Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007993.1 Hibiscus syriacus cultivar Beakdansim tig00110443_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: 2245901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 12
Found at i:1923959 original size:55 final size:55
Alignment explanation
Indices: 1923895--1924595 Score: 783
Period size: 55 Copynumber: 12.8 Consensus size: 55
1923885 CGACTAGCGG
* ** *
1923895 GTTCGCTCCCTATTACTTCAGAGAGTAT-AGAACTCGAACAATCTTCTGTCAA-CGG
1 GTTCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTC-AACAATCGT
* ** * *
1923950 GTTCGCTCCCTA-TCGC-TCAGGGAGTAT-AGAACTCGAACAATCTTCTGC-CTACGG
1 GTTCGCTCCCTATTC-CTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAT-CGT
* * * * * * ** * * *
1924004 GTTCGTTTCCTCTTTCTTTAGGGAGTAGGA-ACTCGAATAATCTTCTACCCA-CAG-
1 GTTCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC-AACAATC-GT
* * * *
1924058 GTTCG-TCCCTCTTTCTTTAGGGAGTAT-AGAACTCGAAC-ATCTTCAACAATCGT
1 GTTCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGT
1924111 G-TCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
1 GTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
* *
1924166 GTTTGCTCCTTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
1 GTTCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
1924221 GTAT-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
1 GT-TCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
*
1924276 G-TCTGCTCCCTATTCTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
1 GTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
*
1924331 G-TCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATCGT
1 GTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
1924386 G-TCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
1 GTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
* * * * *
1924441 G-TCTGTTCCCTATTCCTTCAGAGATTATAAGGCTTGAAAAATCTTCAACAATCGT
1 GTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
* * *
1924496 G-TCTGCTCCTTATTCCTTCAAAGAGTATAAGACTCGAACAATCTTCGACAATCGT
1 GTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
* * *
1924551 GTCCGCTCCCTATTCCTTCAGAAAGTATAAGACTCGAATAATCTT
1 GTTCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTT
1924596 GATGCTTCAA
Statistics
Matches: 575, Mismatches: 49, Indels: 44
0.86 0.07 0.07
Matches are distributed among these distances:
52 7 0.01
53 31 0.05
54 95 0.17
55 438 0.76
56 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (55 bp):
GTTCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
Found at i:1924221 original size:110 final size:110
Alignment explanation
Indices: 1924079--1924595 Score: 867
Period size: 110 Copynumber: 4.7 Consensus size: 110
1924069 TTTCTTTAGG
1924079 GAGTAT-AGAACTCGAAC-ATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAG
1 GAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAG
* *
1924142 ACTCGAACAATCTTCAACAATCGTGTTTGCTCCTTATTCCTTCAGA
65 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
*
1924188 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTATGCTCCCTATTCCTTCAGAGAGTATAAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
*
