Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 66 of 135
Found at i:26390131 original size:25 final size:25
Alignment explanation
Indices: 26390089--26390151 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
26390079 TTAAGTGTTT
* *
26390089 TCAGTATAGT-CTATCTATAGTAGTC
1 TCAGTATA-TACTACCTATAGCAGTC
*
26390114 TCAGTATATACTACCTATAGCAGTT
1 TCAGTATATACTACCTATAGCAGTC
*
26390139 TCAGGATATACTA
1 TCAGTATATACTA
26390152 TCAAAGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (25 bp):
TCAGTATATACTACCTATAGCAGTC
Found at i:26390624 original size:23 final size:24
Alignment explanation
Indices: 26390580--26390624 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
26390570 AAAATCCTAC
*
26390580 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
26390604 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
26390625 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:26393001 original size:208 final size:208
Alignment explanation
Indices: 26392640--26393052 Score: 720
Period size: 208 Copynumber: 2.0 Consensus size: 208
26392630 CTTTCCTAAT
*
26392640 TAAAATGCAGACCTTGCCTATCTCAAAATTCCAATAGAATTAGAATTCCATCATCTTTTTATATT
1 TAAAATGCAGACCTTGCCTATCTCAAAATTCCAATAGAATTAGAATTCCATCACCTTTTTATATT
* *
26392705 CTTTTCTTAATTAGACTTTCATATTGCTCCTTTTCAAATCCTAATAGAATCTGCTCTCCATCTTT
66 CTTTTCCTAATTAGACTTTCATATTGCTCCTTTTCAAATCCTAATAGAATCTGCTCTCCATCTTC
*
26392770 CTATTTATTTTATTTTCTATTTTCTTTCTCTTTTCTTTACACCATATTTTTATCCTAATTG-TTG
131 CTATTTATTTTATTTTCTATTTTCTTTATCTTTTCTTTACACCATATTTTTATCCTAATTGTTTG
26392834 ATAATTATTTTGAA
196 -TAATTATTTTGAA
*
26392848 TAAAATGCATACCTTGCCTATCTCAAAATTCCAATAGAATTAGAATTCCATCACCTTTTTATATT
1 TAAAATGCAGACCTTGCCTATCTCAAAATTCCAATAGAATTAGAATTCCATCACCTTTTTATATT
* * * *
26392913 CTTTTCCTAATTATATTTTCATATTGCTCCTTTTCAAATCCTAATATAATCTGCTCTCTATCTTC
66 CTTTTCCTAATTAGACTTTCATATTGCTCCTTTTCAAATCCTAATAGAATCTGCTCTCCATCTTC
*
26392978 CTATTTATTTTATTTTTTATTTTCTTTATCTTTTCTTTACACCATATTTTTATCCTAATTGTTTG
131 CTATTTATTTTATTTTCTATTTTCTTTATCTTTTCTTTACACCATATTTTTATCCTAATTGTTTG
26393043 TAATTATTTT
196 TAATTATTTT
26393053 TTTCGAATAA
Statistics
Matches: 194, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
208 191 0.98
209 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (208 bp):
TAAAATGCAGACCTTGCCTATCTCAAAATTCCAATAGAATTAGAATTCCATCACCTTTTTATATT
CTTTTCCTAATTAGACTTTCATATTGCTCCTTTTCAAATCCTAATAGAATCTGCTCTCCATCTTC
CTATTTATTTTATTTTCTATTTTCTTTATCTTTTCTTTACACCATATTTTTATCCTAATTGTTTG
TAATTATTTTGAA
Found at i:26394745 original size:18 final size:18
Alignment explanation
Indices: 26394724--26394788 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
26394714 CTAGTGTTTT
26394724 ATCCACAACGAGTGGTAC
1 ATCCACAACGAGTGGTAC
* **
26394742 ATCCACAATGATGAGTGGTTT
1 ATCCAC-A--ACGAGTGGTAC
26394763 ATCCACAACGAGTGGTAC
1 ATCCACAACGAGTGGTAC
*
26394781 ATACACAA
1 ATCCACAA
26394789 TGATGAGTGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 21 0.57
19 1 0.03
20 1 0.03
21 14 0.38
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (18 bp):
ATCCACAACGAGTGGTAC
Found at i:26394759 original size:21 final size:21
Alignment explanation
Indices: 26394733--26394808 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 21
26394723 TATCCACAAC
26394733 GAGTGGTACATCCACAATGAT
1 GAGTGGTACATCCACAATGAT
** *
26394754 GAGTGGTTTATCCAC-A--AC
1 GAGTGGTACATCCACAATGAT
*
26394772 GAGTGGTACATACACAATGAT
1 GAGTGGTACATCCACAATGAT
**
26394793 GAGTGGTTTATCCACA
1 GAGTGGTACATCCACA
26394809 GCGTGGTGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
18 13 0.31
19 1 0.02
20 1 0.02
21 27 0.64
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (21 bp):
GAGTGGTACATCCACAATGAT
Found at i:26394775 original size:39 final size:39
Alignment explanation
Indices: 26394716--26394808 Score: 168
Period size: 39 Copynumber: 2.4 Consensus size: 39
26394706 TTTTATTACT
* *
26394716 AGTGTTTTATCCACAACGAGTGGTACATCCACAATGATG
1 AGTGGTTTATCCACAACGAGTGGTACATACACAATGATG
26394755 AGTGGTTTATCCACAACGAGTGGTACATACACAATGATG
1 AGTGGTTTATCCACAACGAGTGGTACATACACAATGATG
26394794 AGTGGTTTATCCACA
1 AGTGGTTTATCCACA
26394809 GCGTGGTGTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (39 bp):
AGTGGTTTATCCACAACGAGTGGTACATACACAATGATG
Found at i:26408833 original size:3 final size:3
Alignment explanation
Indices: 26408816--26408869 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
26408806 CTTGGCAATT
* *
26408816 TTA TTA TTTA GTTA TTA TTA TTA TTA TTG TTA TTA TTA TCA TTA TTA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26408863 TTA TTA T
1 TTA TTA T
26408870 CTACTTATCT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:26410363 original size:17 final size:18
Alignment explanation
Indices: 26410341--26410381 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26410331 TTTTGGAATT
*
26410341 ATATTTTTAA-CTTTATA
1 ATATTTTTAATCTTTAAA
*
26410358 ATATTTTTAATTTTTAAA
1 ATATTTTTAATCTTTAAA
26410376 ATATTT
1 ATATTT
26410382 ATTGGATAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTTTTAATCTTTAAA
Found at i:26414735 original size:27 final size:27
Alignment explanation
Indices: 26414711--26414762 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
26414701 GTGCAGTATA
*
26414711 TGTGGCAAAGCCACCAGTAATAGTAAT
1 TGTGGCAAAGCCACCAGTAACAGTAAT
* *
26414738 TGTGGCAGAGCCACTAGTAACAGTA
1 TGTGGCAAAGCCACCAGTAACAGTA
26414763 CTTCCTCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (27 bp):
TGTGGCAAAGCCACCAGTAACAGTAAT
Found at i:26414964 original size:26 final size:26
Alignment explanation
Indices: 26414944--26415090 Score: 174
Period size: 26 Copynumber: 5.7 Consensus size: 26
26414934 GACCCTTCGG
*
26414944 GGGTATTTCGATAATTTACCCATCGA
1 GGGTATTTCGATAATTTACCCATCAA
* *
26414970 GGGTATTTCGGTAATTTACCTATCAA
1 GGGTATTTCGATAATTTACCCATCAA
*
26414996 GGGTATTTTGATAATTTACCCATCAA
1 GGGTATTTCGATAATTTACCCATCAA
*
26415022 GGGTATCTC-AGTAATTTACCCATC-A
1 GGGTATTTCGA-TAATTTACCCATCAA
* *
26415047 GGGATATTTCGATAATTTTCTCATCGAA
1 GGG-TATTTCGATAATTTACCCATC-AA
*
26415075 -GGTATTTCGGTAATTT
1 GGGTATTTCGATAATTT
26415091 TTATCCGTGT
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
25 5 0.05
26 95 0.91
27 3 0.03
28 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (26 bp):
GGGTATTTCGATAATTTACCCATCAA
Found at i:26415025 original size:52 final size:51
Alignment explanation
Indices: 26414944--26415090 Score: 197
Period size: 52 Copynumber: 2.8 Consensus size: 51
26414934 GACCCTTCGG
* *
26414944 GGGTATTTCGATAATTTACCCATCGAGGGTATTTCGGTAATTTACCTATCAA
1 GGGTATTTCGATAATTTACCCATCAAGGGTATTTCGGTAATTTACCCATC-A
* * *
26414996 GGGTATTTTGATAATTTACCCATCAAGGGTATCTCAGTAATTTACCCATCA
1 GGGTATTTCGATAATTTACCCATCAAGGGTATTTCGGTAATTTACCCATCA
* *
26415047 GGGATATTTCGATAATTTTCTCATCGAA-GGTATTTCGGTAATTT
1 GGG-TATTTCGATAATTTACCCATC-AAGGGTATTTCGGTAATTT
26415091 TTATCCGTGT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 77 0.93
53 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (51 bp):
GGGTATTTCGATAATTTACCCATCAAGGGTATTTCGGTAATTTACCCATCA
Found at i:26415915 original size:29 final size:29
Alignment explanation
Indices: 26415881--26415953 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 29
26415871 AAAAAGAGGA
26415881 ATTTTGACAGAAAAGAGAAAGAGGATTCG
1 ATTTTGACAGAAAAGAGAAAGAGGATTCG
*
26415910 GTTTTGAC--AAAAGAG--AGAGGATTCG
1 ATTTTGACAGAAAAGAGAAAGAGGATTCG
*
26415935 ATTTTGACAGAAGAGAGAA
1 ATTTTGACAGAAAAGAGAA
26415954 GGAGAGAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 17 0.46
27 13 0.35
29 7 0.19
ACGTcount: A:0.42, C:0.07, G:0.29, T:0.22
Consensus pattern (29 bp):
ATTTTGACAGAAAAGAGAAAGAGGATTCG
Found at i:26419653 original size:10 final size:10
Alignment explanation
Indices: 26419627--26419667 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
26419617 CTTAACTCCC
26419627 TTTTTTTAAA
1 TTTTTTTAAA
** *
26419637 TAATTTTAAT
1 TTTTTTTAAA
26419647 TTTTTTTAAA
1 TTTTTTTAAA
26419657 TTTTTTTAAA
1 TTTTTTTAAA
26419667 T
1 T
26419668 CGTAAAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:26420534 original size:7 final size:7
Alignment explanation
Indices: 26420522--26420547 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
26420512 TAGTCGATTG
26420522 GTATTTA
1 GTATTTA
26420529 GTATTTA
1 GTATTTA
26420536 GTATTTA
1 GTATTTA
26420543 GTATT
1 GTATT
26420548 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:26428418 original size:321 final size:322
Alignment explanation
Indices: 26427807--26428451 Score: 1148
Period size: 321 Copynumber: 2.0 Consensus size: 322
26427797 GAGCCCTGTT
*
26427807 TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATTAGGT
1 TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATCAGGT
*
26427872 GTTAGAAGGACAGTTGGATTCCAAAGGTTGATCCCCTAATCAATCTAATCCCAACTAATGCAAAC
66 GTTAGAAGGACAGTTGGATTCCAAAGGTTGATACCCTAATCAATCTAATCCCAACTAATGCAAAC
* * * *
26427937 ATTGCTACTAATTATTTTCTTAAGGAGATGGTTATAGAAGAAGATTTGTGGAATCTGGAACTCTT
131 ATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTCTT
* * *
26428002 TCAAGTTTGGTTGTCAGAAGAAATTATTGGACGTATTATTAGTATTCCACCTCCACAACCCTTGG
196 TCAAGTTTGATTGCCAGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCTTGG
* *
26428067 CAGGATTTGACAAGATTGCCTGGGTTGGTACTTCTTCAGGTTATTTTTCTGTTAAGAGTGTC
261 CAGGATTTGACAAGATTGCCTGGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAAAGTGTC
* *
26428129 TAAGGTATGGCCTTTGCTTTGAGAAAAT-TTTTTTGGTCAATTGGAAATGGTAATAACATCAGGT
1 TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATCAGGT
26428193 GTTAGAAGGACAGTTGGATTCCAAAGGTTGATACCCTAATCAATCTAATCCCAACTAATGCAAAC
66 GTTAGAAGGACAGTTGGATTCCAAAGGTTGATACCCTAATCAATCTAATCCCAACTAATGCAAAC
26428258 ATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTCTT
131 ATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTCTT
*
26428323 TCAGGTTTGATTGCCAGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCTTGG
196 TCAAGTTTGATTGCCAGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCTTGG
*
26428388 CAGGATTTGACAAGATTGCTTGGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAAAGTGTC
261 CAGGATTTGACAAGATTGCCTGGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAAAGTGTC
26428450 TA
1 TA
26428452 TCGTATAGTT
Statistics
Matches: 308, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
321 282 0.92
322 26 0.08
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (322 bp):
TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATCAGGT
GTTAGAAGGACAGTTGGATTCCAAAGGTTGATACCCTAATCAATCTAATCCCAACTAATGCAAAC
ATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTCTT
TCAAGTTTGATTGCCAGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCTTGG
CAGGATTTGACAAGATTGCCTGGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAAAGTGTC
Found at i:26429693 original size:6 final size:6
Alignment explanation
Indices: 26429684--26429714 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
26429674 ATAATAATAA
26429684 TATATT TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT TATATT T
26429715 GATGAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:26429950 original size:11 final size:12
Alignment explanation
