCAGTTAAAAAAGATTAAAGCCACAATGGCGA
65 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
16441249 ATCTTAC
1 ATCTTAC
16441256 TTTCCAAAAG
Statistics
Matches: 2302, Mismatches: 361, Indels: 128
0.82 0.13 0.05
Matches are distributed among these distances:
98 2 0.00
99 96 0.04
100 864 0.38
101 876 0.38
102 446 0.19
103 17 0.01
104 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (101 bp):
ATCTTACCTCCCAAGCGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
Found at i:16439768 original size:302 final size:302
Alignment explanation
Indices: 16438429--16441255 Score: 3256
Period size: 302 Copynumber: 9.4 Consensus size: 302
16438419 AGAATTTTAT
* *
16438429 ATCTTA-TCTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGTATCTTGCTTCCCCG
1 ATCTTACT-TCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC-TCCCTG
* * * * * ** *
16438493 ACATTGCAGTT-AAAAAGACTAAAGC--C-ACGGCGATGAGTGTTACTTTCCTGGTGAAGT--AG
64 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA--A-TCTTAC-CTCCAAG-GCAGTGCAG
* * *
16438552 TGGAACAGATTAAAGCCACAACGGTGAATTTTG-CTCCCCTGACATTGCGGTT-AAAAATATTAA
124 TGGAGCAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTGACATTGCGGTTAAAAAAGATTAA
* * * *
16438615 AGCTACAGCAGCAAATCTTACCTCCAAGGCAGTGCAGTGGACCAGATTAAAGCCACGACGGTGAA
188 AGCTACAACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAA
* * **
16438680 TCTTGCCTCCTTGACATTGCGGTTAAAAAAGACTAAAGCTACAACAGAAA
253 TCTTGCCTCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* ** * * * * * *
16438730 ATCTTACCTCCCAAGCGGTGCAATGGAGCAGATTAAAGACACGACGGTGAATCTTGCCTCCCTAA
1 ATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-CTCCCTGA
* * * ** * *
16438795 CATTGCGATTAAAAAAGATTAAAGCTATAACAGCGAATCTTACTTCCCTGGC-GATGGAGTGGAA
65 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCAAGGCAG-TGCAGTGGAG
* * *
16438859 CAGATTAAAGCCACAACGGTGAATCTT-ACTCCCCTGACATTGTGGTT-AAAAAGATTAAAGTTA
129 CAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTGACATTGCGGTTAAAAAAGATTAAAGCTA
* * * * * *
16438922 CAACAGTGAATCTTACCTCCAAGGCAGTGTAGTGGACCAGATTAAAGCCACGTCTGTGAATCTTG
193 CAACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTTG
*
16438987 TCTCCCTGACATTGCGGTTAAAAAAAGATTAAAGCTACAACAGCGA
258 CCTCCCTGACATTGCGGTT-AAAAAAGATTAAAGCTACAACAGCGA
* ** * * ** *
16439033 ATCTTACCTCCAAGG-TAGTGCAGTGGACCAGATTAAAGCCATGACGGTGAATCTTGCCTCTCTG
1 ATCTTACTTCCCTGGCGA-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-CTCCCTG
* * **
16439097 ACATTGCGGTTAAAAAAAGATTAAAGCTATAACAGCGAATCTTACCTCCCAGGTGGTGCAGTGGA
64 ACATTGCGGTT-AAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCAAGGCAGTGCAGTGGA
* * ** *
16439162 GCAGATTAAAGCCACGACGGTAAATCTTGTTTCCTTGACATTGCGGTTAAAAAAGATTAAAGCTA
128 GCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAAGATTAAAGCTA
* * * * * * *
16439227 CAACAACGAATTTTACCTCCCTGGCAATGCAGTGGAGCAGATTAAAGCCACAACGGCGTATCTTG
193 CAACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTTG
* * * * * * *
16439292 CTTCCCTGACATTGCAGTT-AACAAGACTAAAGCCACAGCGGCGA
258 CCTCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * * *
16439336 GTGTTACTTCCCTGGCAATGCAGTGGAACAGATTAAAGCCACAACGATGAATCTTGCTCCCCTAA
1 ATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-CCCTGA
* * * * *
16439401 CATTGCGGTT-AAAAAGATTAAAGCTACAGCAGTGAATCTTACCTCCAAGGTAGTACAGTGGACC
65 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCAAGGCAGTGCAGTGGAGC
* * * *
16439465 AGATTAAAGCCACGACGGTGAATCTTGCCTCCTTGACATTGCGGTTAAAAAAGATTATAGCTACT
130 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACA
* * * *
16439530 ATAGCGAATCTTACCTCTCAGGCGGTGCAGTGGAGCAGATTAAAGCCACGACGGTAAATCTTGCC
195 ACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTTGCC
16439595 TCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
260 TCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
*
16439638 ATCTTACTTCCCTGGCGATGCAATGGAACAGATTAAAGCCACAACGGTGAATCTTGCTCCACTGA
1 ATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTCC-CTGA
* *
16439703 CATTGCGGTT-AAAAAGATTAAAGCTACATCAGCGAATCTTACCTCCAAGGCAGTGCAGTGGACC
65 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCAAGGCAGTGCAGTGGAGC
* * * *
16439767 AGATTAAAGCCACAACGTTGAATCTTTCCTCCTTGACATTGCGGTTAAAATAGATTAAAGCTACA
130 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACA
* * ** *
16439832 ACAGCAAATCTTATCTCCCAGGTGGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTTACC
195 ACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTTGCC
* *
16439897 TCCCTGACATTGCGGTTAAAAAAGATTTAAGCTATAACAGCGA
260 TCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
*
16439940 ATCTTACTTCCCTGGCGATGCAGTAGAACAGATTAAAGCCACAACGGTGAATCTTGCTCCCCTGA
1 ATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-CCCTGA
* *
16440005 CAGTGCGGTT-AAAAAGATTAAAGCTACAGCAGCGAATCTTACCTCCAAGGCAGTGCAGTGGA-C
65 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCAAGGCAGTGCAGTGGAGC
* * * *
16440068 TAGATTAAAGCCACAACGATGAATCTAGCCTCCCTGACATTTAC-GTTAAAAAAAGATAAAAGCT
130 -AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACA-TTGCGGTT-AAAAAAGATTAAAGCT
* ** * * *
16440132 ACAACAACGAATCTTACCTCTAAGGTAATGCAGT-GAGTAGATTAAAGCCACGACGGTGAATCTT
192 ACAACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTT
16440196 GCCTCCCTGACATTGCGGTTAAAAAAAGATTAAAGCTACAACAGCGA
257 GCCTCCCTGACATTGCGGTT-AAAAAAGATTAAAGCTACAACAGCGA
* ** * * *
16440243 ATATTA-TCTCCAAGGCGGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTTGCCTCCCTG
1 ATCTTACT-TCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-CTCCCTG
* **
16440307 ATATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCTGGC-GATGCAGTGGA
64 ACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCAAGGCAG-TGCAGTGGA
* * * * *
16440371 GCAGATTAAAGCCACAACGCGT--ATATTGCTTCCCCGACATTGCAGTT-AAAAAGATTAAAGCC
128 GCAGATTAAAGCCACAACG-GTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAAGATTAAAGCT
* * * * * * ** * *
16440433 ACAGCGGCGAGTGTTACTTCCCTGGC-GATGCAGTGGAATAGATTAAAGCCACAACGGTAAATCT
192 ACAACAGCGAATCTTACCTCCCAGGCAG-TGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCT
* *
16440497 T-ACTCCACTGACATTGCGGTT-AAAAAGATTAAAGCTACAGCAGCGA
256 TGCCTCC-CTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* ** * * * * *
16440543 ATCTTACCTCCAAGGC-AGTACAGTAGACCAGATTAAAGCCACGACGGTGAATCGTGCCTCCCTG
1 ATCTTACTTCCCTGGCGA-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-CTCCCTG
* * *
16440607 ACAAAT-CGGTTAAAAAAAGATTAAAGCTACAACAGTGAATCTTACCTCCCAA-GCGGTGCAGTG
64 AC-ATTGCGGTT-AAAAAAGATTAAAGCTACAACAGCGAATCTTACCT-CCAAGGCAGTGCAGTG
* * * *
16440670 GAGCAGATTAAAGCTACGACGGTGAATCTTGCCTCCTTGTCATTGCGGTTAAAAAAGATTAAAGC
126 GAGCAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAAGATTAAAGC
* * * ** * ** *
16440735 TACAACAGTGAATCTTACCTCCCTGGCAATGCAGTGGAATAGATTAAAGCCACAACGACGTATCT
191 TACAACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCT
* * * * * * *
16440800 TACTTCCCCGACATTGCAGTTAACAAA-ACTAAAGCCACAACAGCGA
256 TGCCTCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * *
16440846 GTGTTACTTCCCTGGTGATGCAGTGGAACAGATTAAAGTCACAACGGTGAATCTTGCTCCCCTGA
1 ATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT-CCCTGA
* * * *
16440911 CATTACGGTT-AAAAAGATTAAAGCTACAGCAGCTAATCTTACCTCCAAGACAGTGCAGTGGAGC
65 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCAAGGCAGTGCAGTGGAGC
* * *
16440975 AGATTAAAGCCACGACGGTTAACCTTGCCTCCCTGACATTGCGGTTAAAAAAAGATTAAAGCTAC
130 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTT-AAAAAAGATTAAAGCTAC
* ** *
16441040 AACAGCGAATCTTACCTCCTAGGTGGTGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGC
194 AACAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTTGC
*
16441105 CTCCCTGACATTGCGGTT-AAAAAGATTAAAGCTACAACAGTGA
259 CTCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
* * * *
16441148 ATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACACCGGTGAATCTTGCTTCCTCGA
1 ATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTCCCT-GA
* * **
16441213 CATTGCAGTTAAAAAAGATTAAAGCCACAATGGCGAATCTTAC
65 CATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGAATCTTAC
16441256 TTTCCAAAAG
Statistics
Matches: 2170, Mismatches: 301, Indels: 108
0.84 0.12 0.04
Matches are distributed among these distances:
299 1 0.00
300 93 0.04
301 438 0.20
302 895 0.41
303 489 0.23
304 161 0.07
305 93 0.04
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (302 bp):
ATCTTACTTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTCCCTGAC
ATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCAAGGCAGTGCAGTGGAGCA
GATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAAGATTAAAGCTACAA
CAGCGAATCTTACCTCCCAGGCAGTGCAGTGGAGCAGATTAAAGCCACGACGGTGAATCTTGCCT
CCCTGACATTGCGGTTAAAAAAGATTAAAGCTACAACAGCGA