1924253 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGA
66 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
1924298 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
*
1924363 CTCGAACAATCTTCAATAATCGTGTCTGCTCCCTATTCCTTCAGA
66 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
* * *
1924408 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGTTCCCTATTCCTTCAGAGATTATAAGG
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
* * * *
1924473 CTTGAAAAATCTTCAACAATCGTGTCTGCTCCTTATTCCTTCAAA
66 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
* * *
1924518 GAGTATAAGACTCGAACAATCTTCGACAATCGTGTCCGCTCCCTATTCCTTCAGAAAGTATAAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
*
1924583 CTCGAATAATCTT
66 CTCGAACAATCTT
1924596 GATGCTTCAA
Statistics
Matches: 383, Mismatches: 23, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
109 14 0.04
110 369 0.96
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (110 bp):
GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
Found at i:1924282 original size:165 final size:165
Alignment explanation
Indices: 1924079--1924595 Score: 876
Period size: 165 Copynumber: 3.1 Consensus size: 165
1924069 TTTCTTTAGG
1924079 GAGTAT-AGAACTCGAAC-ATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAG
1 GAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAG
*
1924142 ACTCGAACAATCTTCAACAATCGTGTTTGCTCCTTATTCCTTCAGAGAGTATAAGACTCGAACAA
65 ACTCGAACAATCTTCAACAATCGTGTCTGCTCCTTATTCCTTCAGAGAGTATAAGACTCGAACAA
*
1924207 TCTTCAACAATCGTGTATGCTCCCTATTCCTTCAGA
130 TCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
*
1924243 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCTTTCAGAGAGTATAAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
*
1924308 CTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAAT
66 CTCGAACAATCTTCAACAATCGTGTCTGCTCCTTATTCCTTCAGAGAGTATAAGACTCGAACAAT
*
1924373 CTTCAATAATCGTGTCTGCTCCCTATTCCTTCAGA
131 CTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
* * *
1924408 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGTTCCCTATTCCTTCAGAGATTATAAGG
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
* * *
1924473 CTTGAAAAATCTTCAACAATCGTGTCTGCTCCTTATTCCTTCAAAGAGTATAAGACTCGAACAAT
66 CTCGAACAATCTTCAACAATCGTGTCTGCTCCTTATTCCTTCAGAGAGTATAAGACTCGAACAAT
* *
1924538 CTTCGACAATCGTGTCCGCTCCCTATTCCTTCAGA
131 CTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
* *
1924573 AAGTATAAGACTCGAATAATCTT
1 GAGTATAAGACTCGAACAATCTT
1924596 GATGCTTCAA
Statistics
Matches: 333, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
164 14 0.04
165 319 0.96
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (165 bp):
GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGA
CTCGAACAATCTTCAACAATCGTGTCTGCTCCTTATTCCTTCAGAGAGTATAAGACTCGAACAAT
CTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
Found at i:1925691 original size:23 final size:23
Alignment explanation
Indices: 1925640--1925731 Score: 63
Period size: 23 Copynumber: 4.1 Consensus size: 23
1925630 TCCTTTTTGC
* *
1925640 TTCAT-TTTTCTATTTT-T-TTA
1 TTCATCTTTTCTTTTTTCTCTTT
1925660 TTCATTCTTTTCTCTTTTTCTCTTT
1 TTCA-TCTTTTCT-TTTTTCTCTTT
1925685 TTC-TCTTTTCATTTTTTCAT-TTT
