Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3669133
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 19
Found at i:1668747 original size:18 final size:18
Alignment explanation
Indices: 1668713--1668747 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1668703 CTTACTTAAG
*
1668713 GGATCTAGTGTTAAAAAT
1 GGATCTAGTGTAAAAAAT
1668731 GGATCTAGTGTAAAAAA
1 GGATCTAGTGTAAAAAA
1668748 GCTGCTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.29
Consensus pattern (18 bp):
GGATCTAGTGTAAAAAAT
Found at i:1669169 original size:14 final size:13
Alignment explanation
Indices: 1669141--1669165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1669131 ATTTGAATGT
1669141 TTTAGATTTTTTA
1 TTTAGATTTTTTA
1669154 TTTAGATTTTTT
1 TTTAGATTTTTT
1669166 TATTGATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTAGATTTTTTA
Found at i:1672297 original size:24 final size:24
Alignment explanation
Indices: 1672240--1672306 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
1672230 ATATGAGGAT
*
1672240 CGTGCCACAAGAGCAGAG-GAATCA
1 CGTG-CACAAGAGCAGAGAAAATCA
1672264 CGTGCGACAAGAGCAGAGAAAAATCA
1 CGTGC-ACAAGAGCAGAG-AAAATCA
*
1672290 TGT-CACAAG-GACAGAGA
1 CGTGCACAAGAG-CAGAGA
1672307 TGCTTATTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 3 0.08
24 26 0.70
25 1 0.03
26 7 0.19
ACGTcount: A:0.42, C:0.21, G:0.28, T:0.09
Consensus pattern (24 bp):
CGTGCACAAGAGCAGAGAAAATCA
Found at i:1672827 original size:34 final size:32
Alignment explanation
Indices: 1672765--1672833 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 32
1672755 ACCTTACAAC
* * *
1672765 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACATT
*
1672797 TCCCTAGCTTTTACACGGGATAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACATT
1672831 TCC
1 TCC
1672834 TCTTTACAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.23
33 5 0.16
34 19 0.61
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.32
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACATT
Found at i:1673196 original size:20 final size:20
Alignment explanation
Indices: 1673171--1673237 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
1673161 TTGGTGCATG
1673171 GATGCACAGCAGGATGAATC
1 GATGCACAGCAGGATGAATC
1673191 GATGCACAGCAGGATGAATC
1 GATGCACAGCAGGATGAATC
*
1673211 GATGCACAGCAGGATGCATC
1 GATGCACAGCAGGATGAATC
1673231 GATGCAC
1 GATGCAC
1673238 TAATTGCATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.33, C:0.22, G:0.30, T:0.15
Consensus pattern (20 bp):
GATGCACAGCAGGATGAATC
Found at i:1673676 original size:30 final size:30
Alignment explanation
Indices: 1673633--1673701 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
1673623 AATTTAAGTT
*
1673633 AGGGGA-CAAACTTGAACTTATAAAATTTC
1 AGGGGAGCGAACTTGAACTTATAAAATTTC
*
1673662 AGGGGAGCGAACTTGAACTTATAAAATTTT
1 AGGGGAGCGAACTTGAACTTATAAAATTTC
1673692 AGGGG-GCGAA
1 AGGGGAGCGAA
1673702 AAATAGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 11 0.30
30 26 0.70
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.25
Consensus pattern (30 bp):
AGGGGAGCGAACTTGAACTTATAAAATTTC
Found at i:1675488 original size:5 final size:5
Alignment explanation
Indices: 1675478--1675587 Score: 55
Period size: 6 Copynumber: 19.8 Consensus size: 5
1675468 GAATTGTTTT
1675478 TAAAA TAAAA TATTATAA TAAAA TAAAAGA TAAAGA TAAAA T-AAA TAAATAA
1 TAAAA TAAAA TA--A-AA TAAAA T-AAA-A TAAA-A TAAAA TAAAA T-AA-AA
* *
1675530 TTAAA TAAAAGA TAAGGA TAAAA TAAAA TAAAATA TAAAGA TAAAA T-AAA
1 TAAAA T-AAA-A TAA-AA TAAAA TAAAA T-AAA-A TAAA-A TAAAA TAAAA
1675580 T-AAA TAAA
1 TAAAA TAAA
1675588 TTTAAAGTAA
Statistics
Matches: 86, Mismatches: 5, Indels: 28
0.72 0.04 0.24
Matches are distributed among these distances:
4 12 0.14
5 26 0.30
6 34 0.40
7 10 0.12
8 4 0.05
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:1675505 original size:23 final size:23
Alignment explanation
Indices: 1675478--1675583 Score: 81
Period size: 23 Copynumber: 4.4 Consensus size: 23
1675468 GAATTGTTTT
*
1675478 TAAAATAAAATATTATAATAAAA
1 TAAAATAAAATATAATAATAAAA
*
1675501 TAAAAGATAAAGATAAAATAAATAAATAA
1 T-AAA-ATAAA-ATATAAT-AAT-AA-AA
* * **
1675530 TTAAATAAAAGATAAGGATAAAA
1 TAAAATAAAATATAATAATAAAA
1675553 TAAAATAAAATATAA-AGATAAAA
1 TAAAATAAAATATAATA-ATAAAA
1675576 T-AAATAAA
1 TAAAATAAA
1675584 TAAATTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
22 7 0.11
23 23 0.35
24 5 0.08
25 7 0.11
26 9 0.14
27 8 0.12
28 4 0.06
29 3 0.05
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (23 bp):
TAAAATAAAATATAATAATAAAA
Found at i:1675536 original size:34 final size:35
Alignment explanation
Indices: 1675478--1675575 Score: 128
Period size: 34 Copynumber: 2.8 Consensus size: 35
1675468 GAATTGTTTT
*
1675478 TAAAATAAAATATTATAATAAAATAAAAGATAAAGA
1 TAAAATAAAATA-AATAATAAAATAAAAGATAAAGA
* *
1675514 TAAAAT-AAATAAATAATTAAATAAAAGATAAGGA
1 TAAAATAAAATAAATAATAAAATAAAAGATAAAGA
1675548 TAAAATAAAATAAA-ATATAAAGATAAAA
1 TAAAATAAAATAAATA-ATAAA-ATAAAA
1675576 TAAATAAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
34 27 0.49
35 16 0.29
36 12 0.22
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (35 bp):
TAAAATAAAATAAATAATAAAATAAAAGATAAAGA
Found at i:1676386 original size:5 final size:5
Alignment explanation
Indices: 1676376--1676545 Score: 340
Period size: 5 Copynumber: 34.0 Consensus size: 5
1676366 ACTAAAAACA
1676376 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1676426 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1676476 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1676526 AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT
1676546 CCTAAAAACA
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 165 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:1679140 original size:157 final size:156
Alignment explanation
Indices: 1678965--1679482 Score: 590
Period size: 164 Copynumber: 3.2 Consensus size: 156
1678955 CAACTCCTCC
* * * *
1678965 ATTTTAAGTTCATTTTTTACCAAATTTGAACCACATGTTCCTAAATCATAGTAGAATACACGTGT
1 ATTTTAAGTCCTTTTTTTACCAAATTTGAACCACATGCTCCTAAACCATAGTAGAATACACGTGT
* *
1679030 ACTTTTAAATTCTCTTTTTGATAACAAAATTTTATTTTTCAATTTAGTCTTTCAATTTTTCGTAA
66 AC-TTTCAATTCTCTTTTTGATAACAAAATTTTATTTTTCAATTTAGTCTTTCAATTTTTCATAA
* *
1679095 TCTTCTTATTTTTTCAATTCGTCATTT
130 TCTTCTTATTTCTTCAATTTGTCATTT
* * * * *
1679122 ATTTTAAGTCCGTTTTTTACTAAATTTGAATCATATGCTCCTAAACCATAGTAGAATACATGTGT
1 ATTTTAAGTCCTTTTTTTACCAAATTTGAACCACATGCTCCTAAACCATAGTAGAATACACGTGT
* *
1679187 ACTTTCAATACCTCTTTTTGATAACAAAATTTTTATTTTTCGATTTAGT-TATTCAATTTTTCAT
66 ACTTTCAAT-TCTCTTTTTGATAACAAAA-TTTTATTTTTCAATTTAGTCT-TTCAATTTTTCAT
*
1679251 AATCTTTTTATTTCTTCAATTTGTCATTT
128 AATCTTCTTATTTCTTCAATTTGTCATTT
** * * * * *
1679280 ATTTTAAGTTATTTTTTTAACCAAA-TTCAAGTCACATGCTCCTCAACCATTGTAGGATACATGC
1 ATTTTAAGTCCTTTTTTT-ACCAAATTTGAA-CCACATGCTCCTAAACCATAGTAGAATACA--C
* * * * * *
1679344 GCACTGTACTTCCAATTCATCTTTTTTATAACAAATTTTGTATTTTACAATTTTGTCCTTCAATT
62 G---TGTACTTTCAATTC-TCTTTTTGATAACAAAATTT-TATTTTTCAATTTAGTCTTTCAATT
* * * *
1679409 TTTCATTATCTCCTTATTCCTTCAATTTGTTATTT
122 TTTCATAATCTTCTTATTTCTTCAATTTGTCATTT
*
1679444 ATTTTAAGTCCTTTTTTTTACTAAATTTGAACCACATGC
1 ATTTTAAGTCC-TTTTTTTACCAAATTTGAACCACATGC
1679483 CCATATACCA
Statistics
Matches: 303, Mismatches: 43, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
156 6 0.02
157 78 0.26
158 75 0.25
159 31 0.10
161 1 0.00
163 4 0.01
164 97 0.32
165 11 0.04
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (156 bp):
ATTTTAAGTCCTTTTTTTACCAAATTTGAACCACATGCTCCTAAACCATAGTAGAATACACGTGT
ACTTTCAATTCTCTTTTTGATAACAAAATTTTATTTTTCAATTTAGTCTTTCAATTTTTCATAAT
CTTCTTATTTCTTCAATTTGTCATTT
Found at i:1689095 original size:60 final size:58
Alignment explanation
Indices: 1688941--1689145 Score: 268
Period size: 60 Copynumber: 3.4 Consensus size: 58
1688931 ATACCCCAAA
* *
1688941 ACATGCATCCATAAGGACTTACCCTAGACCCTTATGATCTAGGAGTCCAATATGGAAGAT
1 ACATACATCCATAAGGACTTACCCTAGACCC-TAGGATCTAGGAGTCCAATAT-GAAGAT
* * * *
1689001 A-ATTCACCCATAAGAACTTAGCCTAGACCTCTAGGATCTAGGAGTCCAATATAGAAGAT
1 ACATACATCCATAAGGACTTACCCTAGACC-CTAGGATCTAGGAGTCCAATAT-GAAGAT
* *
1689060 ACAAACATCCATAAGGACTTACCCTAGACCACTAGGATCTAGGTGTCCAATATGAAAGAT
1 ACATACATCCATAAGGACTTACCCTAGACC-CTAGGATCTAGGAGTCCAATATG-AAGAT
*
1689120 ACATACATTCATAAGGACTTACCCTA
1 ACATACATCCATAAGGACTTACCCTA
1689146 CACAAAATCT
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
59 52 0.41
60 75 0.59
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (58 bp):
