Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 64 of 163
Found at i:16366849 original size:3 final size:3
Alignment explanation
Indices: 16366806--16366857 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
16366796 ATTGAAGCAA
16366806 AAG AAG -AG AAG -AG AA- AAG AAGG AA- AAG AA- AAG AAGG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG AAG AA-G AAG AAG
16366848 AAG AAG AAG A
1 AAG AAG AAG A
16366858 CATTGCCCCG
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
2 10 0.24
3 26 0.62
4 6 0.14
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16366857 original size:24 final size:24
Alignment explanation
Indices: 16366799--16366850 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
16366789 TGTGGGTATT
* *
16366799 GAAGCAAAAGAAGAGAAGAGAAAA
1 GAAGGAAAAGAAAAGAAGAGAAAA
16366823 GAAGGAAAAGAAAAGAAG-GAAGAA
1 GAAGGAAAAGAAAAGAAGAGAA-AA
16366847 GAAG
1 GAAG
16366851 AAGAAGACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (24 bp):
GAAGGAAAAGAAAAGAAGAGAAAA
Found at i:16375625 original size:19 final size:19
Alignment explanation
Indices: 16375585--16375650 Score: 64
Period size: 19 Copynumber: 3.3 Consensus size: 19
16375575 AAATCAAGTT
16375585 AAAATGATTTTAAACATGTC
1 AAAAT-ATTTTAAACATGTC
16375605 AAAATCATTTT-AACACT-TC
1 AAAAT-ATTTTAAACA-TGTC
*
16375624 AAAATATTTTTCAAACAAGTC
1 AAAATA-TTTT-AAACATGTC
16375645 AAAATA
1 AAAATA
16375651 GTACTTTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 1 0.03
19 15 0.38
20 11 0.28
21 12 0.31
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAATATTTTAAACATGTC
Found at i:16377116 original size:37 final size:37
Alignment explanation
Indices: 16377051--16377121 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
16377041 AATGTCATTG
* *
16377051 CATGAGCACTTCTAGATTGCGCCTAAAACTGTCGTCA
1 CATGAGCACTTCCAGATTGCACCTAAAACTGTCGTCA
*
16377088 CATGAGCACTTCCAGATTGCA-ATCAAAACTGTCG
1 CATGAGCACTTCCAGATTGCACCT-AAAACTGTCG
16377122 CTGCAGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 1 0.03
37 29 0.97
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (37 bp):
CATGAGCACTTCCAGATTGCACCTAAAACTGTCGTCA
Found at i:16378181 original size:127 final size:127
Alignment explanation
Indices: 16377955--16378201 Score: 379
Period size: 127 Copynumber: 1.9 Consensus size: 127
16377945 CTAAAGTCAT
* * * *
16377955 AGATCTAATAGAAAAGCCAAGTTTGGTAAGATGTTCATTACACTTCATTCCGTCGAAAAATTACT
1 AGATCTAATAGAAAAGCCAAGTTTGGTAAGATGTTCATCACACTTCATTACGTCCAAAAATTACC
* * * *
16378020 TGTTATTCTTAACCTTGTAAGTCACACTTAGTTTTCTGCTGACTATTCACGTTATAGATCCC
66 TATTATTCTTAACCTTGTAAGCCACACTTAGTTTTCTACTGACTAGTCACGTTATAGATCCC
*
16378082 AGATCTAATAGAAAAGCCAAGTTTGGTAAGATGTTCATCGCACTTCATTACG-CCAATAAATTAC
1 AGATCTAATAGAAAAGCCAAGTTTGGTAAGATGTTCATCACACTTCATTACGTCCAA-AAATTAC
* *
16378146 CTATTATTCTTAATCTTGTAAGCCACACTTAGTTTTTTACTGACTAGTCACGTTAT
65 CTATTATTCTTAACCTTGTAAGCCACACTTAGTTTTCTACTGACTAGTCACGTTAT
16378202 GGATTCCATT
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
126 3 0.03
127 105 0.97
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (127 bp):
AGATCTAATAGAAAAGCCAAGTTTGGTAAGATGTTCATCACACTTCATTACGTCCAAAAATTACC
TATTATTCTTAACCTTGTAAGCCACACTTAGTTTTCTACTGACTAGTCACGTTATAGATCCC
Found at i:16378229 original size:16 final size:16
Alignment explanation
Indices: 16378208--16378238 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16378198 TTATGGATTC
16378208 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
16378224 CATTTTATCTTTATT
1 CATTTTACCTTTATT
16378239 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:16381325 original size:37 final size:37
Alignment explanation
Indices: 16381270--16381340 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
16381260 TAATGTCGTT
* *
16381270 GCATGAGAACTTCTAGATTGCGCCCAAAACTGTCATC
1 GCATGAGAACTTCCAGATTGCACCCAAAACTGTCATC
* * *
16381307 GCATGAGCACTTCCAGATTTCACTCAAAACTGTC
1 GCATGAGAACTTCCAGATTGCACCCAAAACTGTC
16381341 GTCACAAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (37 bp):
GCATGAGAACTTCCAGATTGCACCCAAAACTGTCATC
Found at i:16382324 original size:16 final size:16
Alignment explanation
Indices: 16382303--16382333 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16382293 TTGTGGATCC
16382303 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
16382319 CATTTTATCTTTATT
1 CATTTTACCTTTATT
16382334 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:16386040 original size:37 final size:37
Alignment explanation
Indices: 16385963--16386042 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
16385953 TAATGTCGCT
* * *
16385963 GCATGAGCACTTCTAGATTGCACCAAAAGTTGTAGTC
1 GCATGAGCACTTCCAGATTGCACCAAAAGCTGTAGCC
16386000 GCATGAGCACTTCCAGATTGCACCCAAAA-CTGTCA-CC
1 GCATGAGCACTTCCAGATTGCA-CCAAAAGCTGT-AGCC
16386037 GCATGA
1 GCATGA
16386043 ATATTTCTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 31 0.82
38 7 0.18
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (37 bp):
GCATGAGCACTTCCAGATTGCACCAAAAGCTGTAGCC
Found at i:16386162 original size:26 final size:26
Alignment explanation
Indices: 16386107--16386162 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
16386097 GAATGTCACT
* *
16386107 GCATGAACATGTCCAGAATTATCGTT
1 GCATGAACATGTCCAGAATTATCATC
* *
16386133 GCATGAACGTGTCCAGAATTGTCATC
1 GCATGAACATGTCCAGAATTATCATC
16386159 GCAT
1 GCAT
16386163 CTAATAGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (26 bp):
GCATGAACATGTCCAGAATTATCATC
Found at i:16388939 original size:20 final size:20
Alignment explanation
Indices: 16388914--16388981 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
16388904 TACTATTTGG
* *
16388914 TATCGATGCTAATATAAAAT
1 TATCGATACTAATATAAAAA
**
16388934 TATCGATACTTTTATAAAAA
1 TATCGATACTAATATAAAAA
**
16388954 TATCGATACTCGTA-AAAAA
1 TATCGATACTAATATAAAAA
16388973 TATCGATAC
1 TATCGATAC
16388982 CATGGGCCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 14 0.33
20 28 0.67
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (20 bp):
TATCGATACTAATATAAAAA
Found at i:16388973 original size:19 final size:20
Alignment explanation
Indices: 16388926--16388981 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
16388916 TCGATGCTAA
* **
16388926 TATAAAATTATCGATACTTT
1 TATAAAAATATCGATACTCG
16388946 TATAAAAATATCGATACTCG
1 TATAAAAATATCGATACTCG
16388966 TA-AAAAATATCGATAC
1 TATAAAAATATCGATAC
16388982 CATGGGCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (20 bp):
TATAAAAATATCGATACTCG
Found at i:16392567 original size:30 final size:28
Alignment explanation
Indices: 16392533--16392622 Score: 83
Period size: 30 Copynumber: 3.1 Consensus size: 28
16392523 ATAATTTACA
16392533 AAAATTAAATTAAATCAAAATTTCATGTAT
1 AAAATTAAATTAAATCAAAATTT-AT-TAT
* **
16392563 AAAATTATACAAAATCAAAATTTA-TAT
1 AAAATTAAATTAAATCAAAATTTATTAT
* *
16392590 ATAATTATACATTAAATCATAATTTATATAT
1 AAAATTA-A-ATTAAATCAAAATTTAT-TAT
16392621 AA
1 AA
16392623 CTCCTATTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
27 9 0.19
29 14 0.30
30 20 0.43
31 4 0.09
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (28 bp):
AAAATTAAATTAAATCAAAATTTATTAT
Found at i:16392606 original size:29 final size:29
Alignment explanation
Indices: 16392541--16392622 Score: 105
Period size: 29 Copynumber: 2.8 Consensus size: 29
16392531 CAAAAATTAA
*
16392541 ATTAAATCAAAATTTCATGTATAAAATTATAC
1 ATTAAATCAAAATTT-A--TATATAATTATAC
16392573 A--AAATCAAAATTTATATATAATTATAC
1 ATTAAATCAAAATTTATATATAATTATAC
*
16392600 ATTAAATCATAATTTATATATAA
1 ATTAAATCAAAATTTATATATAA
16392623 CTCCTATTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
27 13 0.28
29 20 0.43
30 12 0.26
32 1 0.02
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.39
Consensus pattern (29 bp):
ATTAAATCAAAATTTATATATAATTATAC
Found at i:16392712 original size:11 final size:11
Alignment explanation
Indices: 16392696--16392752 Score: 64
Period size: 11 Copynumber: 5.3 Consensus size: 11
16392686 CACCTAAGAT
*
16392696 ATATAATATAA
1 ATATAATATTA
16392707 ATATAATATTA
1 ATATAATATTA
16392718 AT-T-ATATTA
1 ATATAATATTA
16392727 ATATTAATATTA
1 ATA-TAATATTA
* *
16392739 ATCTAAGATTA
1 ATATAATATTA
16392750 ATA
1 ATA
16392753 AACCCCTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.21
10 1 0.03
11 22 0.56
12 8 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (11 bp):
ATATAATATTA
Found at i:16392736 original size:21 final size:20
Alignment explanation
Indices: 16392701--16392740 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
16392691 AAGATATATA
16392701 ATATAAATATAATATTAATT
1 ATATAAATATAATATTAATT
*
16392721 ATATTAATATTAATATTAAT
1 ATATAAATA-TAATATTAAT
16392741 CTAAGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATAAATATAATATTAATT
Found at i:16392738 original size:17 final size:17
Alignment explanation
Indices: 16392694--16392752 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
16392684 TGCACCTAAG
* *
16392694 ATATATAATATAAATATA
1 ATAT-TAATATTAATCTA
16392712 ATATT-A-ATTATAT-TA
1 ATATTAATATTA-ATCTA
16392727 ATATTAATATTAATCTA
1 ATATTAATATTAATCTA
*
16392744 AGATTAATA
1 ATATTAATA
16392753 AACCCCTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 10 0.29
16 6 0.17