1 TTCATCTTTTC-TTTTTTC-TCTTT
*
1925708 TTCAT-TTTT-TATTTTTCCCTTT
1 TTCATCTTTTCT-TTTTTCTCTTT
1925730 TT
1 TT
1925732 TTTCTTTTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
20 4 0.07
21 2 0.03
22 17 0.29
23 27 0.46
24 4 0.07
25 5 0.08
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (23 bp):
TTCATCTTTTCTTTTTTCTCTTT
Found at i:1925700 original size:7 final size:8
Alignment explanation
Indices: 1925655--1925723 Score: 65
Period size: 8 Copynumber: 8.6 Consensus size: 8
1925645 TTTTCTATTT
1925655 TTTTATTCA
1 TTTT-TTCA
1925664 TTCTTTTC-
1 TT-TTTTCA
1925672 TCTTTTTC-
1 T-TTTTTCA
1925680 TCTTTTTC-
1 T-TTTTTCA
*
1925688 TCTTTTCA
1 TTTTTTCA
1925696 TTTTTTCA
1 TTTTTTCA
1925704 TTTTTTCA
1 TTTTTTCA
1925712 TTTTTT-A
1 TTTTTTCA
1925719 TTTTT
1 TTTTT
1925724 CCCTTTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
7 11 0.20
8 36 0.65
9 6 0.11
10 2 0.04
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTCA
Found at i:1925739 original size:8 final size:8
Alignment explanation
Indices: 1925667--1925740 Score: 51
Period size: 8 Copynumber: 9.2 Consensus size: 8
1925657 TTATTCATTC
*
1925667 TTTTCTCT
1 TTTTCTTT
*
1925675 TTTTCTCT
1 TTTTCTTT
*
1925683 TTTTC-TC
1 TTTTCTTT
*
1925690 TTTTCATT
1 TTTTCTTT
*
1925698 TTTTCATT
1 TTTTCTTT
*
1925706 TTTTCATT
1 TTTTCTTT
*
1925714 TTTTATTT
1 TTTTCTTT
**
1925722 TTCCCTTTT
1 TTTTC-TTT
1925731 TTTTCTTT
1 TTTTCTTT
1925739 TT
1 TT
1925741 CCTCTTCAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
7 5 0.09
8 43 0.80
9 6 0.11
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTCTTT
Found at i:1925739 original size:23 final size:23
Alignment explanation
Indices: 1925664--1925740 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
1925654 TTTTTATTCA
* *
1925664 TTCTTTTCTCTTTTTCTC-TTTTT
1 TTCTTTT-TATTTTTCCCTTTTTT
* * * *
1925687 CTCTTTTCATTTTTTCATTTTTT
1 TTCTTTTTATTTTTCCCTTTTTT
*
1925710 CAT-TTTTTATTTTTCCCTTTTTT
1 -TTCTTTTTATTTTTCCCTTTTTT
1925733 TTCTTTTT
1 TTCTTTTT
1925741 CCTCTTCAAG
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
22 6 0.15
23 33 0.82
24 1 0.03
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (23 bp):
TTCTTTTTATTTTTCCCTTTTTT
Found at i:1925740 original size:7 final size:7
Alignment explanation
Indices: 1925644--1925723 Score: 54
Period size: 8 Copynumber: 10.6 Consensus size: 7
1925634 TTTTGCTTCA
1925644 TTTTTCT
1 TTTTTCT
*
1925651 ATTTT-T
1 TTTTTCT
*
1925657 TTATTCAT
1 TTTTTC-T
1925665 TCTTTTCT
1 T-TTTTCT
1925673 CTTTTTCT
1 -TTTTTCT
1925681 CTTTTTCT
1 -TTTTTCT
*
1925689 CTTTTCAT
1 TTTTTC-T
1925697 TTTTTCAT
1 TTTTTC-T
1925705 TTTTTCAT
1 TTTTTC-T
*
1925713 TTTTTAT
1 TTTTTCT
1925720 TTTT
1 TTTT
1925724 CCCTTTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
6 4 0.07
7 14 0.23
8 38 0.62
9 5 0.08
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCT
Found at i:1930329 original size:96 final size:96
Alignment explanation
Indices: 1930165--1930360 Score: 320
Period size: 96 Copynumber: 2.0 Consensus size: 96
1930155 CTCCATTCTT
* * *
1930165 ACCTCCAATGTGAAGTGGTCTTCGTGTCTTTATGAAGGGTCTTCTCATCCTTGGTATGACTATAT
1 ACCTCCAATGTGAAGCGGTCTTCATGTCTCTATGAAGGGTCTTCTCATCCTTGGTATGACTATAT