ACATACATCCATAAGGACTTACCCTAGACCCTAGGATCTAGGAGTCCAATATGAAGAT
Found at i:1691980 original size:20 final size:21
Alignment explanation
Indices: 1691949--1691997 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
1691939 TTCAGGGTAT
1691949 AAAGTGTT-AAAACTC-TTACA
1 AAAGT-TTCAAAACTCTTTACA
*
1691969 AAAGTTTCAAAACTCTTTATA
1 AAAGTTTCAAAACTCTTTACA
1691990 AAAGTTTC
1 AAAGTTTC
1691998 CACACTCGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 12 0.46
21 12 0.46
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (21 bp):
AAAGTTTCAAAACTCTTTACA
Found at i:1692004 original size:21 final size:20
Alignment explanation
Indices: 1691957--1691997 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
1691947 ATAAAGTGTT
1691957 AAAACTCTTACAAAAGTTTC
1 AAAACTCTTACAAAAGTTTC
*
1691977 AAAACTCTTTATAAAAGTTTC
1 AAAACTC-TTACAAAAGTTTC
1691998 CACACTCGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAACTCTTACAAAAGTTTC
Found at i:1692784 original size:2 final size:2
Alignment explanation
Indices: 1692777--1692817 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1692767 ATATTTATTA
1692777 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1692818 ACACTATAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1693144 original size:27 final size:27
Alignment explanation
Indices: 1693090--1693145 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
1693080 CCGCCATCAC
*
1693090 CACTTTGAACTTGAAACTCCATAACAT
1 CACTTTGAACTTGAAACTCCACAACAT
* *
1693117 CACTTTGAACTTGAAAGTCCACAGCAT
1 CACTTTGAACTTGAAACTCCACAACAT
1693144 CA
1 CA
1693146 AGATTTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCACAACAT
Found at i:1694020 original size:56 final size:56
Alignment explanation
Indices: 1693934--1694383 Score: 596
Period size: 56 Copynumber: 8.0 Consensus size: 56
1693924 AACCGTATCA
*
1693934 GGTATAGCTTTGGTATATCACTTGTTGCATTGCTTATATCGTATGGGTCCTGATAC
1 GGTATAGCTTTGGTATATCACTTGTTGCATTGCTTTTATCGTATGGGTCCTGATAC
* * *
1693990 GGTATAGCTTTGGTATATCACTTGTTGCATTGCTTTTATCATATAGGTCCTAATAC
1 GGTATAGCTTTGGTATATCACTTGTTGCATTGCTTTTATCGTATGGGTCCTGATAC
* * * * * *
1694046 GGTACAGCTTTGGTATATCACTTGTTGCACTGCTTTTATCGTTTTGGTCTTAATAC
1 GGTATAGCTTTGGTATATCACTTGTTGCATTGCTTTTATCGTATGGGTCCTGATAC
* * * * * *
1694102 GGTATAGCTTTGGTGTATCACTTGTTGCACTGCTTTTGTTGTATGGATCCTTATAC
1 GGTATAGCTTTGGTATATCACTTGTTGCATTGCTTTTATCGTATGGGTCCTGATAC
* * * * *
1694158 AGTATAGCTTTGATATATCACTTGTTGCATTGCTTTTATCGTATGAGTCATGATTC
1 GGTATAGCTTTGGTATATCACTTGTTGCATTGCTTTTATCGTATGGGTCCTGATAC
* * *
1694214 GGTATAGCTTTGGTATATCACCTGTTGCATTGCTTTTATCTTATGGGTCCTGATAT
1 GGTATAGCTTTGGTATATCACTTGTTGCATTGCTTTTATCGTATGGGTCCTGATAC
* * * *
1694270 GGTTTAGCTTTGATATATCACTTGTTCCATTGCTCTTATCGTATGGGTCCTGA-ATC
1 GGTATAGCTTTGGTATATCACTTGTTGCATTGCTTTTATCGTATGGGTCCTGATA-C
*
1694326 GGTATAGCTTTTTGATATATCACTTGTTGCATTGCTTTTTATCGTATGGGTCCTGATA
1 GGTATAGC--TTTGGTATATCACTTGTTGCATTGC-TTTTATCGTATGGGTCCTGATA
1694384 TGGGATTATT
Statistics
Matches: 341, Mismatches: 48, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
55 1 0.00
56 296 0.87
58 24 0.07
59 19 0.06
60 1 0.00
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.44
Consensus pattern (56 bp):
GGTATAGCTTTGGTATATCACTTGTTGCATTGCTTTTATCGTATGGGTCCTGATAC
Found at i:1702010 original size:10 final size:10
Alignment explanation
Indices: 1701947--1701996 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
1701937 ACACGCTGGG
1701947 CATCCGAGGC
1 CATCCGAGGC
1701957 CATCCGACCGAGC
1 CATCCGA--G-GC
* *
1701970 TATACGAGGC
1 CATCCGAGGC
1701980 CATCCGAGGC
1 CATCCGAGGC
1701990 CATCCGA
1 CATCCGA
1701997 CCGATGCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 24 0.73
11 1 0.03
12 1 0.03
13 7 0.21
ACGTcount: A:0.24, C:0.38, G:0.26, T:0.12
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:1702243 original size:29 final size:29
Alignment explanation
Indices: 1702201--1702286 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
1702191 GAGAAAGGGT
1702201 AGGTCGCCCGGAGTGCATGTCGACCTACA
1 AGGTCGCCCGGAGTGCATGTCGACCTACA
1702230 AGGTCGCCCGGAGTGCATGTCGACCTACA
1 AGGTCGCCCGGAGTGCATGTCGACCTACA
* *
1702259 AGGTCACCCGGAAG-GCATGACGACCTAC
1 AGGTCGCCCGG-AGTGCATGTCGACCTAC
1702287 GACCAACACT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
29 52 0.96
30 2 0.04
ACGTcount: A:0.23, C:0.31, G:0.30, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGTCGACCTACA
Found at i:1710962 original size:3 final size:3
Alignment explanation
Indices: 1710954--1711046 Score: 163
Period size: 3 Copynumber: 31.7 Consensus size: 3
1710944 ATTAATTATT
*
1710954 TAA TAA TAA TAA T-A TAA -CA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1711000 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1711047 TAAGCAAATA
Statistics
Matches: 86, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
2 3 0.03
3 83 0.97
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1711635 original size:121 final size:122
Alignment explanation
Indices: 1711423--1711856 Score: 522
Period size: 121 Copynumber: 3.7 Consensus size: 122
1711413 GTTGAACAAG
* * * *
1711423 TTCTTCCTCTTTAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAATGCTGATGCTGATATAT
1 TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAAC-TCTTCTGGAAATGTTGATGCTGATCTAT
* *
1711488 CTCCTTCTGTGATAGAATC-ATACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTT
65 CTCCTTCTGTGATAGAATCGA-GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
*
1711546 TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAAC-CTTCTGAAAATGTTGATGCTGATCTATC
1 TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATCTATC
* *
1711610 TCCTTCTGTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTC
66 TCCTTCTGTGATAGAATCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
* * *
1711667 TTCTTCATTTTCAGATAATTTCTTCTCATTATGAACT-TTCTGGAAA-----A----G-TCTATC
1 TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATCTATC
* ** * *
1711721 -CATTAAGTGATA-AATTCGAGCAAAATGTTGAACAAGTTCTTCGCATTATGAACTTC
66 TCCTTCTGTGATAGAA-TCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
** * *
1711777 TTC-TCCTTCTTCAGACGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGTTGATCTAT
1 TTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATCTAT
*
1711841 CTTCTTCTGTGATAGA
65 CTCCTTCTGTGATAGA
1711857 GTCATGCAGA
Statistics
Matches: 265, Mismatches: 29, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
109 4 0.02
110 75 0.28
111 15 0.06
112 1 0.00
116 2 0.01
120 1 0.00
121 123 0.46
122 9 0.03
123 35 0.13
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (122 bp):
TTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATGCTGATCTATC
TCCTTCTGTGATAGAATCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
Found at i:1711810 original size:110 final size:111
Alignment explanation
Indices: 1711617--1711823 Score: 303
Period size: 110 Copynumber: 1.9 Consensus size: 111
1711607 ATCTCCTTCT
*
1711617 GTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTTTCAGA
1 GTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCGCATTATGAACTTCTTCTTCATTTTCAGA
* * *
1711682 TAATTTCTTCTCATTATGAAC-TTTCTGGAAAAGTCTATCCATTAA
66 CAAGTTCTTCTCATTATGAACACTTCTGGAAAAGTCTATCCATTAA
* * *
1711727 GTGATA-AATTCGAGCAAAATGTTGAACAAGTTCTTCGCATTATGAACTTCTTC-TCCTTCTTCA
1 GTGATAGAA-TCGAGCAAAAGGTTGAACAAATTCTTCGCATTATGAACTTCTTCTTCATT-TTCA
*
1711790 GACGAGTTCTTCTCATTATGAACACTTCTGGAAA
64 GACAAGTTCTTCTCATTATGAACACTTCTGGAAA
1711824 TGTTGATGTT
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
109 6 0.07
110 71 0.83
111 9 0.10
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (111 bp):
GTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCGCATTATGAACTTCTTCTTCATTTTCAGA
CAAGTTCTTCTCATTATGAACACTTCTGGAAAAGTCTATCCATTAA
Found at i:1712008 original size:113 final size:113
Alignment explanation
Indices: 1711885--1712163 Score: 407
Period size: 113 Copynumber: 2.5 Consensus size: 113
1711875 CAAACTCTTC
*
1711885 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGTAATGCTGATCCATTAAATGATGAATT
1 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATTAAATGATGAATT
* *
1711950 CAAACAAAAAGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCCT
66 CAAACAAAAAGTTGAATAAACTCTTCTCATTATGAACTTCTTCTTCCT
** * ** *
1711998 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAACTGATCCATCATGTGATGGATT
1 TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATTAAATGATGAATT
** * * *
1712063 TGAGCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCT
66 CAAACAAAAAGTTGAATAAACTCTTCTCATTATGAACTTCTTCTTCCT
*
1712111 TCTTCAGATGAGTTCTTCTCATTATGAACTCTT-TCTGGAAATGTTGATCCATT
1 TCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAATGCTGATCCATT
1712164 GTGATGGATT
Statistics
Matches: 147, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
113 145 0.99
114 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (113 bp):
TCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATTAAATGATGAATT
CAAACAAAAAGTTGAATAAACTCTTCTCATTATGAACTTCTTCTTCCT
Found at i:1713332 original size:21 final size:21
Alignment explanation
Indices: 1713315--1713390 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
1713305 TACAAAAGAG
1713315 TAAATTGAATTTCAAAAAAAA
1 TAAATTGAATTTCAAAAAAAA
* *
1713336 TAAATTAAATTTCAAAAATAA
1 TAAATTGAATTTCAAAAAAAA
* *
1713357 TAAATTGAATTT-AGAGAAAA
1 TAAATTGAATTTCAAAAAAAA
1713377 TAAACTTAGAATTT
1 TAAA-TT-GAATTT
1713391 ATTAATAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.19
21 32 0.68
22 6 0.13
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (21 bp):
TAAATTGAATTTCAAAAAAAA
Found at i:1716888 original size:20 final size:21
Alignment explanation
Indices: 1716863--1716913 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 21
1716853 TTGTACTCAA
1716863 ACCAGGC-ATATCTTGATAAG
1 ACCAGGCAATATCTTGATAAG
1716883 ACCAGGCGAAGATATCTTGATAAG
1 ACCAGGC--A-ATATCTTGATAAG
1716907 ACCAGGC
1 ACCAGGC
1716914 GAAGATATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.26
24 20 0.74
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (21 bp):
ACCAGGCAATATCTTGATAAG
Found at i:1716897 original size:24 final size:24
Alignment explanation
Indices: 1716870--1716924 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
1716860 CAAACCAGGC
1716870 ATATCTTGATAAGACCAGGCGAAG
1 ATATCTTGATAAGACCAGGCGAAG
1716894 ATATCTTGATAAGACCAGGCGAAG
1 ATATCTTGATAAGACCAGGCGAAG
1716918 ATATCTT
1 ATATCTT
1716925 TGAACTCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (24 bp):
ATATCTTGATAAGACCAGGCGAAG
Found at i:1721099 original size:15 final size:15
Alignment explanation
Indices: 1721076--1721107 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1721066 TGCAATGAAT
1721076 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
1721091 AATGCATGTATGCAA
1 AATGAATGTATGCAA
1721106 AA
1 AA
1721108 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:1726577 original size:3 final size:3
Alignment explanation
Indices: 1726569--1726607 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1726559 ATTAATTATT
*
1726569 TAA TAA TAA TAA T-A TAA -CA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1726608 TAAGCAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 3 0.09
3 29 0.91
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1726603 original size:25 final size:25
Alignment explanation
Indices: 1726569--1726618 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1726559 ATTAATTATT
1726569 TAATAATAATAATATAA-CATAATAA
1 TAATAATAATAATATAAGCA-AATAA
1726594 TAATAATAATAATATAAGCAAATAA
1 TAATAATAATAATATAAGCAAATAA
1726619 GAAAAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (25 bp):
TAATAATAATAATATAAGCAAATAA
Found at i:1728234 original size:19 final size:19
Alignment explanation
Indices: 1728188--1728240 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
1728178 TTAGCCCAAG
*
1728188 AGTATCGATACTCCTACAAA
1 AGTATCGATACT-TTACAAA
* * *
1728208 AGTTTCGATACTTTATATA
1 AGTATCGATACTTTACAAA
1728227 AGTATCGATACTTT
1 AGTATCGATACTTT
1728241 TAAACATTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (19 bp):
AGTATCGATACTTTACAAA
Found at i:1729455 original size:21 final size:21
Alignment explanation
Indices: 1729430--1729486 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
1729420 AATTGCATTA
1729430 CGATTTTCCAAATTCGCGTTG
1 CGATTTTCCAAATTCGCGTTG
*
1729451 CGATTTTCCAAATTTGCGTTG
1 CGATTTTCCAAATTCGCGTTG
*
1729472 CGATATTCCAAATTC
1 CGATTTTCCAAATTC
1729487 TCAACGCGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (21 bp):
CGATTTTCCAAATTCGCGTTG
Found at i:1729505 original size:20 final size:20
Alignment explanation
Indices: 1729480--1729584 Score: 183
Period size: 20 Copynumber: 5.2 Consensus size: 20
1729470 TGCGATATTC
*
1729480 CAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
1729500 CAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
1729520 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
1729540 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
1729560 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
1729580 CAAAT
1 CAAAT
1729585 GTTTTTACGC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:1729727 original size:22 final size:22
Alignment explanation
Indices: 1729699--1729761 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
1729689 ATCTCTCATT
*
1729699 ATCTCCGACGAAATTCGTCCCC
1 ATCTCCGACGAAATCCGTCCCC
*
1729721 ATCTCCGATGAAATCCGTCCCC
1 ATCTCCGACGAAATCCGTCCCC
*
1729743 ATCTCCGACAAAATCCGTC
1 ATCTCCGACGAAATCCGTC
1729762 TATCTCCATC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.25, C:0.40, G:0.13, T:0.22
Consensus pattern (22 bp):
ATCTCCGACGAAATCCGTCCCC
Found at i:1730069 original size:19 final size:20
Alignment explanation
Indices: 1730042--1730087 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
1730032 AAAATGAAAC
*
1730042 TCGCATTACGATTTTCA-TT
1 TCGCGTTACGATTTTCATTT
1730061 TCGCGTTACGATTTTCATTT
1 TCGCGTTACGATTTTCATTT
1730081 TCGCGTT
1 TCGCGTT
1730088 GCGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (20 bp):
TCGCGTTACGATTTTCATTT
Found at i:1730102 original size:20 final size:20
Alignment explanation
Indices: 1730059--1730102 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1730049 ACGATTTTCA
* * *
1730059 TTTCGCGTTACGATTTTCAT
1 TTTCGCGTTACGAATTTAAG
*
1730079 TTTCGCGTTGCGAATTTAAG
1 TTTCGCGTTACGAATTTAAG
1730099 TTTC
1 TTTC
1730103 AGAAACTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (20 bp):
TTTCGCGTTACGAATTTAAG
Found at i:1732293 original size:42 final size:42
Alignment explanation
Indices: 1732246--1732345 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
1732236 GCCCGATGCA
* * * *
1732246 CCTATCATCATTCAAGAGGCGCCTCCTATCGTTCAAGAGGCC
1 CCTATCATCATTCAAGAAGCCCCTCCCACCGTTCAAGAGGCC
1732288 CCTATCATCA-TCGAAGAAGCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCATTC-AAGAAGCCCCTCCCACCGTTCAAGAGGCC
* * *
1732330 ACTGTCATCGTTCAAG
1 CCTATCATCATTCAAG
1732346 TGGTCTCGTC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
41 2 0.04
42 45 0.92
43 2 0.04
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (42 bp):
CCTATCATCATTCAAGAAGCCCCTCCCACCGTTCAAGAGGCC
Found at i:1732341 original size:21 final size:21
Alignment explanation
Indices: 1732246--1732345 Score: 78
Period size: 21 Copynumber: 4.8 Consensus size: 21
1732236 GCCCGATGCA
* *
1732246 CCTATCATCATTCAAGAGGCG
1 CCTATCATCGTTCAAGAGGCC
*
1732267 CCT-CCTATCGTTCAAGAGGCC
1 CCTATC-ATCGTTCAAGAGGCC
* *
1732288 CCTATCATC-ATCGAAGAAGCC
1 CCTATCATCGTTC-AAGAGGCC
** *
1732309 CCTCCCACCGTTCAAGAGGCC
1 CCTATCATCGTTCAAGAGGCC
* *
1732330 ACTGTCATCGTTCAAG
1 CCTATCATCGTTCAAG
1732346 TGGTCTCGTC
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
20 3 0.05
21 54 0.90
22 3 0.05
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (21 bp):
CCTATCATCGTTCAAGAGGCC
Found at i:1733801 original size:61 final size:66
Alignment explanation
Indices: 1733718--1733855 Score: 162
Period size: 66 Copynumber: 2.2 Consensus size: 66
1733708 TTTTACATTG
1733718 AAAGTTGA-TTTGTTACAATTGATGAGGAAATAAG-A-T-TTATTTT-TTGATTAATTGATTTGT
1 AAAGTTGATTTTGTTACAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGT
1733778 A
66 A
* * ** * * *
1733779 AAAGTTGATTTTTTTA-ATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTG
1 AAAGTTGATTTTGTTACAATTGATGAGGAAATAAGAATTATTATTTT-CTTGATTAATTGATTTG
1733843 TA
65 TA
1733845 AAAGTTGATTT
1 AAAGTTGATTT
1733856 GTTGTTTCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
61 22 0.34
62 7 0.11
63 1 0.02
64 6 0.09
66 28 0.44
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (66 bp):
AAAGTTGATTTTGTTACAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGT
A
Found at i:1733821 original size:31 final size:29
Alignment explanation
Indices: 1733745--1733824 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 29
1733735 ATTGATGAGG
1733745 AAATAAGATTTATTTTTTGATTAATTGATTTGT
1 AAATAAGA-TTA-TTTTT--TTAATTGATTTGT
1733778 -AA-AAG-TTGATTTTTTTAATTTGATTTGT
1 AAATAAGATT-ATTTTTTTAA-TTGATTTGT
1733806 AAATAAGAATTATTTTTTT