Indices: 26429934--26429963 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
26429924 AAGAAATAAA
26429934 TATATTTAT-TT
1 TATATTTATATT
26429945 TATATTTATATT
1 TATATTTATATT
26429957 TATATTT
1 TATATTT
26429964 GATGAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TATATTTATATT
Found at i:26429954 original size:6 final size:6
Alignment explanation
Indices: 26429934--26429963 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
26429924 AAGAAATAAA
26429934 TATATT TAT-TT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT TATATT T
26429964 GATGAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TATATT
Found at i:26430132 original size:249 final size:250
Alignment explanation
Indices: 26429682--26430181 Score: 993
Period size: 249 Copynumber: 2.0 Consensus size: 250
26429672 AAATAATAAT
26429682 AATATATTTATATTTATATTTATATTTATATTTGATGAAATATAAATGTAAATTATAAGGTGCAG
1 AATATATTTATATTTATATTTATATTTATATTTGATGAAATATAAATGTAAATTATAAGGTGCAG
26429747 TAGGTTAAAAATATAATAATCATATTTATTTTTGTTGATGGTAAAAATTAATAAAGGGTGTAAGA
66 TAGGTTAAAAATATAATAATCATATTTATTTTTGTTGATGGTAAAAATTAATAAAGGGTGTAAGA
26429812 TAGTAAGAGAGATGACGGTTTATCCTGTGTGAGGTAGGCAGCTATCATTCCATGATTGTGAGAAT
131 TAGTAAGAGAGATGACGGTTTATCCTGTGTGAGGTAGGCAGCTATCATTCCATGATTGTGAGAAT
26429877 GATGGCAAGATTAATTGAAGATGGAGAGGAGTAATGTTTGGAGAGTCAAGAAATA
196 GATGGCAAGATTAATTGAAGATGGAGAGGAGTAATGTTTGGAGAGTCAAGAAATA
26429932 AATATATTTAT-TTTATATTTATATTTATATTTGATGAAATATAAATGTAAATTATAAGGTGCAG
1 AATATATTTATATTTATATTTATATTTATATTTGATGAAATATAAATGTAAATTATAAGGTGCAG
26429996 TAGGTTAAAAATATAATAATCATATTTATTTTTGTTGATGGTAAAAATTAATAAAGGGTGTAAGA
66 TAGGTTAAAAATATAATAATCATATTTATTTTTGTTGATGGTAAAAATTAATAAAGGGTGTAAGA
26430061 TAGTAAGAGAGATGACGGTTTATCCTGTGTGAGGTAGGCAGCTATCATTCCATGATTGTGAGAAT
131 TAGTAAGAGAGATGACGGTTTATCCTGTGTGAGGTAGGCAGCTATCATTCCATGATTGTGAGAAT
26430126 GATGGCAAGATTAATTGAAGATGGAGAGGAGTAATGTTTGGAGAGTCAAGAAATA
196 GATGGCAAGATTAATTGAAGATGGAGAGGAGTAATGTTTGGAGAGTCAAGAAATA
26430181 A
1 A
26430182 TTTCTATCTT
Statistics
Matches: 250, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
249 239 0.96
250 11 0.04
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (250 bp):
AATATATTTATATTTATATTTATATTTATATTTGATGAAATATAAATGTAAATTATAAGGTGCAG
TAGGTTAAAAATATAATAATCATATTTATTTTTGTTGATGGTAAAAATTAATAAAGGGTGTAAGA
TAGTAAGAGAGATGACGGTTTATCCTGTGTGAGGTAGGCAGCTATCATTCCATGATTGTGAGAAT
GATGGCAAGATTAATTGAAGATGGAGAGGAGTAATGTTTGGAGAGTCAAGAAATA
Found at i:26438498 original size:13 final size:13
Alignment explanation
Indices: 26438480--26438505 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26438470 AAAAATAAAA
26438480 CAAAAAGTTGTAG
1 CAAAAAGTTGTAG
26438493 CAAAAAGTTGTAG
1 CAAAAAGTTGTAG
26438506 AATAACTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
CAAAAAGTTGTAG
Found at i:26439770 original size:17 final size:16
Alignment explanation
Indices: 26439748--26439782 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
26439738 TTTCAACCAG
26439748 TATAATAATAAATAATA
1 TATAATAATAAAT-ATA
*
26439765 TATAATAATTAATATA
1 TATAATAATAAATATA
26439781 TA
1 TA
26439783 ACTATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAATAATAAATATA
Found at i:26439789 original size:14 final size:14
Alignment explanation
Indices: 26439752--26439795 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
26439742 AACCAGTATA
*
26439752 ATAATAAATAATAT
1 ATAATAATTAATAT
26439766 ATAATAATTAATAT
1 ATAATAATTAATAT
26439780 ATAACT-ATTAATAT
1 ATAA-TAATTAATAT
26439794 AT
1 AT
26439796 TATAGATTNN
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATTAATAT
Found at i:26440373 original size:23 final size:26
Alignment explanation
Indices: 26440347--26440399 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 26
26440337 TTATTTTGAG
26440347 TTTGGGTAATAA-TGAGTATA-T-TA
1 TTTGGGTAATAACTGAGTATAGTATA
* *
26440370 TTTGGGTTATAACTTAGTATAGTATA
1 TTTGGGTAATAACTGAGTATAGTATA
26440396 TTTG
1 TTTG
26440400 AGTTTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 7 0.28
25 1 0.04
26 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (26 bp):
TTTGGGTAATAACTGAGTATAGTATA
Found at i:26440891 original size:14 final size:15
Alignment explanation
Indices: 26440864--26440893 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
26440854 GAGCCCGCTC
26440864 TAGTTTTAAAATATA
1 TAGTTTTAAAATATA
26440879 TAGTTTT-AAATATA
1 TAGTTTTAAAATATA
26440893 T
1 T
26440894 GAACAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TAGTTTTAAAATATA
Found at i:26442637 original size:248 final size:249
Alignment explanation
Indices: 26442356--26442853 Score: 989
Period size: 248 Copynumber: 2.0 Consensus size: 249
26442346 TTAAATATAA
26442356 AATATTTATTTTTATATCAAAAAAATTAAAATTAGTTATATAGTAAATAAAAATAAAATTCGGTT
1 AATATTTATTTTTATATCAAAAAAATTAAAATTAGTTATATAGTAAATAAAAATAAAATTCGGTT
26442421 TGATTTTGGGTAACTGCGATTTTTTAACTTGCATTCCTAAACCGTTAAAATATCTCGATTCGGGT
66 TGATTTTGGGTAACTGCGATTTTTTAACTTGCATTCCTAAACCGTTAAAATATCTCGATTCGGGT
26442486 CAATTTTTTTGCTCACCCTATTTGAGAAGCCATTTCAAGAAAGGAAATGTTTATTTTATTTGTAG
131 CAATTTTTTTGCTCACCCTATTTGAGAAGCCATTTCAAGAAAGGAAATGTTTATTTTATTTGTAG
26442551 AAGTATAAAATTTAAAACCCTGTTTCAAGATTTTTTTTAGGCAAGGAAGTGATG
196 AAGTATAAAATTTAAAACCCTGTTTCAAGATTTTTTTTAGGCAAGGAAGTGATG
26442605 AATATTTA-TTTTATATCAAAAAAATTAAAATTAGTTATATAGTAAATAAAAATAAAATTCGGTT
1 AATATTTATTTTTATATCAAAAAAATTAAAATTAGTTATATAGTAAATAAAAATAAAATTCGGTT
26442669 TGATTTTGGGTAACTGCGATTTTTTAACTTGCATTCCTAAACCGTTAAAATATCTCGATTCGGGT
66 TGATTTTGGGTAACTGCGATTTTTTAACTTGCATTCCTAAACCGTTAAAATATCTCGATTCGGGT
26442734 CAATTTTTTTGCTCACCCTATTTGAGAAGCCATTTCAAGAAAGGAAATGTTTATTTTATTTGTAG
131 CAATTTTTTTGCTCACCCTATTTGAGAAGCCATTTCAAGAAAGGAAATGTTTATTTTATTTGTAG
26442799 AAGTATAAAATTTAAAACCCTGTTTCAAGATTTTTTTTAGGCAAGGAAGTGATG
196 AAGTATAAAATTTAAAACCCTGTTTCAAGATTTTTTTTAGGCAAGGAAGTGATG
26442853 A
1 A
26442854 GAAAGAGAAG
Statistics
Matches: 249, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
248 241 0.97
249 8 0.03
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (249 bp):
AATATTTATTTTTATATCAAAAAAATTAAAATTAGTTATATAGTAAATAAAAATAAAATTCGGTT
TGATTTTGGGTAACTGCGATTTTTTAACTTGCATTCCTAAACCGTTAAAATATCTCGATTCGGGT
CAATTTTTTTGCTCACCCTATTTGAGAAGCCATTTCAAGAAAGGAAATGTTTATTTTATTTGTAG
AAGTATAAAATTTAAAACCCTGTTTCAAGATTTTTTTTAGGCAAGGAAGTGATG
Found at i:26451493 original size:9 final size:9
Alignment explanation
Indices: 26451479--26451508 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
26451469 ACGACATGAG
26451479 AAATAAAAA
1 AAATAAAAA
26451488 AAATAAAAA
1 AAATAAAAA
*
26451497 AAAGAAAAA
1 AAATAAAAA
26451506 AAA
1 AAA
26451509 AAACACCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (9 bp):
AAATAAAAA
Found at i:26452679 original size:15 final size:15
Alignment explanation
Indices: 26452651--26452689 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
26452641 TATGACTCAA
26452651 ATAAT-TTA-TAATT
1 ATAATATTATTAATT
26452664 ATAATATTATTAATT
1 ATAATATTATTAATT
26452679 ATAATATTATT
1 ATAATATTATT
26452690 TAGTCACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.21
14 3 0.12
15 16 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATAATATTATTAATT
Found at i:26454850 original size:3 final size:3
Alignment explanation
Indices: 26454842--26454885 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
26454832 GACCATGATC
26454842 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26454886 ATGTAGCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26459127 original size:26 final size:26
Alignment explanation
Indices: 26459042--26459127 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
26459032 TGTATCATTA
*
26459042 TATTAAATTATTTAAATATTTCATGTATT
1 TATTAAATTATTTAAATA-TT-ATTTA-T
* * *
26459071 ATATTAAAATATTTAAA-AATACCATTA-
1 -TATTAAATTATTTAAATATTA--TTTAT
26459098 TATTAAATTATTTAAATATTATTTAT
1 TATTAAATTATTTAAATATTATTTAT
26459124 TATT
1 TATT
26459128 TTACTTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
25 3 0.07
26 19 0.42
27 4 0.09
28 1 0.02
29 3 0.07
30 15 0.33
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (26 bp):
TATTAAATTATTTAAATATTATTTAT
Found at i:26465292 original size:22 final size:21
Alignment explanation
Indices: 26465257--26465314 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
26465247 AAAGGGTACC
* * *
26465257 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCCAAGAT
26465278 TACAAAATCATATCTTCCAAGAT
1 TAC-AAATCATATC-TCCAAGAT
* *
26465301 TGCATATCATATCT
1 TACAAATCATATCT
26465315 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:26465845 original size:88 final size:88
Alignment explanation
Indices: 26465691--26466317 Score: 679
Period size: 88 Copynumber: 7.1 Consensus size: 88
26465681 TGATCTGCTA
* * * * ** * * *
26465691 CAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTACTTCACTGTCGGTGCAGGAAGGCAATATCT
1 CAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTCAGTACAGGAAGGCAAGATCT
* *
26465756 GCTATTTTTAACCTGCTCCGCTG
66 GCTATCTTTAACCTGCTCCACTG
*
26465779 CAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGTTTCACTGTCAGTACAGGAAGGCAAGATCT
1 CAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTCAGTACAGGAAGGCAAGATCT
* *
26465844 GCTATTTTTAACCTGCTCCGCTG
66 GCTATCTTTAACCTGCTCCACTG
* * * * ** * * *
26465867 CAACCCAGAGTGGCAAGGCTACTGTCTTCGATCTGCTTT-ACTGTTGGTGCAAGAAGGAAAGATC
1 CAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTG-TTTCACTGTCAGTACAGGAAGGCAAGATC
* *
26465931 TGCTATTTTTAACCTGCTCCGCTG
65 TGCTATCTTTAACCTGCTCCACTG
*
26465955 CAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGTTTCACTGTCAGTACAGGAAGGCAAGATCT
1 CAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTCAGTACAGGAAGGCAAGATCT
*
26466020 ACTATCTTTAACCTGCTCCACTG
66 GCTATCTTTAACCTGCTCCACTG
* * *
26466043 CCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTTAGTACAGGAAGGCAAGATCT
1 CAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTCAGTACAGGAAGGCAAGATCT
* *
26466108 GCTATCTTCAACCTGCTCCACTA
66 GCTATCTTTAACCTGCTCCACTG
* * * * * *
26466131 CGACCCAGGGAGGCAAGGCT-GTTATCTTCGATCTGCTTCACTGTCGGTACAAGAAGGCAAGATC
1 CAACCCAGGGAGGCAAGGCTAG-TGTCTTCAATCTGTTTCACTGTCAGTACAGGAAGGCAAGATC
* *
26466195 TGCTATCTTCAACCTGCTCCACTA
65 TGCTATCTTTAACCTGCTCCACTG
* ** * * ** ** * *
26466219 CAACCGAGGG-GATAAAGCTTGTGTCTTTGATCTACTTCGCTGTTGATGT--AGGAAGGCAAGAT
1 CAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTG-TCA-GTACAGGAAGGCAAGAT
* * * *
26466281 CTGCTATCTTCAACCTACTCCAGTA
64 CTGCTATCTTTAACCTGCTCCACTG
*
26466306 CAACCGAGGGAG
1 CAACCCAGGGAG
26466318 ATAAGATCTG
Statistics
Matches: 470, Mismatches: 62, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
87 72 0.15
88 393 0.84
89 5 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
CAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTGTTTCACTGTCAGTACAGGAAGGCAAGATCT
GCTATCTTTAACCTGCTCCACTG
Found at i:26466057 original size:44 final size:43
Alignment explanation
Indices: 26465925--26466217 Score: 135
Period size: 45 Copynumber: 6.7 Consensus size: 43
26465915 GCAAGAAGGA
* * * * *
26465925 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGC
1 AAGATCTACTATCTTCAACCTGCTCCACTGCCA-CCAGGGAGGC