* *
1930230 CTATCTCTTGAGTCAACATCTTGGCCTTTGC
66 CTATATCTTGAGTCAACATCTTGGCATTTGC
* * *
1930261 ACCTCCAATGTGAAGCGGTCTTTATGTCTCTATGAAGGGTCTTCTCGTCCTTGGTATGACTGTAT
1 ACCTCCAATGTGAAGCGGTCTTCATGTCTCTATGAAGGGTCTTCTCATCCTTGGTATGACTATAT
1930326 CTATATCTTGAGTCAACATCTTGGCATTTGC
66 CTATATCTTGAGTCAACATCTTGGCATTTGC
1930357 ACCT
1 ACCT
1930361 TTAAATGAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 92 1.00
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (96 bp):
ACCTCCAATGTGAAGCGGTCTTCATGTCTCTATGAAGGGTCTTCTCATCCTTGGTATGACTATAT
CTATATCTTGAGTCAACATCTTGGCATTTGC
Found at i:1933234 original size:3 final size:3
Alignment explanation
Indices: 1933226--1933314 Score: 85
Period size: 3 Copynumber: 30.3 Consensus size: 3
1933216 TATGTAACAT
* * *
1933226 TAA TAA TAA TAA TAA TAA TATA TTA TAA T-A TAA TAG TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* ** *
1933271 TAA GAA T-A TAA TCG TTA TAA TAA TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1933315 TAACTTCAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
2 6 0.09
3 61 0.88
4 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1933282 original size:23 final size:23
Alignment explanation
Indices: 1933252--1933307 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
1933242 AATATATTAT
1933252 AATATAATAGTTATAATAATAAG
1 AATATAATAGTTATAATAATAAG
* *
1933275 AATATAATCGTTATAATAATAAT
1 AATATAATAGTTATAATAATAAG
1933298 AATAATAATA
1 AAT-ATAATA
1933308 ATATAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (23 bp):
AATATAATAGTTATAATAATAAG
Found at i:1945564 original size:18 final size:18
Alignment explanation
Indices: 1945541--1945577 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1945531 GCCAGTCCTG
1945541 GAAGTAGTTCAAAGTCCA
1 GAAGTAGTTCAAAGTCCA
1945559 GAAGTAGTTCAAAGTCCA
1 GAAGTAGTTCAAAGTCCA
1945577 G
1 G
1945578 CACCAGTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (18 bp):
GAAGTAGTTCAAAGTCCA
Found at i:1945585 original size:18 final size:18
Alignment explanation
Indices: 1945546--1945586 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1945536 TCCTGGAAGT
**
1945546 AGTTCAAAGTCCAGAAGT
1 AGTTCAAAGTCCAGAACC
*
1945564 AGTTCAAAGTCCAGCACC
1 AGTTCAAAGTCCAGAACC
1945582 AGTTC
1 AGTTC
1945587 CTGCACAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (18 bp):
AGTTCAAAGTCCAGAACC
Found at i:1945815 original size:17 final size:17
Alignment explanation
Indices: 1945795--1945831 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1945785 AAGTTTACAG
1945795 TTTAGTTTAGTTTATTT
1 TTTAGTTTAGTTTATTT
* *
1945812 TTTATTTTATTTTATTT
1 TTTAGTTTAGTTTATTT
1945829 TTT
1 TTT
1945832 TTTGCATCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTAGTTTAGTTTATTT
Found at i:1948785 original size:8 final size:8
Alignment explanation
Indices: 1948772--1949104 Score: 250
Period size: 8 Copynumber: 42.1 Consensus size: 8
1948762 CGATGTGGGA
1948772 CTCTCTCT
1 CTCTCTCT
1948780 CTCTCTCT
1 CTCTCTCT
1948788 CTCTCTCT
1 CTCTCTCT
*
1948796 CTCTCTCC
1 CTCTCTCT
* *
1948804 CACCCTCT
1 CTCTCTCT
* *
1948812 CTCCCCCT
1 CTCTCTCT
*
1948820 CTCTCTCC
1 CTCTCTCT
1948828 CTCTCTCT
1 CTCTCTCT
* *
1948836 CACTATCT