Found at i:16449291 original size:19 final size:19
Alignment explanation
Indices: 16449269--16449319 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
16449259 TCATATATTA
* *
16449269 AAAATTTATATAAACTGAT
1 AAAATTTATAAAAACTCAT
* *
16449288 AAAATTCATAAAAATTCAT
1 AAAATTTATAAAAACTCAT
16449307 AAAGATTTATAAA
1 AAA-ATTTATAAA
16449320 TATTATAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (19 bp):
AAAATTTATAAAAACTCAT
Found at i:16449418 original size:13 final size:13
Alignment explanation
Indices: 16449390--16449424 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
16449380 TTTATCCAAC
*
16449390 TTATAAAAA-ATT
1 TTATAAAAACATA
16449402 TTATAAAAACATA
1 TTATAAAAACATA
16449415 TTATAAAAAC
1 TTATAAAAAC
16449425 TAATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (13 bp):
TTATAAAAACATA
Found at i:16450235 original size:19 final size:18
Alignment explanation
Indices: 16450213--16450313 Score: 57
Period size: 19 Copynumber: 5.2 Consensus size: 18
16450203 TTTAAATGAC
16450213 TTTTTATATATTTTATATA
1 TTTTTATA-ATTTTATATA
*
16450232 TTTTTATAA-TTTATTAGAA
1 TTTTTATAATTTTA-TA-TA
16450251 TTTTT-TATATTGCTTATA-A
1 TTTTTATA-ATT--TTATATA
16450270 GTTTTTATGAATTTT-TATA
1 -TTTTTAT-AATTTTATATA
*
16450289 TTTTTGATAAAATTTTAAATA
1 TTTTT-AT--AATTTTATATA
16450310 TTTT
1 TTTT
16450314 GAATATGTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 24
0.71 0.03 0.26
Matches are distributed among these distances:
17 4 0.06
18 12 0.18
19 21 0.32
20 12 0.18
21 13 0.20
22 4 0.06
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTTTATATA
Found at i:16450255 original size:29 final size:30
Alignment explanation
Indices: 16450223--16450298 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
16450213 TTTTTATATA
16450223 TTTTATATATTTTTATAA-TTTATTA-GAAT
1 TTTTATATATTTTTATAAGTTT-TTATGAAT
*
16450252 TTTT-TATATTGCTTATAAGTTTTTATGAAT
1 TTTTATATATT-TTTATAAGTTTTTATGAAT
*
16450282 TTTTATAT-TTTTGATAA
1 TTTTATATATTTTTATAA
16450299 AATTTTAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 6 0.15
29 18 0.45
30 13 0.32
31 3 0.08
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (30 bp):
TTTTATATATTTTTATAAGTTTTTATGAAT
Found at i:16450304 original size:29 final size:28
Alignment explanation
Indices: 16450213--16450305 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 28
16450203 TTTAAATGAC
16450213 TTTTTAT-ATATTTTATATATTTTTAT-AA
1 TTTTTATGA-ATTTT-TATATTTTTATAAA
* *
16450241 TTTATTA-GAATTTTTTATATTGCTTATAAG
1 TTT-TTATGAA-TTTTTATATT-TTTATAAA
16450271 TTTTTATGAATTTTTATATTTTTGATAAA
1 TTTTTATGAATTTTTATATTTTT-ATAAA
*
16450300 ATTTTA
1 TTTTTA
16450306 AATATTTTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
28 12 0.23
29 34 0.64
30 7 0.13
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (28 bp):
TTTTTATGAATTTTTATATTTTTATAAA
Found at i:16450390 original size:32 final size:32
Alignment explanation
Indices: 16450343--16450415 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
16450333 ATAAAGAAAT
* * *
16450343 TATAAA-TTTTTTTATAATTTTTGTAAGTTTA
1 TATAAATTTTTTTTATAATCTTTATAAGTATA
16450374 TATAAATTTTTTTTATAATCTTTATAAGTATA
1 TATAAATTTTTTTTATAATCTTTATAAGTATA
*
16450406 TATCAATTTT
1 TATAAATTTT
16450416 AATAATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 6 0.16
32 31 0.84
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (32 bp):
TATAAATTTTTTTTATAATCTTTATAAGTATA
Found at i:16454231 original size:21 final size:21
Alignment explanation
Indices: 16454206--16454248 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
16454196 TTTAAGAATT
16454206 TTTTTATTA-AATTATATATTA
1 TTTTTA-TAGAATTATATATTA
*
16454227 TTTTTATAGTATTATATATTA
1 TTTTTATAGAATTATATATTA
16454248 T
1 T
16454249 GATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTATAGAATTATATATTA
Found at i:16454377 original size:14 final size:14
Alignment explanation
Indices: 16454358--16454385 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16454348 TAAATTATTT
16454358 ATTATTTATATTAA
1 ATTATTTATATTAA
16454372 ATTATTTATATTAA
1 ATTATTTATATTAA
16454386 TAACCTTATT
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:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTATTTATATTAA
Found at i:16454547 original size:44 final size:45
Alignment explanation
Indices: 16454493--16454585 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
16454483 ATTACAACAT
* *
16454493 CATTCTATTCAACCAAAC-ATAAGAA-TATTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACAAT-AGAATTACTATTACAGTTCTATTC
*
16454537 CATTCCATTCAACCAAACAATTGAATTACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACAATAGAATTACTATTACAGTTCTATTC
16454582 CATT
1 CATT
16454586 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 20 0.45
45 24 0.55
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.37
Consensus pattern (45 bp):
CATTCCATTCAACCAAACAATAGAATTACTATTACAGTTCTATTC
Found at i:16454588 original size:16 final size:16
Alignment explanation
Indices: 16454567--16454638 Score: 117
Period size: 16 Copynumber: 4.5 Consensus size: 16
16454557 TTGAATTACT
*
16454567 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
16454583 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
*
16454599 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
16454615 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
16454631 ATTACAGC
1 ATTACAGC
16454639 GAACCAAACG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:16455605 original size:19 final size:18
Alignment explanation
Indices: 16455581--16455616 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
16455571 TAATAAATTA
*
16455581 TTTAATATTACAATTTTAT
1 TTTAATAATA-AATTTTAT
16455600 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
16455617 ACAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:16455888 original size:17 final size:18
Alignment explanation
Indices: 16455851--16455890 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
16455841 CATTATTGAT
**
16455851 TATTAATTTTATATATGA
1 TATTAATTTTATATAAAA
16455869 TATTAATTTT-TATAAAA
1 TATTAATTTTATATAAAA
16455886 TATTA
1 TATTA
16455891 TCACATTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TATTAATTTTATATAAAA
Found at i:16455956 original size:31 final size:34
Alignment explanation
Indices: 16455915--16455983 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
16455905 AAATTTTTAG
* *
16455915 AAAATGATTTTAAA-GAAATTA-CTAAACAACAA
1 AAAATGATTTTAAACAAAATTATCCAAACAACAA
*
16455947 AAAAT-ATTTTAAACAAAATTATCCAAACACCAA
1 AAAATGATTTTAAACAAAATTATCCAAACAACAA
16455980 AAAA
1 AAAA
16455984 AAATCAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 8 0.25
32 11 0.34
33 13 0.41
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (34 bp):
AAAATGATTTTAAACAAAATTATCCAAACAACAA
Found at i:16455999 original size:20 final size:20
Alignment explanation
Indices: 16455976--16456015 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16455966 TATCCAAACA
*
16455976 CCAAAAAAAAATCAATTTTT
1 CCAAAAAAAAAGCAATTTTT
*
16455996 CCAAAAAATAAGCAATTTTT
1 CCAAAAAAAAAGCAATTTTT
16456016 TAGAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (20 bp):
CCAAAAAAAAAGCAATTTTT
Found at i:16456333 original size:29 final size:31
Alignment explanation
Indices: 16456291--16456351 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
16456281 ACAATTAATT
* *
16456291 TTTTTTAATTTAAATAATT-TATAAA-AAATA
1 TTTTTTAATATAAAAAATTAT-TAAATAAATA
16456321 TTTTTTAA-ATAAAAAATTATTAAATAAATA
1 TTTTTTAATATAAAAAATTATTAAATAAATA
16456351 T
1 T
16456352 AAACAACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TTTTTTAATATAAAAAATTATTAAATAAATA
Found at i:16456392 original size:8 final size:9
Alignment explanation
Indices: 16456371--16456395 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16456361 AAAAATATAT
16456371 TTTTTAATA
1 TTTTTAATA
16456380 TTTTTAATA
1 TTTTTAATA
16456389 TTTTTAA
1 TTTTTAA
16456396 AAAAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:16459152 original size:99 final size:98
Alignment explanation
Indices: 16458871--16459361 Score: 730
Period size: 98 Copynumber: 5.0 Consensus size: 98
16458861 AAACGAAAAG
* **
16458871 AAACTATTTTAACTTCCAAGTATTTCAAGTTCCAAACCGAGGAATGATGTTCCATATACCAATAT
1 AAACTATTTTAACTT-CAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
* * *
16458936 GGAGGTGCTACTATAAATTTCAGTTGAAGCTAGC
65 GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* **
16458970 AAACTATTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGACTGATACTCCATATGTCAATATG
1 AAACTATTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATATG
*
16459035 GAGCTGCTACTGTAAATTTCTGTTGAAGCTAGT
66 GAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* * *