* * * * * * * *
26465969 AAGA-CTAGTGTCTTCAATCTGTTTCACTGTCAGTACAGGAAGGC
1 AAGATCTACTATCTTCAACCTGCTCCACTGCCA--CCAGGGAGGC
*
26466013 AAGATCTACTATCTTTAACCTGCTCCACTGCCACCGAGGGAGGC
1 AAGATCTACTATCTTCAACCTGCTCCACTGCCACC-AGGGAGGC
* * * * * * ** * *
26466057 AAG-GCTAGTGTCTTCAATCTGTTTCACTGTTAGTACAGGAAGGC
1 AAGATCTACTATCTTCAACCTGCTCCACTGCCA--CCAGGGAGGC
* * *
26466101 AAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGC
1 AAGATCTACTATCTTCAACCTGCTCCACTGCCA-CCAGGGAGGC
* ** * * * * * *
26466145 AAG-GCTGTTATCTTCGATCTGCTTCACTGTCGGTA-CAAGAAGGC
1 AAGATCTACTATCTTCAACCTGCTCCACTG-C--CACCAGGGAGGC
*
26466189 AAGATCTGCTATCTTCAACCTGCTCCACT
1 AAGATCTACTATCTTCAACCTGCTCCACT
26466218 ACAACCGAGG
Statistics
Matches: 178, Mismatches: 61, Indels: 19
0.69 0.24 0.07
Matches are distributed among these distances:
43 58 0.33
44 58 0.33
45 61 0.34
46 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (43 bp):
AAGATCTACTATCTTCAACCTGCTCCACTGCCACCAGGGAGGC
Found at i:26466166 original size:264 final size:264
Alignment explanation
Indices: 26465688--26466317 Score: 764
Period size: 264 Copynumber: 2.4 Consensus size: 264
26465678 GCTTGATCTG
* * * * * * * *
26465688 CTACAACTCAGGGAGGCAAGGCTGGTGTTTTCGATCTACTTCACTGTCGGTGCAGGAAGGCAATA
1 CTACAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTACTTCACTGTCAGTACAGGAAGGCAAGA
* * *
26465753 TCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGTTTC
66 TCTACTATCTTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGTTTC
* * * * *
26465818 ACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGAGTGGCAA
131 ACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGAGAGGCAA
* * * * * *
26465883 GGCTACTGTCTTCGATCTGCTTTACTGTTGGTGCAAGAAGGAAAGATCTGCTATTTTTAACCTGC
196 GGCTACTATCTTCGATCTGCTTCACTGTCGGTACAAGAAGGAAAGATCTGCTATCTTCAACCTGC
*
26465948 TCCG
261 TCCA
* **
26465952 CTGCAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGTTTCACTGTCAGTACAGGAAGGCAAGA
1 CTACAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTACTTCACTGTCAGTACAGGAAGGCAAGA
* * *
26466017 TCTACTATCTTTAACCTGCTCCACTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTGTTTC
66 TCTACTATCTTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGTTTC
* * *
26466082 ACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAA
131 ACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGAGAGGCAA
** *
26466147 GGCTGTTATCTTCGATCTGCTTCACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAACCTGC
196 GGCTACTATCTTCGATCTGCTTCACTGTCGGTACAAGAAGGAAAGATCTGCTATCTTCAACCTGC
26466212 TCCA
261 TCCA
* ** * ** * *
26466216 CTACAACCGAGGG-GATAA-AGCTTGTGTCTTTGATCTACTTCGCTGTTGATGT--AGGAAGGCA
1 CTACAACCCAGGGAGGCAAGA-CTAGTGTCTTCAATCTACTTCACTG-TCA-GTACAGGAAGGCA
* * * * * *
26466277 AGATCTGCTATCTTCAACCTACTCCAGTACAACCGAGGGAG
63 AGATCTACTATCTTTAACCTGCTCCACTGCAACCCAGGGAG
26466318 ATAAGATCTG
Statistics
Matches: 311, Mismatches: 52, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
262 1 0.00
263 66 0.21
264 242 0.78
265 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (264 bp):
CTACAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTACTTCACTGTCAGTACAGGAAGGCAAGA
TCTACTATCTTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGTTTC
ACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGAGAGGCAA
GGCTACTATCTTCGATCTGCTTCACTGTCGGTACAAGAAGGAAAGATCTGCTATCTTCAACCTGC
TCCA
Found at i:26466212 original size:45 final size:45
Alignment explanation
Indices: 26465729--26466217 Score: 220
Period size: 44 Copynumber: 11.1 Consensus size: 45
26465719 CGATCTACTT
* * * * *
26465729 CACTGTCGGTGCAGGAAGGCAATATCTGCTATTTTTAACCTGCTC
1 CACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *** * * * * *
26465774 CGCTG-CAACCCAGGGAGGCAAGA-CTAG-TGTCTTCAATCTGTTT
1 CACTGTCAGTACAGGAAGGCAAGATCT-GCTATCTTCAACCTGCTC
* *
26465817 CACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTC
1 CACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *** * * * * * * *
26465862 CGCTG-CAACCCA-GAGTGGCAAG-GCTACTGTCTTCGATCTGCTT
1 CACTGTCAGTACAGGA-AGGCAAGATCTGCTATCTTCAACCTGCTC
* ** * * * * *
26465905 TACTGTTGGTGCAAGAAGGAAAGATCTGCTATTTTTAACCTGCTC
1 CACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *** * * * * *
26465950 CGCTG-CAACCCAGGGAGGCAAGA-CTAG-TGTCTTCAATCTGTTT
1 CACTGTCAGTACAGGAAGGCAAGATCT-GCTATCTTCAACCTGCTC
* *
26465993 CACTGTCAGTACAGGAAGGCAAGATCTACTATCTTTAACCTGCTC
1 CACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* * * * * * * *
26466038 CACTGCCA--CCGAGGGAGGCAAG-GCTAG-TGTCTTCAATCTGTTT
1 CACTGTCAGTAC-AGGAAGGCAAGATCT-GCTATCTTCAACCTGCTC
*
26466081 CACTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
1 CACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* * * * * * *
26466126 CACT-AC-G-ACCCAGGGAGGCAAG-GCTGTTATCTTCGATCTGCTT
1 CACTGTCAGTA--CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *
26466169 CACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTC
1 CACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
26466214 CACT
1 CACT
26466218 ACAACCGAGG
Statistics
Matches: 304, Mismatches: 116, Indels: 48
0.65 0.25 0.10
Matches are distributed among these distances:
42 1 0.00
43 91 0.30
44 113 0.37
45 98 0.32
46 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (45 bp):
CACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
Found at i:26466362 original size:219 final size:219
Alignment explanation
Indices: 26466101--26466521 Score: 580
Period size: 219 Copynumber: 1.9 Consensus size: 219
26466091 ACAGGAAGGC
* * *
26466101 AAGATCTGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGTTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTACTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTA
* *
26466166 CTTCACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGG-G
66 CTTCACTGTCGATACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAG
* * * *
26466230 ATAAAGCTT-GTGTCTTTGATCTACTTCGCTGTTGATGT-AGGAAGGCAAGATCTGCTATCTTCA
131 -GAAAGCTTGGTATCTTCGATCTACTTCGCCGTT-A-GTAAGGAAGGCAAGATCTGCTATCTTCA
26466293 ACCTACTCCAGTACAACCGAGGGAGAT
193 ACCTACTCCAGTACAACCGAGGGAGAT
* *
26466320 AAGATCTG-TAATTTTCAACCTACTCCACTACGGCCCAGGGAGGCAAGGCTGGTATCTTCGATCT
1 AAGATCTGCT-ATCTTCAACCTACTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* * * *
26466384 ACTTCGCTGTTGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGA
65 ACTTCACTGTCGATACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGA
* * * * *
26466449 GGCAAGGTTGGTATCTTCGATCTGCTTCGCCGTTAGTACAGGAAGGCAAGATCTGTTATTTTCAA
130 GGAAAGCTTGGTATCTTCGATCTACTTCGCCGTTAGTA-AGGAAGGCAAGATCTGCTATCTTCAA
*
26466514 CCTGCTCC
194 CCTACTCC
26466522 GCTGCAAACC
Statistics
Matches: 176, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
218 3 0.02
219 121 0.69
220 52 0.30
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (219 bp):
AAGATCTGCTATCTTCAACCTACTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTA
CTTCACTGTCGATACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAG
GAAAGCTTGGTATCTTCGATCTACTTCGCCGTTAGTAAGGAAGGCAAGATCTGCTATCTTCAACC
TACTCCAGTACAACCGAGGGAGAT
Found at i:26466412 original size:88 final size:87
Alignment explanation
Indices: 26466320--26466545 Score: 301
Period size: 88 Copynumber: 2.6 Consensus size: 87
26466310 CGAGGGAGAT
* **
26466320 AAGATCTGTAATTTTCAACCTACTCCACTACGGCCCAGGGAGGCAAGGCTGGTATCTTCGATCTA
1 AAGATCTGT-ATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTA
* *
26466385 CTTCGCTGTT-GATGCAGGAAGGC
65 CTTCGCCGTTAG-TACAGGAAGGC
* * *
26466408 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGTTGGTATCTTCGATCTG
1 AAGATCTG-TATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTA
26466473 CTTCGCCGTTAGTACAGGAAGGC
65 CTTCGCCGTTAGTACAGGAAGGC
* * * *
26466496 AAGATCTGTTATTTTCAACCTGCTCCGCTGCAAACCAGGAAGGCAAGGCT
1 AAGATCTG-TATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCT
26466546 TTGCGATTTC
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
88 119 0.98
89 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (87 bp):
AAGATCTGTATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTAC
TTCGCCGTTAGTACAGGAAGGC
Found at i:26466535 original size:44 final size:44
Alignment explanation
Indices: 26465740--26466542 Score: 144
Period size: 44 Copynumber: 18.3 Consensus size: 44
26465730 ACTGTCGGTG
* * * *
26465740 CAGGAAGGCAATATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAAC
* * * * * * *
26465784 CAGGGAGGCAAGA-CTAG-TGTCTTCAATCTGTTTCACTGTCAGTA-
1 CAGGAAGGCAAGATCT-GCTATCTTCAACCTGCTCCGCTG-CA-AAC
* * *
26465828 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAAC
* * * * * * *** *****
26465872 CA-GAGTGGCAAG-GCTACTGTCTTCGATCTGCTTTACTGTTGGTG
1 CAGGA-AGGCAAGATCTGCTATCTTCAACCTGCTCCGCTG-CAAAC
* * * * *
26465916 CAAGAAGGAAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAAC
* * * * * * *
26465960 CAGGGAGGCAAGA-CTAG-TGTCTTCAATCTGTTTCACTGTCAGTA-
1 CAGGAAGGCAAGATCT-GCTATCTTCAACCTGCTCCGCTG-CA-AAC
* * * *
26466004 CAGGAAGGCAAGATCTACTATCTTTAACCTGCTCCACTGC-CAC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAAC
* * * * * * * * *
26466047 CGAGGGAGGCAAG-GCTAG-TGTCTTCAATCTGTTTCACTGTTAGTA-
1 C-AGGAAGGCAAGATCT-GCTATCTTCAACCTGCTCCGCTG-CA-AAC
* * * *
26466092 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAAC
* * * * * * * **
26466136 CAGGGAGGCAAG-GCTGTTATCTTCGATCTGCTTCACTGTCGGTA-
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTG-C-AAAC
* * *
26466180 CAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC-AAC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAAC
* * * ** * * * ** **
26466223 CGAGG--GG-ATAAAGCTTG-TGTCTTTGATCTACTTCGCTGTTGATG
1 C-AGGAAGGCA-AGATC-TGCTATCTTCAACCTGCTCCGCTG-CAAAC
* * *
26466267 TAGGAAGGCAAGATCTGCTATCTTCAACCTACTCCAG-TAC-AAC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCC-GCTGCAAAC
* ** * * * * ***
26466310 CGAGGGAGATAAGATCTG-TAATTTTCAACCTACTCCACTACGGCC
1 C-AGGAAGGCAAGATCTGCT-ATCTTCAACCTGCTCCGCTGCAAAC
* * * * * * * ** **
26466355 CAGGGAGGCAAG-GCTGGTATCTTCGATCTACTTCGCTGTTGATG
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTG-CAAAC
* * *
26466399 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAAC
* * * * * * * * *
26466443 CAGGGAGGCAAGGT-TGGTATCTTCGATCTGCTTCGCCGTTAGTA-
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTG-CA-AAC
* *
26466487 CAGGAAGGCAAGATCTGTTATTTTCAACCTGCTCCGCTGCAAAC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAAC
26466531 CAGGAAGGCAAG
1 CAGGAAGGCAAG
26466543 GCTTTGCGAT
Statistics
Matches: 515, Mismatches: 195, Indels: 98
0.64 0.24 0.12
Matches are distributed among these distances:
41 1 0.00
42 20 0.04
43 132 0.26
44 211 0.41
45 148 0.29
46 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAAAC
Found at i:26475102 original size:17 final size:17
Alignment explanation
Indices: 26475074--26475117 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
26475064 CCAATTTTTG
*
26475074 GGCCCACACGCCTGTAT
1 GGCCCACACGCCCGTAT
* *
26475091 GTCCCACGCGCCCGTAT
1 GGCCCACACGCCCGTAT
26475108 GGCCCACACG
1 GGCCCACACG
26475118 GCCCAATTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.16, C:0.45, G:0.25, T:0.14