1 CTCTCTCT
1948844 CTCTCTCT
1 CTCTCTCT
*
1948852 CCCTCTCT
1 CTCTCTCT
* *
1948860 CCCTCCCT
1 CTCTCTCT
*
1948868 CTCTCCCT
1 CTCTCTCT
1948876 C-CT-TCT
1 CTCTCTCT
1948882 C-CATCTCT
1 CTC-TCTCT
* *
1948890 CTCCCTCG
1 CTCTCTCT
* *
1948898 CTCCCTCC
1 CTCTCTCT
*
1948906 CCCTCTCT
1 CTCTCTCT
*
1948914 CCCTCTCT
1 CTCTCTCT
1948922 C-CATCTCT
1 CTC-TCTCT
1948930 CTCTCTCT
1 CTCTCTCT
*
1948938 CCCTCTCT
1 CTCTCTCT
* * *
1948946 CCCCCCCT
1 CTCTCTCT
1948954 CTCTCTCT
1 CTCTCTCT
*
1948962 CTCTCCCT
1 CTCTCTCT
*
1948970 CTCTCCCT
1 CTCTCTCT
* *
1948978 CCCTCCCT
1 CTCTCTCT
1948986 CTCT-TC-
1 CTCTCTCT
1948992 CTCTCTCT
1 CTCTCTCT
*
1949000 CCCTCTCT
1 CTCTCTCT
*
1949008 CTCTCCCT
1 CTCTCTCT
*
1949016 CTCTCCCT
1 CTCTCTCT
*
1949024 CCCTCTCT
1 CTCTCTCT
1949032 C-CATCTCT
1 CTC-TCTCT
*
1949040 CTCACTCT
1 CTCTCTCT
*
1949048 CTCTCACT
1 CTCTCTCT
*
1949056 CTCTCTCC
1 CTCTCTCT
1949064 CTCTCTCT
1 CTCTCTCT
*
1949072 CCCTCTCT
1 CTCTCTCT
*
1949080 CTCCCTCAT
1 CTCTCTC-T
1949089 -TCTCTCT
1 CTCTCTCT
*
1949096 CTTTCTCT
1 CTCTCTCT
1949104 C
1 C
1949105 ATTTGGGGTT
Statistics
Matches: 264, Mismatches: 50, Indels: 22
0.79 0.15 0.07
Matches are distributed among these distances:
6 8 0.03
7 9 0.03
8 243 0.92
9 4 0.02
ACGTcount: A:0.03, C:0.58, G:0.00, T:0.39
Consensus pattern (8 bp):
CTCTCTCT
Found at i:1948787 original size:10 final size:10
Alignment explanation
Indices: 1948772--1949104 Score: 250
Period size: 10 Copynumber: 33.7 Consensus size: 10
1948762 CGATGTGGGA
1948772 CTCTCTCTCT
1 CTCTCTCTCT
1948782 CTCTCTCTCT
1 CTCTCTCTCT
1948792 CTCTCTCTCT
1 CTCTCTCTCT
* * *
1948802 CCCACCCTCT
1 CTCTCTCTCT
* *
1948812 CTCCCCCTCT
1 CTCTCTCTCT
*
1948822 CTCTCCCTCT
1 CTCTCTCTCT
* *
1948832 CTCTCACTAT
1 CTCTCTCTCT
1948842 CTCTCTCTCT
1 CTCTCTCTCT
* *
1948852 CCCTCTCTCC
1 CTCTCTCTCT
*
1948862 CTCCCTCTCT
1 CTCTCTCTCT
*
1948872 CCCTC-CT-T
1 CTCTCTCTCT
1948880 CTC-CATCTCT
1 CTCTC-TCTCT
* *
1948890 CTCCCTCGCT
1 CTCTCTCTCT
* * *
1948900 CCCTCCCCCT
1 CTCTCTCTCT
*
1948910 CTCTCCCTCT
1 CTCTCTCTCT
1948920 CTC-CATCTCT
1 CTCTC-TCTCT
*
1948930 CTCTCTCTCC
1 CTCTCTCTCT
* *
1948940 CTCTCTCCCC
1 CTCTCTCTCT
*
1948950 CCCTCTCTCT
1 CTCTCTCTCT
*
1948960 CTCTCTCCCT
1 CTCTCTCTCT
* *
1948970 CTCTCCCTCC
1 CTCTCTCTCT
*
1948980 CTCCCTCTCT
1 CTCTCTCTCT
1948990 -TC-CTCTCT
1 CTCTCTCTCT
*
1948998 CTCCCTCTCT
1 CTCTCTCTCT
*
1949008 CTCTCCCTCT
1 CTCTCTCTCT
* *
1949018 CTCCCTCCCT
1 CTCTCTCTCT
1949028 CTCTC-CATCT
1 CTCTCTC-TCT
*
1949038 CTCTCACTCT
1 CTCTCTCTCT
*
1949048 CTCTCACTCT
1 CTCTCTCTCT
*
1949058 CTCTCCCTCT
1 CTCTCTCTCT
*
1949068 CTCTCCCTCT
1 CTCTCTCTCT
*
1949078 CTCTCCCTCAT
1 CTCTCTCTC-T
1949089 -TCTCTCTCT
1 CTCTCTCTCT
*
1949098 TTCTCTC
1 CTCTCTC
1949105 ATTTGGGGTT
Statistics
Matches: 263, Mismatches: 48, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
7 1 0.00
8 9 0.03
9 11 0.04
10 238 0.90
11 4 0.02
ACGTcount: A:0.03, C:0.58, G:0.00, T:0.39
Consensus pattern (10 bp):
CTCTCTCTCT
Found at i:1948789 original size:12 final size:12
Alignment explanation
Indices: 1948772--1949104 Score: 250
Period size: 12 Copynumber: 28.1 Consensus size: 12
1948762 CGATGTGGGA
1948772 CTCTCTCTCTCT
1 CTCTCTCTCTCT
1948784 CTCTCTCTCTCT