17 15 0.43
18 4 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
ATATTAATATTAATCTA
Found at i:16407527 original size:20 final size:19
Alignment explanation
Indices: 16407492--16407530 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
16407482 CTCTCTGTTT
*
16407492 TCTTTTTCTTTTCTTTTGC
1 TCTTTTTCTCTTCTTTTGC
16407511 TCTTTTCTCTCTTCTTTTGC
1 TCTTTT-TCTCTTCTTTTGC
16407531 ATTTTCTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.00, C:0.26, G:0.05, T:0.69
Consensus pattern (19 bp):
TCTTTTTCTCTTCTTTTGC
Found at i:16412176 original size:16 final size:16
Alignment explanation
Indices: 16412140--16412181 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
16412130 AATTAGATAA
*
16412140 ATTTATCTAATTAATT
1 ATTTATCTAATTAAAT
* *
16412156 TTTTATTTAATTAAAT
1 ATTTATCTAATTAAAT
16412172 ATTTATCTAA
1 ATTTATCTAA
16412182 ATTTTAATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTATCTAATTAAAT
Found at i:16417017 original size:15 final size:15
Alignment explanation
Indices: 16416997--16417037 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
16416987 TTCGAACAGC
*
16416997 AAAAAATTACTATAA
1 AAAAAATTACTACAA
16417012 AAAAAA-TACTACAA
1 AAAAAATTACTACAA
16417026 AAAAAATT-CTAC
1 AAAAAATTACTAC
16417038 TAACCTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAAAATTACTACAA
Found at i:16425683 original size:28 final size:27
Alignment explanation
Indices: 16425652--16425876 Score: 125
Period size: 28 Copynumber: 8.1 Consensus size: 27
16425642 TTGGCTCATG
*
16425652 AGAGCATAATTATGTATTCTGGCTCGAA
1 AGAGCATAATT-TGAATTCTGGCTCGAA
* * * *
16425680 AGAGCGATACTCT-ATTTCTGGCTCGTA
1 AGAGC-ATAATTTGAATTCTGGCTCGAA
* * * *
16425707 AGAGCATTATTCTGGACTCTAGCTCGAA
1 AGAGCATAATT-TGAATTCTGGCTCGAA
* * * * *
16425735 AGAGTATTACTCTGGACTCTGGCTCGAA
1 AGAGCA-TAATTTGAATTCTGGCTCGAA
* *
16425763 AGAGCATTACTTTGAACTT-TGGCTCGTA
1 AGAGCA-TAATTTGAA-TTCTGGCTCGAA
* * *
16425791 AGAGCATTATTCTGGACTT-TGGCTTGAA
1 AGAGCATAATT-T-GAATTCTGGCTCGAA
*
16425819 AGAGCATTACTTTGAACTT-TGGCTCGAA
1 AGAGCA-TAATTTGAA-TTCTGGCTCGAA
* *
16425847 AGAGCATTACTTTGAACTCTGGCTCGAA
1 AGAGCA-TAATTTGAATTCTGGCTCGAA
16425875 AG
1 AG
16425877 GGGACGTTAT
Statistics
Matches: 154, Mismatches: 33, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
26 3 0.02
27 23 0.15
28 116 0.75
29 12 0.08
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (27 bp):
AGAGCATAATTTGAATTCTGGCTCGAA
Found at i:16425769 original size:56 final size:56
Alignment explanation
Indices: 16425671--16425876 Score: 249
Period size: 56 Copynumber: 3.7 Consensus size: 56
16425661 TTATGTATTC
* * * *
16425671 TGGCTCGAAAGAGCGA-TACTCT--ATTTCTGGCTCGTAAGAGCATTA-TTCTGGACTC
1 TGGCTCGAAAGAGC-ATTACTCTGGA-CTCTGGCTCGAAAGAGCATTACTT-TGAACTT
* *
16425726 TAGCTCGAAAGAGTATTACTCTGGACTCTGGCTCGAAAGAGCATTACTTTGAACTT
1 TGGCTCGAAAGAGCATTACTCTGGACTCTGGCTCGAAAGAGCATTACTTTGAACTT
* * * *
16425782 TGGCTCGTAAGAGCATTATTCTGGACTTTGGCTTGAAAGAGCATTACTTTGAACTT
1 TGGCTCGAAAGAGCATTACTCTGGACTCTGGCTCGAAAGAGCATTACTTTGAACTT
* *
16425838 TGGCTCGAAAGAGCATTACTTTGAACTCTGGCTCGAAAG
1 TGGCTCGAAAGAGCATTACTCTGGACTCTGGCTCGAAAG
16425877 GGGACGTTAT
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
54 1 0.01
55 18 0.14
56 107 0.83
57 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (56 bp):
TGGCTCGAAAGAGCATTACTCTGGACTCTGGCTCGAAAGAGCATTACTTTGAACTT
Found at i:16425820 original size:84 final size:84
Alignment explanation
Indices: 16425669--16425872 Score: 279
Period size: 84 Copynumber: 2.4 Consensus size: 84
16425659 AATTATGTAT
* *
16425669 TCTGGCTCGAAAGAGCGA-TACTCT--ATTTCTGGCTCGTAAGAGCATTATTCTGGACTCTAGCT
1 TCTGGCTCGAAAGAGC-ATTACTTTGAACTT-TGGCTCGTAAGAGCATTATTCTGGACTCTAGCT
* *
16425731 CGAAAGAGTATTACTCTGGAC
64 CGAAAGAGCATTACTCTGAAC
* * *
16425752 TCTGGCTCGAAAGAGCATTACTTTGAACTTTGGCTCGTAAGAGCATTATTCTGGACTTTGGCTTG
1 TCTGGCTCGAAAGAGCATTACTTTGAACTTTGGCTCGTAAGAGCATTATTCTGGACTCTAGCTCG
*
16425817 AAAGAGCATTACTTTGAAC
66 AAAGAGCATTACTCTGAAC
* *
16425836 TTTGGCTCGAAAGAGCATTACTTTGAACTCTGGCTCG
1 TCTGGCTCGAAAGAGCATTACTTTGAACTTTGGCTCG
16425873 AAAGGGGACG
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
82 1 0.01
83 21 0.19
84 83 0.77
85 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (84 bp):
TCTGGCTCGAAAGAGCATTACTTTGAACTTTGGCTCGTAAGAGCATTATTCTGGACTCTAGCTCG
AAAGAGCATTACTCTGAAC
Found at i:16429962 original size:94 final size:94
Alignment explanation
Indices: 16429845--16430033 Score: 279
Period size: 94 Copynumber: 2.0 Consensus size: 94
16429835 TACATGAATC
* *
16429845 ATGGTGATATTTTATCTTAAAATTTAAGTAGTATCTCCCATGTATCACAATATATTATATCTCAA
1 ATGGCGATATTTTATCTTAAAATTTAAGTAGTATCTCCCATGTATCACAATATATCATATCTCAA
* * *
16429910 TGCTTTAGCTCGAAGTTCTTAATGAATAA
66 CGCTTTAGCCCAAAGTTCTTAATGAATAA
* * * *
16429939 ATGGCGATATTTTCTCTTAAAATTTGAGTAGTATCTTCCATGTATCACAATATATCATGTCTCAA
1 ATGGCGATATTTTATCTTAAAATTTAAGTAGTATCTCCCATGTATCACAATATATCATATCTCAA
* *
16430004 CGCTTTATCCCAAATTTCTTAATGAATAA
66 CGCTTTAGCCCAAAGTTCTTAATGAATAA
16430033 A
1 A
16430034 CCTAATGTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 84 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (94 bp):
ATGGCGATATTTTATCTTAAAATTTAAGTAGTATCTCCCATGTATCACAATATATCATATCTCAA
CGCTTTAGCCCAAAGTTCTTAATGAATAA
Found at i:16439788 original size:15 final size:16
Alignment explanation
Indices: 16439741--16439792 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
16439731 GAAGGTGTCA
* *
16439741 AAGACGAAGAAGGGCAG
1 AAGAAGAAGAA-GGAAG
*
16439758 AAGAAGAAGAATGAAG
1 AAGAAGAAGAAGGAAG
16439774 AAGAAG-AGAAGGAAG
1 AAGAAGAAGAAGGAAG
16439789 AAGA
1 AAGA
16439793 GAATGACATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 12 0.39
16 9 0.29
17 10 0.32
ACGTcount: A:0.58, C:0.04, G:0.37, T:0.02
Consensus pattern (16 bp):
AAGAAGAAGAAGGAAG
Found at i:16440262 original size:19 final size:19
Alignment explanation
Indices: 16440238--16440282 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
16440228 ATAGTTTTCA
*
16440238 TGCATTTTTATTCTGTCAT
1 TGCATTTTTATTCTGTCAG
* *
16440257 TGCATTTTTATTTTGTTAG
1 TGCATTTTTATTCTGTCAG
16440276 TGCATTT
1 TGCATTT
16440283 CTTTTGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.11, G:0.13, T:0.60
Consensus pattern (19 bp):
TGCATTTTTATTCTGTCAG
Found at i:16444268 original size:43 final size:43
Alignment explanation
Indices: 16444221--16444305 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
16444211 AGACACTTGA
* ** * *
16444221 TGTATAAATGGAAAACTCATGTTTCGGATTGAGCATGAGAATT
1 TGTATAAATAGAAAACTCATGACTCGAAATGAGCATGAGAATT
* * *
16444264 TGTATGAATAGAAGACTCGTGACTCGAAATGAGCATGAGAAT
1 TGTATAAATAGAAAACTCATGACTCGAAATGAGCATGAGAAT
16444306 ATATTAAACA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTATAAATAGAAAACTCATGACTCGAAATGAGCATGAGAATT
Found at i:16444337 original size:41 final size:42
Alignment explanation
Indices: 16444235--16444407 Score: 125
Period size: 42 Copynumber: 4.1 Consensus size: 42
16444225 TAAATGGAAA
* * * * * *
16444235 ACTCATGTTTCGGATTGAGCATGAGAATTTGTATGAATAGAAG
1 ACTCATGTCTAGGAATGAGCATGAGAATATG-ATTAAAAGAAG
* * * *
16444278 ACTCGTGACTCGAAATGAGCATGAGAATAT-ATTAAACA-AAG
1 ACTCATGTCTAGGAATGAGCATGAGAATATGATTAAA-AGAAG
* * * * * *
16444319 ACTCATGTCTCGGGATGAGAATGAGATTGTGTTTAAAAGAAG
1 ACTCATGTCTAGGAATGAGCATGAGAATATGATTAAAAGAAG
* * *
16444361 ACTCATGTCTAGGAATGAGCGTGAGATTATGTTTAACAAGGAAG
1 ACTCATGTCTAGGAATGAGCATGAGAATATGATTAA-AA-GAAG
16444405 ACT
1 ACT
16444408 TATGACTCGG
Statistics
Matches: 104, Mismatches: 21, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
41 31 0.30
42 40 0.38
43 26 0.25
44 7 0.07
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (42 bp):
ACTCATGTCTAGGAATGAGCATGAGAATATGATTAAAAGAAG
Found at i:16444363 original size:42 final size:44
Alignment explanation
Indices: 16444274--16444417 Score: 127
Period size: 42 Copynumber: 3.4 Consensus size: 44
16444264 TGTATGAATA
* * * * * * *
16444274 GAAGACTCGTGACTCGAAATGAGCATGAGAATATATTAAAC-A-
1 GAAGACTCATGTCTCGGAATGAGAATGAGATTATGTTTAACAAG
* *
16444316 -AAGACTCATGTCTCGGGATGAGAATGAGATTGTGTTTAA-AA-
1 GAAGACTCATGTCTCGGAATGAGAATGAGATTATGTTTAACAAG
* **
16444357 GAAGACTCATGTCTAGGAATGAGCGTGAGATTATGTTTAACAAG
1 GAAGACTCATGTCTCGGAATGAGAATGAGATTATGTTTAACAAG
* *
16444401 GAAGACTTATGACTCGG
1 GAAGACTCATGTCTCGG
16444418 TACAGCATAA
Statistics
Matches: 81, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
41 31 0.38
42 34 0.42
43 2 0.02
44 14 0.17
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (44 bp):
GAAGACTCATGTCTCGGAATGAGAATGAGATTATGTTTAACAAG
Found at i:16450241 original size:29 final size:29
Alignment explanation
Indices: 16450202--16450329 Score: 154
Period size: 30 Copynumber: 4.3 Consensus size: 29
16450192 AAAATCATTT
16450202 TTTGACCCCCAAAGTTTT-CAAAAATTCAAA
1 TTTGA-CCCCAAA-TTTTCCAAAAATTCAAA
16450232 TTTGACCCCAAATTTTCCAAAAATTCAAA
1 TTTGACCCCAAATTTTCCAAAAATTCAAA
*
16450261 TTTCG-CCCTTAAATTTTCCAAAAATTCAAA
1 TTT-GACCC-CAAATTTTCCAAAAATTCAAA
* *
16450291 TTTAACCCCTAAAGTTTT-CAAAAATTAAAA
1 TTTGACCCC-AAA-TTTTCCAAAAATTCAAA
16450321 TTTGACCCC
1 TTTGACCCC
16450330 GTTTTAATGT
Statistics
Matches: 87, Mismatches: 5, Indels: 12
0.84 0.05 0.12