16459068 AAACTATTTTAACTTCAAGTATTTCAAAATTCAAAACCGAGGAATGATGTTCTATATGTCAATGT
1 AAACTATTTTAACTTCAAGTATTTC-AAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
*
16459133 GGAGCTGCTACTGTAAATTTCAGTAGAAGCTAGT
65 GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
16459167 AAACTATTTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
1 AAACTA-TTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
* *
16459232 GGAGCAGCTACTGTAAATTTCAGTTGAAGCTCGT
65 GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* * * * * *
16459266 AAACAATTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGAAATAATGCTCCATATGTAAATACG
1 AAACTATTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATATG
* * *
16459331 GAGCTGATACTGTAAATCTCAGATGAAGCTA
66 GAGCTGCTACTGTAAATTTCAGTTGAAGCTA
16459362 ACAAAGTATT
Statistics
Matches: 355, Mismatches: 35, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
98 178 0.50
99 158 0.45
100 19 0.05
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (98 bp):
AAACTATTTTAACTTCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATATG
GAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
Found at i:16459418 original size:29 final size:29
Alignment explanation
Indices: 16459374--16459435 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
16459364 AAAGTATTTC
* *
16459374 AAGTTCAAAACTAAGGACTGATGTTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
*
16459403 AAGTTCAAAACCAAGGAGTGATATTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
16459432 AAGT
1 AAGT
16459436 CAATATGGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (29 bp):
AAGTTCAAAACCAAGGACTGATATTCCAT
Found at i:16462183 original size:19 final size:18
Alignment explanation
Indices: 16462140--16462183 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
16462130 GATTTGATAT
* *
16462140 TAAAAGGTTGTTAATAAA
1 TAAAATGTTATTAATAAA
16462158 TAAAAATGTTATTAATATAA
1 T-AAAATGTTATTAATA-AA
16462178 TAAAAT
1 TAAAAT
16462184 AAAACTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 18 0.82
20 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (18 bp):
TAAAATGTTATTAATAAA
Found at i:16467264 original size:23 final size:23
Alignment explanation
Indices: 16467236--16467282 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
16467226 TTTCAAGTGC
16467236 GCTAGTGATAGTGGCACTTCGGT
1 GCTAGTGATAGTGGCACTTCGGT
16467259 GCTAGTGATAGTGGCACTTCGGT
1 GCTAGTGATAGTGGCACTTCGGT
16467282 G
1 G
16467283 TCGTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.30
Consensus pattern (23 bp):
GCTAGTGATAGTGGCACTTCGGT
Found at i:16479364 original size:16 final size:16
Alignment explanation
Indices: 16479345--16479384 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
16479335 TAATTTGATG
*
16479345 ATTTTACTAACAATTA
1 ATTTTAATAACAATTA
*
16479361 ATTTTAATAATAATTA
1 ATTTTAATAACAATTA
*
16479377 GTTTTAAT
1 ATTTTAAT
16479385 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTTAATAACAATTA
Found at i:16479385 original size:22 final size:23
Alignment explanation
Indices: 16479358--16479419 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
16479348 TTACTAACAA
* *
16479358 TTAATTTTAATAATAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
*
16479380 TTAATTTTATTAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
16479403 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
16479420 CGGGCCGGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 15 0.44
23 13 0.38
24 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:16480416 original size:25 final size:29
Alignment explanation
Indices: 16480355--16480418 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
16480345 TTCATTTTGT
*
16480355 GTAAATAAAAAGAAAAGAAATATAAACATA
1 GTAAATAAAAAGAAAAG-AATAGAAACATA
*
16480385 GTTAATAAAAAGAAAAG-A-AGAAA-A-A
1 GTAAATAAAAAGAAAAGAATAGAAACATA
16480410 GTAAATAAA
1 GTAAATAAA
16480419 TATATATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 9 0.29
26 1 0.03
27 4 0.13
28 1 0.03
30 16 0.52
ACGTcount: A:0.70, C:0.02, G:0.12, T:0.16
Consensus pattern (29 bp):
GTAAATAAAAAGAAAAGAATAGAAACATA
Found at i:16480433 original size:39 final size:39
Alignment explanation
Indices: 16480390--16480470 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
16480380 ACATAGTTAA
*
16480390 TAAAAAGAAAAGAAGAAAAAGTAAATAAATATATATAAG
1 TAAAAAGAAAAGAAGAAAAAGTAAAGAAATATATATAAG
16480429 TAAAAAGAAAAGAAGAAAAAGTAAAGAAATATATATAAG
1 TAAAAAGAAAAGAAGAAAAAGTAAAGAAATATATATAAG
16480468 TAA
1 TAA
16480471 GTATGTTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (39 bp):
TAAAAAGAAAAGAAGAAAAAGTAAAGAAATATATATAAG
Found at i:16480473 original size:43 final size:43
Alignment explanation
Indices: 16480361--16480473 Score: 137
Period size: 39 Copynumber: 2.7 Consensus size: 43
16480351 TTGTGTAAAT
* * *
16480361 AAAAAGAAAAGAAATATAAACATAGTTAA-TAAAAAGAAAAGAAG
1 AAAAAGTAAAGAAATATATATA-AG-TAAGTAAAAAGAAAAGAAG
*
16480405 AAAAAGTAAA-TAA-ATATAT-A-TAAGTAAAAAGAAAAGAAG
1 AAAAAGTAAAGAAATATATATAAGTAAGTAAAAAGAAAAGAAG
16480444 AAAAAGTAAAGAAATATATATAAGTAAGTA
1 AAAAAGTAAAGAAATATATATAAGTAAGTA
16480474 TGTTAAATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
38 3 0.05
39 25 0.42
40 3 0.05
41 6 0.10
42 5 0.08
43 8 0.14
44 9 0.15
ACGTcount: A:0.68, C:0.01, G:0.13, T:0.18
Consensus pattern (43 bp):
AAAAAGTAAAGAAATATATATAAGTAAGTAAAAAGAAAAGAAG
Found at i:16483549 original size:41 final size:41
Alignment explanation
Indices: 16483504--16483591 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
16483494 ACTGGCACTT
*
16483504 AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCATTA
1 AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCAATA
* *
16483545 AGCCTGCTAGACATATAGTCTGAAGTGTTTCACCGGCAATA
1 AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCAATA
16483586 AGCCTG
1 AGCCTG
16483592 TTAAGCGCTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCAATA
Found at i:16494098 original size:29 final size:29
Alignment explanation
Indices: 16494052--16494111 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
16494042 CGAGTTACCT
*
16494052 TGGAATGTTTTTCCGAATATTATTAAGCA
1 TGGAATATTTTTCCGAATATTATTAAGCA
*
16494081 TGGAATATTTTTCTGAATATTATTAAGCA
1 TGGAATATTTTTCCGAATATTATTAAGCA
16494110 TG
1 TG
16494112 ATGATAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (29 bp):
TGGAATATTTTTCCGAATATTATTAAGCA
Found at i:16500952 original size:5 final size:6
Alignment explanation
Indices: 16500924--16500954 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
16500914 TATCTTTGTC
16500924 TTTAAT TTTAAT TTTAAT TTTAA- TTTAAT TT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TT
16500955 GTTTATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:16506774 original size:45 final size:45
Alignment explanation
Indices: 16506740--16506870 Score: 163
Period size: 45 Copynumber: 2.9 Consensus size: 45
16506730 TTTGTCTGAT
** *
16506740 TCATGATACCATGGCGTCTTTCAACTCTGGTCTTACTCGTTAGAA
1 TCATGATACCATAACGTCTTTCAACTATGGTCTTACTCGTTAGAA
* * * * *
16506785 TCATGATGCCATAACGTCTTTCAGCTATGGTCTTACTTGCTAAAA
1 TCATGATACCATAACGTCTTTCAACTATGGTCTTACTCGTTAGAA
** *
16506830 TTGTGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTT
1 TCATGATACCATAACGTCTTTCAACTATGGTCTTACTCGTT
16506871 TTCGGTATGG
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 73 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (45 bp):
TCATGATACCATAACGTCTTTCAACTATGGTCTTACTCGTTAGAA
Found at i:16506885 original size:45 final size:45
Alignment explanation
Indices: 16506754--16506954 Score: 160
Period size: 45 Copynumber: 4.5 Consensus size: 45
16506744 GATACCATGG
* *
16506754 CGTCTTTCAACTCTGGTCTTACTCG--TTAGAATCATGATGCCATAA
1 CGTCTTTCAACTATGGTCTTACTCGTTTTAG-GT-ATGATGCCATAA
* * * ** ** *
16506799 CGTCTTTCAGCTATGGTCTTACTTGCTAAAATTGTGATGCCATAA
1 CGTCTTTCAACTATGGTCTTACTCGTTTTAGGTATGATGCCATAA
* *
16506844 CGTCTTTCAACTATGGTCTTACTCGTTTTCGGTATGGTGCCAT-A
1 CGTCTTTCAACTATGGTCTTACTCGTTTTAGGTATGATGCCATAA
* * * * *
16506888 GGTTCTTTCAACTACGGTCTTATTTAGTTCT-GGTAT-AGTGCCATAA
1 CG-TCTTTCAACTATGGTCTTA-CTCGTTTTAGGTATGA-TGCCATAA
*
16506934 TGTCTTTCAACTATGGTCTTA
1 CGTCTTTCAACTATGGTCTTA
16506955 TTTGTTTCAT
Statistics
Matches: 124, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
44 2 0.02
45 113 0.91
46 8 0.06
47 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (45 bp):
CGTCTTTCAACTATGGTCTTACTCGTTTTAGGTATGATGCCATAA
Found at i:16508896 original size:42 final size:42
Alignment explanation
Indices: 16508837--16508922 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
16508827 TCTTGTTGTG
*
16508837 TTATGCCATGATAGGGAACTATTTTTCATAATGATTTGTATA
1 TTATGCCATGATAGGGAACTATTTTGCATAATGATTTGTATA
16508879 TTATGCCATGATAGGGAACTATTTTGCATAATGATTTGTATA