1 AAATAAG-ATTATTTTTTT
1733825 GCTTGTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
27 4 0.10
28 9 0.22
29 9 0.22
30 4 0.10
31 11 0.27
32 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (29 bp):
AAATAAGATTATTTTTTTAATTGATTTGT
Found at i:1733999 original size:20 final size:21
Alignment explanation
Indices: 1733940--1733999 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
1733930 CGATTTTCGG
*
1733940 GTTGCGAATTTGAGTTTCG-T
1 GTTGCGAATTTGACTTTCGCT
*
1733960 GTTGCGAAATTGACTTTCGCT
1 GTTGCGAATTTGACTTTCGCT
*
1733981 -TTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTCGC
1734000 AATACTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (21 bp):
GTTGCGAATTTGACTTTCGCT
Found at i:1734344 original size:18 final size:18
Alignment explanation
Indices: 1734321--1734356 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1734311 AAGTCGGTTG
*
1734321 TGATTGGGATTTTAATTT
1 TGATTGCGATTTTAATTT
*
1734339 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTAATTT
1734357 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTAATTT
Found at i:1736650 original size:24 final size:24
Alignment explanation
Indices: 1736616--1736669 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1736606 CCATCACATC
1736616 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1736640 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1736664 ATCAAA
1 ATCAAA
1736670 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1736683 original size:24 final size:24
Alignment explanation
Indices: 1736616--1736683 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1736606 CCATCACATC
* * *
1736616 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1736640 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1736664 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1736684 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1737631 original size:19 final size:19
Alignment explanation
Indices: 1737604--1737673 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
1737594 TTAAATTCGC
*
1737604 GTTGGGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
1737623 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
* ** *
1737642 GTTACGAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTC-A
1737662 GTTGCGAATTTG
1 GTTGCGAATTTG
1737674 GAATATCGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 33 0.75
20 11 0.25
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:1737689 original size:21 final size:21
Alignment explanation
Indices: 1737665--1737710 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1737655 CTTTCGCGTT
*
1737665 GCGAATTTGGAATATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
*
1737686 GCGAATTTGGAAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
1737707 GCGA
1 GCGA
1737711 TTTACATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:1743461 original size:20 final size:20
Alignment explanation
Indices: 1743436--1743488 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1743426 GGAGGAAATT
1743436 TTTGGGGATTTTGACATGGA
1 TTTGGGGATTTTGACATGGA
1743456 TTTGGGGATTTTGACATGGA
1 TTTGGGGATTTTGACATGGA
1743476 TTTGGGGATTTTG
1 TTTGGGGATTTTG
1743489 GTTCTTACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.04, G:0.36, T:0.43
Consensus pattern (20 bp):
TTTGGGGATTTTGACATGGA
Found at i:1744515 original size:19 final size:18
Alignment explanation
Indices: 1744491--1744537 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
1744481 AGAGACGAAA
1744491 ATATAATTTTAATAAAAAT
1 ATATAATTTT-ATAAAAAT
* *
1744510 ATATAATTTTTTAAATAT
1 ATATAATTTTATAAAAAT
1744528 ATGATAATTT
1 AT-ATAATTT
1744538 AAATTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATAATTTTATAAAAAT
Found at i:1745203 original size:12 final size:12
Alignment explanation
Indices: 1745186--1745210 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1745176 TCTAATAAGG
1745186 TATAATTGATTT
1 TATAATTGATTT
1745198 TATAATTGATTT
1 TATAATTGATTT
1745210 T
1 T
1745211 TTTATTCATT
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:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TATAATTGATTT
Found at i:1748453 original size:26 final size:27
Alignment explanation
Indices: 1748402--1748453 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
1748392 GGTATACTTC
* *
1748402 ATGTCATGTTTAATAGTTTTTTGTTTA
1 ATGTAATGTTTAATAGTTTGTTGTTTA
*
1748429 ATGTAATGTTTACT-GTTTGTTGTTT
1 ATGTAATGTTTAATAGTTTGTTGTTT
1748454 TTATAGTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.19, C:0.04, G:0.17, T:0.60
Consensus pattern (27 bp):
ATGTAATGTTTAATAGTTTGTTGTTTA
Found at i:1749417 original size:83 final size:83
Alignment explanation
Indices: 1749298--1749732 Score: 417
Period size: 83 Copynumber: 5.2 Consensus size: 83
1749288 TTTCCCCATT
* * * *
1749298 TTCAGAGAATATCTACCATGTCATGGTGTTTC-ATCCCATCCGAAATGAAAGGTGCATTCCAGGG
1 TTCAGAGAATCTCTATCATGTCATAGTG-TTCAATCCCATCCGAAATGAAAGGTGCGTTCCAGGG
*
1749362 GAAGCGTTTTCCATTATTA
65 GAAGCATTTTCCATTATTA
* * * **
1749381 TTTAGAGAATCTCTACCATGTCATAGTGTTCTATCCCATCCGAAATGAAAGGCACGTTCCAGGGG
1 TTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGTGCGTTCCAGGGG
* *
1749446 AAACATTTTCTATTATTA
66 AAGCATTTTCCATTATTA
* * * ** * * *
1749464 TTTAGAGAAT-TCATGTCATGTCATAGTGTTCAATCTCATTTGAAATAAAAGGTGCGTTTCATGG
1 TTCAGAGAATCTC-TATCATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGTGCGTTCCAGGG
* *
1749528 GAATCATTTTTCATTATTA
65 GAAGCATTTTCCATTATTA
** * * * * * * * * ** * *
1749547 TTGGGAGAATATTTATCTTGTCATATTGTTCAATACCATTCGAAACGAAATGCACGTTGCAAGGG
1 TTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGTGCGTTCCAGGGG
1749612 AA-CTATTTTCCATTATTA
66 AAGC-ATTTTCCATTATTA
* * * * * *
1749630 TTCATAGAATCTCTGTCATGTCATAGTGTTCCATCCCATCCGAAATGAAAAGCGCGTTTCAGGGG
1 TTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGTGCGTTCCAGGGG
*
1749695 AAGAAATTTTCCATTATTA
66 AAG-CATTTTCCATTATTA
*
1749714 TTCAGAGAATCTCTGTCAT
1 TTCAGAGAATCTCTATCAT
1749733 TTCACATAAT
Statistics
Matches: 288, Mismatches: 58, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
82 6 0.02
83 249 0.86
84 33 0.11
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (83 bp):
TTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCCATCCGAAATGAAAGGTGCGTTCCAGGGG
AAGCATTTTCCATTATTA
Found at i:1752036 original size:23 final size:23
Alignment explanation
Indices: 1751990--1752037 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1751980 TATATGGTAT
* *
1751990 TTCGGTGCAATTCTATGCGTCAC
1 TTCGGTGCAATTCTACGCGGCAC
*
1752013 TTCGGTGCAATTCTACGTGGCAC
1 TTCGGTGCAATTCTACGCGGCAC
1752036 TT
1 TT
1752038 AGGTACATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (23 bp):
TTCGGTGCAATTCTACGCGGCAC
Found at i:1755801 original size:24 final size:22
Alignment explanation
Indices: 1755761--1755837 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 22
1755751 ATGCAATTAA
1755761 TGCATCGATGCA---TAAGGAG
1 TGCATCGATGCACTGTAAGGAG
1755780 TGCATCGATGCACATGTTAAGG-G
1 TGCATCGATGCAC-TG-TAAGGAG
* *
1755803 ATGCATCGATACACTGT-A-GAA
1 -TGCATCGATGCACTGTAAGGAG
1755824 TGCATCGATGCACT
1 TGCATCGATGCACT
1755838 TCAAGGGGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 12 0.25
20 14 0.29
21 1 0.02
22 1 0.02
23 3 0.06
24 17 0.35
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACTGTAAGGAG
Found at i:1757425 original size:23 final size:23
Alignment explanation
Indices: 1757373--1757426 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1757363 ACATTTTATA
* * *
1757373 TGGCATTTTGGTGCAATTCTATG
1 TGGCACTTCGGTGCAATTCTACG
* *
1757396 CGTCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
1757419 TGGCACTT
1 TGGCACTT
1757427 AGGTACATTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1760189 original size:16 final size:16
Alignment explanation
Indices: 1760168--1760209 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
1760158 GAAAAAGGTA
1760168 ATTGAAAAGTTAAAGG
1 ATTGAAAAGTTAAAGG
1760184 ATTGAAAAGTTAAAGG
1 ATTGAAAAGTTAAAGG
1760200 ATTGAAAAGT
1 ATTGAAAAGT
1760210 AAGTTTACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (16 bp):
ATTGAAAAGTTAAAGG
Found at i:1761206 original size:24 final size:22
Alignment explanation
Indices: 1761166--1761242 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 22
1761156 ATGCAATTAA
1761166 TGCATCGATGCA---TAAGGAG
1 TGCATCGATGCACTGTAAGGAG
1761185 TGCATCGATGCACATGTTAAGG-G
1 TGCATCGATGCAC-TG-TAAGGAG
* *
1761208 ATGCATCGATACACTGT-A-GAA
1 -TGCATCGATGCACTGTAAGGAG