Matches are distributed among these distances:
28 4 0.05
29 25 0.29
30 54 0.62
31 4 0.05
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (29 bp):
TTTGACCCCAAATTTTCCAAAAATTCAAA
Found at i:16462177 original size:39 final size:39
Alignment explanation
Indices: 16462122--16462251 Score: 163
Period size: 39 Copynumber: 3.3 Consensus size: 39
16462112 ACAACTTCAA
* *
16462122 ATCTTTTACCCTAACCATAGGGCAGATTGAAGCCATCAG
1 ATCTTTTACCCCAACCATAGGGCAGATTGAAGCAATCAG
* * *
16462161 ATCTTTTACCCCAACCAGAGGGCAGATTAAAGTAATCCAG
1 ATCTTTTACCCCAACCATAGGGCAGATTGAAGCAAT-CAG
* * *
16462201 ATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCTA-
1 ATCTTTTACCCCAACCATAGGGCAGATTGAAGCAATC-AG
16462240 ATCTTTTACCCC
1 ATCTTTTACCCC
16462252 TATAGTTATA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 43 0.56
40 34 0.44
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (39 bp):
ATCTTTTACCCCAACCATAGGGCAGATTGAAGCAATCAG
Found at i:16462441 original size:50 final size:50
Alignment explanation
Indices: 16462300--16462459 Score: 164
Period size: 50 Copynumber: 3.2 Consensus size: 50
16462290 ATCCTATACC
** * *
16462300 CCTAAAGCTGTAGAGGAAC-GAATTAACGTCACAATGGCAAATCTCATAT-A
1 CCTAAAGCTGTAGAGGGGCAG-ATTAAAGTCACAATGGCGAATCTCAT-TCA
* * * * *
16462350 CCTAAAGCTGTAAAGGGGCAGAATGAAGCCGCAATGGCGAATCTCATTCA
1 CCTAAAGCTGTAGAGGGGCAGATTAAAGTCACAATGGCGAATCTCATTCA
* * *
16462400 CCTAAAGCTGTAGAGGGGCAGATTAAAGTCACAA-GGACGAATCTTATACT
1 CCTAAAGCTGTAGAGGGGCAGATTAAAGTCACAATGG-CGAATCTCATTCA
16462450 CCTAAAGCTG
1 CCTAAAGCTG
16462460 AAATGGAGTG
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.03
50 86 0.96
51 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (50 bp):
CCTAAAGCTGTAGAGGGGCAGATTAAAGTCACAATGGCGAATCTCATTCA
Found at i:16462536 original size:45 final size:44
Alignment explanation
Indices: 16462487--16462613 Score: 166
Period size: 45 Copynumber: 2.8 Consensus size: 44
16462477 AACTTCGAAT
16462487 CTTTTACCCCTAAAGCTATAGAGCGACAAATTGAAACAATCCAAC
1 CTTTTACCCCTAAAGCTATAGAG-GACAAATTGAAACAATCCAAC
* * * *
16462532 CTTTTACCCCTAAAGCTATAGAAGGGCAAATTAAAACAATCTAAT
1 CTTTTACCCCTAAAGCTATAG-AGGACAAATTGAAACAATCCAAC
*
16462577 CTTTTA-CCCTCAAAGCTATAGAGGAGTAAATTGAAAC
1 CTTTTACCCCT-AAAGCTATAGAGGA-CAAATTGAAAC
16462614 TACAAGAACA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
44 7 0.10
45 63 0.88
46 2 0.03
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (44 bp):
CTTTTACCCCTAAAGCTATAGAGGACAAATTGAAACAATCCAAC
Found at i:16464347 original size:30 final size:30
Alignment explanation
Indices: 16464313--16464464 Score: 200
Period size: 30 Copynumber: 5.1 Consensus size: 30
16464303 AAAATCATTT
*
16464313 TTTGACCCCCAAAGTTTT-CAAAAATTTAAA
1 TTTGACCCCCAAA-TTTTCCAAAAATTCAAA
**
16464343 TTTGACCCCTGAATTTTCCAAAAATTCAAA
1 TTTGACCCCCAAATTTTCCAAAAATTCAAA
**
16464373 TTT-AGCCCATAAATTTTCCAAAAATTCAAA
1 TTTGA-CCCCCAAATTTTCCAAAAATTCAAA
* *
16464403 TTTCACCCCCAAATTTTCTAAAAATTCAAA
1 TTTGACCCCCAAATTTTCCAAAAATTCAAA
*
16464433 TTTGACCCCTAAATTTTCCAAAAATTCAAA
1 TTTGACCCCCAAATTTTCCAAAAATTCAAA
16464463 TT
1 TT
16464465 AACCTCGTTT
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
29 5 0.05
30 102 0.94
31 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.34
Consensus pattern (30 bp):
TTTGACCCCCAAATTTTCCAAAAATTCAAA
Found at i:16466063 original size:14 final size:15
Alignment explanation
Indices: 16466044--16466072 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16466034 GAGGAACTTC
16466044 CTCTTTTG-CTTCTT
1 CTCTTTTGTCTTCTT
16466058 CTCTTTTGTCTTCTT
1 CTCTTTTGTCTTCTT
16466073 TTTCTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.28, G:0.07, T:0.66
Consensus pattern (15 bp):
CTCTTTTGTCTTCTT
Found at i:16467522 original size:17 final size:18
Alignment explanation
Indices: 16467492--16467525 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16467482 GAGAAAGAGA
16467492 TTAAAAATTGGAAGAAAT
1 TTAAAAATTGGAAGAAAT
*
16467510 TTAAAGATT-GAAGAAA
1 TTAAAAATTGGAAGAAA
16467526 AGAAAGGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (18 bp):
TTAAAAATTGGAAGAAAT
Found at i:16472102 original size:18 final size:18
Alignment explanation
Indices: 16472076--16472118 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
16472066 TTCAGTCTGT
*
16472076 TGTGGCTGCATACGAGCA
1 TGTGACTGCATACGAGCA
*
16472094 TGTGACTGCATACGAGTA
1 TGTGACTGCATACGAGCA
16472112 TGTGACT
1 TGTGACT
16472119 ACATTTGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (18 bp):
TGTGACTGCATACGAGCA
Found at i:16479032 original size:20 final size:21
Alignment explanation
Indices: 16479007--16479046 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
16478997 GTAAAAGAAT
16479007 TTAAAACAAC-ACAAGTAAAA
1 TTAAAACAACTACAAGTAAAA
* *
16479027 TTAAAATAACTAGAAGTAAA
1 TTAAAACAACTACAAGTAAA
16479047 TAGAGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.20
Consensus pattern (21 bp):
TTAAAACAACTACAAGTAAAA
Found at i:16490062 original size:42 final size:42
Alignment explanation
Indices: 16489985--16490093 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
16489975 CTCGTGATTG
* * *
16489985 GAAATGAGCATGAGAATAT-ATTAAAGGTAGACTCATGTCTC
1 GAAATGAGCATGAGATTATGTTTAAAGATAGACTCATGTCTC
* * *
16490026 GAGATGAGAATGAGATTATGTTTAAAGATAGGCTCATGTCTC
1 GAAATGAGCATGAGATTATGTTTAAAGATAGACTCATGTCTC
*
16490068 GAAATGAGCGTGAGATTATGTTTAAA
1 GAAATGAGCATGAGATTATGTTTAAA
16490094 AAGGAAGACT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
41 16 0.28
42 42 0.72
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (42 bp):
GAAATGAGCATGAGATTATGTTTAAAGATAGACTCATGTCTC
Found at i:16495933 original size:11 final size:10
Alignment explanation
Indices: 16495917--16495943 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16495907 ATATATATTC
16495917 TTTTTTTGAA
1 TTTTTTTGAA
16495927 TTTTTTTGAA
1 TTTTTTTGAA
16495937 TTTTTTT
1 TTTTTTT
16495944 AAGACACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:16499139 original size:11 final size:11
Alignment explanation
Indices: 16499123--16499149 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16499113 AGTGGGGGTT
16499123 TAAAACAAAAA
1 TAAAACAAAAA
16499134 TAAAACAAAAA
1 TAAAACAAAAA
16499145 TAAAA
1 TAAAA
16499150 TAAATAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.11
Consensus pattern (11 bp):
TAAAACAAAAA
Found at i:16501477 original size:13 final size:13
Alignment explanation
Indices: 16501454--16501478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16501444 ATTAAACTTG
16501454 AAAATTAAAAATT
1 AAAATTAAAAATT
16501467 AAAATTAAAAAT
1 AAAATTAAAAAT
16501479 GAATTTGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:16506366 original size:43 final size:41
Alignment explanation
Indices: 16506319--16506469 Score: 144
Period size: 43 Copynumber: 3.6 Consensus size: 41
16506309 AGACACTTGA
*
16506319 TGTATAAATGGAATACTCATGTCTCGGATTGAGCATGAGAATT
1 TGTATAAA-GGAAGACTCATGTCTCGGA-TGAGCATGAGAATT
* * * * *
16506362 TGTATGAATGGAAGACTCGTGACTCGAAATGAGCATGAGAATA
1 TGTAT-AAAGGAAGACTCATGTCTCG-GATGAGCATGAGAATT
* * *
16506405 TAT-TGAAGGAAGACTCATGTCTCGGGATGAGAATGAG-ATT
1 TGTATAAAGGAAGACTCATGTCTC-GGATGAGCATGAGAATT
*
16506445 ATGTTTAAAGGAAGACTCATGTCTC
1 -TGTATAAAGGAAGACTCATGTCTC
16506470 AGAATGATTG
Statistics
Matches: 87, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
40 2 0.02
41 27 0.31
42 21 0.24
43 34 0.39
44 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (41 bp):
TGTATAAAGGAAGACTCATGTCTCGGATGAGCATGAGAATT
Found at i:16506435 original size:41 final size:41
Alignment explanation
Indices: 16506328--16506469 Score: 142
Period size: 41 Copynumber: 3.4 Consensus size: 41
16506318 ATGTATAAAT
* * *
16506328 GGAATACTCATGTCTC-GGATTGAGCATGAGAATTTGTATGAA
1 GGAAGACTCATGTCTCGGGA-TGAGCATGAGAATATAT-TGAA
* * **
16506370 TGGAAGACTCGTGACTCGAAATGAGCATGAGAATATATTGAA
1 -GGAAGACTCATGTCTCGGGATGAGCATGAGAATATATTGAA
* * * *
16506412 GGAAGACTCATGTCTCGGGATGAGAATGAGATTATGTTTAAA
1 GGAAGACTCATGTCTCGGGATGAGCATGAGAATAT-ATTGAA
16506454 GGAAGACTCATGTCTC
1 GGAAGACTCATGTCTC
16506470 AGAATGATTG
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 29 0.35
42 24 0.29
43 28 0.34
44 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (41 bp):
GGAAGACTCATGTCTCGGGATGAGCATGAGAATATATTGAA
Found at i:16506462 original size:42 final size:42
Alignment explanation
Indices: 16506318--16506545 Score: 169
Period size: 42 Copynumber: 5.4 Consensus size: 42
16506308 GAGACACTTG
* * *
16506318 ATGTATAAATGGAATACTCATGTCTCGGATTGAGCATGAGAATT
1 ATGTTTAAA-GGAAGACTCATGTCTCGGAATGAGCATGAG-ATT
* * * * * *
16506362 -TGTATGAATGGAAGACTCGTGACTCGAAATGAGCATGAGAAT
1 ATGT-TTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATT
* * * *
16506404 AT-ATTGAAGGAAGACTCATGTCTCGGGATGAGAATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATT
* ***
16506445 ATGTTTAAAGGAAGACTCATGTCTCAGAATGATTGTGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATT
* * * *
16506487 ATGTTTAAAAAGGAAGACTTATGACTCGGTA-GAGCATAAGA-T
1 ATGTTT--AAAGGAAGACTCATGTCTCGGAATGAGCATGAGATT
*
16506529 -TGTTAAAAAGGAAGACT
1 ATGTT-TAAAGGAAGACT
16506546 TGTGAATCTG
Statistics
Matches: 143, Mismatches: 35, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