Consensus pattern (17 bp):
GGCCCACACGCCCGTAT
Found at i:26478357 original size:6 final size:6
Alignment explanation
Indices: 26478324--26478351 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
26478314 TGTTGATGGA
26478324 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
26478352 TGTTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:26478634 original size:69 final size:72
Alignment explanation
Indices: 26478560--26478693 Score: 193
Period size: 73 Copynumber: 1.9 Consensus size: 72
26478550 AATTCTGTTA
* * *
26478560 TCTTTGTTTAGTTTA-TT-TTT-TTATTTGTTTAATCATTATCTTTCCTCTGTTTTGCCATCAAT
1 TCTTTGTTTAGTTTATTTGTTTATTATTTGTTTAATCATCATCCTGCCTCTGTTTTGCCATCAAT
26478622 TCCCTTG
66 TCCCTTG
* *
26478629 TCTTTGTTTTGTTTATTTTGTTTATTATTTGTTTAATCGTCATCCTGCCTCTGTTTTGCCATCAA
1 TCTTTGTTTAGTTTA-TTTGTTTATTATTTGTTTAATCATCATCCTGCCTCTGTTTTGCCATCAA
26478694 CTCTGTGGTG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
69 14 0.25
71 2 0.04
72 3 0.05
73 37 0.66
ACGTcount: A:0.14, C:0.17, G:0.10, T:0.58
Consensus pattern (72 bp):
TCTTTGTTTAGTTTATTTGTTTATTATTTGTTTAATCATCATCCTGCCTCTGTTTTGCCATCAAT
TCCCTTG
Found at i:26479183 original size:29 final size:28
Alignment explanation
Indices: 26479139--26479195 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
26479129 GTGTGATTAT
* *
26479139 ATGGGCAATTCGGGTAGGTCATGTAGGGC
1 ATGGGCAAATCAGGTAGGTCATGT-GGGC
*
26479168 ATGGGCAAATCAGGTAGGTCGTGTGGGC
1 ATGGGCAAATCAGGTAGGTCATGTGGGC
26479196 TACATAGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.21, C:0.14, G:0.42, T:0.23
Consensus pattern (28 bp):
ATGGGCAAATCAGGTAGGTCATGTGGGC
Found at i:26482438 original size:20 final size:19
Alignment explanation
Indices: 26482413--26482531 Score: 65
Period size: 20 Copynumber: 6.4 Consensus size: 19
26482403 ATATATTTAG
26482413 AATTTTTTAGAATTTTTATA
1 AATTTTTT-GAATTTTTATA
* *
26482433 AATTTTAT-AA---ATATA
1 AATTTTTTGAATTTTTATA
*
26482448 AA-ATT-TGAAATTTTTATA
1 AATTTTTTGA-ATTTTTATA
* *
26482466 AATATTTTGAA-TTTTAAA
1 AATTTTTTGAATTTTTATA
**
26482484 AATTATTTTGAATTTTTGGA
1 AATT-TTTTGAATTTTTATA
26482504 AATTATTTTGAATTATTCTAT-
1 AATT-TTTTGAATT-TT-TATA
26482525 AATTTTT
1 AATTTTT
26482532 GTTGAGAGAG
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
13 1 0.01
14 3 0.04
15 7 0.09
18 17 0.22
19 11 0.14
20 32 0.41
21 6 0.08
22 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.55
Consensus pattern (19 bp):
AATTTTTTGAATTTTTATA
Found at i:26490066 original size:17 final size:17
Alignment explanation
Indices: 26490013--26490067 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
26490003 GCCTGAAGTT
*
26490013 AGAAGGAGAGAGGAAGAG
1 AGAA-GAGAGAGAAAGAG
26490031 -GAAG-GAG-GACAAGATG
1 AGAAGAGAGAGA-AAGA-G
26490047 AGAAGAGAGAGAAAGAG
1 AGAAGAGAGAGAAAGAG
26490064 AGAA
1 AGAA
26490068 AAGGGGAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
14 1 0.03
15 7 0.23
16 2 0.06
17 12 0.39
18 7 0.23
19 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.44, T:0.02
Consensus pattern (17 bp):
AGAAGAGAGAGAAAGAG
Found at i:26496354 original size:54 final size:54
Alignment explanation
Indices: 26496292--26496440 Score: 158
Period size: 54 Copynumber: 2.8 Consensus size: 54
26496282 TGTCACATAT
*
26496292 CCGTGTGACTCAAGTCAGAGAGTTACACGGTCAGACACACGGCCTCA-CACATGC
1 CCGTGTGACTCAAGTCAGAGAGTTACACGGTCAGACACACGGCCT-AGCACACGC
** * * * * *
26496346 CCGTGTGACTTTAGTTAGAGAGTTACACGCTCTGGCACACGGCCTAGCACACGT
1 CCGTGTGACTCAAGTCAGAGAGTTACACGGTCAGACACACGGCCTAGCACACGC
* * * *
26496400 CTGTGTGACTCAAGCCAAAGAGTTACATAGG-CAGACACACG
1 CCGTGTGACTCAAGTCAGAGAGTTACA-CGGTCAGACACACG
26496441 CCCATATGAT
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (54 bp):
CCGTGTGACTCAAGTCAGAGAGTTACACGGTCAGACACACGGCCTAGCACACGC
Found at i:26496632 original size:8 final size:8
Alignment explanation
Indices: 26496619--26496643 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26496609 TAAAAAAAAC
26496619 CAATTAAA
1 CAATTAAA
26496627 CAATTAAA
1 CAATTAAA
26496635 CAATTAAA
1 CAATTAAA
26496643 C
1 C
26496644 GAACCAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (8 bp):
CAATTAAA
Found at i:26510286 original size:20 final size:21
Alignment explanation
Indices: 26510261--26510300 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26510251 TTTTTTTTTA
*
26510261 ATTT-AATTAACTATCCAAAC
1 ATTTAAATTAACTAACCAAAC
*
26510281 ATTTAAATTACCTAACCAAA
1 ATTTAAATTAACTAACCAAA
26510301 TTTTTATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTTAAATTAACTAACCAAAC
Found at i:26523951 original size:31 final size:31
Alignment explanation
Indices: 26523916--26523999 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
26523906 GTATATGTTT
* * *
26523916 TATACATTGTCAAATTTTATTTTTATATAGA
1 TATACATTGCCAAATTTGATTTGTATATAGA
*
26523947 TATACATTGCCAAATTTGATTTGTATATGGA
1 TATACATTGCCAAATTTGATTTGTATATAGA
* *
26523978 TATATATTGCCGAA-TTGATTTG
1 TATACATTGCCAAATTTGATTTG
26524000 AGCATTGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 8 0.17
31 39 0.83
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.46
Consensus pattern (31 bp):
TATACATTGCCAAATTTGATTTGTATATAGA
Found at i:26527892 original size:45 final size:45
Alignment explanation
Indices: 26527821--26528043 Score: 302
Period size: 45 Copynumber: 5.0 Consensus size: 45
26527811 GCTATACACC
* *
26527821 TAAAAATGAGTAAGACTATAGCTGAAAGATGTTATGGCATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
* * *
26527866 TAAAAATAAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
* *
26527911 TAAAAGTGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
* *
26527956 TAAAAATGAGTAAGACCGTAGCTGAAAGATGATATGACATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
* * * * * **
26528001 TAGATATGAGTAAGACGATAGATAAAAGATGCCATGACATCAT
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCAT
26528044 ATGAAAGCGC
Statistics
Matches: 159, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 159 1.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (45 bp):
TAAAAATGAGTAAGACCATAGCTGAAAGATGTTATGACATCATGA
Found at i:26530528 original size:18 final size:18
Alignment explanation
Indices: 26530501--26530545 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
26530491 ATAATAATAA
*
26530501 TTAATAAAATATTATTAT
1 TTAATAAAATATTATTAC
*
26530519 TTATTAAAATATTATTAC
1 TTAATAAAATATTATTAC
26530537 TTAATAAAA
1 TTAATAAAA
26530546 AATCATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATAAAATATTATTAC
Found at i:26534725 original size:20 final size:20
Alignment explanation
Indices: 26534700--26534746 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
26534690 TGTGCCCTAG
26534700 CCGTGTGGAGGTCTACACGC
1 CCGTGTGGAGGTCTACACGC
* *
26534720 CCGTGTGGTGGTCTACATGC
1 CCGTGTGGAGGTCTACACGC
*
26534740 CTGTGTG
1 CCGTGTG
26534747 CAAGATGCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.26, G:0.36, T:0.28
Consensus pattern (20 bp):
CCGTGTGGAGGTCTACACGC
Found at i:26537903 original size:19 final size:20
Alignment explanation
Indices: 26537879--26537926 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
26537869 GTCACATTGC
26537879 AAATATAAATAAA-AATTAA
1 AAATATAAATAAATAATTAA
26537898 AAATAT--ATAAATTAATTAA
1 AAATATAAATAAA-TAATTAA
26537917 AAATATAAAT
1 AAATATAAAT
26537927 TTTCACATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.20
19 18 0.72
21 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATATAAATAAATAATTAA
Found at i:26537922 original size:17 final size:15
Alignment explanation
Indices: 26537885--26537927 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
26537875 TTGCAAATAT
*
26537885 AAATAAAAATTAAAA
1 AAATATAAATTAAAA
*
26537900 ATATATAAATTAATTAA
1 AAATATAAATTAA--AA
26537917 AAATATAAATT
1 AAATATAAATT
26537928 TTCACATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 11 0.48
17 12 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATAAATTAAAA
Found at i:26540456 original size:50 final size:51
Alignment explanation
Indices: 26540292--26540473 Score: 194
Period size: 51 Copynumber: 3.6 Consensus size: 51
26540282 TATAAACACA
* * * * * *
26540292 TGTGTAGTACTAAGTGCAGGCTACTACGT-GTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGGTA-CGGAAAGCT-TTGATCACG
* * *
26540343 TGTGTAGTACTATGTGCAAGCTACTATGT-GTACCGGAAGGCTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGGTA-CGGAAAGCTTTGATCACG
*
26540394 TGTGTAGTACTATGTGCAGGCTACCACGTGGTTA-GGAAAG-TTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGG-TACGGAAAGCTTTGATCACG
*
26540444 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGCAGGCTACTACGTG
26540474 TATCGAATGA
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 38 0.34
51 67 0.60
52 5 0.04
53 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGGTACGGAAAGCTTTGATCACG
Found at i:26541835 original size:20 final size:20
Alignment explanation
Indices: 26541812--26541867 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
26541802 AGTTAAATTC
26541812 AGCTCAATTTTAGCTCAATG
1 AGCTCAATTTTAGCTCAATG
*
26541832 AGCTC-GTTCTTAGCTCAATG
1 AGCTCAATT-TTAGCTCAATG
*
26541852 AGCTCATTTTTTAGCT
1 AGCTCA-ATTTTAGCT
26541868 TACTTAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 2 0.06
20 21 0.68
21 6 0.19
22 2 0.06
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (20 bp):
AGCTCAATTTTAGCTCAATG
Found at i:26543360 original size:12 final size:12
Alignment explanation
Indices: 26543343--26543369 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26543333 GTAAGTTTGT
26543343 AAAAAAATTCGA
1 AAAAAAATTCGA
26543355 AAAAAAATTCGA
1 AAAAAAATTCGA
26543367 AAA
1 AAA
26543370 TTCAAAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAAAAATTCGA
Found at i:26544538 original size:21 final size:21
Alignment explanation
Indices: 26544494--26544534 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26544484 AAAAGAACAT
**
26544494 TGAAAAAGAAATTGATAGAAA
1 TGAAAAAGAAAAAGATAGAAA
26544515 TGAAAAAGAAAAAGAT-GAAA
1 TGAAAAAGAAAAAGATAGAAA
26544535 ATGAGATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.15
Consensus pattern (21 bp):
TGAAAAAGAAAAAGATAGAAA
Found at i:26544570 original size:17 final size:18
Alignment explanation
Indices: 26544545--26544584 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
26544535 ATGAGATTTC
26544545 AAAAAC-AAAATAGAGTG
1 AAAAACAAAAATAGAGTG
* *
26544562 AAAAGCAAAAATAGATTG
1 AAAAACAAAAATAGAGTG
26544580 AAAAA
1 AAAAA
26544585 GAAATTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.68, C:0.05, G:0.15, T:0.12
Consensus pattern (18 bp):
AAAAACAAAAATAGAGTG
Found at i:26544609 original size:15 final size:15
Alignment explanation
Indices: 26544591--26544624 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
26544581 AAAAGAAATT
26544591 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
26544606 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
26544621 GAAA
1 GAAA
26544625 TTGAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:26546443 original size:20 final size:20
Alignment explanation
Indices: 26546420--26546474 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
26546410 AGTTCAATTC
26546420 AGCTCAATTTTAGCTCAATG