1 TTATGCCATGATAGGGAACTATTTTGCATAATGATTTGTATA
16508921 TT
1 TT
16508923 TGTTAATTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (42 bp):
TTATGCCATGATAGGGAACTATTTTGCATAATGATTTGTATA
Found at i:16508912 original size:23 final size:23
Alignment explanation
Indices: 16508844--16508913 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 23
16508834 GTGTTATGCC
*
16508844 ATGATAGGGAACTATTTTTCATA
1 ATGATAGGGAACTATTTTGCATA
** * * *
16508867 ATGAT-TTGTA-TATTATGC--C
1 ATGATAGGGAACTATTTTGCATA
16508886 ATGATAGGGAACTATTTTGCATA
1 ATGATAGGGAACTATTTTGCATA
16508909 ATGAT
1 ATGAT
16508914 TTGTATATTT
Statistics
Matches: 32, Mismatches: 11, Indels: 8
0.63 0.22 0.16
Matches are distributed among these distances:
19 5 0.16
20 2 0.06
21 13 0.41
22 2 0.06
23 10 0.31
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (23 bp):
ATGATAGGGAACTATTTTGCATA
Found at i:16509205 original size:46 final size:46
Alignment explanation
Indices: 16509152--16509331 Score: 146
Period size: 46 Copynumber: 3.9 Consensus size: 46
16509142 GTTCTTGCCC
*
16509152 AGGTTCCCAATTCCTGCATATGTTGCGGACTGGAGAATACAGATTT
1 AGGTTCCCAACTCCTGCATATGTTGCGGACTGGAGAATACAGATTT
* ** * ** * * *
16509198 AGGTTCCCAATTCCTATATATGTAGCAAACTAGAGAATACAAATTC
1 AGGTTCCCAACTCCTGCATATGTTGCGGACTGGAGAATACAGATTT
** * * * * *
16509244 AAATTCCCAGCTCTTCCATATGTTGTGGACTGAAGAATACATG-TTT
1 AGGTTCCCAACTCCTGCATATGTTGCGGACTGGAGAATACA-GATTT
* * * * *
16509290 AGTTTCCCAGCTCTTGTATATGTTGCGGATTGGAGAATACAG
1 AGGTTCCCAACTCCTGCATATGTTGCGGACTGGAGAATACAG
16509332 TAATATTAAA
Statistics
Matches: 103, Mismatches: 30, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
45 1 0.01
46 102 0.99
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (46 bp):
AGGTTCCCAACTCCTGCATATGTTGCGGACTGGAGAATACAGATTT
Found at i:16511527 original size:15 final size:15
Alignment explanation
Indices: 16511504--16511534 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16511494 CACCTGCACT
*
16511504 ACCATAAGTTGAACC
1 ACCACAAGTTGAACC
16511519 ACCACAAGTTGAACC
1 ACCACAAGTTGAACC
16511534 A
1 A
16511535 GAGGATAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.29, G:0.13, T:0.16
Consensus pattern (15 bp):
ACCACAAGTTGAACC
Found at i:16516738 original size:50 final size:50
Alignment explanation
Indices: 16516683--16516912 Score: 255
Period size: 50 Copynumber: 4.5 Consensus size: 50
16516673 CAATGTCATA
* ** * * * * *
16516683 TCCCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGTCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
*
16516733 TCCCAGACATAGTCTTACGA-GGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGGTGCCAACGCCATG
* *
16516783 TCCCAGACATGGTCTTACATGGAACCTCTCATCTCGGTGCCAACACCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * *
16516833 TCCCAGACATGGTCTTACATGGGACCTTTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACC--TC-TCATCTC---GGTGCCAACGCCATG
*
16516889 TCCTAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
16516913 TCTCATTCCC
Statistics
Matches: 154, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 109 0.71
51 1 0.01
52 2 0.01
53 6 0.04
56 35 0.23
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:16525292 original size:16 final size:16
Alignment explanation
Indices: 16525273--16525322 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
16525263 TGTTTATTTC
16525273 TTGTTTTATGTTTAGT
1 TTGTTTTATGTTTAGT
**
16525289 TTGTTTTCAT-TTTTTT
1 TTGTTTT-ATGTTTAGT
*
16525305 TTGTTTTTTGTTTAGT
1 TTGTTTTATGTTTAGT
16525321 TT
1 TT
16525323 TCTTAACGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 1 0.04
16 24 0.89
17 2 0.07
ACGTcount: A:0.08, C:0.02, G:0.14, T:0.76
Consensus pattern (16 bp):
TTGTTTTATGTTTAGT
Found at i:16527225 original size:39 final size:39
Alignment explanation
Indices: 16527100--16527237 Score: 154
Period size: 39 Copynumber: 3.5 Consensus size: 39
16527090 ATGTTTTTTA
* * *
16527100 GTATTGTTATATATGCTTGAATATTATGTGATTATATGAT
1 GTATTGTGATACATGCTTAAATATTATGTGATTATATG-T
* * *
16527140 -TATTATGAT-CTATGCTTGAATATTATGTGATTATATGA
1 GTATTGTGATAC-ATGCTTAAATATTATGTGATTATATGT
* *
16527178 GTATTGTGATACATGCTTAAACATTAGGTGATTATATGT
1 GTATTGTGATACATGCTTAAATATTATGTGATTATATGT
* *
16527217 GTAATGTGATACAAGCTTAAA
1 GTATTGTGATACATGCTTAAA
16527238 AGTGAGTATG
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 83 0.99
40 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (39 bp):
GTATTGTGATACATGCTTAAATATTATGTGATTATATGT
Found at i:16536232 original size:20 final size:22
Alignment explanation
Indices: 16536209--16536252 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16536199 TTTAGTAAAA
*
16536209 ATAAAAT-AAT-TTTCATATTT
1 ATAAAATAAATATTTCATAATT
*
16536229 ATAAATTAAATATTTCATAATT
1 ATAAAATAAATATTTCATAATT
16536251 AT
1 AT
16536253 TCAATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 3 0.15
22 11 0.55
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATAAATATTTCATAATT
Found at i:16536247 original size:22 final size:23
Alignment explanation
Indices: 16536219--16536262 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
16536209 ATAAAATAAT
*
16536219 TTTCATATTTA-TAAATTAAATA
1 TTTCATAATTATTAAATTAAATA
*
16536241 TTTCATAATTATTCAATTAAAT
1 TTTCATAATTATTAAATTAAAT
16536263 GCAAAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTCATAATTATTAAATTAAATA
Found at i:16537585 original size:15 final size:17
Alignment explanation
Indices: 16537565--16537596 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16537555 ACAAAATGAG
16537565 AATAA-TTAAT-ACAAA
1 AATAATTTAATCACAAA
16537580 AATAATTTAATCACAAA
1 AATAATTTAATCACAAA
16537597 TAAACCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATTTAATCACAAA
Found at i:16537791 original size:19 final size:20
Alignment explanation
Indices: 16537758--16537797 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16537748 GTAAAAAAAG
*
16537758 AATTTAAAATAATGTTGATA
1 AATTTAAAATAATGTGGATA
*
16537778 AATTT-AAATGATGTGGATA
1 AATTTAAAATAATGTGGATA
16537797 A
1 A
16537798 TAATTTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
AATTTAAAATAATGTGGATA
Found at i:16539818 original size:85 final size:85
Alignment explanation
Indices: 16539713--16539995 Score: 259
Period size: 85 Copynumber: 3.3 Consensus size: 85
16539703 TTCGGTTTAT
* * *
16539713 TCCACTGTAATCTCATGGAGATAAGACCTGACGCGATCTACTCTACTGCAACTTTAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAA
16539778 GATCCTTTATTTTAATCCAC
66 GATCCTTTATTTTAATCCAC
* * * * * * ** *
16539798 TCCACTGTAATCTTAGGGAGATAGGATTACCAG-CTTCAATCTGCTCCGCTGTAA-TCTCAGGGA
1 TCCACTGTAATCTCAGGGAGATA--A-GACCTGAC-GCGATCTACTCTACTGTAACT-TCAGAGA
* ** * *
16539861 GATAAGAT--TTGAAATTCTTCGGTCTAT
61 GATAAGATCCTT--TATT-TT-AATCCAC
* * *
16539888 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTACTCTACTGTAACTTCATAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAA
*
16539953 GATCCTTTATTTTAATCCGC
66 GATCCTTTATTTTAATCCAC
*
16539973 TCCACTGTAATCTCAAGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
16539996 GGATTACCTG
Statistics
Matches: 149, Mismatches: 36, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
85 45 0.30
86 4 0.03
87 36 0.24
88 35 0.23
89 4 0.03
90 25 0.17
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (85 bp):
TCCACTGTAATCTCAGGGAGATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAA
GATCCTTTATTTTAATCCAC
Found at i:16539910 original size:175 final size:175
Alignment explanation
Indices: 16539681--16540003 Score: 529
Period size: 175 Copynumber: 1.8 Consensus size: 175
16539671 GCTACTGTTT
* * *
16539681 AGGGAGACAAGATCTGTAATTCTTCGGTTTATTCCACTGTAATCTCATGGAGATAAGACCTGACG
1 AGGGAGACAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGACG
*
16539746 CGATCTACTCTACTGCAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCT
66 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCT
* *
16539811 TAGGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTC
131 CAAGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTC
* * *
16539856 AGGGAGATAAGATTTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATG
1 AGGGAGACAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGACG
* * * *
16539921 TGATCTACTCTACTGTAACTTCATAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
66 CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCT
16539986 CAAGGAGATAGGATTACC
131 CAAGGAGATAGGATTACC
16540004 TGCAACAGCC
Statistics
Matches: 135, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
175 135 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (175 bp):
AGGGAGACAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGACG
CGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCT
CAAGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTC
Found at i:16539994 original size:44 final size:44
Alignment explanation
Indices: 16539771--16539995 Score: 135
Period size: 44 Copynumber: 5.1 Consensus size: 44
16539761 CAACTTTAGA
* *
16539771 GAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTTAGG
1 GAGATAAGATCCTTTATTTTAATCTACTCCACTGTAATCTCAGG
* * * * *
16539815 GAGATAGGATTACC---AGCTTCAATCTGCTCCGCTGTAATCTCAGG
1 GAGATAAGA-T-CCTTTA-TTTTAATCTACTCCACTGTAATCTCAGG
* ** *
16539859 GAGATAAGAT--TTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGG
1 GAGATAAGATCCTT--TATT-TT-AATCTACTCCACTGTAATCTCAGG
* * * * **
16539905 GAGATAAGA-CC-TGA-TGTGATCTACTCTACTGTAA-CTTCATA
1 GAGATAAGATCCTTTATTTTAATCTACTCCACTGTAATC-TCAGG
** *
16539946 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAAG
1 GAGATAAGATCCTTTATTTTAATCTACTCCACTGTAATCTCAGG
16539990 GAGATA
1 GAGATA
16539996 GGATTACCTG
Statistics
Matches: 134, Mismatches: 30, Indels: 34
0.68 0.15 0.17
Matches are distributed among these distances:
40 1 0.01
41 26 0.19
42 3 0.02
43 5 0.04
44 64 0.48
45 4 0.03
46 31 0.23
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
GAGATAAGATCCTTTATTTTAATCTACTCCACTGTAATCTCAGG
Found at i:16541627 original size:29 final size:28
Alignment explanation
Indices: 16541591--16541668 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
16541581 TCATGAGATT
16541591 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
16541621 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
16541648 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
16541669 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:16541942 original size:173 final size:174
Alignment explanation
Indices: 16541621--16541947 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
16541611 AAATTGTACA
* *
16541621 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
16541686 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
16541751 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
16541795 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
16541860 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
16541924 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
16541948 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:16549766 original size:29 final size:28
Alignment explanation
Indices: 16549730--16549807 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
16549720 TCATGAGATT
16549730 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
16549760 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
16549787 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
16549808 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:16550081 original size:173 final size:174
Alignment explanation
Indices: 16549760--16550086 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
16549750 AAATTGTACA
* *
16549760 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
16549825 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
16549890 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
16549934 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
16549999 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
16550063 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
16550087 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:16551672 original size:85 final size:85
Alignment explanation
Indices: 16551569--16551851 Score: 320
Period size: 85 Copynumber: 3.3 Consensus size: 85
16551559 TTCGGTCTAT
16551569 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCAACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCAACTGTAACTTCAGAGAGATAA
16551634 GATCCTTTATTTTAATCCGC
66 GATCCTTTATTTTAATCCGC
* * * * * * ** *
16551654 TCCACTGTAATCTCAGGGAGATAGGATTACCAGTTTCAATCTGCTCCGCTGTAA-TCTCAGCGAG
1 TCCACTGTAATCTCAGGGAGATA--A-GACCTGATGCGATCTACTCAACTGTAACT-TCAGAGAG
* ** ***
16551718 ATAAGAT--TTGAAATTCTTTGGTCTAT
62 ATAAGATCCTT--TA-T-TTTAATCCGC
*
16551744 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCAACTGTAACTTCAGAGAGATAA
16551809 GATCCTTTATTTTAATCCGC
66 GATCCTTTATTTTAATCCGC
*
16551829 TCCTCTGTAATCTCAGGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
16551852 GGATTCCCAG
Statistics
Matches: 156, Mismatches: 31, Indels: 22
0.75 0.15 0.11
Matches are distributed among these distances:
85 50 0.32
86 3 0.02
87 36 0.23
88 36 0.23
89 3 0.02
90 28 0.18
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (85 bp):
TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCAACTGTAACTTCAGAGAGATAA
GATCCTTTATTTTAATCCGC
Found at i:16551675 original size:44 final size:43
Alignment explanation
Indices: 16551513--16551895 Score: 210
Period size: 44 Copynumber: 8.8 Consensus size: 43
16551503 CATTACCAGC
* * * *
16551513 TTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGAT-CTAAAATT
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCT--GA-T
** *
16551558 CTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CCTGA-
1 -TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTGAT
* * * * *
16551600 TGCGATCTACTCAACTGTAA-CTTCAGAGAGATAAGATCCTTTAT
1 TTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATCC-TGAT
* ** * *
16551644 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACCAG-T
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-T-CCTGAT
* * * *
16551688 TTCAATCTGCTCCGCTGTAATCTCAGCGAGATAAGAT-TTGAAATT
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTG--A-T
*** *
16551733 CTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CCTGA-
1 -TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTGAT
* * * * *
16551775 TGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAT
1 TTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATCC-TGAT
* ** * * * *
16551819 TTTAATCCGCTCCTCTGTAATCTCAGGGAGATAGGATTCC-CAGC
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-TCCTGA-T
*
16551863 TTCAATCTACTCCGCTGTAATCTCAGGGAGATA
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATA
16551896 GGATTCACCA
Statistics
Matches: 256, Mismatches: 60, Indels: 44
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.01
41 58 0.23
42 4 0.02
43 6 0.02
44 114 0.45
45 7 0.03
46 65 0.25
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTGAT
Found at i:16551795 original size:175 final size:175
Alignment explanation
Indices: 16551504--16551900 Score: 695
Period size: 175 Copynumber: 2.3 Consensus size: 175
16551494 GGGGTGTTAC
* *
16551504 ATTACCAGCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTAAAATTCTTCGGTCTAT
1 ATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTAAAATTCTTCGGTCTAT
16551569 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCAACTGTAACTTCAGAGAGATAA
66 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCAACTGTAACTTCAGAGAGATAA
16551634 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
131 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
* * * *
16551679 ATTACCAGTTTCAATCTGCTCCGCTGTAATCTCAGCGAGATAAGATTTGAAATTCTTTGGTCTAT
1 ATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTAAAATTCTTCGGTCTAT
*
16551744 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAA
66 TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCAACTGTAACTTCAGAGAGATAA
*
16551809 GATCCTTTATTTTAATCCGCTCCTCTGTAATCTCAGGGAGATAGG
131 GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
* * *
16551854 ATTCCCAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAGGATT
1 ATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
16551901 CACCATCTTT
Statistics
Matches: 209, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 209 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (175 bp):
ATTACCAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTAAAATTCTTCGGTCTAT
TCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCAACTGTAACTTCAGAGAGATAA
GATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGG
Found at i:16551937 original size:44 final size:44
Alignment explanation
Indices: 16551836--16551925 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
16551826 CGCTCCTCTG
*
16551836 TAATCTCAGGGAGATAGGATTCCCAGCTTCAATCTACTCCGCTG
1 TAATCTCAGGGAGATAGGATTCCCAGCTTCAATCTACTCCGCTA
* ** *
16551880 TAATCTCAGGGAGATAGGATTCACCATCTTTGATCTGCTCCGCTA
1 TAATCTCAGGGAGATAGGATTC-CCAGCTTCAATCTACTCCGCTA
16551925 T
1 T
16551926 TACTCGGGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 22 0.55
45 18 0.45
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (44 bp):
TAATCTCAGGGAGATAGGATTCCCAGCTTCAATCTACTCCGCTA
Found at i:16564211 original size:15 final size:17
Alignment explanation
Indices: 16564191--16564222 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16564181 ACAAAATGAG
16564191 AATAA-TTAAT-ACAAA
1 AATAATTTAATCACAAA
16564206 AATAATTTAATCACAAA