40 11 0.08
41 35 0.24
42 41 0.29
43 35 0.24
44 21 0.15
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.28
Consensus pattern (42 bp):
ATGTTTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATT
Found at i:16506541 original size:40 final size:40
Alignment explanation
Indices: 16506491--16506576 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
16506481 GAGATTATGT
*
16506491 TTAAAAAGGAAGACTTATGACTCGGT-AGAGCATAAGATTG
1 TTAAAAAGGAAGACTTATGAATCGGTGA-AGCATAAGATTG
* *
16506531 TTAAAAAGGAAGACTTGTGAATCTGTGAAGCATAAGATTG
1 TTAAAAAGGAAGACTTATGAATCGGTGAAGCATAAGATTG
16506571 TCTAAA
1 T-TAAA
16506577 GAAGTTCTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (40 bp):
TTAAAAAGGAAGACTTATGAATCGGTGAAGCATAAGATTG
Found at i:16511837 original size:17 final size:16
Alignment explanation
Indices: 16511800--16511859 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
16511790 TTCCTCTTAT
*
16511800 ATTTTTTAAGGTTAGG
1 ATTTTTTAAGGTTAAG
16511816 ATTTTTTAAGGTTTAAG
1 ATTTTTTAAGG-TTAAG
* *
16511833 -CTTTTTAAAG-TAAG
1 ATTTTTTAAGGTTAAG
* *
16511847 GTTTATTAAGGTT
1 ATTTTTTAAGGTT
16511860 TAGGTTAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 4 0.11
15 7 0.20
16 20 0.57
17 4 0.11
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (16 bp):
ATTTTTTAAGGTTAAG
Found at i:16511858 original size:31 final size:32
Alignment explanation
Indices: 16511802--16511861 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
16511792 CCTCTTATAT
* * *
16511802 TTTTTAAGGTTAGGATTTTTTAAGGTTTAAGC
1 TTTTTAAAGTAAGGATTTATTAAGGTTTAAGC
16511834 TTTTTAAAGTAAGG-TTTATTAAGGTTTA
1 TTTTTAAAGTAAGGATTTATTAAGGTTTA
16511862 GGTTAGTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (32 bp):
TTTTTAAAGTAAGGATTTATTAAGGTTTAAGC
Found at i:16515201 original size:24 final size:23
Alignment explanation
Indices: 16515173--16515252 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
16515163 ACATATAATT
* *
16515173 ACATTTAATCATATGAATATTTC
1 ACATTTAATAACATGAATATTTC
16515196 AGCATTT-ATAACATGACATATTAATC
1 A-CATTTAATAACATGA-ATATT--TC
**
16515222 ACATTTAATTGCATGAATATTTC
1 ACATTTAATAACATGAATATTTC
16515245 AACATTTA
1 -ACATTTA
16515253 TCACATCACA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
23 10 0.21
24 17 0.36
25 10 0.21
26 10 0.21
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (23 bp):
ACATTTAATAACATGAATATTTC
Found at i:16515202 original size:59 final size:58
Alignment explanation
Indices: 16515105--16515343 Score: 203
Period size: 59 Copynumber: 4.3 Consensus size: 58
16515095 CTTTCTTTTA
* * *
16515105 CACAT-TAATCACATTAATCACATGAGTACTTAAACATTTAACACAACACATATTAAT
1 CACATATAATCACATTAATCACATGAATACTTCAACATTTAACACATCACATATTAAT
* * * * *
16515162 CACATATAATTACATTTAATCATATGAATATTTCAGCATTTATA-ACATGACATATTAAT
1 CACATATAATCACA-TTAATCACATGAATACTTCAACATTTA-ACACATCACATATTAAT
* * *
16515221 CACAT-T--T-A-A-T--T-GCATGAATATTTCAACATTTATCACATCACATATTAAT
1 CACATATAATCACATTAATCACATGAATACTTCAACATTTAACACATCACATATTAAT
* * * * * *
16515270 CATATTTAGTCACATTTAATCACATTAATACTTCAGCATTTATCACATCACATATTAAT
1 CACATATAATCACA-TTAATCACATGAATACTTCAACATTTAACACATCACATATTAAT
* *
16515329 CACATTTAGTCACAT
1 CACATATAATCACAT
16515344 AAAATCACGT
Statistics
Matches: 149, Mismatches: 19, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
49 36 0.24
50 2 0.01
52 2 0.01
53 1 0.01
54 2 0.01
55 1 0.01
56 2 0.01
57 5 0.03
58 10 0.07
59 87 0.58
60 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (58 bp):
CACATATAATCACATTAATCACATGAATACTTCAACATTTAACACATCACATATTAAT
Found at i:16515238 original size:49 final size:49
Alignment explanation
Indices: 16515160--16515284 Score: 162
Period size: 49 Copynumber: 2.6 Consensus size: 49
16515150 ACACATATTA
* * *
16515160 ATCACATA-TAATTACATTTAATCATATGAATATTTCAGCATTTATAAC
1 ATCACATATTAATCACATTTAATCACATGAATATTTCAACATTTATAAC
* ** *
16515208 ATGACATATTAATCACATTTAATTGCATGAATATTTCAACATTTATCAC
1 ATCACATATTAATCACATTTAATCACATGAATATTTCAACATTTATAAC
* *
16515257 ATCACATATTAATCATATTTAGTCACAT
1 ATCACATATTAATCACATTTAATCACAT
16515285 TTAATCACAT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
48 7 0.11
49 57 0.89
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (49 bp):
ATCACATATTAATCACATTTAATCACATGAATATTTCAACATTTATAAC
Found at i:16515263 original size:108 final size:108
Alignment explanation
Indices: 16515108--16515343 Score: 312
Period size: 108 Copynumber: 2.2 Consensus size: 108
16515098 TCTTTTACAC
*
16515108 ATTAATCACA-TTAATCACATGAGTACTTAAACATTTAACACAACACATATTAATCACATATAAT
1 ATTAATCACATTTAATCACATGAATACTTAAACATTTAACACAACACATATTAATCACATATAAT
* * * *
16515172 TACATTTAATCATATGAATATTTCAGCATTTATAACATGACAT
66 CACATTTAATCACATGAATACTTCAGCATTTATAACATCACAT
** * * * * * * *
16515215 ATTAATCACATTTAATTGCATGAATATTTCAACATTTATCACATCACATATTAATCATATTTAGT
1 ATTAATCACATTTAATCACATGAATACTTAAACATTTAACACAACACATATTAATCACATATAAT
* *
16515280 CACATTTAATCACATTAATACTTCAGCATTTATCACATCACAT
66 CACATTTAATCACATGAATACTTCAGCATTTATAACATCACAT
*
16515323 ATTAATCACATTTAGTCACAT
1 ATTAATCACATTTAATCACAT
16515344 AAAATCACGT
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
107 10 0.09
108 99 0.91
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (108 bp):
ATTAATCACATTTAATCACATGAATACTTAAACATTTAACACAACACATATTAATCACATATAAT
CACATTTAATCACATGAATACTTCAGCATTTATAACATCACAT
Found at i:16515265 original size:24 final size:24
Alignment explanation
Indices: 16515185--16515266 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
16515175 ATTTAATCAT
*
16515185 ATGA-ATATTTCAGCATTTATAAC
1 ATGACATATTTCAACATTTATAAC
**
16515208 ATGACATATTAATC-ACATTTAATTGC
1 ATGACATATT--TCAACATTT-ATAAC
*
16515234 ATGA-ATATTTCAACATTTATCAC
1 ATGACATATTTCAACATTTATAAC
*
16515257 ATCACATATT
1 ATGACATATT
16515267 AATCATATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
23 12 0.26
24 16 0.34
25 10 0.21
26 9 0.19
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (24 bp):
ATGACATATTTCAACATTTATAAC
Found at i:16515292 original size:10 final size:10
Alignment explanation
Indices: 16515257--16515295 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
16515247 CATTTATCAC
16515257 ATCACATATTA
1 ATCACAT-TTA
*
16515268 ATCATATTTA
1 ATCACATTTA
*
16515278 GTCACATTTA
1 ATCACATTTA
16515288 ATCACATT
1 ATCACATT
16515296 AATACTTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (10 bp):
ATCACATTTA
Found at i:16518316 original size:49 final size:49
Alignment explanation
Indices: 16518263--16518370 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 49
16518253 AATAATCGAA
* *
16518263 TTAATCACATGAGTACTT-AAACATTTAAT-ACAACACATATTAATCACAT
1 TTAATCACATGAATACTTCAAA-ATTT-ATCACAACACATATTAATAACAT
* * * *
16518312 TTAATCATATGAATATTTCAGAATTTATCACATCACATATTAATAACAT
1 TTAATCACATGAATACTTCAAAATTTATCACAACACATATTAATAACAT
*
16518361 TTAGTCACAT
1 TTAATCACAT
16518371 TTAATTGCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.04
49 45 0.92
50 2 0.04
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.36
Consensus pattern (49 bp):
TTAATCACATGAATACTTCAAAATTTATCACAACACATATTAATAACAT
Found at i:16518369 original size:26 final size:25
Alignment explanation
Indices: 16518334--16518429 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
16518324 ATATTTCAGA
16518334 ATTTATCACATCACATATTAATAAC
1 ATTTATCACATCACATATTAATAAC
* * *
16518359 ATTTAGTCACATTTAATTGCATGAATATTTCAAC
1 ATTTA-TCACA--TCA---CAT-ATTA-AT-AAC
*
16518393 ATTTATCACATCACATATTAATCAC
1 ATTTATCACATCACATATTAATAAC
16518418 ATTTAGTCACAT
1 ATTTA-TCACAT
16518430 TTAATCACAT
Statistics
Matches: 54, Mismatches: 7, Indels: 19
0.68 0.09 0.24
Matches are distributed among these distances:
25 12 0.22
26 12 0.22
27 3 0.06
28 5 0.09
31 5 0.09
32 3 0.06
33 6 0.11
34 8 0.15
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (25 bp):
ATTTATCACATCACATATTAATAAC
Found at i:16518384 original size:59 final size:59
Alignment explanation
Indices: 16518296--16518496 Score: 314
Period size: 59 Copynumber: 3.4 Consensus size: 59
16518286 TTTAATACAA
* *
16518296 CACATATTAATCACATTTAATCATATGAATATTTCAGAATTTATCACATCACATATTAAT
1 CACAT-TTAGTCACATTTAATCACATGAATATTTCAGAATTTATCACATCACATATTAAT
* **
16518356 AACATTTAGTCACATTTAATTGCATGAATATTTCA-ACATTTATCACATCACATATTAAT
1 CACATTTAGTCACATTTAATCACATGAATATTTCAGA-ATTTATCACATCACATATTAAT
* *
16518415 CACATTTAGTCACATTTAATCACATGAATATTTCAGTATTTATCACATCATATATTAAT
1 CACATTTAGTCACATTTAATCACATGAATATTTCAGAATTTATCACATCACATATTAAT
16518474 CACATTTAGTCACATTTAATCAC
1 CACATTTAGTCACATTTAATCAC
16518497 GTTTAATGAT
Statistics
Matches: 129, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
58 1 0.01
59 124 0.96
60 4 0.03
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (59 bp):
CACATTTAGTCACATTTAATCACATGAATATTTCAGAATTTATCACATCACATATTAAT
Found at i:16518429 original size:10 final size:10
Alignment explanation
Indices: 16518402--16518439 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
16518392 CATTTATCAC
16518402 ATCACATATTA
1 ATCACAT-TTA
16518413 ATCACATTTA
1 ATCACATTTA
*
16518423 GTCACATTTA
1 ATCACATTTA
16518433 ATCACAT
1 ATCACAT
16518440 GAATATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (10 bp):