1 AGCTCAATTTTAGCTCAATG
*
26546440 AGCTC-GTTCTTAGCTCAATG
1 AGCTCAATT-TTAGCTCAATG
*
26546460 AGCTCATTTTTAGCT
1 AGCTCAATTTTAGCT
26546475 TACTTTAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTTAGCTCAATG
Found at i:26549196 original size:13 final size:13
Alignment explanation
Indices: 26549178--26549204 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26549168 GAAATACGAC
26549178 AACCAGATTAATT
1 AACCAGATTAATT
26549191 AACCAGATTAATT
1 AACCAGATTAATT
26549204 A
1 A
26549205 TGATATAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (13 bp):
AACCAGATTAATT
Found at i:26549746 original size:43 final size:43
Alignment explanation
Indices: 26549685--26549771 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
26549675 ACCTTTAAAC
* *
26549685 AATTATAGTCTTCTTGATGAGTCCCCAACCAAAACCATTATAG
1 AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACTATAG
26549728 AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACTATAG
1 AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACTATAG
26549771 A
1 A
26549772 CTTTACTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (43 bp):
AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACTATAG
Found at i:26551389 original size:15 final size:15
Alignment explanation
Indices: 26551371--26551404 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
26551361 ATAAATGTCG
26551371 CAATAACAAATACAA
1 CAATAACAAATACAA
*
26551386 CAATAATAAATACAA
1 CAATAACAAATACAA
26551401 CAAT
1 CAAT
26551405 GGCATAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:26553408 original size:45 final size:45
Alignment explanation
Indices: 26553340--26553667 Score: 156
Period size: 44 Copynumber: 7.6 Consensus size: 45
26553330 TTAGTTTGCC
* * *
26553340 CCACTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTACT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTGAGTCTACT
* * * *
26553385 CCATTGCAACTTCAGGGAGATAAGAC--CCGAT-GTGA-TCTACT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTGAGTCTACT
* ** * * * * * *
26553426 CTAAAGCAACTTTAGAGAGATAAGA-TTCGCCACCTTTAGTCTGC-
1 CCACTGCAACTTCAGGGAGATAAGACTT-GCTATCTTGAGTCTACT
* *
26553470 CTCACTGTAACTTCA-GGAGGATAAGACTTGCT-TACTT-AGTCTGCT
1 C-CACTGCAACTTCAGGGA-GATAAGACTTGCTAT-CTTGAGTCTACT
* *
26553515 CCACTGCAACTTCAGGGAGATAAGACTAG--ATGC--GA-TCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTAT-CTTGAGTCTACT
* * ** * * *
26553556 -CTCTGCAACTTCAGAGAGATAAGA-TCTGAGAT-TTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACT-TGCTATCTTGAGTCTACT
* * * *
26553599 CCACTGCAACTTCAGGGAGATAAGATTATTGGT-T-TT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGA--CTTGCTATCTTGAGTCTACT
*
26553643 CCACTGCAACTTCAGAGAGATAAGA
1 CCACTGCAACTTCAGGGAGATAAGA
26553668 TTCGTCATCT
Statistics
Matches: 222, Mismatches: 38, Indels: 47
0.72 0.12 0.15
Matches are distributed among these distances:
39 1 0.00
40 23 0.10
41 32 0.14
42 7 0.03
43 12 0.05
44 88 0.40
45 54 0.24
46 4 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTGAGTCTACT
Found at i:26553597 original size:84 final size:86
Alignment explanation
Indices: 26553509--26553668 Score: 234
Period size: 84 Copynumber: 1.9 Consensus size: 86
26553499 GCTTACTTAG
* *
26553509 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-GATGCGATCTGCT-CTCTGCAACTTCAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTATGATGCAATCTGCTCCACTGCAACTTCAGAG
26553572 AGATAAGATCTGAGATTTTAA
66 AGATAAGATCTGAGATTTTAA
* * **
26553593 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGTTTTAATCTGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-T-GATGCAATCTGCTCCACTGCAACTTCAG
26553658 AGAGATAAGAT
64 AGAGATAAGAT
26553669 TCGTCATCTT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
84 33 0.50
87 9 0.14
88 24 0.36
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (86 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTATGATGCAATCTGCTCCACTGCAACTTCAGAG
AGATAAGATCTGAGATTTTAA
Found at i:26553610 original size:44 final size:43
Alignment explanation
Indices: 26553509--26553668 Score: 202
Period size: 44 Copynumber: 3.7 Consensus size: 43
26553499 GCTTACTTAG
* ***
26553509 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTAGA-TGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAGATTTTAA
*
26553550 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGAGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-AGATTTTAA
* *
26553593 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTA--GATTTTAA
26553637 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT
26553669 TCGTCATCTT
Statistics
Matches: 104, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
40 22 0.21
41 8 0.08
42 4 0.04
43 9 0.09
44 61 0.59
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAGATTTTAA
Found at i:26553642 original size:128 final size:129
Alignment explanation
Indices: 26553336--26553667 Score: 334
Period size: 128 Copynumber: 2.6 Consensus size: 129
26553326 TTATTTAGTT
* * * * * * * *
26553336 TGCCCCACTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTACTCCATTGCAACTTCAGG
1 TGCCTCACTGCAACTTCAGGAGGATAAGAATTGC-TTATT-AATCTGCTCCACTGCAACTTCAGG
* * * * *
26553401 GAGATAAGACCCGATGTGATCTACTCTAAAGCAACTTTAGAGAGATAAGATTCGCCACCTTTAGT
64 GAGATAAGACCAGATGCGATCTACTCTAAAGCAACTTCAGAGAGATAAGATTCGACACCTTTAAT
26553466 C
129 C
* * *
26553467 TGCCTCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGG
1 TGCCTCACTGCAACTTCAGGAGGATAAGAATTGCTTA-TTAATCTGCTCCACTGCAACTTCAGGG
* * ** * *
26553532 AGATAAGACTAGATGCGATCTGCTCT-CTGCAACTTCAGAGAGATAAGA-TCTGAGA-TTTTAAT
65 AGATAAGACCAGATGCGATCTACTCTAAAGCAACTTCAGAGAGATAAGATTC-GACACCTTTAAT
26553594 C
129 C
*
26553595 TG-CTCCACTGCAACTTCAGG-GAGATAAGATTATTGGTT-TTAATCTGCTCCACTGCAACTTCA
1 TGCCT-CACTGCAACTTCAGGAG-GATAAGA--ATTGCTTATTAATCTGCTCCACTGCAACTTCA
*
26553657 GAGAGATAAGA
62 GGGAGATAAGA
26553668 TTCGTCATCT
Statistics
Matches: 172, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
127 3 0.02
128 64 0.37
129 21 0.12
130 52 0.30
131 32 0.19
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (129 bp):
TGCCTCACTGCAACTTCAGGAGGATAAGAATTGCTTATTAATCTGCTCCACTGCAACTTCAGGGA
GATAAGACCAGATGCGATCTACTCTAAAGCAACTTCAGAGAGATAAGATTCGACACCTTTAATC
Found at i:26554153 original size:260 final size:260
Alignment explanation
Indices: 26553691--26554212 Score: 830
Period size: 260 Copynumber: 2.0 Consensus size: 260
26553681 GTCTTTTTAA
* * * *
26553691 TTGCAATGTTGGGGAAACAAGATTCGCCGTCATAGCTTCAATTTGTTACACTACACGGCCAAGGA
1 TTGCAATGTTGAGGAAACAAGATTCGCCGTCATAGCTTCAATCTATTACACTACACCGCCAAGGA
* * *
26553756 AGTAAGATTCGCCGTTGTGGCTTCAATGTTTTTCACTGTAATGCCAAAGAGATAGGATTCACTGC
66 AGTAAGATTCGCCATTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCACTGC
*
26553821 CCACAGCTTCAATCTGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCT
131 CCACAGCTTCAATCTGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCC
* * *
26553886 GTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTTGCCGTTGCGGCTTCAATC
196 ATCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTGCGGCTTCAATC
* * *
26553951 TTGCAATGTTGAGGAAACAATATTCGCCGTCATAGCTTCAATCTATTCCACTACACCGCCAGGGA
1 TTGCAATGTTGAGGAAACAAGATTCGCCGTCATAGCTTCAATCTATTACACTACACCGCCAAGGA
* * * *
26554016 AGTAAGATTCGCTATTGCGGCTTTAATCTTTTTCACTTTAATGCCAAAGAGATAGGATTCGCTGC
66 AGTAAGATTCGCCATTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCACTGC
* *
26554081 TCACAGCTTCAAT-TCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCGC
131 CCACAGCTTCAATCT-GCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGC
* *
26554145 CATCGTGGCTTCAATCTGCTCCGCTATAACGCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAAT
195 CATCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTGCGGCTTCAAT
26554210 C
260 C
26554211 TT
1 TT
26554213 TTCCATTGCT
Statistics
Matches: 239, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
259 1 0.00
260 238 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (260 bp):
TTGCAATGTTGAGGAAACAAGATTCGCCGTCATAGCTTCAATCTATTACACTACACCGCCAAGGA
AGTAAGATTCGCCATTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCACTGC
CCACAGCTTCAATCTGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCC
ATCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTGCGGCTTCAATC
Found at i:26555671 original size:7 final size:6
Alignment explanation
Indices: 26555659--26555717 Score: 66
Period size: 6 Copynumber: 9.3 Consensus size: 6
26555649 CCTTTTCCTC
26555659 TTCTTCT TTCTTCT TTCTTCT TTCTTT TTCTTT TT-TCTT TTCTTT TTCTTT
1 TTCTT-T TTCTT-T TTCTT-T TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT
*
26555710 TCCTTT TT
1 TTCTTT TT
26555718 TCCATCATCA
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
5 1 0.02
6 27 0.56
7 20 0.42
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:26555679 original size:17 final size:17
Alignment explanation
Indices: 26555657--26555708 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
26555647 CTCCTTTTCC
26555657 TCTTCTTCTTTCTTCTT
1 TCTTCTTCTTTCTTCTT
26555674 TCTTCTTTCTTT-TTCTT
1 TCTTC-TTCTTTCTTCTT
*
26555691 TTTTC-T-TTTCTT-TT
1 TCTTCTTCTTTCTTCTT
26555705 TCTT
1 TCTT
26555709 TTCCTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
17 14 0.45
18 6 0.19
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTCTTCTTTCTTCTT
Found at i:26555689 original size:24 final size:24
Alignment explanation
Indices: 26555657--26555715 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
26555647 CTCCTTTTCC
*
26555657 TCTTCTTCTTTCTTC-TTTCTTCTT
1 TCTTTTTCTTTCTTCTTTTCTT-TT
*
26555681 TCTTTTTCTTTTTTCTTTTCTTTT
1 TCTTTTTCTTTCTTCTTTTCTTTT
*
26555705 TCTTTTCCTTT
1 TCTTTTTCTTT
26555716 TTTCCATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 25 0.81
25 6 0.19
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (24 bp):
TCTTTTTCTTTCTTCTTTTCTTTT
Found at i:26555716 original size:24 final size:24
Alignment explanation
Indices: 26555664--26555719 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
26555654 TCCTCTTCTT
* *
26555664 CTTTCTTCTTTCTTCTTTCTTTTT
1 CTTTTTTCTTTCTTCTTTCTTTTC
26555688 CTTTTTTCTTTTCTT-TTTCTTTTC
1 CTTTTTTC-TTTCTTCTTTCTTTTC
26555712 CTTTTTTC
1 CTTTTTTC
26555720 CATCATCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (24 bp):
CTTTTTTCTTTCTTCTTTCTTTTC
Found at i:26562051 original size:15 final size:15
Alignment explanation
Indices: 26562033--26562066 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
26562023 ATAAATGTCG
26562033 CAATAACAAATACAA
1 CAATAACAAATACAA
*
26562048 CAATAATAAATACAA
1 CAATAACAAATACAA
26562063 CAAT
1 CAAT
26562067 GGCATAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:26562232 original size:23 final size:21
Alignment explanation
Indices: 26562197--26562251 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
26562187 ACAAATTAAT
*
26562197 AAAAAAAT-GAAAGAAATAAACA
1 AAAAAAATATAAAGAAA-AAA-A
26562219 AAAAAAATATAAAGAAAAAAA
1 AAAAAAATATAAAGAAAAAAA
*
26562240 ATACAAAATATA
1 A-AAAAAATATA
26562252 TATATTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 2 0.07
22 20 0.69
23 7 0.24
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.13