1761229 TGCATCGATGCACT
1 TGCATCGATGCACT
1761243 TCAAGGGGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 12 0.25
20 14 0.29
21 1 0.02
22 1 0.02
23 3 0.06
24 17 0.35
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACTGTAAGGAG
Found at i:1764909 original size:14 final size:14
Alignment explanation
Indices: 1764890--1764917 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1764880 CATAAAATCG
1764890 CTTAAACCTAAAAC
1 CTTAAACCTAAAAC
1764904 CTTAAACCTAAAAC
1 CTTAAACCTAAAAC
1764918 TATGGAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
CTTAAACCTAAAAC
Found at i:1773453 original size:2 final size:2
Alignment explanation
Indices: 1773446--1773474 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1773436 CCGATCCAAA
1773446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1773475 ATTTTATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1773577 original size:17 final size:18
Alignment explanation
Indices: 1773555--1773588 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1773545 TATTTTATTG
1773555 AATAAA-ATAATATTTTT
1 AATAAATATAATATTTTT
*
1773572 AATAAATATATTATTTT
1 AATAAATATAATATTTT
1773589 AGGTCGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATAAATATAATATTTTT
Found at i:1775164 original size:11 final size:11
Alignment explanation
Indices: 1775150--1775176 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1775140 TTGTTTACTT
1775150 TTTTTCTTTTG
1 TTTTTCTTTTG
1775161 TTTTTCTTTTG
1 TTTTTCTTTTG
1775172 TTTTT
1 TTTTT
1775177 TTGTTCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTG
Found at i:1775169 original size:19 final size:19
Alignment explanation
Indices: 1775137--1775181 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1775127 TTTATATATA
1775137 TTTTTG-TTTACTTTT-TT
1 TTTTTGTTTTACTTTTGTT
*
1775154 TCTTTTGTTTTTCTTTTGTT
1 T-TTTTGTTTTACTTTTGTT
1775174 TTTTTGTT
1 TTTTTGTT
1775182 CTTTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.21
19 15 0.62
20 3 0.12
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.82
Consensus pattern (19 bp):
TTTTTGTTTTACTTTTGTT
Found at i:1775311 original size:15 final size:15
Alignment explanation
Indices: 1775293--1775330 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1775283 GTTTTTATTT
1775293 TTGTTTTATTTAATG
1 TTGTTTTATTTAATG
*
1775308 TTGTTTTA-TTAATT
1 TTGTTTTATTTAATG
*
1775322 TTATTTTAT
1 TTGTTTTAT
1775331 CTTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (15 bp):
TTGTTTTATTTAATG
Found at i:1775328 original size:29 final size:27
Alignment explanation
Indices: 1775291--1775394 Score: 86
Period size: 28 Copynumber: 3.7 Consensus size: 27
1775281 TTGTTTTTAT
* *
1775291 TTTTGTTTTATTTAATGTTGTTTTATTAA
1 TTTTATTTTATTTAAT-TTATTTTATT-A
*
1775320 TTTTATTTTATCTTTATTTATTTTATTA
1 TTTTATTTTAT-TTAATTTATTTTATTA
* *
1775348 TTTTATTCTATTCT-ATTT-TTATTGTTA
1 TTTTATTTTATT-TAATTTATT-TTATTA
*
1775375 TCTTTATTTTATTTATTTTA
1 T-TTTATTTTATTTAATTTA
1775395 ATATTTTTCC
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
26 2 0.03
27 12 0.19
28 25 0.40
29 19 0.31
30 4 0.06
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (27 bp):
TTTTATTTTATTTAATTTATTTTATTA
Found at i:1775375 original size:6 final size:5
Alignment explanation
Indices: 1775285--1775394 Score: 77
Period size: 5 Copynumber: 22.0 Consensus size: 5
1775275 TGTCTTTTGT
* * * * *
1775285 TTTTA TTTTTG TTTTA TTTAA TGTTG TTTTA -TTAA TTTTA TTTTA TCTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA
* *
1775336 -TTTA TTTTA --TTA TTTTA TTCTA TTCTA TTTTTA TTGTTA TCTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TT-TTA T-TTTA
1775381 TTTTA -TTTA TTTTA
1 TTTTA TTTTA TTTTA
1775395 ATATTTTTCC
Statistics
Matches: 83, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
3 3 0.04
4 11 0.13
5 48 0.58
6 20 0.24
7 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:1777089 original size:24 final size:22
Alignment explanation
Indices: 1777045--1777086 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1777035 AATTTTGAAA
1777045 TTTTTATATTTTATTTTAAATC
1 TTTTTATATTTTATTTTAAATC
1777067 TTTTTATATTTT-TTATTAAA
1 TTTTTATATTTTATT-TTAAA
1777087 AATTTATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTATATTTTATTTTAAATC
Found at i:1778804 original size:2 final size:2
Alignment explanation
Indices: 1778799--1778829 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1778789 ATATGTTTAA
1778799 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1778830 TTTAGGATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1779568 original size:19 final size:19
Alignment explanation
Indices: 1779518--1779569 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
1779508 TATATTTTAA
1779518 ATATCTTAAC-TTAAATTTC
1 ATATCTTAACATT-AATTTC
* * *
1779537 ACATATTAA-ATTAATTTT
1 ATATCTTAACATTAATTTC
1779555 ATATCTTAACATTAA
1 ATATCTTAACATTAA
1779570 AAATATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATCTTAACATTAATTTC
Found at i:1779847 original size:25 final size:26
Alignment explanation
Indices: 1779818--1779871 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
1779808 CATATCTTTT
* *
1779818 ATTTTTATATTAACT-TAAAAATAT-
1 ATTTTTATATTAAATACAAAAATATA
*
1779842 ATTTTTATTTTAAATACAAAAATATA
1 ATTTTTATATTAAATACAAAAATATA
1779868 ATTT
1 ATTT
1779872 ATTTATATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.52
25 8 0.32
26 4 0.16
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTTTTATATTAAATACAAAAATATA
Found at i:1779852 original size:30 final size:29
Alignment explanation
Indices: 1779550--1779926 Score: 248
Period size: 30 Copynumber: 12.8 Consensus size: 29
1779540 TATTAAATTA
1779550 ATTTTATATCTTAACATTAAAAATATATTTT
1 ATTTT-TATCTTAAC-TTAAAAATATATTTT
* * * * * *
1779581 ATTTCTGTATTAACTTATTAAATACATATT
1 ATTTTTATCTTAACTTA-AAAATATATTTT
*
1779611 ATTCTTT-TCTTAACCTAAAAATATA-TTT
1 ATT-TTTATCTTAACTTAAAAATATATTTT
* *
1779639 ATTCTTATTTTAACTTAAAAATATATTTT
1 ATTTTTATCTTAACTTAAAAATATATTTT
* *
1779668 AGTCTTTATCTTAACTTAAAAATATACTTT
1 A-TTTTTATCTTAACTTAAAAATATATTTT
* * * * *
1779698 ATTCTTATCTTAACTTATTACATAAATTAT
1 ATTTTTATCTTAACTTA-AAAATATATTTT
* * * *
1779728 ATTCTTAACTTAAATTATTAAATATATTTT
1 ATTTTTATCTTAACTTA-AAAATATATTTT
* * * * *
1779758 ATTATTACCTTAAAC-TATTAAATATAATTA
1 ATTTTTATCTT-AACTTA-AAAATATATTTT
* * *
1779788 ATTATTATTTTAACTTAAAACATATCTTTT
1 ATTTTTATCTTAACTTAAAA-ATATATTTT
*
1779818 ATTTTTATATTAACTTAAAAATATATTTT
1 ATTTTTATCTTAACTTAAAAATATATTTT
** *
1779847 -TATTTTA-AAT-AC--AAAAATATAATTT
1 AT-TTTTATCTTAACTTAAAAATATATTTT
* * *
1779872 ATTTATATCTTAAATTTAAAAAATATATTAT
1 ATTTTTATCTT-AACTT-AAAAATATATTTT
* *
1779903 ATTTTTATCTTAAATTTAAAATAT
1 ATTTTTATCTTAACTTAAAAATAT
1779927 TATCATAATA
Statistics
Matches: 273, Mismatches: 56, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
25 16 0.06
26 2 0.01
27 4 0.01
28 25 0.09
29 52 0.19
30 145 0.53
31 29 0.11
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.50
Consensus pattern (29 bp):
ATTTTTATCTTAACTTAAAAATATATTTT
Found at i:1779897 original size:31 final size:31
Alignment explanation
Indices: 1779859--1779923 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
1779849 TTTTAAATAC
1779859 AAAAATATAATT-TATTTATATCTTAAATTTA
1 AAAAATAT-ATTATATTTATATCTTAAATTTA
*
1779890 AAAAATATATTATATTTTTATCTTAAATTTA
1 AAAAATATATTATATTTATATCTTAAATTTA
1779921 AAA
1 AAA
1779924 TATTATCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
AAAAATATATTATATTTATATCTTAAATTTA
Found at i:1779989 original size:31 final size:31
Alignment explanation
Indices: 1779954--1780070 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 31
1779944 AATATTTAAG
1779954 TTAAGATAAGAATAAATTATATTTTTTAAAT
1 TTAAGATAAGAATAAATTATATTTTTTAAAT
*
1779985 TTAAGATATA-AATAAATTATATAAAATATTTAAATTT
1 TTAAGATA-AGAATAAATTATAT----TTTTTAAA--T
**
1780022 AGGTTAAGATAAGAATAAAACATATTTTTTAAA-
1 ---TTAAGATAAGAATAAATTATATTTTTTAAAT
*
1780055 TTAAAATAAGAATAAA
1 TTAAGATAAGAATAAA
1780071 ATGCATTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 23
0.71 0.05 0.23
Matches are distributed among these distances:
30 15 0.21
31 20 0.29
32 1 0.01
35 7 0.10
36 7 0.10
37 1 0.01
39 1 0.01
40 18 0.26
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (31 bp):
TTAAGATAAGAATAAATTATATTTTTTAAAT
Found at i:1780417 original size:17 final size:16
Alignment explanation
Indices: 1780386--1780420 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1780376 TGATTGGTGA
1780386 AAAAACATATTAAATT
1 AAAAACATATTAAATT
* *
1780402 AAAAATATATTAAAAT