ATCACATTTA
Found at i:16518488 original size:10 final size:10
Alignment explanation
Indices: 16518469--16518503 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
16518459 ACATCATATA
16518469 TTAATCACAT
1 TTAATCACAT
*
16518479 TTAGTCACAT
1 TTAATCACAT
*
16518489 TTAATCACGT
1 TTAATCACAT
16518499 TTAAT
1 TTAAT
16518504 GATAGTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (10 bp):
TTAATCACAT
Found at i:16518927 original size:36 final size:36
Alignment explanation
Indices: 16518881--16519105 Score: 306
Period size: 36 Copynumber: 6.2 Consensus size: 36
16518871 CACAATATAA
* * *
16518881 TTACTTTCACATGACATGAAAAATATACCCACATAT
1 TTACTGTCACATGGCATGAAAAACATACCCACATAT
* * *
16518917 TTATTGTCACATGGCATGAAACACATACCTACATAT
1 TTACTGTCACATGGCATGAAAAACATACCCACATAT
* * * *
16518953 TTACTATCAAATGACATGAAAAACATACCCACATAG
1 TTACTGTCACATGGCATGAAAAACATACCCACATAT
16518989 TTACTGTCACATGGCATGAAAAACATACCCACATAT
1 TTACTGTCACATGGCATGAAAAACATACCCACATAT
16519025 TTACTGTCACATGGCATGAAAAACATACCCACATAT
1 TTACTGTCACATGGCATGAAAAACATACCCACATAT
* * * *
16519061 TTATTGTCACATGGCTTCAAAAAACATACTCACATAT
1 TTACTGTCACATGGCAT-GAAAAACATACCCACATAT
*
16519098 TTATTGTC
1 TTACTGTC
16519106 GCAACAGTCA
Statistics
Matches: 167, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 142 0.85
37 25 0.15
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (36 bp):
TTACTGTCACATGGCATGAAAAACATACCCACATAT
Found at i:16520909 original size:32 final size:32
Alignment explanation
Indices: 16520844--16520913 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
16520834 AATGATAACA
* *
16520844 AACTTTAATTTTTTAAAATGATAACAAATACC
1 AACTTTAATTTTATAAAATGATAACAAACACC
* * *
16520876 AACTTTAATTTTATGAAATGATAACGAGCACC
1 AACTTTAATTTTATAAAATGATAACAAACACC
16520908 AACTTT
1 AACTTT
16520914 GATGAAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (32 bp):
AACTTTAATTTTATAAAATGATAACAAACACC
Found at i:16524420 original size:28 final size:28
Alignment explanation
Indices: 16524388--16524442 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
16524378 ATTCTAGCTC
*
16524388 GTAAGAGCAATATTCTAGACTTTGGCTT
1 GTAAGAGCAATATTCTAGACTCTGGCTT
*
16524416 GTAAGAGCAATATTCTGGACTCTGGCT
1 GTAAGAGCAATATTCTAGACTCTGGCT
16524443 CAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (28 bp):
GTAAGAGCAATATTCTAGACTCTGGCTT
Found at i:16524449 original size:28 final size:28
Alignment explanation
Indices: 16524390--16524450 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
16524380 TCTAGCTCGT
* ***
16524390 AAGAGCAATATTCTAGACTTTGGCTTGT
1 AAGAGCAATATTCTAGACTCTGGCTCAA
*
16524418 AAGAGCAATATTCTGGACTCTGGCTCAA
1 AAGAGCAATATTCTAGACTCTGGCTCAA
16524446 AAGAG
1 AAGAG
16524451 TGTTATTCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (28 bp):
AAGAGCAATATTCTAGACTCTGGCTCAA
Found at i:16524484 original size:28 final size:28
Alignment explanation
Indices: 16524461--16524557 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
16524451 TGTTATTCCA
*
16524461 TTTCTGGCTCGAAAGGAACATTATTATG
1 TTTCTGGCTCGAAAGGAGCATTATTATG
*
16524489 TTTTTGGCTCGAAAGGAGCATTATTATG
1 TTTCTGGCTCGAAAGGAGCATTATTATG
* * *
16524517 TTTCTAGCTTGAAAGGAGCATTATTCTG
1 TTTCTGGCTCGAAAGGAGCATTATTATG
16524545 -TTCTAGGCTCGAA
1 TTTCT-GGCTCGAA
16524558 TGTGCTATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 4 0.07
28 56 0.93
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (28 bp):
TTTCTGGCTCGAAAGGAGCATTATTATG
Found at i:16525814 original size:21 final size:21
Alignment explanation
Indices: 16525790--16525829 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16525780 AATTATTTCG
*
16525790 AATTATATCGAAATTTAAAAA
1 AATTAAATCGAAATTTAAAAA
* *
16525811 AATTAAATTGATATTTAAA
1 AATTAAATCGAAATTTAAA
16525830 TATTGTATGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTAAATCGAAATTTAAAAA
Found at i:16528407 original size:20 final size:19
Alignment explanation
Indices: 16528357--16528410 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
16528347 AATCTTAAAG
16528357 TTTTATAATTTTT-AGTATA
1 TTTTAT-ATTTTTAAGTATA
*
16528376 TTTTGATTTTTTTAAGATATA
1 TTTT-ATATTTTTAAG-TATA
16528397 TTTTATATTTTTAA
1 TTTTATATTTTTAA
16528411 TTAATGATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 9 0.30
20 13 0.43
21 8 0.27
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTATATTTTTAAGTATA
Found at i:16545951 original size:19 final size:18
Alignment explanation
Indices: 16545927--16545974 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
16545917 ACCCACAAAA
16545927 TATTTTTTTATTTTTCTCG
1 TATTTTTTT-TTTTTCTCG
16545946 TATTTTTCTTTTTTTCTCG
1 TATTTTT-TTTTTTTCTCG
16545965 -ACTTTTTTTT
1 TA-TTTTTTTT
16545975 ATCACTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 21 0.78
20 2 0.07
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.75
Consensus pattern (18 bp):
TATTTTTTTTTTTTCTCG
Found at i:16556790 original size:53 final size:55
Alignment explanation
Indices: 16556690--16556799 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 55
16556680 AGTACATATA
*
16556690 GAGAGAGTGAGAGAAATGGAACTCATAAATTTAATTTGAAAAG-AAAA-AAAAGG
1 GAGAGAGTGAGAGAAATGGAACTCATAAATTAAATTTGAAAAGAAAAATAAAAGG
*
16556743 GAGAGAGTGAGAGAAATTGAACT-ATAAATTAAATTTGAAAAGCAAAAATAAAAGG
1 GAGAGAGTGAGAGAAATGGAACTCATAAATTAAATTTGAAAAG-AAAAATAAAAGG
16556798 GA
1 GA
16556800 AAGGTAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
52 18 0.35
53 22 0.42
54 4 0.08
55 8 0.15
ACGTcount: A:0.54, C:0.04, G:0.24, T:0.19
Consensus pattern (55 bp):
GAGAGAGTGAGAGAAATGGAACTCATAAATTAAATTTGAAAAGAAAAATAAAAGG
Found at i:16558706 original size:13 final size:14
Alignment explanation
Indices: 16558690--16558722 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
16558680 GACCCGACAC
16558690 GTTGACCGTTGA-T
1 GTTGACCGTTGATT
*
16558703 GTTGACCTTTGATT
1 GTTGACCGTTGATT
16558717 GTTGAC
1 GTTGAC
16558723 TTTGACCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.42
Consensus pattern (14 bp):
GTTGACCGTTGATT
Found at i:16566209 original size:19 final size:19
Alignment explanation
Indices: 16566185--16566232 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
16566175 TGCCGCGCAC
16566185 TGTTGCTGCCCTTGCTAAG
1 TGTTGCTGCCCTTGCTAAG
16566204 TGTTGCTGCCCTTGCTAAG
1 TGTTGCTGCCCTTGCTAAG
16566223 TGTTGCTGCC
1 TGTTGCTGCC
16566233 GAACATCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.08, C:0.27, G:0.27, T:0.38
Consensus pattern (19 bp):
TGTTGCTGCCCTTGCTAAG
Found at i:16566383 original size:9 final size:9
Alignment explanation
Indices: 16566366--16566400 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
16566356 ATTATTTTCA
16566366 AATTT-TTT
1 AATTTATTT
16566374 AATTTATTT
1 AATTTATTT
16566383 AATTTATTT
1 AATTTATTT
16566392 AATTTATTT
1 AATTTATTT
16566401 TAAATTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.19
9 21 0.81
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
AATTTATTT
Found at i:16566411 original size:18 final size:18
Alignment explanation
Indices: 16566357--16566412 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
16566347 GGTAAGAAAA
16566357 TTATTTTCAAATTTTTTAAT
1 TTATTTT-AAA-TTTTTAAT
*
16566377 TTA-TTTAATTTATTTAAT
1 TTATTTTAAATT-TTTAAT
*
16566395 TTATTTTAAATTGTTAAT
1 TTATTTTAAATTTTTAAT
16566413 ATTTTAGTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 2 0.06
18 16 0.52
19 10 0.32
20 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTTTAAATTTTTAAT
Found at i:16578273 original size:23 final size:22
Alignment explanation
Indices: 16578242--16578285 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16578232 AAAGAAATAA
*
16578242 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
16578264 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
16578286 GAAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:16583974 original size:37 final size:38
Alignment explanation
Indices: 16583933--16584030 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
16583923 GTACATGTTC
16583933 ATGCAGCGACATTCCTGGGTGCAA-TTGAAGAATACTT
1 ATGCAGCGACATTCCTGGGTGCAATTTGAAGAATACTT
* * *
16583970 ATGCAGCGATAGTT-CTGGATGCAATTTGAAGAATATTT
1 ATGCAGCGACA-TTCCTGGGTGCAATTTGAAGAATACTT
* *
16584008 ATGCAGCGACAGTCTTGGGTGCA
1 ATGCAGCGACATTCCTGGGTGCA
16584031 TTCCGGAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
37 20 0.39
38 31 0.61
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (38 bp):
ATGCAGCGACATTCCTGGGTGCAATTTGAAGAATACTT
Found at i:16593583 original size:30 final size:30
Alignment explanation
Indices: 16593547--16593614 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
16593537 GCTCCAAATG
*
16593547 TGAGTGCTCGCAACATCAATGTTCGCAGCA
1 TGAGTGCTCGCAACATCAAAGTTCGCAGCA
* *
16593577 TGAGTGCTCGTAACATCAAAGTTCGTAGCA
1 TGAGTGCTCGCAACATCAAAGTTCGCAGCA
16593607 TGAGTGCT
1 TGAGTGCT
16593615 TGTATCTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (30 bp):
TGAGTGCTCGCAACATCAAAGTTCGCAGCA
Found at i:16597604 original size:24 final size:25
Alignment explanation
Indices: 16597567--16597618 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
16597557 CAGGTTCTTT
*
16597567 TTCTTCTTTCTCTTCTTCCTT-TCC
1 TTCTTCTTTCTCTTCATCCTTCTCC
*