Consensus pattern (21 bp):
AAAAAAATATAAAGAAAAAAA
Found at i:26562236 original size:15 final size:15
Alignment explanation
Indices: 26562212--26562242 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26562202 AATGAAAGAA
26562212 ATAAACAAAAAAAAT
1 ATAAACAAAAAAAAT
*
26562227 ATAAAGAAAAAAAAT
1 ATAAACAAAAAAAAT
26562242 A
1 A
26562243 CAAAATATAT
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:0.81, C:0.03, G:0.03, T:0.13
Consensus pattern (15 bp):
ATAAACAAAAAAAAT
Found at i:26562495 original size:27 final size:30
Alignment explanation
Indices: 26562464--26562520 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 30
26562454 ATATACATAT
26562464 ATATATACATATA-A-ATATAAA-AGAATA
1 ATATATACATATACATATATAAATAGAATA
**
26562491 ATATATATGTATACATATATAAATAGAATA
1 ATATATACATATACATATATAAATAGAATA
26562521 GAATATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
28 1 0.04
29 7 0.28
30 6 0.24
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (30 bp):
ATATATACATATACATATATAAATAGAATA
Found at i:26566017 original size:22 final size:22
Alignment explanation
Indices: 26565989--26566052 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
26565979 GATTTATCTG
26565989 CAATTTACTGGCAGCTTGTCTA
1 CAATTTACTGGCAGCTTGTCTA
* * *
26566011 CAATTTAATGGC-GCCTTATC-G
1 CAATTTACTGGCAG-CTTGTCTA
26566032 CAATTTACTGGCAGCTTGTCT
1 CAATTTACTGGCAGCTTGTCT
26566053 GCAACCCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (22 bp):
CAATTTACTGGCAGCTTGTCTA
Found at i:26574661 original size:53 final size:53
Alignment explanation
Indices: 26574581--26574782 Score: 341
Period size: 53 Copynumber: 3.8 Consensus size: 53
26574571 GTATTTTTCA
* * *
26574581 ATTTGTAAGACGCAATGTTATTGGTCTTGAACAAAATCGTTTAATTATGTTTT
1 ATTTGTAAGACACAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
*
26574634 ATTTGTAAGACAGAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
1 ATTTGTAAGACACAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
* *
26574687 ATTTCTAAGACACAATTTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
1 ATTTGTAAGACACAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
*
26574740 ATTTGTAAGACACAATTTTGTTGGTCTTGAACAAAATCGTTTA
1 ATTTGTAAGACACAATGTTGTTGGTCTTGAACAAAATCGTTTA
26574783 CTTTTTTTTA
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 141 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (53 bp):
ATTTGTAAGACACAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
Found at i:26601080 original size:27 final size:29
Alignment explanation
Indices: 26601042--26601096 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
26601032 GGTAGAAACC
*
26601042 ACCGTATAACATA-AATGCAA-AAAATCT
1 ACCGGATAACATATAATGCAATAAAATCT
26601069 ACCGGATAACATATAATGCAATAAAATC
1 ACCGGATAACATATAATGCAATAAAATC
26601097 ATCAATCTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.48
28 7 0.28
29 6 0.24
ACGTcount: A:0.51, C:0.18, G:0.09, T:0.22
Consensus pattern (29 bp):
ACCGGATAACATATAATGCAATAAAATCT
Found at i:26606620 original size:7 final size:7
Alignment explanation
Indices: 26606608--26606632 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
26606598 CTCTTTGCTT
26606608 CAAATTC
1 CAAATTC
26606615 CAAATTC
1 CAAATTC
26606622 CAAATTC
1 CAAATTC
26606629 CAAA
1 CAAA
26606633 CACACTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (7 bp):
CAAATTC
Found at i:26609638 original size:124 final size:125
Alignment explanation
Indices: 26609481--26609726 Score: 406
Period size: 124 Copynumber: 2.0 Consensus size: 125
26609471 AGTTTTTATA
* * *
26609481 AAAAACGCCGCAAAAAATTATTTTATTTGGAATAAAACGACACTGTTTTGCTATATAAAATGGTG
1 AAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACAGTTTTGCTATATAAAATGGCG
*
26609546 CTA-TTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAATGCCGCTATTGCG
66 CTATTTTTTTAAAGTAAAATTATTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTATTGCG
* * *
26609606 AAAAACGCCGC-AAAAATTATTTCATTTTGAATAAAATGACACAGTTTTGCTATATAAAATTGCG
1 AAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACAGTTTTGCTATATAAAATGGCG
26609670 CTATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATT
66 CTATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATT
26609727 ACTTACCTTT
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
124 72 0.64
125 41 0.36
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (125 bp):
AAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACAGTTTTGCTATATAAAATGGCG
CTATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCG
Found at i:26610518 original size:19 final size:19
Alignment explanation
Indices: 26610494--26610532 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
26610484 CTAATCTCCA
26610494 TTTTATTAAAGATATTTCT
1 TTTTATTAAAGATATTTCT
26610513 TTTTATTAAAGATATTTCT
1 TTTTATTAAAGATATTTCT
26610532 T
1 T
26610533 CCTAACTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTATTAAAGATATTTCT
Found at i:26610769 original size:29 final size:29
Alignment explanation
Indices: 26610732--26610790 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
26610722 ATTCAATTAA
*
26610732 AAATAAATTGAATTTTAATTAAAATAAAT
1 AAATAAATTGAATTTTAATTAAAACAAAT
26610761 AAATAAATTGAATTTTAATTAAAACAAAT
1 AAATAAATTGAATTTTAATTAAAACAAAT
26610790 A
1 A
26610791 TTCAATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (29 bp):
AAATAAATTGAATTTTAATTAAAACAAAT
Found at i:26615973 original size:51 final size:51
Alignment explanation
Indices: 26615897--26616144 Score: 284
Period size: 51 Copynumber: 4.9 Consensus size: 51
26615887 GTGAAAGTGT
* *
26615897 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAGAAGAT-A
* * * ** * * *
26615948 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAGAAGATA
* *
26615999 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAGAAGAT-A
* * * ** * * *
26616050 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAGAAGATA
26616101 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
26616145 ATGATAATAG
Statistics
Matches: 158, Mismatches: 36, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
50 1 0.01
51 155 0.98
52 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAGAAGATA
Found at i:26616170 original size:51 final size:51
Alignment explanation
Indices: 26615897--26616177 Score: 255
Period size: 51 Copynumber: 5.5 Consensus size: 51
26615887 GTGAAAGTGT
* * *
26615897 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-ATAAATAA
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAT-GATAA
* * ** * * * *
26615948 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-ATGATAA
* * *
26615999 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-ATAAATAA
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAT-GATAA
* * ** * * * *
26616050 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-ATGATAA
*
26616101 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAA
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAA
* * * *
26616152 TAGTAACATGGGTGGTACTATGTGAA
1 TGGTCACATGTGTAGTACTATGTGAA
26616178 AACCCCCAAA
Statistics
Matches: 176, Mismatches: 47, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
49 1 0.01
50 4 0.02
51 167 0.95
52 2 0.01
53 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (51 bp):
TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAA
Found at i:26616177 original size:102 final size:102
Alignment explanation
Indices: 26615896--26616144 Score: 489
Period size: 102 Copynumber: 2.4 Consensus size: 102
26615886 AGTGAAAGTG
26615896 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
26615961 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
26615998 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
26616063 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
*
26616100 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
26616145 ATGATAATAG
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 146 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
Found at i:26617088 original size:15 final size:14
Alignment explanation
Indices: 26617049--26617091 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
26617039 ATGAAATGGA
*
26617049 ATGGAAATGGAATTG
1 ATGG-AATGGAATAG
*
26617064 ATGAAATGGAATAG
1 ATGGAATGGAATAG
26617078 TATGGAATGGAATA
1 -ATGGAATGGAATA
26617092 TATATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (14 bp):
ATGGAATGGAATAG
Found at i:26619117 original size:27 final size:27
Alignment explanation
Indices: 26619087--26619347 Score: 289
Period size: 27 Copynumber: 9.7 Consensus size: 27
26619077 TCAACTCCTA
** * *
26619087 GGGGTATAACAGTTATTTTACTCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
26619114 GGGGTATTTCGGTCATTTTACCCATT-A
1 GGGGTATTTCAGTCATTTTACCC-TTCG
26619141 GGGGTATTTC-GATCATTTTACCCTTCG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
*
26619168 GAGGTATTTC-GATCATTTTACCCTTCG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
* * *
26619195 GGGGTATTTCGGTTATTTTACCATTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
*
26619222 AGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
*
26619249 AGGGTATTTCAGTCATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
* *
26619276 AGGGTATTT-TGATCATTTTACCCTTCG
1 GGGGTATTTCAG-TCATTTTACCCTTCG
* * *
26619303 AGGGTATTTCGGTTATTTTACCCTTCG
1 GGGGTATTTCAGTCATTTTACCCTTCG
26619330 GGGGTATTTC-GATCATTT
1 GGGGTATTTCAG-TCATTT
26619348 CCCCGTGAAT
Statistics
Matches: 207, Mismatches: 20, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.02
27 198 0.96
28 4 0.02
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTTCG
Found at i:26619167 original size:54 final size:54
Alignment explanation
Indices: 26619101--26619347 Score: 329
Period size: 54 Copynumber: 4.6 Consensus size: 54
26619091 TATAACAGTT
* * *
26619101 ATTTTACTCTTCGGGGGTATTTCGGTCATTTTACCCATTAG-GGGTATTTCGATC
1 ATTTTACCCTTCGGGGGTATTTCGATCATTTTACCC-TTCGAGGGTATTTCGATC
* * * *
26619155 ATTTTACCCTTCGGAGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCGGTT
1 ATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATC
* *
26619209 ATTTTACCATTCGAGGGTATTTC-AGTCATTTTACCCTTCGAGGGTATTTC-AGTC
1 ATTTTACCCTTCGGGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCGA-TC
* * * *
26619263 ATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCTTCGAGGGTATTTCGGTT
1 ATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATC
26619317 ATTTTACCCTTCGGGGGTATTTCGATCATTT
1 ATTTTACCCTTCGGGGGTATTTCGATCATTT
26619348 CCCCGTGAAT
Statistics
Matches: 170, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
53 4 0.02
54 165 0.97
55 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (54 bp):
ATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATC
Found at i:26619227 original size:81 final size:81
Alignment explanation
Indices: 26619101--26619347 Score: 340
Period size: 81 Copynumber: 3.0 Consensus size: 81
26619091 TATAACAGTT
* *
26619101 ATTTTACTCTTCGGGGGTATTTCGGTCATTTTACCCATTAG-GGGTATTTCGATCATTTTACCCT
1 ATTTTACCCTTCGGGGGTATTTCGGTCATTTTA-CCATTCGAGGGTATTTCGATCATTTTACCCT
26619165 TCGGAGGTATTTCGATC
65 TCGGAGGTATTTCGATC
*