1 AATAATTTAATCACAAA
16564223 TAAACCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATTTAATCACAAA
Found at i:16564313 original size:25 final size:24
Alignment explanation
Indices: 16564276--16564325 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
16564266 AGAATAAAAA
*
16564276 TTTATAAGTCACAAATTATAATATAT
1 TTTATAAGACACAAA-TAT-ATATAT
*
16564302 TTTATAA-ACACATATATATATAT
1 TTTATAAGACACAAATATATATAT
16564325 T
1 T
16564326 AAAAATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 3 0.14
25 5 0.23
26 7 0.32
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (24 bp):
TTTATAAGACACAAATATATATAT
Found at i:16564510 original size:11 final size:11
Alignment explanation
Indices: 16564496--16564520 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16564486 ATATTAAGCC
16564496 AATATTAAAAT
1 AATATTAAAAT
16564507 AATATTAAAAT
1 AATATTAAAAT
16564518 AAT
1 AAT
16564521 GAATTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:16567392 original size:71 final size:71
Alignment explanation
Indices: 16567276--16567418 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
16567266 TCAAACTTAA
*
16567276 AGCTCGGGAACATCAGCTAATCTAGGGTTAAGAACGACGGCCATGTAAGATATATAAATAGGCTT
1 AGCTCGGGAACATCAGCTAATCTAGGGTTAAGAACGACGACCATGTAAGATATATAAATAGGCTT
16567341 ATTCGT
66 ATTCGT
*
16567347 AGCTCGGGAACATCAGCTAATCTAGGGTTAAGAACGACGACCATGTGAGATATATAAATAGGCTT
1 AGCTCGGGAACATCAGCTAATCTAGGGTTAAGAACGACGACCATGTAAGATATATAAATAGGCTT
16567412 ATTCGT
66 ATTCGT
16567418 A
1 A
16567419 ACATGTAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (71 bp):
AGCTCGGGAACATCAGCTAATCTAGGGTTAAGAACGACGACCATGTAAGATATATAAATAGGCTT
ATTCGT
Found at i:16570422 original size:25 final size:25
Alignment explanation
Indices: 16570402--16570457 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
16570392 CAGCTCTCTC
16570402 GAGCTTCCCAATATTTGGCTCACAA
1 GAGCTTCCCAATATTTGGCTCACAA
* ** *
16570427 GAGCTTCCCATTATTCAGCTCACAT
1 GAGCTTCCCAATATTTGGCTCACAA
16570452 GAGCTT
1 GAGCTT
16570458 TCTGTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCAATATTTGGCTCACAA
Found at i:16570447 original size:50 final size:50
Alignment explanation
Indices: 16570343--16570439 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
16570333 GACGCACCAT
* * * **
16570343 AGCTCTCACAAGCTTCCCGATACTTGGCTCCCATGAGCTTCTTGATTAAC
1 AGCTCTCACAAGCTTCCCAATACTTGGCTCACAAGAGCTTCTCCATTAAC
* * *
16570393 AGCTCTCTCGAGCTTCCCAATATTTGGCTCACAAGAGCTTC-CCATTA
1 AGCTCTCACAAGCTTCCCAATACTTGGCTCACAAGAGCTTCTCCATTA
16570440 TTCAGCTCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 4 0.10
50 35 0.90
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (50 bp):
AGCTCTCACAAGCTTCCCAATACTTGGCTCACAAGAGCTTCTCCATTAAC
Found at i:16571646 original size:56 final size:56
Alignment explanation
Indices: 16571582--16571687 Score: 158
Period size: 56 Copynumber: 1.9 Consensus size: 56
16571572 CTCAAATTGT
* * * * *
16571582 TCACACGGCCTAGCACACGGGCATGTGGTTTGGTCGTTTGACCTAAGTCAATATAC
1 TCACACGGCCTAACACACGGGCATATGGCTTGGTCGTGTGACCCAAGTCAATATAC
*
16571638 TCACACGGCCTAATACACGGGCATATGGCTTGGTCGTGTGACCCAAGTCA
1 TCACACGGCCTAACACACGGGCATATGGCTTGGTCGTGTGACCCAAGTCA
16571688 GAGAGCTCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 44 1.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (56 bp):
TCACACGGCCTAACACACGGGCATATGGCTTGGTCGTGTGACCCAAGTCAATATAC
Found at i:16572621 original size:36 final size:36
Alignment explanation
Indices: 16572576--16572644 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
16572566 AGTTCTTATA
16572576 AATTATCTTGTACACCAGTTGAATGTCTTAAGTATG
1 AATTATCTTGTACACCAGTTGAATGTCTTAAGTATG
*
16572612 AATTCTCTTGTACACCAGTTGAATGTCTTAAGT
1 AATTATCTTGTACACCAGTTGAATGTCTTAAGT
16572645 GTGCAGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (36 bp):
AATTATCTTGTACACCAGTTGAATGTCTTAAGTATG
Found at i:16590787 original size:43 final size:43
Alignment explanation
Indices: 16590731--16591502 Score: 625
Period size: 43 Copynumber: 18.0 Consensus size: 43
16590721 CCGACACAAT
* * * *
16590731 TATACTGGTACACACAGTGCATCATTGGATATACCGAAGCAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
** * **
16590774 TATACAAGCACACACAGTGCATTATCGGATTTACTC-AAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAAC-CGAAGTAAC
* * * ** **
16590817 TATAATGGCACACACAATGCATCATCAGATAAATTGAAGTATG
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * *** * * *
16590860 TATACTAGCACATACAGTGCATCATTTAACT-AACCAAAGAAAA
1 TATACTGGCACACACAGTGCATCATCGGA-TAAACCGAAGTAAC
* * * ** *
16590903 TATACTAGCACACACAGTGCATCACCAGATAAATTGAACTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * * *
16590946 TATACTAGCACACACAGTGCATCATCGGATAAATCAAAGAAAA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* *
16590989 TATACCT-GCACACATAGTGCATCATCGGATAAACCGAA-TAAAA
1 TATA-CTGGCACACACAGTGCATCATCGGATAAACCGAAGT-AAC
* * * ** * *
16591032 TATACTGGCACACATATTACATCATCAAATAAACTGAAGTATC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * ***
16591075 AATACTGGCACATACAGTGCATCATCGGATAAATTAAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * *
16591118 TATACTGGCATACATAGTGCATCATCGGATAAACCGAAGTATC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * * *
16591161 TATACTGGCACACACAATGTACCATCGAATAAACTGAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * *
16591204 TATACTGGCACACATAGTGCATCATCAGATAAACAGAAGTATC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * *
16591247 TATACTGGCACATATAGTGCATCATCGAATAAATCGAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* ** **
16591290 TATATTGGCACACACAGTGCATCATTAGATAAAATGAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* ** * *
16591333 TATACTGGCACACATAGTGCATCATTAGATAAACCAAAGTATC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
** * * * ** *
16591376 TATACTAACACATATAGTACATCATTAGATAAATCGAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * * ** *
16591419 TATACTAGCATACCCAGTGCATCACCAAATAAACCAAAGTAAC
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
* * * * *
16591462 TATACCGACACATATAGTGCATCATCGGATAAACCAAAGTA
1 TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTA
16591503 TAACTTGTAT
Statistics
Matches: 578, Mismatches: 143, Indels: 16
0.78 0.19 0.02
Matches are distributed among these distances:
42 3 0.01
43 570 0.99
44 5 0.01
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (43 bp):
TATACTGGCACACACAGTGCATCATCGGATAAACCGAAGTAAC
Found at i:16590946 original size:129 final size:129
Alignment explanation
Indices: 16590746--16591503 Score: 718
Period size: 129 Copynumber: 5.9 Consensus size: 129
16590736 TGGTACACAC
* * * * ** * * ** *
16590746 AGTGCATCATTGGATATACCGAAGCAACTATACAAGCACACACAGTGCATTATCGGATTTACTCA
1 AGTGCATCATCGAATAAACCGAAGTAACTATACTGGCACACACAGTGCATCATCAGATAAACTGA
* * ** * *
16590811 AGTAACTATAATGGCACACACAATGCATCATCAGATAAATTGAAGTATGTATACTAGCACATAC
66 AGTAACTATACTGGCACACACAGTGCATCATCAGATAAATCAAAGTATCTATACTAGCACATAT
** * * * * * *
16590875 AGTGCATCATTTAACT-AACCAAAGAAAATATACTAGCACACACAGTGCATCACCAGATAAATTG
1 AGTGCATCATCGAA-TAAACCGAAGTAACTATACTGGCACACACAGTGCATCATCAGATAAACTG
* * * * ** *
16590939 AACTAACTATACTAGCACACACAGTGCATCATCGGATAAATCAAAGAAAATATACCT-GCACACA
65 AAGTAACTATACTGGCACACACAGTGCATCATCAGATAAATCAAAGTATCTATA-CTAGCACATA
16591003 T
129 T
* * * * * *
16591004 AGTGCATCATCGGATAAACCGAA-TAAAATATACTGGCACACATATTACATCATCAAATAAACTG
1 AGTGCATCATCGAATAAACCGAAGT-AACTATACTGGCACACACAGTGCATCATCAGATAAACTG
* * * * * * * * *
16591068 AAGTATCAATACTGGCACATACAGTGCATCATCGGATAAATTAAAGTAACTATACTGGCATACAT
65 AAGTAACTATACTGGCACACACAGTGCATCATCAGATAAATCAAAGTATCTATACTAGCACATAT
* * * * *
16591133 AGTGCATCATCGGATAAACCGAAGTATCTATACTGGCACACACAATGTACCATC-GAATAAACTG
1 AGTGCATCATCGAATAAACCGAAGTAACTATACTGGCACACACAGTGCATCATCAG-ATAAACTG
* *
16591197 AAGTAACTATACTGGCACACATAGTGCATCATCAGATAAA-CAGAAGTATCTATACTGGCACATA
65 AAGTAACTATACTGGCACACACAGTGCATCATCAGATAAATCA-AAGTATCTATACTAGCACATA
16591261 T
129 T
* * * *
16591262 AGTGCATCATCGAATAAATCGAAGTAACTATATTGGCACACACAGTGCATCATTAGATAAAATGA
1 AGTGCATCATCGAATAAACCGAAGTAACTATACTGGCACACACAGTGCATCATCAGATAAACTGA
* * * *
16591327 AGTAACTATACTGGCACACATAGTGCATCATTAGATAAACCAAAGTATCTATACTAACACATAT
66 AGTAACTATACTGGCACACACAGTGCATCATCAGATAAATCAAAGTATCTATACTAGCACATAT
* * * * * * * * **
16591391 AGTACATCAT-TAGATAAATCGAAGTAACTATACTAGCATACCCAGTGCATCACCAAATAAACCA
1 AGTGCATCATCGA-ATAAACCGAAGTAACTATACTGGCACACACAGTGCATCATCAGATAAACTG
* * * * * *
16591455 AAGTAACTATACCGACACATATAGTGCATCATCGGATAAACCAAAGTAT
65 AAGTAACTATACTGGCACACACAGTGCATCATCAGATAAATCAAAGTAT
16591504 AACTTGTATA
Statistics
Matches: 525, Mismatches: 93, Indels: 22
0.82 0.15 0.03
Matches are distributed among these distances:
128 5 0.01
129 513 0.98
130 7 0.01