16597591 TTCTTC-TTCTTCTTGATCCTTCTCC
1 TTCTTCTTTC-TCTTCATCCTTCTCC
16597616 TTC
1 TTC
16597619 AATTGATCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 15 0.62
25 6 0.25
ACGTcount: A:0.02, C:0.37, G:0.02, T:0.60
Consensus pattern (25 bp):
TTCTTCTTTCTCTTCATCCTTCTCC
Found at i:16606908 original size:15 final size:16
Alignment explanation
Indices: 16606861--16606914 Score: 69
Period size: 15 Copynumber: 3.6 Consensus size: 16
16606851 TCTTTTTCTT
16606861 TTTC-TTTTCTCTCAA
1 TTTCTTTTTCTCTCAA
**
16606876 GCTCTTTTT-TCTCAA
1 TTTCTTTTTCTCTCAA
16606891 TTTCTTTTTCTCTC-A
1 TTTCTTTTTCTCTCAA
16606906 TTTCTTTTT
1 TTTCTTTTT
16606915 TTTCCACTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 25 0.76
16 8 0.24
ACGTcount: A:0.09, C:0.24, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTCTTTTTCTCTCAA
Found at i:16606926 original size:21 final size:23
Alignment explanation
Indices: 16606900--16606946 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
16606890 ATTTCTTTTT
16606900 CTCTC-ATTTCTTTT-TTTTCCA
1 CTCTCAATTTCTTTTATTTTCCA
*
16606921 CTCTCAATTTCTTTTATTTTTCA
1 CTCTCAATTTCTTTTATTTTCCA
16606944 CTC
1 CTC
16606947 ATTTTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 9 0.39
23 9 0.39
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.60
Consensus pattern (23 bp):
CTCTCAATTTCTTTTATTTTCCA
Found at i:16606947 original size:21 final size:21
Alignment explanation
Indices: 16606895--16606959 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
16606885 TCTCAATTTC
*
16606895 TTTTTCTCTC-ATTTCTTTT-
1 TTTTTCACTCAATTTCTTTTA
*
16606914 TTTTCCACTCTCAATTTCTTTTA
1 TTTTTCA--CTCAATTTCTTTTA
* *
16606937 TTTTTCACTCATTTTCTCTTA
1 TTTTTCACTCAATTTCTTTTA
16606958 TT
1 TT
16606960 ATCAAATCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 5 0.14
21 17 0.46
22 9 0.24
23 6 0.16
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTCACTCAATTTCTTTTA
Found at i:16607814 original size:3 final size:3
Alignment explanation
Indices: 16607806--16607837 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
16607796 TCAACTAGCT
16607806 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
16607838 TTATTTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:16610737 original size:16 final size:16
Alignment explanation
Indices: 16610687--16610736 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
16610677 TTTCTTTTTA
**
16610687 TTTTCTCTCAAGCTCT
1 TTTTCTCTCAATTTCT
*
16610703 CTTT-TCTCAATTTCT
1 TTTTCTCTCAATTTCT
16610718 TTTTCTCTC-ATTTCT
1 TTTTCTCTCAATTTCT
16610733 TTTT
1 TTTT
16610737 TGTTGTAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 22 0.76
16 7 0.24
ACGTcount: A:0.10, C:0.26, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTCTCTCAATTTCT
Found at i:16619744 original size:14 final size:15
Alignment explanation
Indices: 16619725--16619754 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
16619715 TCGATGCTTT
16619725 ACTGTTCAT-TTATC
1 ACTGTTCATCTTATC
16619739 ACTGTTCATCTTATC
1 ACTGTTCATCTTATC
16619754 A
1 A
16619755 ATATATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (15 bp):
ACTGTTCATCTTATC
Found at i:16626648 original size:22 final size:22
Alignment explanation
Indices: 16626604--16626648 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
16626594 AAAACTATAA
*
16626604 ATTTATTTTTATGATTTATATT
1 ATTTATTTTAATGATTTATATT
*
16626626 ATTTATTATTAATGTTTTA-ATT
1 ATTTATT-TTAATGATTTATATT
16626648 A
1 A
16626649 GGATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
ATTTATTTTAATGATTTATATT
Found at i:16652078 original size:17 final size:17
Alignment explanation
Indices: 16652056--16652090 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
16652046 TACCCAGTAC
*
16652056 TTCTACCGATACAAGTG
1 TTCTACCGAAACAAGTG
16652073 TTCTACCGAAACAAGTG
1 TTCTACCGAAACAAGTG
16652090 T
1 T
16652091 ACAAATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (17 bp):
TTCTACCGAAACAAGTG
Found at i:16652594 original size:26 final size:26
Alignment explanation
Indices: 16652581--16652876 Score: 353
Period size: 26 Copynumber: 11.4 Consensus size: 26
16652571 ACGAGCATAG
*
16652581 TCAGGATATCGCTCTTACGAGCCAGT
1 TCAGTATATCGCTCTTACGAGCCAGT
16652607 TCAGTATATCGCTCTTACGAGCCAGT
1 TCAGTATATCGCTCTTACGAGCCAGT
*
16652633 TCAATATATCGCTCTTACGAGCCAGT
1 TCAGTATATCGCTCTTACGAGCCAGT
**
16652659 TCAGTATATCGCTCTTATTAGCCAGT
1 TCAGTATATCGCTCTTACGAGCCAGT
* *
16652685 TCAATATATCGCTCTTACGAG-CTGAT
1 TCAGTATATCGCTCTTACGAGCCAG-T
*
16652711 TCAGTACATCGCTCTTACGAGCCAGT
1 TCAGTATATCGCTCTTACGAGCCAGT
*
16652737 TCAGTATATCGCTCATACGAGCCAGT
1 TCAGTATATCGCTCTTACGAGCCAGT
* ** *
16652763 TCAATATATTACTTTTACG-GCCCAGT
1 TCAGTATATCGCTCTTACGAG-CCAGT
* * * ** *
16652789 TCAGCATATTGCTCCTATTAGCCAAT
1 TCAGTATATCGCTCTTACGAGCCAGT
* *
16652815 TCAGTAAATCGCTCTTACGAGCCAAT
1 TCAGTATATCGCTCTTACGAGCCAGT
* * *
16652841 TAAGTATATCACTCTTGCGAGCCAGT
1 TCAGTATATCGCTCTTACGAGCCAGT
16652867 TCAGTATATC
1 TCAGTATATC
16652877 TTTAGAGTCT
Statistics
Matches: 227, Mismatches: 39, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
25 3 0.01
26 221 0.97
27 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (26 bp):
TCAGTATATCGCTCTTACGAGCCAGT
Found at i:16653349 original size:23 final size:23
Alignment explanation
Indices: 16653319--16653375 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
16653309 CACCCGAATT
16653319 CAACCATTGCTTTTCATCACTTC
1 CAACCATTGCTTTTCATCACTTC
16653342 CAACCATTGCTTTTCATCACTTC
1 CAACCATTGCTTTTCATCACTTC
16653365 CAACCATTGCT
1 CAACCATTGCT
16653376 CCTCAATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.37
Consensus pattern (23 bp):
CAACCATTGCTTTTCATCACTTC
Found at i:16655893 original size:17 final size:18
Alignment explanation
Indices: 16655856--16655895 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
16655846 AACAAAAGAG
*
16655856 ATGCAGTGACAAAATAAA
1 ATGCAATGACAAAATAAA
*
16655874 ATGCAATGACAATA-AAA
1 ATGCAATGACAAAATAAA
16655891 ATGCA
1 ATGCA
16655896 TGAAAACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.17
Consensus pattern (18 bp):
ATGCAATGACAAAATAAA
Found at i:16660748 original size:27 final size:27
Alignment explanation
Indices: 16660683--16660748 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
16660673 AAAGACTAAA
* *
16660683 GAAATAAAATTAACCCAATTTAATTAAT
1 GAAAT-AATTTAACCCAAATTAATTAAT
* * *
16660711 TAATTAATTTAACCCAAATTATTTAAT
1 GAAATAATTTAACCCAAATTAATTAAT
*
16660738 GAAATATTTTA
1 GAAATAATTTA
16660749 GAATGAATTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.39
Consensus pattern (27 bp):
GAAATAATTTAACCCAAATTAATTAAT
Found at i:16671694 original size:23 final size:22
Alignment explanation
Indices: 16671663--16671706 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16671653 AAAGAAATAA
*
16671663 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
16671685 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
16671707 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:16675120 original size:16 final size:16
Alignment explanation
Indices: 16675092--16675128 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
16675082 TAAGACTTCA
16675092 TAATTTATGCTTTAAT
1 TAATTTATGCTTTAAT
16675108 TAATTCTAT-CTTTAAT
1 TAATT-TATGCTTTAAT
16675124 TAATT
1 TAATT
16675129 AAATCCCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (16 bp):
TAATTTATGCTTTAAT
Found at i:16680963 original size:31 final size:30
Alignment explanation
Indices: 16680893--16680963 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
16680883 TATGTAATTC
* *
16680893 TATAAATG-AACTTTGATTTGGTAAAATTA
1 TATAAATGAAACATTGATTTGGTAAAAGTA
* * *
16680922 TATACATGAAACATTGATTGTGGTTAAAGTG
1 TATAAATGAAACATTGATT-TGGTAAAAGTA
16680953 TATAAATGAAA
1 TATAAATGAAA
16680964 TTTCAATGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 7 0.21
30 9 0.26
31 18 0.53
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.37
Consensus pattern (30 bp):
TATAAATGAAACATTGATTTGGTAAAAGTA
Found at i:16681778 original size:16 final size:17
Alignment explanation
Indices: 16681757--16681791 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
16681747 GAGATTTCTG
16681757 TAAAATTCAAA-TTATT
1 TAAAATTCAAATTTATT
16681773 TAAAATTCAAATTTATT
1 TAAAATTCAAATTTATT
16681790 TA
1 TA
16681792 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAAATTCAAATTTATT
Found at i:16686779 original size:19 final size:19
Alignment explanation
Indices: 16686755--16686791 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16686745 TTTTTGAGAT
*
16686755 TCTAATTATGAGATATTAG
1 TCTAATTAAGAGATATTAG
16686774 TCTAATTAAGAGATATTA
1 TCTAATTAAGAGATATTA
16686792 TTTCCTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (19 bp):
TCTAATTAAGAGATATTAG
Found at i:16689048 original size:19 final size:19
Alignment explanation
Indices: 16689024--16689060 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16689014 TTTTTAGAGA
*
16689024 TTCTAATTAGGAGATATTG
1 TTCTAATTAAGAGATATTG
16689043 TTCTAATTAAGAGATATT
1 TTCTAATTAAGAGATATT
16689061 ATTTCCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (19 bp):
TTCTAATTAAGAGATATTG
Found at i:16691285 original size:56 final size:56