26619182 ATTTTACCCTTCGGGGGTATTTCGGTTATTTTACCATTCGAGGGTATTTC-AGTCATTTTACCCT
1 ATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCATTCGAGGGTATTTCGA-TCATTTTACCCT
26619246 TC-GAGGGTATTTC-AGTC
65 TCGGA-GGTATTTCGA-TC
* * * * * *
26619263 ATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCTTCGAGGGTATTTCGGTTATTTTACCCTT
1 ATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCATTCGAGGGTATTTCGATCATTTTACCCTT
*
26619328 CGGGGGTATTTCGATC
66 CGGAGGTATTTCGATC
26619344 ATTT
1 ATTT
26619348 CCCCGTGAAT
Statistics
Matches: 148, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
80 10 0.07
81 136 0.92
82 2 0.01
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (81 bp):
ATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCATTCGAGGGTATTTCGATCATTTTACCCTT
CGGAGGTATTTCGATC
Found at i:26621104 original size:12 final size:12
Alignment explanation
Indices: 26621087--26621111 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26621077 ACCAAAACAG
26621087 GCTTTTAGCGGC
1 GCTTTTAGCGGC
26621099 GCTTTTAGCGGC
1 GCTTTTAGCGGC
26621111 G
1 G
26621112 TTTGGGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.36, T:0.32
Consensus pattern (12 bp):
GCTTTTAGCGGC
Found at i:26621174 original size:40 final size:39
Alignment explanation
Indices: 26621119--26621228 Score: 130
Period size: 40 Copynumber: 2.8 Consensus size: 39
26621109 GCGTTTGGGT
*
26621119 AAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTA
1 AAAAAACGCCACTAAAAAT-AAGCATTAGCGGCGCTTTTA
* * * * * *
26621159 AAAAAATGTCACTAAAGATAGAGTATGAGCGGCGCTTTTT
1 AAAAAACGCCACTAAAAATA-AGCATTAGCGGCGCTTTTA
*
26621199 AAAAAACGCCACTAAAAATGAGCATTAGCG
1 AAAAAACGCCACTAAAAATAAGCATTAGCG
26621229 ACGTTTTCCA
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
39 9 0.16
40 47 0.84
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (39 bp):
AAAAAACGCCACTAAAAATAAGCATTAGCGGCGCTTTTA
Found at i:26621414 original size:42 final size:41
Alignment explanation
Indices: 26621291--26621415 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 41
26621281 GAGTTTTTAG
*
26621291 GGGCATTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCA
*
26621332 GGGCTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCA
* *
26621373 GGGCTTTAGCGGCGTTTGTTGAAAAAGCGCCGCTAGTGCTCA
1 GGGCTTTAGCGGCGTTT-TTTAAAAAGCGCCGCTAATGCTCA
26621415 G
1 G
26621416 ATTTATCATA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 56 0.72
42 22 0.28
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCA
Found at i:26622125 original size:14 final size:15
Alignment explanation
Indices: 26622106--26622150 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
26622096 AGGACAGTTA
26622106 TAAGGGTT-GGGGTT
1 TAAGGGTTAGGGGTT
*
26622120 TAAGGGTTAAGGG-T
1 TAAGGGTTAGGGGTT
*
26622134 TAGGGGTTAGGGGTT
1 TAAGGGTTAGGGGTT
26622149 TA
1 TA
26622151 CGGTTTATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 20 0.77
15 6 0.23
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (15 bp):
TAAGGGTTAGGGGTT
Found at i:26623257 original size:17 final size:17
Alignment explanation
Indices: 26623232--26623271 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
26623222 TCACTGCAGT
*
26623232 GAAACCCTAGATGAGAA
1 GAAATCCTAGATGAGAA
26623249 GAAATCCTAGATGAGAA
1 GAAATCCTAGATGAGAA
26623266 GAAATC
1 GAAATC
26623272 GGAGGAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (17 bp):
GAAATCCTAGATGAGAA
Found at i:26626158 original size:23 final size:23
Alignment explanation
Indices: 26626124--26626618 Score: 340
Period size: 23 Copynumber: 21.7 Consensus size: 23
26626114 GAATGTTGTT
*
26626124 AATTGATA-TGTTTAAGTGCTTCA
1 AATTGA-AGTGTTTAAGTGCTGCA
*
26626147 AATTTAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
26626170 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
26626193 AATTGAAGTGTTTTA-TCGCTGCA
1 AATTGAAGTGTTTAAGT-GCTGCA
* * *
26626216 AATTGAAGT-TTTTAGTTGTTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
26626239 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
26626261 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
26626284 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
26626307 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
*
26626330 AATTGAAATGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
26626353 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
26626376 AATTGAAATGTTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
26626399 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
26626421 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
*
26626444 AATTGATA-TGTTTAAGTGTTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
26626467 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
*
26626490 AATCGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
26626513 AATTGAAGTATTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* * *
26626536 AATTG-AGATGTTTTA-TCACTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
26626558 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
*
26626581 AATTGATA-TGTTAAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
26626604 AATTGAAGTGTTTAA
1 AATTGAAGTGTTTAA
26626619 ATTTAACTTG
Statistics
Matches: 376, Mismatches: 66, Indels: 60
0.75 0.13 0.12
Matches are distributed among these distances:
22 60 0.16
23 308 0.82
24 8 0.02
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (23 bp):
AATTGAAGTGTTTAAGTGCTGCA
Found at i:26626379 original size:160 final size:159
Alignment explanation
Indices: 26626115--26626548 Score: 717
Period size: 160 Copynumber: 2.7 Consensus size: 159
26626105 AGCAGCATCG
* * *
26626115 AATGTTGTTAATTGATATGTTTAAGTGCTTCAAATTTAAGTGTTTAAGTGCTGCAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* * *
26626180 TTTAAGTGCTGCAAATTGAAGTGTTTTA-TCGCTGCAAATTGAAGTTTTTAGTTGTTGGAAATTG
66 TTTAAGTGCTGCAAATTGAAGTG-TTTAGT-GCTGCAAATTGAAATGTTTAGTTGCTGGAAATTG
26626244 AGATGTTTTATCGCTGTAATTGAGGTGTATA
129 AGATGTTTTATCGCTGTAATTGAGGTGTATA
*
26626275 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAATG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
26626340 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAATGTTTAGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTT-AGTGCTGCAAATTGAAATGTTTAGTTGCTGGAAATTGA
26626405 GATGTTTTATCGCTGTAATTGAGGTGTATA
130 GATGTTTTATCGCTGTAATTGAGGTGTATA
* *
26626435 AATGTTGTTAATTGATATGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAATCGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* * *
26626500 TTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTT
66 TTTAAGTGCTGCAAATTGAAGTGTTTAG-TGCTGCAAATTGAAATGTTT
26626549 TATCACTGTA
Statistics
Matches: 258, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
159 5 0.02
160 252 0.98
161 1 0.00
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (159 bp):
AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
TTTAAGTGCTGCAAATTGAAGTGTTTAGTGCTGCAAATTGAAATGTTTAGTTGCTGGAAATTGAG
ATGTTTTATCGCTGTAATTGAGGTGTATA
Found at i:26626424 original size:137 final size:136
Alignment explanation
Indices: 26626155--26626618 Score: 481
Period size: 137 Copynumber: 3.4 Consensus size: 136
26626145 CAAATTTAAG
*
26626155 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTTATCGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAAT-GCTGCAAATT
* * * * * * * ** *
26626220 GAAGT-TTTTAGTTGTTGGAAATTGAGATGTTTTA-TCGCT-GTAATTGAGGTGTATAAAT-GTT
65 GAAGTGTTTAAG-TGCTGCAAATTGAAATG-TTTAGTTGCTGGAAATTGAGATGT-TTTATCGCT
*
26626281 GTTAATTGATA
127 G-TAATTGAGA
* * * *
26626292 TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAATGTTTAAGTGCTGCAAATT
1 TGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAA-TGCTGCAAATT
26626357 GAAGTGTTTAAGTGCTGCAAATTGAAATGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTA
65 GAAGTGTTTAAGTGCTGCAAATTGAAATGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTA
*
26626422 ATTGAGG
130 ATTGAGA
* * * ** * * *
26626429 TGTATAAATGTTGTTAATTGATA-TGTTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAAT
1 TGTTTAAGTGCTGCAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AATGCTGCAAAT
* * * *
26626493 CGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCACTGT
64 TGAAGTGTTTAAGTGCTGCAAATTGAAATGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGT
*
26626558 AATTGAGG
129 AATTGAGA
* * * ** *
26626566 TGTATAAATGTTGTTAATTGATA-TGTTAAAGTGCTGCAAATTGAAGTGTTTAA
1 TGTTTAAGTGCTGCAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAA
26626619 ATTTAACTTG
Statistics
Matches: 284, Mismatches: 36, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
136 6 0.02
137 255 0.90
138 23 0.08
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (136 bp):
TGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAATGCTGCAAATTG
AAGTGTTTAAGTGCTGCAAATTGAAATGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAA
TTGAGA
Found at i:26626619 original size:137 final size:137
Alignment explanation
Indices: 26626318--26626620 Score: 500
Period size: 137 Copynumber: 2.2 Consensus size: 137
26626308 ATTTAAGTGT
* * * *
26626318 TTAAA-TGCTGTAAATTGAAATGTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATCGAAGTGTTTAAGTGCTGCAAATTGA
* *
26626382 AATGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAAT
66 AATATTTAGTTGCTGGAAATTGAGATGTTTTATCACTGTAATTGAGGTGTATAAATGTTGTTAAT
26626447 TGATATG
131 TGATATG
* * * *
26626454 TTTAAGTGTTGCAAATTTAAGTGTTTAAATGCTGTAAATCGAAGTGTTTAAGTGCTGCAAATTGA
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATCGAAGTGTTTAAGTGCTGCAAATTGA
*
26626519 AGTATTTAGTTGCTGGAAATTGAGATGTTTTATCACTGTAATTGAGGTGTATAAATGTTGTTAAT
66 AATATTTAGTTGCTGGAAATTGAGATGTTTTATCACTGTAATTGAGGTGTATAAATGTTGTTAAT
26626584 TGATATG
131 TGATATG
26626591 TTAAAGTGCTGCAAATTGAAGTGTTTAAAT
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAAT
26626621 TTAACTTGTT
Statistics
Matches: 152, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
136 4 0.03
137 148 0.97
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (137 bp):
TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATCGAAGTGTTTAAGTGCTGCAAATTGA
AATATTTAGTTGCTGGAAATTGAGATGTTTTATCACTGTAATTGAGGTGTATAAATGTTGTTAAT
TGATATG
Found at i:26627377 original size:43 final size:43
Alignment explanation
Indices: 26627248--26627515 Score: 423
Period size: 43 Copynumber: 6.3 Consensus size: 43
26627238 TTTTTCTTGA
* *
26627248 TCTTTAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGG-CCTTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCC-TGG
*
26627291 TCTTTAGCGGCATTTGTGGG-AAAGCGCCGCTAAAGGTCCTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGG
* *
26627333 TCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCTTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGG
* * * *
26627376 TCTTTAGCGGCGTTTATCGGTAAAGTGCCGCTAAAGGTCCTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGG
*
26627419 TCTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGG
26627462 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGG
26627505 TCTTTAGCGGC
1 TCTTTAGCGGC
26627516 ATTTTTTTTC
Statistics
Matches: 207, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 37 0.18