1 AAAAACATATTAAATT
1780418 AAA
1 AAA
1780421 TTTAATCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAACATATTAAATT
Found at i:1781978 original size:17 final size:16
Alignment explanation
Indices: 1781947--1781981 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1781937 TTGATTGGTG
1781947 AAAAACATATTAAATT
1 AAAAACATATTAAATT
* *
1781963 AAAAATATATTAAAAT
1 AAAAACATATTAAATT
1781979 AAA
1 AAA
1781982 TTTAATCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAACATATTAAATT
Found at i:1782807 original size:22 final size:22
Alignment explanation
Indices: 1782779--1782822 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1782769 CACTCTCTCA
1782779 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1782801 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1782823 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1783105 original size:20 final size:20
Alignment explanation
Indices: 1783080--1783117 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1783070 CGATTCTCTC
1783080 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
1783100 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
1783118 CGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:1784035 original size:18 final size:18
Alignment explanation
Indices: 1784014--1784058 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1784004 TCCACTTCGG
*
1784014 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
1784032 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
1784050 GAGCCATCA
1 GAGCCATCA
1784059 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1784464 original size:17 final size:15
Alignment explanation
Indices: 1784430--1784460 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1784420 GCTGCCAATA
1784430 TGTTTTTGTTATATT
1 TGTTTTTGTTATATT
*
1784445 TGTTTTTGTTTTATT
1 TGTTTTTGTTATATT
1784460 T
1 T
1784461 TTGTCTTTTG
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:0.10, C:0.00, G:0.13, T:0.77
Consensus pattern (15 bp):
TGTTTTTGTTATATT
Found at i:1784550 original size:19 final size:20
Alignment explanation
Indices: 1784526--1784570 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1784516 TAGTTTACTT
1784526 TCGCAACAC-GAAATGACTA
1 TCGCAACACGGAAATGACTA
* *
1784545 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGGAAATGACTA
1784565 TCGCAA
1 TCGCAA
1784571 TGCGAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.16
Consensus pattern (20 bp):
TCGCAACACGGAAATGACTA
Found at i:1784699 original size:18 final size:19
Alignment explanation
Indices: 1784648--1784710 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 19
1784638 GCGATTTTGT
*
1784648 CGTTGCGAT-TTCATTTCG
1 CGTTGCGATAATCATTTCG
* **
1784666 CATTGCGATAGCCATTTC-
1 CGTTGCGATAATCATTTCG
1784684 CGTTGCGATAATCA-TTCG
1 CGTTGCGATAATCATTTCG
1784702 CGTTGCGAT
1 CGTTGCGAT
1784711 TTTAAGTTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
17 3 0.08
18 28 0.76
19 6 0.16
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAATCATTTCG
Found at i:1786812 original size:21 final size:21
Alignment explanation
Indices: 1786746--1786812 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1786736 GTGAATCGGG
*
1786746 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1786766 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1786788 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1786809 CTCT
1 CTCT
1786813 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1786831 original size:42 final size:41
Alignment explanation
Indices: 1786746--1786868 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
1786736 GTGAATCGGG
* * * * *
1786746 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
1786788 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * * *
1786830 CTATTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
1786869 CGATTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:1788949 original size:33 final size:33
Alignment explanation
Indices: 1788892--1788990 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
1788882 ACGAGATAAT
*
1788892 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
1788926 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
1788959 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
1788991 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:1788984 original size:19 final size:19
Alignment explanation
Indices: 1788867--1789032 Score: 136
Period size: 20 Copynumber: 9.1 Consensus size: 19
1788857 TCTTTTGGTT
*
1788867 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1788886 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1788906 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
1788924 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
1788940 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
1788958 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1788973 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
1788993 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1789012 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1789031 GA
1 GA
1789033 TTTTGGTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
14 19 0.16
15 3 0.03
16 2 0.02
17 1 0.01
18 4 0.03
19 43 0.36
20 45 0.38
21 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1789061 original size:19 final size:19
Alignment explanation
Indices: 1789028--1789094 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1789018 AAAATCGCAA
**
1789028 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
1789047 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
1789066 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
1789086 TGCGATTTT
1 TGCGATTTT
1789095 CATCCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:1789685 original size:21 final size:21
Alignment explanation
Indices: 1789652--1789752 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 21
1789642 TGCGAAAGTA
* * *
1789652 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
1789673 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
*
1789693 AGTATCGCATTGCGATTTTCCC
1 AGTATCGCATTGCGATTTT-TC
* *
1789715 AAT-TCGCGTTGCGATTTACTT-
1 AGTATCGCATTGCGATTT--TTC
1789736 A-T-TCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
1789753 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.02
20 30 0.48
21 27 0.44
22 3 0.05
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:1789708 original size:20 final size:20
Alignment explanation
Indices: 1789615--1789708 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
1789605 CGCTATGTAA
*
1789615 ATCGCGTTGCGAAAGTTAGT
1 ATCGCGTTGCGATAGTTAGT
* *
1789635 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTTAGT
* ** *
1789655 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTTAGT
* *
1789676 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTTAGT
*
1789696 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
1789709 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTTAGT
Found at i:1789727 original size:41 final size:41
Alignment explanation
Indices: 1789636--1789770 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
1789626 AAAGTTAGTA
* * * ** *
1789636 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
1789676 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
1789718 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
1789759 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1789771 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:1789762 original size:21 final size:20
Alignment explanation
Indices: 1789697--1789789 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
1789687 ATAGTCAGTA
*
1789697 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
1789718 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
1789738 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
1789759 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
1789779 TCGCATTGCGA
1 TCGCATTGCGA
1789790 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:1789771 original size:41 final size:41
Alignment explanation
Indices: 1789697--1789789 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
1789687 ATAGTCAGTA
1789697 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1789738 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1789779 TCGCATTGCGA
1 TCGCATTGCGA
1789790 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:1792960 original size:2 final size:2
Alignment explanation