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (129 bp):
AGTGCATCATCGAATAAACCGAAGTAACTATACTGGCACACACAGTGCATCATCAGATAAACTGA
AGTAACTATACTGGCACACACAGTGCATCATCAGATAAATCAAAGTATCTATACTAGCACATAT
Found at i:16600907 original size:146 final size:143
Alignment explanation
Indices: 16600644--16600931 Score: 432
Period size: 146 Copynumber: 2.0 Consensus size: 143
16600634 GTTACATAGA
* * **
16600644 CATTTAACCTCTAAAAATGTATAAGAAGTTTTCTCCTCATACGGCTCGAGAAAAAAAGATCAATT
1 CATTTAACCCCTAAAAATGTATAAGAAATTTTCTCCTCATACAACTCGAGAAAAAAAGATCAATT
**
16600709 AAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAAGATCCATATTTC
66 AAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATAT-AAAAA-ATCCATAAATC
16600774 AACAAATCAATTAGG
129 AACAAATCAATTAGG
* * * * *
16600789 CATTTAACCCCTAGAAATGTATAATAAATTTTTTCCTCATACAACTTGAGAAAAAAAAGATTAAT
1 CATTTAACCCCTAAAAATGTATAAGAAATTTTCTCCTCATACAACTCGAG-AAAAAAAGATCAAT
* *
16600854 TAAAAGTTATGTCTATGTATGAAATTATAATGTATGGAATTAGAATATAAAAAATCCATAAATCA
65 TAAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAATCCATAAATCA
16600919 ACAAATCAATTAG
130 ACAAATCAATTAG
16600932 CCTTTCAAGA
Statistics
Matches: 129, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
144 23 0.18
145 47 0.36
146 59 0.46
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.32
Consensus pattern (143 bp):
CATTTAACCCCTAAAAATGTATAAGAAATTTTCTCCTCATACAACTCGAGAAAAAAAGATCAATT
AAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAATCCATAAATCAA
CAAATCAATTAGG
Found at i:16601247 original size:90 final size:90
Alignment explanation
Indices: 16601083--16601251 Score: 225
Period size: 90 Copynumber: 1.9 Consensus size: 90
16601073 CCAATTTAGT
* * *
16601083 CCTTGCAGTTAATTAACATAATCAATTAAGCCCCTTTGTTAACTGAATCCACGGTTGACCACATT
1 CCTTGCAGTTAATTAAAATAATCAATCAAG-CCCTTTGTTAACGGAATCCACGGTTGACCACATT
16601148 GACTATTAAAATAAGCCCAATTGAAC
65 GACTATTAAAATAAGCCCAATTGAAC
* ***
16601174 CCTTGCCA-TTAATTAAAATAATTAATCAAG-CCTTTCGTTAACGGAATCTGTGGTTGACCACAT
1 CCTTG-CAGTTAATTAAAATAATCAATCAAGCCCTTT-GTTAACGGAATCCACGGTTGACCACAT
*
16601237 TGACTGTTAAAATAA
64 TGACTATTAAAATAA
16601252 ATTGACTGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
89 5 0.07
90 37 0.54
91 24 0.35
92 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (90 bp):
CCTTGCAGTTAATTAAAATAATCAATCAAGCCCTTTGTTAACGGAATCCACGGTTGACCACATTG
ACTATTAAAATAAGCCCAATTGAAC
Found at i:16601385 original size:19 final size:17
Alignment explanation
Indices: 16601362--16601402 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
16601352 AAAAAACTGG
*
16601362 AAAATATTATTAAAAATT
1 AAAATATTA-AAAAAATT
16601380 AGAAATATTAAAAAAATT
1 A-AAATATTAAAAAAATT
16601398 AAAAT
1 AAAAT
16601403 TGATATAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 9 0.43
19 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATATTAAAAAAATT
Found at i:16601549 original size:21 final size:21
Alignment explanation
Indices: 16601524--16601568 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
16601514 AAACATATTT
* *
16601524 AAAACATTTA-AAATTTTATAA
1 AAAACATATACAAATTCT-TAA
16601545 AAAACATATACAAATTCTTAA
1 AAAACATATACAAATTCTTAA
16601566 AAA
1 AAA
16601569 CTTATAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAACATATACAAATTCTTAA
Found at i:16601569 original size:20 final size:22
Alignment explanation
Indices: 16601544--16601589 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
16601534 AAATTTTATA
*
16601544 AAAAACATAT-ACAAATTC-TT
1 AAAAACATATAACAAAATCATT
*
16601564 AAAAACTTATAACAAAATCATT
1 AAAAACATATAACAAAATCATT
16601586 AAAA
1 AAAA
16601590 TATAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAACATATAACAAAATCATT
Found at i:16601601 original size:28 final size:26
Alignment explanation
Indices: 16601565--16601622 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
16601555 CAAATTCTTA
*
16601565 AAAACTTATAACAAAATCATTAAAATAT
1 AAAACTTATAA-AAAATAATT-AAATAT
* *
16601593 AAAATTTATTAAAAATAATTAAATAT
1 AAAACTTATAAAAAATAATTAAATAT
16601619 AAAA
1 AAAA
16601623 AATGTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 10 0.37
27 8 0.30
28 9 0.33
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAACTTATAAAAAATAATTAAATAT
Found at i:16601630 original size:26 final size:27
Alignment explanation
Indices: 16601577--16601632 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
16601567 AACTTATAAC
* **
16601577 AAAATCATTAAAATATAAAATTTATTA
1 AAAATAATTAAAATATAAAAAATATTA
*
16601604 AAAATAATT-AAATATAAAAAATGTTA
1 AAAATAATTAAAATATAAAAAATATTA
16601630 AAA
1 AAA
16601633 TTGATATACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAATAATTAAAATATAAAAAATATTA
Found at i:16601658 original size:9 final size:9
Alignment explanation
Indices: 16601413--16601821 Score: 94
Period size: 9 Copynumber: 43.0 Consensus size: 9
16601403 TGATATAATC
16601413 TTATAAAAA
1 TTATAAAAA
16601422 -TATAAAAAA
1 TTAT-AAAAA
*
16601431 ATATTAGAAAA
1 TTA-TA-AAAA
*
16601442 TAATAAAAA
1 TTATAAAAA
*
16601451 CCTTATAAATA
1 --TTATAAAAA
*
16601462 CTATAAAAA
1 TTATAAAAA
*
16601471 ATATAAAAGA
1 TTATAAAA-A
16601481 TT-TAATAAA
1 TTATAA-AAA
*
16601490 TTGTAATAAA
1 TTATAA-AAA
16601500 TT-TAAAAA
1 TTATAAAAA
16601508 TTAATGAAACATA
1 TT-AT-AAA-A-A
16601521 TT-TAAAACA
1 TTATAAAA-A
*
16601530 TT-TAAAATT
1 TTATAAAA-A
16601539 TTATAAAAAA
1 TTAT-AAAAA
* *
16601549 CATATACAAA
1 -TTATAAAAA
*
16601559 TTCTTAAAAA
1 TT-ATAAAAA
16601569 CTTATAACAAAA
1 -TTAT-A-AAAA
* *
16601581 TCATTAAAA
1 TTATAAAAA
*
16601590 -TATAAAAT
1 TTATAAAAA
16601598 TTATTAAAAA
1 TTA-TAAAAA
* *
16601608 TAAT-TAAA
1 TTATAAAAA
16601616 -TATAAAAA
1 TTATAAAAA
* * *
16601624 ATGTTAAAA
1 TTATAAAAA
* *
16601633 TTGATATACAC
1 TT-ATA-AAAA
16601644 TTATAAAAA
1 TTATAAAAA
16601653 TTATAAAAAAA
1 TTAT--AAAAA
*
16601664 TCATAAAAA
1 TTATAAAAA
*
16601673 ATATAAAAA
1 TTATAAAAA
* *
16601682 TCTA-ATAAT
1 T-TATAAAAA
16601691 TTATTAAAATCA
1 TTA-TAAAA--A
16601703 TT-TATAAAA
1 TTATA-AAAA
16601712 TTAATAAAATA
1 TT-ATAAAA-A
**
16601723 TT-TAAATT
1 TTATAAAAA
16601731 TTATAAAAA
1 TTATAAAAA
*
16601740 CGTAT-AAAA
1 -TTATAAAAA
16601749 TTAGT-AAAA
1 TTA-TAAAAA
16601758 TTATAAAAA
1 TTATAAAAA
16601767 -TATAAAAAA
1 TTAT-AAAAA
*
16601776 TTCTAATAAA
1 TTATAA-AAA
16601786 TTTATAAAAA
1 -TTATAAAAA
* *
16601796 ATATTAACAA
1 TTA-TAAAAA
16601806 -T-TAAAAA
1 TTATAAAAA
16601813 TTATAAAAA
1 TTATAAAAA
16601822 AACTATTTAA
Statistics
Matches: 295, Mismatches: 56, Indels: 98
0.66 0.12 0.22
Matches are distributed among these distances:
7 7 0.02
8 30 0.10
9 123 0.42
10 70 0.24
11 55 0.19
12 7 0.02
13 3 0.01
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (9 bp):
TTATAAAAA
Found at i:16601724 original size:29 final size:28
Alignment explanation
Indices: 16601678--16601794 Score: 73
Period size: 29 Copynumber: 4.1 Consensus size: 28
16601668 AAAAAATATA
**
16601678 AAAATCTAATAATTTATTAAAATCATTTAT
1 AAAATCTAATAAAATATTAAAAT--TTTAT
*
16601708 AAAAT-TAATAAAATATTTAAATTTTAT
1 AAAATCTAATAAAATATTAAAATTTTAT
* * *
16601735 AAAAACGT-ATAAAATTAGTAAAATTATA-
1 AAAATC-TAATAAAA-TATTAAAATTTTAT
* *
16601763 AAAATATAA-AAAAT-TCTAATAAATTTAT
1 AAAATCTAATAAAATAT-TAA-AATTTTAT
16601791 AAAA
1 AAAA
16601795 AATATTAACA
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
26 4 0.06
27 19 0.28
28 15 0.22
29 25 0.37
30 5 0.07
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (28 bp):
AAAATCTAATAAAATATTAAAATTTTAT
Found at i:16602471 original size:20 final size:20
Alignment explanation
Indices: 16602448--16602511 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
16602438 GTTTTAATTT
*
16602448 TTTTATATATATTTTTATG-A
1 TTTT-TATATATTTTTAAGAA
16602468 TTTTTATA-AGTTTTTAAGAA
1 TTTTTATATA-TTTTTAAGAA
*
16602488 TTTTTATATGTTTTATAA-AA
1 TTTTTATATATTTT-TAAGAA
16602508 TTTT
1 TTTT
16602512 AAATATTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 1 0.03
19 11 0.29
20 23 0.61
21 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTTATATATTTTTAAGAA
Found at i:16602490 original size:29 final size:28
Alignment explanation
Indices: 16602447--16602541 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 28
16602437 TGTTTTAATT
16602447 TTTTTATATATATTTTTATGATTTTTATAAG
1 TTTTTA-A-ATATTTTTAT-ATTTTTATAAG
*
16602478 TTTTTAAGA-ATTTTTATATGTTTTATAAA
1 TTTTTAA-ATATTTTTATAT-TTTTATAAG
* * *
16602507 ATTTTAAATATTTGTATTAATTTTATAAAG
1 TTTTTAAATATTTTTA-TATTTTTAT-AAG
16602537 TTTTT
1 TTTTT
16602542 CATAATTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
28 3 0.06
29 34 0.64
30 10 0.19
31 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (28 bp):
TTTTTAAATATTTTTATATTTTTATAAG
Found at i:16602609 original size:9 final size:9
Alignment explanation
Indices: 16602448--16602689 Score: 67
Period size: 9 Copynumber: 25.8 Consensus size: 9