43 170 0.82
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.28
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGG
Found at i:26638639 original size:10 final size:10
Alignment explanation
Indices: 26638624--26638650 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
26638614 ACTACAGTTT
26638624 TAGTTTCCTA
1 TAGTTTCCTA
26638634 TAGTTTCCTA
1 TAGTTTCCTA
26638644 TAGTTTC
1 TAGTTTC
26638651 TTAGCTTACT
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:0.19, C:0.19, G:0.11, T:0.52
Consensus pattern (10 bp):
TAGTTTCCTA
Found at i:26639624 original size:41 final size:41
Alignment explanation
Indices: 26639567--26639669 Score: 188
Period size: 41 Copynumber: 2.5 Consensus size: 41
26639557 TCAGCCTCAG
*
26639567 TTGGGCCTGAGCCCATATCAAATGGCACATAACACATATAT
1 TTGGGCCTAAGCCCATATCAAATGGCACATAACACATATAT
26639608 TTGGGCCTAAGCCCATATCAAATGGCACATAACACATATAT
1 TTGGGCCTAAGCCCATATCAAATGGCACATAACACATATAT
*
26639649 TTGGGCCTAAGCCCATCTCAA
1 TTGGGCCTAAGCCCATATCAA
26639670 TATCAGAATC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
TTGGGCCTAAGCCCATATCAAATGGCACATAACACATATAT
Found at i:26654416 original size:33 final size:33
Alignment explanation
Indices: 26654374--26654439 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
26654364 TGATGACAAA
26654374 AATGAACCTGCTGGTTCAATGGTAAGGCTTCAG
1 AATGAACCTGCTGGTTCAATGGTAAGGCTTCAG
*
26654407 AATGAACCTGTTGGTTCAATGGTAAGGCTTCAG
1 AATGAACCTGCTGGTTCAATGGTAAGGCTTCAG
26654440 CTTAACCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (33 bp):
AATGAACCTGCTGGTTCAATGGTAAGGCTTCAG
Found at i:26655749 original size:24 final size:24
Alignment explanation
Indices: 26655722--26655770 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
26655712 TGTATCTAAT
*
26655722 TATGAAAATACATTTGAATTTGTA
1 TATGAAAATACATTTGAATCTGTA
* **
26655746 TATGATAATATGTTTGAATCTGTA
1 TATGAAAATACATTTGAATCTGTA
26655770 T
1 T
26655771 CTATAAACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (24 bp):
TATGAAAATACATTTGAATCTGTA
Found at i:26658627 original size:20 final size:19
Alignment explanation
Indices: 26658589--26658627 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26658579 TGTTCGATAT
* *
26658589 GTGATTCAAACCTGAAAAA
1 GTGATTAAAACCGGAAAAA
26658608 GTGATTAAAACTCGGAAAAA
1 GTGATTAAAAC-CGGAAAAA
26658628 CCCAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (19 bp):
GTGATTAAAACCGGAAAAA
Found at i:26663307 original size:43 final size:43
Alignment explanation
Indices: 26663246--26663369 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
26663236 AGTTCTGATA
* *
26663246 TGTGTTTCCGTGTAAGACCACATTTGGGACGTTGGCATCGA-C
1 TGTGTTTACGTGTAAGACCACATCTGGGACGTTGGCATCGATC
26663288 TTGTGTTTACGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATC
1 -TGTGTTTACGTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATC
* * * *
26663332 TATGATCACATGTAAGACCACATCTGGGACGTTGGCAT
1 TGTGTTTACGTGTAAGACCACATCTGGGACGTTGGCAT
26663370 TGTACGAGCT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.03
43 65 0.93
44 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTGTTTACGTGTAAGACCACATCTGGGACGTTGGCATCGATC
Found at i:26666967 original size:18 final size:18
Alignment explanation
Indices: 26666943--26666994 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
26666933 TTACTTTCAT
26666943 AAATTTATAAAATTTTTA
1 AAATTTATAAAATTTTTA
* * *
26666961 GAATTTAT-TATTTTTTA
1 AAATTTATAAAATTTTTA
26666978 AAATTT-TAAATATTTTT
1 AAATTTATAAA-ATTTTT
26666995 TTTAATATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
16 1 0.04
17 13 0.50
18 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
AAATTTATAAAATTTTTA
Found at i:26680070 original size:131 final size:131
Alignment explanation
Indices: 26679918--26680158 Score: 333
Period size: 131 Copynumber: 1.8 Consensus size: 131
26679908 AGTTGTGATC
* * * *
26679918 GTAAATCAATGAGCCTTAATAATATCAGCTATTATCTTAAATCAA-CAAGCTATTTGGAGTAG-C
1 GTAAATCAATGAGCCTTAATAATATCAGCTATGATATTAAAT-AAGCAACCTATTTCGAGT-GCC
* * *
26679981 AATAGTAAATCAACTAACTTAGGGAACATTGTTCATGATAGTAAATCAAATGAATTTAGGCTGTA
64 AATAGTAAATCAACTAACTTAGAGAAAATGGTTCATGATAGTAAATCAAATGAATTTAGGCTGTA
26680046 ATT
129 ATT
* * * * * *
26680049 GTAAATCAGTGAGCCTTAATAATATTAGTTGTGATATTAAATAAGCGACCTATTTCGAGTGCCGA
1 GTAAATCAATGAGCCTTAATAATATCAGCTATGATATTAAATAAGCAACCTATTTCGAGTGCCAA
26680114 TAGTAAATCAACTAACTTAGAGAAAATGGTTCATGATAGTAAATC
66 TAGTAAATCAACTAACTTAGAGAAAATGGTTCATGATAGTAAATC
26680159 GAAAATCGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
130 3 0.03
131 92 0.97
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (131 bp):
GTAAATCAATGAGCCTTAATAATATCAGCTATGATATTAAATAAGCAACCTATTTCGAGTGCCAA
TAGTAAATCAACTAACTTAGAGAAAATGGTTCATGATAGTAAATCAAATGAATTTAGGCTGTAAT
T
Found at i:26682363 original size:14 final size:14
Alignment explanation
Indices: 26682344--26682382 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
26682334 ACCAAAACAA
26682344 ACAGAGGCCCAAAT
1 ACAGAGGCCCAAAT
**
26682358 ACAGAGGCCTGAAT
1 ACAGAGGCCCAAAT
26682372 ACAGAGGCCCA
1 ACAGAGGCCCA
26682383 GGACTGATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.28, G:0.26, T:0.08
Consensus pattern (14 bp):
ACAGAGGCCCAAAT
Found at i:26683866 original size:17 final size:17
Alignment explanation
Indices: 26683844--26683877 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26683834 TTTATTGACT
* *
26683844 TATGTTTTTTTCATTTA
1 TATGTTGTTTACATTTA
26683861 TATGTTGTTTACATTTA
1 TATGTTGTTTACATTTA
26683878 ATATTTTGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.65
Consensus pattern (17 bp):
TATGTTGTTTACATTTA
Found at i:26683972 original size:15 final size:15
Alignment explanation
Indices: 26683949--26683981 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26683939 TTTTCATGCC
26683949 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
26683964 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
26683979 ATT
1 ATT
26683982 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:26696346 original size:14 final size:14
Alignment explanation
Indices: 26696310--26696347 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
26696300 ACCAAAACAA
**
26696310 ACAGAGGCAAGAAT
1 ACAGAGGCCCGAAT
26696324 ACAGAGGCCCGAAT
1 ACAGAGGCCCGAAT
26696338 ACAGAGGCCC
1 ACAGAGGCCC
26696348 AGGACTGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.29, T:0.05
Consensus pattern (14 bp):
ACAGAGGCCCGAAT
Found at i:26697425 original size:25 final size:25
Alignment explanation
Indices: 26697380--26697437 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
26697370 TCAAATTAGT
* *
26697380 TTTTTTTATTTTTTTTATTAATTAA
1 TTTTTTTATTTTATATATTAATTAA
*
26697405 TTTTTTTATTTTCATAT-TTAATTAT
1 TTTTTTTATTTT-ATATATTAATTAA
26697430 TTTTTTTA
1 TTTTTTTA
26697438 AAAATCTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTTTTATTTTATATATTAATTAA
Found at i:26697584 original size:17 final size:16
Alignment explanation
Indices: 26697550--26697592 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
26697540 GTTTATTGAC
*
26697550 TTATGTTTT-TTTCAT
1 TTATATTTTGTTTCAT
26697565 TTATATTTTGTTTACAT
1 TTATATTTTGTTT-CAT
26697582 TTAATATTTTG
1 TT-ATATTTTG
26697593 CATGTCATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 3 0.12
17 5 0.21
18 8 0.33
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (16 bp):
TTATATTTTGTTTCAT
Found at i:26697664 original size:15 final size:15
Alignment explanation
Indices: 26697641--26697673 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26697631 TTTTCATGCC
26697641 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
26697656 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
26697671 ATT
1 ATT
26697674 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:26701648 original size:13 final size:13
Alignment explanation
Indices: 26701611--26701670 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
26701601 TTAATATAAA
*
26701611 AAATAAATTTTAT
1 AAATAAATTTTAC
*
26701624 ATATTCAAATTTTAC
1 A-AAT-AAATTTTAC
26701639 AAATAAATTTTGA-
1 AAATAAATTTT-AC
*
26701652 TAATAAATTTTAC
1 AAATAAATTTTAC
26701665 AAATAA
1 AAATAA
26701671 TTAATAGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 1 0.03
13 23 0.61
14 5 0.13
15 9 0.24
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (13 bp):
AAATAAATTTTAC
Found at i:26701666 original size:26 final size:28
Alignment explanation
Indices: 26701611--26701670 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 28
26701601 TTAATATAAA
26701611 AAATAAATTTTATATATTCAAATTTTAC
1 AAATAAATTTTATATATTCAAATTTTAC
26701639 AAATAAATTTTGATA-A-T-AAATTTTAC
1 AAATAAATTTT-ATATATTCAAATTTTAC
26701665 AAATAA
1 AAATAA
26701671 TTAATAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 15 0.48
27 1 0.03
28 12 0.39
29 3 0.10
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (28 bp):
AAATAAATTTTATATATTCAAATTTTAC
Found at i:26703491 original size:21 final size:21
Alignment explanation
Indices: 26703466--26703533 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
26703456 TATCGATTTC
26703466 CACACGGGCGTGTACCTTGAA
1 CACACGGGCGTGTACCTTGAA
* * * *
26703487 CACACAGCCGTGTCCCTT-AGC
1 CACACGGGCGTGTACCTTGA-A
* *
26703508 CACACGGGCGTATGCCTTGAA
1 CACACGGGCGTGTACCTTGAA
26703529 CACAC
1 CACAC
26703534 AACCGTGTCC
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.35, G:0.24, T:0.18
Consensus pattern (21 bp):
CACACGGGCGTGTACCTTGAA
Found at i:26703514 original size:42 final size:42
Alignment explanation
Indices: 26703465--26703552 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
26703455 TTATCGATTT
* *
26703465 CCACACGGGCGTGTACCTTGAACACACAGCCGTGTCCCTTAG
1 CCACACGGGCGTATACCTTGAACACACAACCGTGTCCCTTAG
*
26703507 CCACACGGGCGTATGCCTTGAACACACAACCGTGTCCCTTAG
1 CCACACGGGCGTATACCTTGAACACACAACCGTGTCCCTTAG
26703549 CCAC
1 CCAC
26703553 TCAGGCATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.23, C:0.38, G:0.22, T:0.18
Consensus pattern (42 bp):
CCACACGGGCGTATACCTTGAACACACAACCGTGTCCCTTAG
Found at i:26703546 original size:21 final size:21
Alignment explanation
Indices: 26703474--26703546 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
26703464 TCCACACGGG
*
26703474 CGTGTACCTTGAACACACAGC
1 CGTGTCCCTTGAACACACAGC
* * *
26703495 CGTGTCCCTT-AGCCACACGGG
1 CGTGTCCCTTGA-ACACACAGC
* * *
26703516 CGTATGCCTTGAACACACAAC
1 CGTGTCCCTTGAACACACAGC
26703537 CGTGTCCCTT
1 CGTGTCCCTT
26703547 AGCCACTCAG
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
20 1 0.03
21 36 0.95
22 1 0.03
ACGTcount: A:0.22, C:0.36, G:0.21, T:0.22
Consensus pattern (21 bp):
CGTGTCCCTTGAACACACAGC
Found at i:26705685 original size:25 final size:25
Alignment explanation
Indices: 26705648--26705730 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
26705638 GTTTCGACCC
**
26705648 ACAGCTCTTGAGAGCATACCGATTT
1 ACAGCTCGAGAGAGCATACCGATTT
* *
26705673 ACAGCTCGCGAGAGCATACTGATTT
1 ACAGCTCGAGAGAGCATACCGATTT
* * * *
26705698 ATAGCTCAAGTGAGCATACCGATTC
1 ACAGCTCGAGAGAGCATACCGATTT
26705723 ACAGCTCG
1 ACAGCTCG
26705731 TACGAGCATA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (25 bp):
ACAGCTCGAGAGAGCATACCGATTT
Done.