Indices: 1792955--1792986 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1792945 TACTTATTTA
1792955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1792987 TCAAAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1796904 original size:14 final size:16
Alignment explanation
Indices: 1796887--1796920 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1796877 GATTAAATTG
1796887 AAAAAT-AAATAATAA
1 AAAAATAAAATAATAA
1796902 AAAAATCAAAATAATAA
1 AAAAAT-AAAATAATAA
1796919 AA
1 AA
1796921 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAATAAAATAATAA
Found at i:1799416 original size:20 final size:21
Alignment explanation
Indices: 1799378--1799417 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1799368 TCTGAGCAAG
*
1799378 AGTATTGATACTAGGATGAAC
1 AGTATCGATACTAGGATGAAC
1799399 AGTATCGATACT-GGATGAA
1 AGTATCGATACTAGGATGAA
1799418 TTGGGGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (21 bp):
AGTATCGATACTAGGATGAAC
Found at i:1802409 original size:23 final size:23
Alignment explanation
Indices: 1802383--1802428 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1802373 CACCACAGCT
*
1802383 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
1802406 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1802429 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1802669 original size:151 final size:153
Alignment explanation
Indices: 1802408--1802715 Score: 584
Period size: 151 Copynumber: 2.0 Consensus size: 153
1802398 AAGTGCCACG
1802408 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAAAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAAAATCA
1802473 TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAG-A-ATATA
66 TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
1802536 TATATATATCCCGAAGGACCGCA
131 TATATATATCCCGAAGGACCGCA
*
1802559 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAAAATCA
1802624 TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
66 TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
*
1802689 TATATATATCCCGAAGGACCGCG
131 TATATATATCCCGAAGGACCGCA
1802712 TAGA
1 TAGA
1802716 CCCTCTATCC
Statistics
Matches: 153, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
151 121 0.79
152 1 0.01
153 31 0.20
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (153 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAAAATCA
TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
TATATATATCCCGAAGGACCGCA
Found at i:1803283 original size:63 final size:63
Alignment explanation
Indices: 1803171--1803329 Score: 194
Period size: 63 Copynumber: 2.5 Consensus size: 63
1803161 TAATGGAGGC
* * * ** *
1803171 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCAT-TTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTAAATGTTCATATTTA-AAGAA
** **
1803234 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTAAATGTTTGTATTTAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTAAATGTTCATATTTAAAGAA
* *
1803297 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
1803330 CTTCAACAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 79 0.95
64 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTAAATGTTCATATTTAAAGAA
Found at i:1803321 original size:19 final size:20
Alignment explanation
Indices: 1803297--1803334 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1803287 ATTTAAATTA
1803297 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
1803316 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
1803335 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:1806840 original size:21 final size:20
Alignment explanation
Indices: 1806811--1806871 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
1806801 GGATTTCAGA
1806811 TCAAGAGTATTGATACTTTACC
1 TCAAGAGTATTGATACTTT--C
*
1806833 TC-AGAGTATCT-ATACTTTT
1 TCAAGAGTAT-TGATACTTTC
*
1806852 TCAAGAGTATTGATATTTTC
1 TCAAGAGTATTGATACTTTC
1806872 CTTATAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
19 3 0.09
20 13 0.39
21 14 0.42
22 3 0.09
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (20 bp):
TCAAGAGTATTGATACTTTC
Found at i:1808364 original size:15 final size:16
Alignment explanation
Indices: 1808344--1808378 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1808334 TAACACCTTC
*
1808344 TAAAAAAT-ATAAAAA
1 TAAAAAATGAGAAAAA
1808359 TAAAAAATGAGAAAAA
1 TAAAAAATGAGAAAAA
1808375 TAAA
1 TAAA
1808379 TTAATTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
TAAAAAATGAGAAAAA
Found at i:1818323 original size:21 final size:20
Alignment explanation
Indices: 1818194--1818405 Score: 127
Period size: 20 Copynumber: 10.6 Consensus size: 20
1818184 AAATGACCAA
* *
1818194 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACGCGAATTT
* * * *
1818214 CAATTTCACAAC-CCAGTTT
1 CAAATTCGCAACGCGAATTT
*
1818233 CCAAATTCGTAACGCGAATCTGT
1 -CAAATTCGCAACGCGAAT-T-T
1818256 -AAA-TCGCAACGCGAATATGT
1 CAAATTCGCAACGCGAAT-T-T
1818276 -AAA-TCGCAACGCGAATCTGT
1 CAAATTCGCAACGCGAAT-T-T
1818296 -AAA-TCGCAACGCGGAATTT
1 CAAATTCGCAACGC-GAATTT
*
1818315 CAAATTCGCAACACGGAATTT
1 CAAATTCGCAACGC-GAATTT
* *
1818336 CAAATTCGGAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
* ** *
1818355 CAAATTCACAACTAGATTTT
1 CAAATTCGCAACGCGAATTT
* *
1818375 CGAATTCGCAACACGAATTT
1 CAAATTCGCAACGCGAATTT
*
1818395 -AATTTCGCAAC
1 CAAATTCGCAAC
1818406 AGGTTTTAGT
Statistics
Matches: 156, Mismatches: 28, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
19 29 0.19
20 89 0.57
21 36 0.23
22 1 0.01
23 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:1818354 original size:19 final size:21
Alignment explanation
Indices: 1818299--1818406 Score: 102
Period size: 19 Copynumber: 5.4 Consensus size: 21
1818289 AATCTGTAAA
*
1818299 TCGCAACGCGGAATTTCAAAT
1 TCGCAACACGGAATTTCAAAT
1818320 TCGCAACACGGAATTTCAAAT
1 TCGCAACACGGAATTTCAAAT
* *
1818341 TCG-GA-ACTGAATTTCAAAT
1 TCGCAACACGGAATTTCAAAT
* * *
1818360 TCACAACTA--GATTTTCGAAT
1 TCGCAAC-ACGGAATTTCAAAT
*
1818380 TCGCAACAC-GAATTT-AATT
1 TCGCAACACGGAATTTCAAAT
1818399 TCGCAACA
1 TCGCAACA
1818407 GGTTTTAGTT
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
19 26 0.36
20 22 0.31
21 23 0.32
22 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (21 bp):
TCGCAACACGGAATTTCAAAT
Found at i:1818597 original size:16 final size:15
Alignment explanation
Indices: 1818562--1818600 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1818552 TCCCCATCTC
*
1818562 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
1818577 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
1818593 TAATTTTT
1 TAATTTTT
1818601 CAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:1822215 original size:25 final size:25
Alignment explanation
Indices: 1822177--1822226 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1822167 AAATCAATTA
*
1822177 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1822202 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1822227 GAAAATAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:1822624 original size:18 final size:18
Alignment explanation
Indices: 1822603--1822639 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1822593 GTAATTGGAG
1822603 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1822621 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1822639 T
1 T
1822640 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1822646 original size:24 final size:24
Alignment explanation
Indices: 1822595--1822647 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1822585 TTTCATATGT
* * *
1822595 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
1822619 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
1822643 AATTT
1 AATTT
1822648 CGACTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:1823619 original size:18 final size:18
Alignment explanation
Indices: 1823596--1823631 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1823586 AAGCAAAAGG
*
1823596 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
1823614 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
1823632 CAACTGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:1824166 original size:66 final size:63
Alignment explanation
Indices: 1824084--1824226 Score: 241
Period size: 66 Copynumber: 2.2 Consensus size: 63
1824074 AATTTAAAAC
1824084 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGC--AAAAATAATTCTTATTTACACATC-AATT
1824149 A
63 A
* *
1824150 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAATAATTCTTATTTACACATCAATTA
1824213 AACAAATCAACTTT
1 AACAAATCAACTTT
1824227 CAATGTAAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
63 19 0.25
64 22 0.29
66 34 0.45
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.30
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAATAATTCTTATTTACACATCAATTA
Found at i:1825631 original size:21 final size:21
Alignment explanation
Indices: 1825607--1825704 Score: 92
Period size: 21 Copynumber: 4.7 Consensus size: 21
1825597 CGGGCGGGAT
*
1825607 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
1825628 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
1825649 TTCTTCG-ATGATGAGAGGGGC
1 CTCTT-GAACGATGAGAGGGGC
**
1825670 CTCTTGAACGAT-AGGAGACGC
1 CTCTTGAACGATGA-GAGGGGC
*
1825691 CTCTTGAATGATGA
1 CTCTTGAACGATGA
1825705 TAGGTGCATC
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.03
21 57 0.93
22 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:1825633 original size:42 final size:42
Alignment explanation
Indices: 1825586--1825679 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
1825576 ATGAATCGGG
* *
1825586 CTCTTGAACGGCGGG-CGGGATCTCTT-GAACGATGACAGGGGC
1 CTCTTGAACGGCGGGAGGGGCT-TCTTCG-ACGATGACAGGGGC
* * *
1825628 CTCTTGAACGGTGGGAGGGGCTTCTTCGATGATGAGAGGGGC
1 CTCTTGAACGGCGGGAGGGGCTTCTTCGACGATGACAGGGGC
1825670 CTCTTGAACG
1 CTCTTGAACG
1825680 ATAGGAGACG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 40 0.89
43 5 0.11
ACGTcount: A:0.18, C:0.21, G:0.38, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGCGGGAGGGGCTTCTTCGACGATGACAGGGGC
Found at i:1825702 original size:42 final size:42
Alignment explanation
Indices: 1825607--1825704 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
1825597 CGGGCGGGAT
* * * **
1825607 CTCTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGGGC
1 CTCTTGAATGATGACAGGGGCCTCTTGAACGATAGGAGACGC
* *
1825649 TTCTTCG-ATGATGAGAGGGGCCTCTTGAACGATAGGAGACGC
1 CTCTT-GAATGATGACAGGGGCCTCTTGAACGATAGGAGACGC
1825691 CTCTTGAATGATGA
1 CTCTTGAATGATGA
1825705 TAGGTGCATC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (42 bp):
CTCTTGAATGATGACAGGGGCCTCTTGAACGATAGGAGACGC
Found at i:1827964 original size:21 final size:20
Alignment explanation
Indices: 1827910--1827957 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1827900 GAAACTAAAA
1827910 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCATTT
*
1827930 TCGCGTTGCGATTTTTATTT
1 TCGCGTTGCGATTTTCATTT
*
1827950 TCGTGTTG
1 TCGCGTTG
1827958 TGAATTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.08, C:0.17, G:0.23, T:0.52
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATTT
Found at i:1828334 original size:22 final size:22
Alignment explanation
Indices: 1828299--1828363 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
1828289 TCTGAGAGAT
1828299 GGAGATA--GACGGATTTCGCC
1 GGAGATAGGGACGGATTTCGCC
* *
1828319 TGAGATAGGGACGGATTTCGTC
1 GGAGATAGGGACGGATTTCGCC
* *
1828341 GGAGATGGGGACGGATGTCGCC
1 GGAGATAGGGACGGATTTCGCC
1828363 G
1 G
1828364 TAGAGAGTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 6 0.16
22 31 0.84
ACGTcount: A:0.22, C:0.17, G:0.42, T:0.20
Consensus pattern (22 bp):
GGAGATAGGGACGGATTTCGCC
Found at i:1828491 original size:20 final size:20
Alignment explanation
Indices: 1828466--1828663 Score: 183
Period size: 20 Copynumber: 9.9 Consensus size: 20
1828456 TAATATTGTG
*
1828466 TTTCGCGTTGTGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
1828486 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
1828506 TTTCGCGTTACGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
1828526 TTTCGCGTTGGGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* * *
1828546 TTTTGTGTTGCGAATTTGGC
1 TTTCGCGTTGCGAATTTGAC
*
1828566 TATCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* *
1828586 TTAT-GTGCTGCG-ATTT-AC
1 TT-TCGCGTTGCGAATTTGAC
*
1828604 AAATTCGCGTTGCG-ATTT-AC
1 --TTTCGCGTTGCGAATTTGAC
* *
1828624 AGATTCGCGTTGCGAAATTGGA-
1 --TTTCGCGTTGCG-AATTTGAC
*
1828646 GTTCGCGTTGCGAATTTG
1 TTTCGCGTTGCGAATTTG
1828664 TTGGTTATTA
Statistics
Matches: 149, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.01
19 10 0.07
20 132 0.89
21 1 0.01
22 3 0.02
23 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.26, T:0.39
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:1829039 original size:14 final size:14
Alignment explanation
Indices: 1829020--1829076 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
1829010 AATCTATTCG
1829020 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
1829034 TTTATGTTCG----
1 TTTATGTTCGTTCA
*
1829044 TTTATGTTCGTCCA
1 TTTATGTTCGTTCA
*
1829058 TTTATGTTCGTTCG
1 TTTATGTTCGTTCA
1829072 TTTAT
1 TTTAT
1829077 ATTCATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 10 0.27
14 27 0.73
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:1829046 original size:24 final size:24
Alignment explanation
Indices: 1829016--1829069 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
1829006 CGGTAATCTA
*
1829016 TTCGTTTATGTTCGTTCATTTATG
1 TTCGTTTATGTTCGTCCATTTATG
1829040 TTCGTTTATGTTCGTCCATTTATG
1 TTCGTTTATGTTCGTCCATTTATG
1829064 TTCGTT
1 TTCGTT
1829070 CGTTTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.11, C:0.15, G:0.17, T:0.57
Consensus pattern (24 bp):
TTCGTTTATGTTCGTCCATTTATG
Found at i:1829064 original size:38 final size:37
Alignment explanation
Indices: 1829020--1829094 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 37
1829010 AATCTATTCG
* *
1829020 TTTATGTTCGTTCATTTATGTTCGTTTATGTTCGTCCA
1 TTTATGTTCGTTCATTTATATTCATTTATGTTC-TCCA
*
1829058 TTTATGTTCGTTCGTTTATATTCATTTATGTTCTCCA
1 TTTATGTTCGTTCATTTATATTCATTTATGTTCTCCA
1829095 GACCATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 4 0.12
38 30 0.88
ACGTcount: A:0.15, C:0.16, G:0.13, T:0.56
Consensus pattern (37 bp):
TTTATGTTCGTTCATTTATATTCATTTATGTTCTCCA
Found at i:1829324 original size:18 final size:18
Alignment explanation
Indices: 1829270--1829316 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
1829260 ATTAATTTTA
1829270 TGTTCATTTGTTTATGTT
1 TGTTCATTTGTTTATGTT
*
1829288 TGTTCGTTTGTTTATGTT
1 TGTTCATTTGTTTATGTT
1829306 TGTTCATTTGT
1 TGTTCATTTGT
1829317 GTTCGTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.09, C:0.06, G:0.19, T:0.66
Consensus pattern (18 bp):
TGTTCATTTGTTTATGTT
Found at i:1832088 original size:17 final size:17
Alignment explanation
Indices: 1832068--1832103 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1832058 CACAAGAAAG
1832068 CTTCAAGTCCAAAAAAT
1 CTTCAAGTCCAAAAAAT
1832085 CTTCAAGTCCAAAAAAT
1 CTTCAAGTCCAAAAAAT
1832102 CT
1 CT
1832104 ATTTTTCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (17 bp):
CTTCAAGTCCAAAAAAT
Found at i:1833345 original size:2 final size:2
Alignment explanation
Indices: 1833338--1833370 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1833328 TATCACAATA
1833338 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1833371 ATCAAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1833651 original size:35 final size:36
Alignment explanation
Indices: 1833582--1833651 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
1833572 TTACAGATCA
*
1833582 CAACCTATTTCTTAGTGAATCATGACATTCTTGGCG
1 CAACCTATTTCTTAGTGAATCATAACATTCTTGGCG
* *
1833618 CAACCTTATTTCTTA-T-ATTCATAACATTTTTGGC
1 CAACC-TATTTCTTAGTGAATCATAACATTCTTGGC
1833652 TTTTAACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 15 0.50
36 6 0.20
37 9 0.30
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.41
Consensus pattern (36 bp):
CAACCTATTTCTTAGTGAATCATAACATTCTTGGCG
Found at i:1834349 original size:2 final size:2
Alignment explanation
Indices: 1834342--1834369 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1834332 TATAAAAATA
1834342 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1834370 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1835121 original size:46 final size:47
Alignment explanation
Indices: 1835035--1835125 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 47
1835025 TTCTAATAGA
* *
1835035 GTGCTACTTAAAATGTTATTTTTTTTTACCAGAAATATTAATATCGG
1 GTGCTACCTAAAATGTTATTTTTTTCTACCAGAAATATTAATATCGG
1835082 GTGCTACCTAAAATGTTA-TTTTTTCTACC-GAAAATATTAATATC
1 GTGCTACCTAAAATGTTATTTTTTTCTACCAG-AAATATTAATATC
1835126 CGAAATATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
45 1 0.02
46 23 0.56
47 17 0.41
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (47 bp):
GTGCTACCTAAAATGTTATTTTTTTCTACCAGAAATATTAATATCGG
Done.