16602438 GTTTTAATTT
16602448 TTTTATATATA
1 TTTT-TATA-A
*
16602459 TTTTTATGA
1 TTTTTATAA
16602468 TTTTTATAA
1 TTTTTATAA
*
16602477 GTTTTTAAGAA
1 -TTTTT-ATAA
16602488 TTTTTAT-A
1 TTTTTATAA
16602496 TGTTTTATAAA
1 T-TTTTAT-AA
*
16602507 ATTTTA-AA
1 TTTTTATAA
16602515 TATTTGTATTAA
1 T-TTT-TA-TAA
16602527 -TTTTATAAA
1 TTTTTAT-AA
16602536 GTTTTTCATAA
1 -TTTTT-ATAA
*
16602547 TTTATTAGAA
1 TTT-TTATAA
16602557 --TTT-T-A
1 TTTTTATAA
16602562 TTTTTATAA
1 TTTTTATAA
* *
16602571 TATTTACAA
1 TTTTTATAA
* *
16602580 GTTTTAATTA
1 -TTTTTATAA
16602590 TTTAATTATAA
1 TTT--TTATAA
16602601 TTTTTATAA
1 TTTTTATAA
*
16602610 GTTTATATCAA
1 -TTTTTAT-AA
16602621 -TTTTAGT-A
1 TTTTTA-TAA
*
16602629 TTTCTAT--
1 TTTTTATAA
*
16602636 TTTTTAAAAA
1 TTTTT-ATAA
* *
16602646 ATTATATAA
1 TTTTTATAA
16602655 TATTTTATAA
1 T-TTTTATAA
*
16602665 TTTTTCT-A
1 TTTTTATAA
*
16602673 TTTTTAATCA
1 TTTTT-ATAA
16602683 TTTTTAT
1 TTTTTAT
16602690 GGGAAAATAT
Statistics
Matches: 172, Mismatches: 28, Indels: 64
0.65 0.11 0.24
Matches are distributed among these distances:
5 1 0.01
7 9 0.05
8 16 0.09
9 59 0.34
10 58 0.34
11 25 0.15
12 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:16619658 original size:132 final size:129
Alignment explanation
Indices: 16619440--16619700 Score: 290
Period size: 132 Copynumber: 2.0 Consensus size: 129
16619430 CATTTATGGT
* * * ** * * * *
16619440 TATTACTGGACTTTTCAATTAAGAGGCATGTTTGCTTGATGGTAGTGTTTCATTATGTATGATTC
1 TATTACTGGACATTTCAATTAAGAGGCATGTTTGCTTGACGCTAGTGCGTCACTAAGCATAATTC
* * * *
16619505 TTCCTCGAATTTGCTTGTGTTGCTTTAATACTATTATTCATTGTGTATATATATCCTTGATCTTT
66 TTCCTCGAATTTGCTTGTGTTGCTTGAAAACTATTA-TCAAT-TG-ATATATATCCTTGATCCTT
16619570 TA
128 TA
* *
16619572 TATTACTGGACATTTCAATTAATAGGCATGTTTGCTTGACGCTAGTGCGTCCCTAAGCATAATTC
1 TATTACTGGACATTTCAATTAAGAGGCATGTTTGCTTGACGCTAGTGCGTCACTAAGCATAATTC
** * * * *
16619637 TT-CTATTAGTTTTCTTTTGTTGCTTGAAAACTATTATCAATTGCTATATATCCTTGATCCTTTA
66 TTCCT-CGAATTTGCTTGTGTTGCTTGAAAACTATTATCAATTGATATATATCCTTGATCCTTTA
16619701 GGTTTTTATG
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
129 19 0.18
130 2 0.02
131 6 0.06
132 80 0.75
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (129 bp):
TATTACTGGACATTTCAATTAAGAGGCATGTTTGCTTGACGCTAGTGCGTCACTAAGCATAATTC
TTCCTCGAATTTGCTTGTGTTGCTTGAAAACTATTATCAATTGATATATATCCTTGATCCTTTA
Found at i:16626965 original size:34 final size:34
Alignment explanation
Indices: 16626910--16626975 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
16626900 CAAACACCAG
*
16626910 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
16626945 AAAACATTTTCCTG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
16626976 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:16629978 original size:39 final size:39
Alignment explanation
Indices: 16629946--16630212 Score: 321
Period size: 39 Copynumber: 7.0 Consensus size: 39
16629936 AGAACCGGTG
*
16629946 GGTATGGCTCAATTGAGCATACTTTCAGTAGAATCAGTA
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
16629985 GGTA----T--ATTGAGCATACTTTTAGTAGAATCAATG
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
16630018 GGTATGTCTTGATTGAGCATACTTTTAGTAGAATCAGTA
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * * *
16630057 GGTATGGCTCAATTAAGCATACTTTTAGTAGAATCATTA
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
16630096 GGTATGACTCGATTGATCATACTTTCAGTAGAATCAGTG
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* *
16630135 GGTATGACTCGATTGAGCATACTTTCATTAGAATCAGTA
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
16630174 GATATGGCTCGATTGAGCATACTTTTAATAGAATCAGTA
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
16630213 TCCCATTTTT
Statistics
Matches: 198, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
33 29 0.15
35 1 0.01
37 1 0.01
39 167 0.84
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (39 bp):
GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
Found at i:16630159 original size:117 final size:111
Alignment explanation
Indices: 16629946--16630212 Score: 363
Period size: 117 Copynumber: 2.4 Consensus size: 111
16629936 AGAACCGGTG
* *
16629946 GGTATGGCTCAATTGAGCATACTTTCAGTAGAATCAGTAGGTATATTGAGCATACTTTTAGTAGA
1 GGTATGGCTCAATTGAGCATACTTTTAGTAGAATCAGTAGGTATATTGAGCATACTTTCAGTAGA
* * *
16630011 ATCAATGGGTATGTCTTGATTGAGCATACTTTTAGTAGAATCAGTA
66 ATCAATGGGTATGACTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
16630057 GGTATGGCTCAATTAAGCATACTTTTAGTAGAATCATTAGGTATGACTCGATTGATCATACTTTC
1 GGTATGGCTCAATTGAGCATACTTTTAGTAGAATCAGTAGG--T-A-T--ATTGAGCATACTTTC
* *
16630122 AGTAGAATCAGTGGGTATGACTCGATTGAGCATACTTTCATTAGAATCAGTA
60 AGTAGAATCAATGGGTATGACTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
16630174 GATATGGCTCGATTGAGCATACTTTTAATAGAATCAGTA
1 GGTATGGCTCAATTGAGCATACTTTTAGTAGAATCAGTA
16630213 TCCCATTTTT
Statistics
Matches: 135, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
111 38 0.28
113 1 0.01
114 1 0.01
115 1 0.01
117 94 0.70
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (111 bp):
GGTATGGCTCAATTGAGCATACTTTTAGTAGAATCAGTAGGTATATTGAGCATACTTTCAGTAGA
ATCAATGGGTATGACTCGATTGAGCATACTTTCAGTAGAATCAGTA
Found at i:16636928 original size:19 final size:19
Alignment explanation
Indices: 16636887--16636942 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
16636877 TTTAAAATAG
* *
16636887 TTTTAACTCGATTGAAA-A
1 TTTTAACTCTATTAAAACA
16636905 TATTTAACTCTATTAAAACCA
1 T-TTTAACTCTATTAAAA-CA
16636926 TTTTAACT-TGATTAAAA
1 TTTTAACTCT-ATTAAAA
16636943 GTTGATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 14 0.44
21 2 0.06
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (19 bp):
TTTTAACTCTATTAAAACA
Found at i:16653068 original size:16 final size:16
Alignment explanation
Indices: 16653047--16653079 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16653037 GAATTCATTA
16653047 TGAATATAAATGATTT
1 TGAATATAAATGATTT
16653063 TGAATATAAATGATTT
1 TGAATATAAATGATTT
16653079 T
1 T
16653080 TTTGTTGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (16 bp):
TGAATATAAATGATTT
Found at i:16656029 original size:14 final size:14
Alignment explanation
Indices: 16655996--16656039 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
16655986 TAAGGTCTTG
*
16655996 TTAATTAAAGTTTAA
1 TTAATT-AATTTTAA
*
16656011 TTAATTAATTTTGA
1 TTAATTAATTTTAA
16656025 TTAATTAAGTTTTAA
1 TTAATTAA-TTTTAA
16656040 ACTAAGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTAATTAATTTTAA
Found at i:16662253 original size:69 final size:69
Alignment explanation
Indices: 16662149--16662296 Score: 199
Period size: 69 Copynumber: 2.1 Consensus size: 69
16662139 TCTACGGAGA
* * * *
16662149 CCTTGGTGTGGTGGAGGGATGATATTTTATCTGATACGATATTGTGCCTACGAGCTTTACACTAT
1 CCTTGGTGTGATGGAGGGATGATATGTTATATGATACGATATTGTGCCTACGAGCTTTACACTAC
*
16662214 GGTG
66 AGTG
* * **
16662218 CCTTGGTGTGATGGAGGGATGAT-TCGTTATATGATATGTTATTGTGCCTACGAGCTTTGTACTA
1 CCTTGGTGTGATGGAGGGATGATAT-GTTATATGATACGATATTGTGCCTACGAGCTTTACACTA
16662282 CAGTG
65 CAGTG
16662287 CCTTGGTGTG
1 CCTTGGTGTG
16662297 GTGTAGTTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 1 0.01
69 68 0.99
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (69 bp):
CCTTGGTGTGATGGAGGGATGATATGTTATATGATACGATATTGTGCCTACGAGCTTTACACTAC
AGTG
Found at i:16667294 original size:17 final size:18
Alignment explanation
Indices: 16667260--16667295 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16667250 CAAGAGTCTC
*
16667260 CCTACAGTTTCTAGTTTT
1 CCTACAGTCTCTAGTTTT
16667278 CCTACAGTCTC-AGTTTT
1 CCTACAGTCTCTAGTTTT
16667295 C
1 C
16667296 TCTAATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (18 bp):
CCTACAGTCTCTAGTTTT
Found at i:16667462 original size:21 final size:20
Alignment explanation
Indices: 16667437--16667477 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16667427 TTGAAGAAAT
16667437 AATTCAAAACAGTTTTCAAAA
1 AATTCAAAACA-TTTTCAAAA
* *
16667458 AATTCCAAATATTTTCAAAA
1 AATTCAAAACATTTTCAAAA
16667478 CCCATTCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (20 bp):
AATTCAAAACATTTTCAAAA
Found at i:16668169 original size:28 final size:28
Alignment explanation
Indices: 16668098--16668187 Score: 144
Period size: 30 Copynumber: 3.1 Consensus size: 28
16668088 GTAGCAGTAT
16668098 AGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTGTGGGCCTTAGCCCATTACAGTAAC
16668126 AATGTGTGGGCCTTAGCCCATTACAGTAAC
1 -A-GTGTGGGCCTTAGCCCATTACAGTAAC
*
16668156 AGTGTGGGCCTTAGCCCAGTACAGTAATC
1 AGTGTGGGCCTTAGCCCATTACAGTAA-C
16668185 AGT
1 AGT
16668188 ACAATGCAGG
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
28 25 0.43
29 6 0.10
30 27 0.47
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCATTACAGTAAC
Done.