Alignment explanation
Indices: 16691225--16691394 Score: 304
Period size: 56 Copynumber: 3.0 Consensus size: 56
16691215 AAACTCTGTA
*
16691225 TAAGACCATGAGGTTAAGACTCATGGCATAATATGATATTACTGAATGAATGTATG
1 TAAGACCATGAGGTTAAGACCCATGGCATAATATGATATTACTGAATGAATGTATG
16691281 TAAGACCATGAGGTTAAGACCCATGGCATAATATGATATTACTGAATGAATGTATG
1 TAAGACCATGAGGTTAAGACCCATGGCATAATATGATATTACTGAATGAATGTATG
* * *
16691337 TAAGACCATGAGGTTAAGACCCATGGCATAATATGATATGAATGAATGTATGTATG
1 TAAGACCATGAGGTTAAGACCCATGGCATAATATGATATTACTGAATGAATGTATG
16691393 TA
1 TA
16691395 TGTATGTAAG
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 110 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (56 bp):
TAAGACCATGAGGTTAAGACCCATGGCATAATATGATATTACTGAATGAATGTATG
Found at i:16713754 original size:21 final size:21
Alignment explanation
Indices: 16713703--16713754 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
16713693 TCAGTTTTTA
16713703 GTATCGGTAGAAGCATGACAT
1 GTATCGGTAGAAGCATGACAT
* * * *
16713724 ATTTCAGTAGAAGTCAT-ACTT
1 GTATCGGTAGAAG-CATGACAT
16713745 GTATCGGTAG
1 GTATCGGTAG
16713755 TATTGTCTCA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGCATGACAT
Found at i:16715852 original size:13 final size:13
Alignment explanation
Indices: 16715834--16715866 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
16715824 TATAAAGTTT
16715834 TTGTTATTTGAGA
1 TTGTTATTTGAGA
16715847 TTGTTA--TGAGA
1 TTGTTATTTGAGA
16715858 TTGTTATTT
1 TTGTTATTT
16715867 TATATATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.61
13 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (13 bp):
TTGTTATTTGAGA
Found at i:16717607 original size:28 final size:28
Alignment explanation
Indices: 16717555--16717609 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
16717545 AAATGAGCAT
* **
16717555 CATGACCTTTAGGTCAATAGGGAGTAAG
1 CATGACCTTTAGGTCAACAAAGAGTAAG
*
16717583 CATGACCTTTGGGTCAACAAAGAGTAA
1 CATGACCTTTAGGTCAACAAAGAGTAA
16717610 ATCGAATAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (28 bp):
CATGACCTTTAGGTCAACAAAGAGTAAG
Found at i:16723666 original size:38 final size:38
Alignment explanation
Indices: 16723615--16723696 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
16723605 GCTTGATAAG
16723615 TTCTATTGTTCATTCAAGATACAGAGATAAAAAATTAT
1 TTCTATTGTTCATTCAAGATACAGAGATAAAAAATTAT
16723653 TTCTATTGTTCATTCAAGATACAGAGATAAAAAATTAT
1 TTCTATTGTTCATTCAAGATACAGAGATAAAAAATTAT
16723691 TTCTAT
1 TTCTAT
16723697 ATAGTTCTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (38 bp):
TTCTATTGTTCATTCAAGATACAGAGATAAAAAATTAT
Found at i:16733857 original size:2 final size:2
Alignment explanation
Indices: 16733850--16733883 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
16733840 TTGTAGTTAG
*
16733850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16733884 GAGTATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:16734142 original size:22 final size:22
Alignment explanation
Indices: 16734114--16734166 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
16734104 AGCACGTATA
** *
16734114 GTGCTCTCCGTTTAGCATGTTT
1 GTGCTCTCCGTTTAGCACCTTG
*
16734136 GTGCTCTCTGTTTAGCACCTTG
1 GTGCTCTCCGTTTAGCACCTTG
16734158 GTGCTCTCC
1 GTGCTCTCC
16734167 ATTCTTTTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.08, C:0.28, G:0.23, T:0.42
Consensus pattern (22 bp):
GTGCTCTCCGTTTAGCACCTTG
Found at i:16749196 original size:19 final size:21
Alignment explanation
Indices: 16749153--16749198 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
16749143 AAGCTTACCA
16749153 AAGA-TGTTGTTGTTGTATTG
1 AAGATTGTTGTTGTTGTATTG
*
16749173 TAGATTGTT-TTGTTG-ATTG
1 AAGATTGTTGTTGTTGTATTG
16749192 AAGATTG
1 AAGATTG
16749199 GATCATCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.43
20 9 0.39
21 4 0.17
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (21 bp):
AAGATTGTTGTTGTTGTATTG
Found at i:16749738 original size:21 final size:21
Alignment explanation
Indices: 16749714--16749769 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
16749704 GAAGTAAGAC
* *
16749714 TTGTTTCGGTAGAAAAGTCAT
1 TTGTATCGGTAGAAAAGTCAG
* **
16749735 TTGTATCAGTAGAACTGTCAG
1 TTGTATCGGTAGAAAAGTCAG
16749756 TTGTATCGGTAGAA
1 TTGTATCGGTAGAA
16749770 GTTTGCACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.36
Consensus pattern (21 bp):
TTGTATCGGTAGAAAAGTCAG
Found at i:16760097 original size:21 final size:22
Alignment explanation
Indices: 16760073--16760120 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
16760063 CTTATTTCGA
16760073 TAGAAG-AGTCACTTGTATCGG
1 TAGAAGCAGTCACTTGTATCGG
*
16760094 TAG-AGCTGTCACTTGTATCGG
1 TAGAAGCAGTCACTTGTATCGG
16760115 TAGAAG
1 TAGAAG
16760121 TCTACACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (22 bp):
TAGAAGCAGTCACTTGTATCGG
Found at i:16766249 original size:23 final size:23
Alignment explanation
Indices: 16766201--16766247 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
16766191 AAAATTTAAA
*
16766201 TTAGGGTATTAGGTTTTAAATTT
1 TTAGGGTATTAGGGTTTAAATTT
*
16766224 TTAGGGT-TTAGGGTTTAATTTT
1 TTAGGGTATTAGGGTTTAAATTT
16766246 TT
1 TT
16766248 TAATTTCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.55
Consensus pattern (23 bp):
TTAGGGTATTAGGGTTTAAATTT
Found at i:16769987 original size:21 final size:21
Alignment explanation
Indices: 16769961--16770011 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
16769951 ATAATAGCAT
16769961 AATCCAAATATAAAGTTTAGA
1 AATCCAAATATAAAGTTTAGA
* *
16769982 AATCCAAACATAAAGTTTATA
1 AATCCAAATATAAAGTTTAGA
16770003 AATCCAAAT
1 AATCCAAAT
16770012 TACATAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (21 bp):
AATCCAAATATAAAGTTTAGA
Found at i:16772065 original size:40 final size:40
Alignment explanation
Indices: 16771937--16772203 Score: 268
Period size: 40 Copynumber: 6.7 Consensus size: 40
16771927 GTAATCTAGC
* * * *
16771937 AGTGTTTACAATGTCACTGCTAGTTCAATTGTAGTATCGG
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTTGTAGTATCGT
* * * * * * **
16771977 GGTGGTTACAATGTCACCGCTAGTTCCA-TTGTAATATCAC
1 AGTGTTTACAGTGTCACTGCCAGTT-CAGTTGTAGTATCGT
* * * ** *
16772017 AATATTTACAGTGTCACTGCCAGTTTAG-TGATACCATTGT
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTTG-TAGTATCGT
16772057 AGTGTTTACAGTGTCACTGCCAGTTCAGTTGTAGTATCGT
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTTGTAGTATCGT
*
16772097 AGTGTTTACAGTGTCACTGCCAGTTCAGTTGTAGTATCGC
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTTGTAGTATCGT
* * * * *
16772137 AGTGTTTACAGTGTCACTGTCAGTTTAATTGAAATATCGT
1 AGTGTTTACAGTGTCACTGCCAGTTCAGTTGTAGTATCGT
* *
16772177 AGTGTTTACAATGTCACTTCCAGTTCA
1 AGTGTTTACAGTGTCACTGCCAGTTCA
16772204 TACAATTTGG
Statistics
Matches: 187, Mismatches: 36, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
39 3 0.02
40 180 0.96
41 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (40 bp):
AGTGTTTACAGTGTCACTGCCAGTTCAGTTGTAGTATCGT
Found at i:16772150 original size:120 final size:120
Alignment explanation
Indices: 16771937--16772203 Score: 331
Period size: 120 Copynumber: 2.2 Consensus size: 120
16771927 GTAATCTAGC
* * *
16771937 AGTGTTTACAATGTCACTGCTAGTTCAATTGTAGTATCGGGGTGGTTACAATGTCACCGCTAGTT
1 AGTGTTTACAATGTCACTGCCAGTTCAATTGTAGTATCGGAGTGGTTACAATGTCACCGCCAGTT
* *
16772002 CCATTGTAATATCACAATATTTACAGTGTCACTGCCAGTTT-AGTGATACCATTGT
66 CCATTGTAATATCACAATATTTACAGTGTCACTGCCAGTTTAAGTGA-AACATCGT
* * * * * *
16772057 AGTGTTTACAGTGTCACTGCCAGTTCAGTTGTAGTATCGTAGTGTTTACAGTGTCACTGCCAGTT
1 AGTGTTTACAATGTCACTGCCAGTTCAATTGTAGTATCGGAGTGGTTACAATGTCACCGCCAGTT
* * * * * * *
16772122 -CAGTTGTAGTATCGCAGTGTTTACAGTGTCACTGTCAGTTTAATTGAAATATCGT
66 CCA-TTGTAATATCACAATATTTACAGTGTCACTGCCAGTTTAAGTGAAACATCGT
*
16772177 AGTGTTTACAATGTCACTTCCAGTTCA
1 AGTGTTTACAATGTCACTGCCAGTTCA
16772204 TACAATTTGG
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
119 2 0.02
120 119 0.95
121 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (120 bp):
AGTGTTTACAATGTCACTGCCAGTTCAATTGTAGTATCGGAGTGGTTACAATGTCACCGCCAGTT
CCATTGTAATATCACAATATTTACAGTGTCACTGCCAGTTTAAGTGAAACATCGT
Found at i:16773629 original size:22 final size:22
Alignment explanation
Indices: 16773615--16773665 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
16773605 AGCACCAAGA
16773615 AGCTAAACAGAGAGCACAAATG
1 AGCTAAACAGAGAGCACAAATG
* * *
16773637 TGCTAAACAGAGATCACAAACG
1 AGCTAAACAGAGAGCACAAATG
16773659 AGCTAAA
1 AGCTAAA
16773666 TGGAGAGCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.12
Consensus pattern (22 bp):
AGCTAAACAGAGAGCACAAATG
Found at i:16779932 original size:116 final size:116
Alignment explanation
Indices: 16779673--16779933 Score: 380
Period size: 116 Copynumber: 2.2 Consensus size: 116
16779663 AGTTGAGAAG
* *
16779673 TCTTACCCTGCAACTTCTACCGATACAAGTATTTAAACTACCAATACCTCAATGTACAAAACTAC
1 TCTTACCCTG-TACTTCTACCGATACAAGCATTTAAACTACCAATACCTCAATGTACAAAACTAC
* * *
16779738 CTATACCTGTTATACAACTACCGAAACAACTCAAGTCAGAGATCAACCTCTC
65 CGATACCTATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTC
* * * * ** *
16779790 TCCTACCCTATACTTTTATCGATACAAGCATTTAAACTTTCGATACCTCAATGTACAAAACTACC
1 TCTTACCCTGTACTTCTACCGATACAAGCATTTAAACTACCAATACCTCAATGTACAAAACTACC
*
16779855 GATACCTATTATACAACTATCGAAACAACTCAAGTCAGAGAACAACCTCTC
66 GATACCTATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTC
16779906 TCTTACCCTGTACTTCTACC-AGTACAAG
1 TCTTACCCTGTACTTCTACCGA-TACAAG
16779934 TATGAGTTCT
Statistics
Matches: 126, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
115 1 0.01
116 117 0.93
117 8 0.06
ACGTcount: A:0.36, C:0.29, G:0.08, T:0.27
Consensus pattern (116 bp):
TCTTACCCTGTACTTCTACCGATACAAGCATTTAAACTACCAATACCTCAATGTACAAAACTACC
GATACCTATTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTC
Found at i:16780492 original size:36 final size:36
Alignment explanation
Indices: 16780428--16780529 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 36
16780418 TCGTTATTTG
* * *
16780428 TTTTACTCCTTTTTAACCCTAAAGGTCATGATGCTCG
1 TTTTACTCCTTATTGACCC-AAAGGTCATGATGCTCA
*
16780465 TTTTACTCAC-TATTGACCCAAAGGTCATTATGCTCA
1 TTTTACTC-CTTATTGACCCAAAGGTCATGATGCTCA
* * *
16780501 TTTTTCTCCTTGTTTACCCAAAGGTCATG
1 TTTTACTCCTTATTGACCCAAAGGTCATG
16780530 CCTGTTACCA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
35 1 0.02
36 38 0.69
37 15 0.27
38 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTTACTCCTTATTGACCCAAAGGTCATGATGCTCA
Found at i:16787236 original size:116 final size:116
Alignment explanation
Indices: 16787095--16787335 Score: 329
Period size: 116 Copynumber: 2.1 Consensus size: 116
16787085 CTACCTTGCA
* * * *
16787095 ACTTCTACTGATACAAGTATTTAAACTACAGATACATCAATGTACAGAACTACTGATACCTATTA
1 ACTTCTACCGATACAAGCATTTAAACTACAGATACATCAATGCACAGAACTACCGATACCTATTA
* * ** *
16787160 TACAACTATCAAAACAACTCAAGTCAAAGATTAACCTCTCTCTTACCCTGT
66 TACAACTACCAAAACAACTCAAATCAAAGAACAACCTCTCTCTTAACCTGT
*** * *
16787211 ACTTCTACCGATACAAGCATTTAAACTTTTGATACCTCAATGCACAGAACTACCGATACCTGTTA
1 ACTTCTACCGATACAAGCATTTAAACTACAGATACATCAATGCACAGAACTACCGATACCTATTA
* * *
16787276 TACAACTACCGAAACAATTCAAATCAGAGAACAACCTCTCTCTTAACCTGT
66 TACAACTACCAAAACAACTCAAATCAAAGAACAACCTCTCTCTTAACCTGT
16787327 ACTTCTACC
1 ACTTCTACC
16787336 AATATAATTA
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
116 108 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.28
Consensus pattern (116 bp):
ACTTCTACCGATACAAGCATTTAAACTACAGATACATCAATGCACAGAACTACCGATACCTATTA
TACAACTACCAAAACAACTCAAATCAAAGAACAACCTCTCTCTTAACCTGT
Found at i:16798188 original size:17 final size:17
Alignment explanation
Indices: 16798152--16798196 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
16798142 TATCAGTATG
*
16798152 TTTATTATTTTACTTTA
1 TTTATTTTTTTACTTTA
*
16798169 TTTCTTTTTTTA-TTTAA
1 TTTATTTTTTTACTTT-A
16798186 TTTATTTTTTT
1 TTTATTTTTTT
16798197 TAGTTTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTTTTTACTTTA
Found at i:16799274 original size:39 final size:39
Alignment explanation
Indices: 16799243--16799368 Score: 173
Period size: 39 Copynumber: 3.2 Consensus size: 39
16799233 CTGAGCTGAT
*
16799243 AGTGACACTGTAAACACTGT-TTAGCTATACTGAATTGGC
1 AGTGACACTGTAAACACTGTGAT-GCTATACTGAATTGGC
*
16799282 AGTGACACTGTAAACACTGTGATGCTATACTAAATTGGC
1 AGTGACACTGTAAACACTGTGATGCTATACTGAATTGGC
* * * * *
16799321 AGTGACACTGTAAACACTGCGATACTACACTGAACTAGC
1 AGTGACACTGTAAACACTGTGATGCTATACTGAATTGGC
16799360 AGTGACACT
1 AGTGACACT
16799369 ATGATCACTG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 77 0.99
40 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (39 bp):
AGTGACACTGTAAACACTGTGATGCTATACTGAATTGGC
Found at i:16799293 original size:116 final size:116
Alignment explanation
Indices: 16799084--16799297 Score: 311
Period size: 116 Copynumber: 1.8 Consensus size: 116
16799074 AACCTTGAAT
* * * *
16799084 TGACAGTGACACTGTAAACACCGTAATACCGTACTAAGCTGACCGAGACACTATAAATACTATGT
1 TGACAGTGACACTATAAACACCATAATACCGTACTAAGCTGACAGAGACACTATAAACACTATGT
*
16799149 AGCTATATTGAATTGGCAGTGACACTGTAAACATTACGATATTATTCTGAC
66 AGCTATACTGAATTGGCAGTGACACTGTAAACATTACGATATTATTCTGAC
* * * * * * * *
16799200 TGACGGTGACATTATAAACACCATAATACCGTACTGAGCTGATAGTGACACTGTAAACACTGTTT
1 TGACAGTGACACTATAAACACCATAATACCGTACTAAGCTGACAGAGACACTATAAACACTATGT
16799265 AGCTATACTGAATTGGCAGTGACACTGTAAACA
66 AGCTATACTGAATTGGCAGTGACACTGTAAACA
16799298 CTGTGATGCT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
116 85 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (116 bp):
TGACAGTGACACTATAAACACCATAATACCGTACTAAGCTGACAGAGACACTATAAACACTATGT
AGCTATACTGAATTGGCAGTGACACTGTAAACATTACGATATTATTCTGAC
Found at i:16804932 original size:9 final size:11
Alignment explanation
Indices: 16804896--16804930 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
16804886 AGAAATGCTC
*
16804896 TGTGAATTCTG
1 TGTGAATTGTG
16804907 TGTGAATTGTG
1 TGTGAATTGTG
16804918 TGTGAATTGTG
1 TGTGAATTGTG
16804929 TG
1 TG
16804931 AAATTATGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.17, C:0.03, G:0.34, T:0.46
Consensus pattern (11 bp):
TGTGAATTGTG
Found at i:16805703 original size:39 final size:39
Alignment explanation
Indices: 16805658--16805772 Score: 135
Period size: 39 Copynumber: 2.9 Consensus size: 39
16805648 TGACAGTGAC
16805658 AAACACTGTGTAGCTATACTGAATTGGCAGTGACACTGT
1 AAACACTGTGTAGCTATACTGAATTGGCAGTGACACTGT
** *
16805697 AAACACTGTG-ATGCTATACTGAATTGATAGTAACACTGT
1 AAACACTGTGTA-GCTATACTGAATTGGCAGTGACACTGT
** * *
16805736 AAACACTACGATA-CTACACTGAACTGGCAGTGACACT
1 AAACACTGTG-TAGCTATACTGAATTGGCAGTGACACT
16805773 ATGACCACTG
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
38 1 0.02
39 61 0.97
41 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (39 bp):
AAACACTGTGTAGCTATACTGAATTGGCAGTGACACTGT
Found at i:16807876 original size:118 final size:120
Alignment explanation
Indices: 16807675--16807954 Score: 381
Period size: 119 Copynumber: 2.4 Consensus size: 120
16807665 TTGGTTCTCA
* *
16807675 ATTAAATGGAACAATATAAAAATAATGTGTTAAAAAATATTCAAAAGAACTTCTATTTCATTAAA
1 ATTAAATGAAACAATATAAAAATAATATGTTAAAAAATATTCAAAAGAACTTCTATTTCATTAAA
** ** *
16807740 TGATACAATATGCCAAAAATAATGTGTACAAAAATATTAAAA-AAGTTTTATTTT
66 TGATACAATATGCCAAAAATAACATGTACAAAAATAACAAAAGAACTTTTATTTT
* * ** *
16807794 ATTAAATGAAACAATATAAAAATAATATGTTGAAAACTATTCAGGA-AACTTCTTTTTCATTAAA
1 ATTAAATGAAACAATATAAAAATAATATGTTAAAAAATATTCAAAAGAACTTCTATTTCATTAAA
*
16807858 TGATACAATATGCCAAAAATAACATGTACAAAAATAACAAAAGAACTTTTGTTTT
66 TGATACAATATGCCAAAAATAACATGTACAAAAATAACAAAAGAACTTTTATTTT
*
16807913 ATTAAATGAAAAAATAT-AAAA-AATAATGTATAAAAAA-ATTCA
1 ATTAAATGAAACAATATAAAAATAAT-ATGT-TAAAAAATATTCA
16807955 GAATAAATCA
Statistics
Matches: 142, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
117 3 0.02
118 68 0.48
119 71 0.50
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (120 bp):
ATTAAATGAAACAATATAAAAATAATATGTTAAAAAATATTCAAAAGAACTTCTATTTCATTAAA
TGATACAATATGCCAAAAATAACATGTACAAAAATAACAAAAGAACTTTTATTTT
Found at i:16807929 original size:61 final size:61
Alignment explanation
Indices: 16807675--16807929 Score: 242
Period size: 61 Copynumber: 4.3 Consensus size: 61
16807665 TTGGTTCTCA
* * *
16807675 ATTAAATGGAACAATAT---AAAAATAATGTGTTA-AAAAATATTCAAAAGAACTTCTATTTC
1 ATTAAATGAAACAATATGCCAAAAATAATATG-TACAAAAATATTCAAAA-AACTTTTATTTC
* * * *
16807734 ATTAAATGATACAATATGCCAAAAATAATGTGTACAAAAATATT-AAAAAAGTTTTATTTT
1 ATTAAATGAAACAATATGCCAAAAATAATATGTACAAAAATATTCAAAAAACTTTTATTTC
** * **
16807794 ATTAAATGAAACAATAT---AAAAATAATATGTTGAAAACTATTCAGGAAACTTCTT-TTTC
1 ATTAAATGAAACAATATGCCAAAAATAATATGTACAAAAATATTCAAAAAACTT-TTATTTC
* * * * *
16807852 ATTAAATGATACAATATGCCAAAAATAACATGTACAAAAATA-ACAAAAGAACTTTTGTTTT
1 ATTAAATGAAACAATATGCCAAAAATAATATGTACAAAAATATTCAAAA-AACTTTTATTTC
*
16807913 ATTAAATGAAAAAATAT
1 ATTAAATGAAACAATAT
16807930 AAAAAATAAT
Statistics
Matches: 160, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
57 20 0.12
58 25 0.16
59 17 0.11
60 30 0.19
61 47 0.29
62 21 0.13
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.33
Consensus pattern (61 bp):
ATTAAATGAAACAATATGCCAAAAATAATATGTACAAAAATATTCAAAAAACTTTTATTTC
Found at i:16807955 original size:118 final size:116
Alignment explanation
Indices: 16807675--16807957 Score: 361
Period size: 118 Copynumber: 2.4 Consensus size: 116
16807665 TTGGTTCTCA
* *
16807675 ATTAAATGGAACAATATAAAAATAATGTGTTAAAAAATATTCAAAAGAACTTCTATTTCATTAAA
1 ATTAAATGAAACAATATAAAAATAA--TGTTAAAAAA-ATTCAGAAGAACTTCTATTTCATTAAA
** ** *
16807740 TGATACAATATGCCAAAAATAATGTGTACAAAAATATTAAAAAAGTTTTATTTT
63 TGATACAATATGCCAAAAATAACATGTACAAAAATAACAAAAAACTTTTATTTT
** * *
16807794 ATTAAATGAAACAATATAAAAATAATATGTTGAAAACTATTCAGGA-AACTTCTTTTTCATTAAA
1 ATTAAATGAAACAATATAAAAAT-A-ATGTT-AAAAAAATTCAGAAGAACTTCTATTTCATTAAA
*
16807858 TGATACAATATGCCAAAAATAACATGTACAAAAATAACAAAAGAACTTTTGTTTT
63 TGATACAATATGCCAAAAATAACATGTACAAAAATAACAAAA-AACTTTTATTTT
*
16807913 ATTAAATGAAAAAATATAAAAAATAATGTATAAAAAAATTCAGAA
1 ATTAAATGAAACAATAT-AAAAATAATGT-TAAAAAAATTCAGAA
16807958 TAAATCAATG
Statistics
Matches: 142, Mismatches: 16, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
118 70 0.49
119 60 0.42
120 11 0.08
121 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.31
Consensus pattern (116 bp):
ATTAAATGAAACAATATAAAAATAATGTTAAAAAAATTCAGAAGAACTTCTATTTCATTAAATGA
TACAATATGCCAAAAATAACATGTACAAAAATAACAAAAAACTTTTATTTT
Done.