1 CTCTCTCTCTCT
* * *
1948796 CTCTCTCCCACC
1 CTCTCTCTCTCT
* *
1948808 CTCTCTCCCCCT
1 CTCTCTCTCTCT
*
1948820 CTCTCTCCCTCT
1 CTCTCTCTCTCT
* *
1948832 CTCTCACTATCT
1 CTCTCTCTCTCT
*
1948844 CTCTCTCTCCCT
1 CTCTCTCTCTCT
* *
1948856 CTCTCCCTCCCT
1 CTCTCTCTCTCT
*
1948868 CTCTCCCTC-CT
1 CTCTCTCTCTCT
1948879 -TCTC-CATCTCT
1 CTCTCTC-TCTCT
* * *
1948890 CTCCCTCGCTCC
1 CTCTCTCTCTCT
* *
1948902 CTCCCCCTCTCT
1 CTCTCTCTCTCT
*
1948914 CCCTCTCTC-CAT
1 CTCTCTCTCTC-T
1948926 CTCTCTCTCTCT
1 CTCTCTCTCTCT
* * *
1948938 CCCTCTCTCCCC
1 CTCTCTCTCTCT
*
1948950 CCCTCTCTCTCT
1 CTCTCTCTCTCT
*
1948962 CTCTCCCTCTCT
1 CTCTCTCTCTCT
* * *
1948974 CCCTCCCTCCCT
1 CTCTCTCTCTCT
1948986 CTCT-TC-CTCT
1 CTCTCTCTCTCT
*
1948996 CTCTCCCTCTCT
1 CTCTCTCTCTCT
*
1949008 CTCTCCCTCTCT
1 CTCTCTCTCTCT
* *
1949020 CCCTCCCTCTCT
1 CTCTCTCTCTCT
*
1949032 C-CATCTCTCTCA
1 CTC-TCTCTCTCT
*
1949044 CTCTCTCTCACT
1 CTCTCTCTCTCT
*
1949056 CTCTCTCCCTCT
1 CTCTCTCTCTCT
*
1949068 CTCTCCCTCTCT
1 CTCTCTCTCTCT
*
1949080 CTCCCTCAT-TCT
1 CTCTCTC-TCTCT
*
1949092 CTCTCTTTCTCT
1 CTCTCTCTCTCT
1949104 C
1 C
1949105 ATTTGGGGTT
Statistics
Matches: 260, Mismatches: 49, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
9 1 0.00
10 13 0.05
11 9 0.03
12 233 0.90
13 4 0.02
ACGTcount: A:0.03, C:0.58, G:0.00, T:0.39
Consensus pattern (12 bp):
CTCTCTCTCTCT
Found at i:1949188 original size:2 final size:2
Alignment explanation
Indices: 1949181--1949635 Score: 247
Period size: 2 Copynumber: 238.5 Consensus size: 2
1949171 CGATGTGGGA
* *
1949181 CT CT CT CT CT CT CT CT CT CT -T CT CT TT CT CT CT CT CC CT C-
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * *
1949221 CC CT C- CT CT CT CT C- CT CT CT CT CC CT CT CT CT CC CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * *
1949261 CT C- CC CT CT CT CT CC CT CT CT CC CC CT CT CT CT CC CT -T CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * *
1949301 CT CT CC CT CT CT C- CT CT CT CT C- CT CC CT CC CT C- CT CT C-
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * *
1949339 CT CT CT CC CT CT CT CC CT CC CT CT CT CC CT CC CT CC CT CC CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * *
1949381 CT CC CT CC CT CC CT C- CT CC CT CC CT C- CC CT CT C- CG C- CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * *
1949419 CT CT C- CC CT CT CT CT CT CT C- CT CT CT CC CT CT CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * *
1949459 CT CT CC CT CT CT CC CT CC CT CC CT CC CT CT CT CT CT C- CC CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * *
1949500 CC CT CT CT CT C- CT CT CT CT AT CT CT CAT CC CT CC CT CT CT C-
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C-T CT CT CT CT CT CT CT
* * *
1949541 CAT CC CT C- CT CT CT C- CG CT CT CT CT CC CT C- CT CT CT C- CT
1 C-T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * * * *
1949580 CT C- CT CT CT CT CC CT CT CC CT CC CC CC CC CC CC CC CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1949621 CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT C
1949636 ATTTGGGTTT
Statistics
Matches: 347, Mismatches: 80, Indels: 52
0.72 0.17 0.11
Matches are distributed among these distances:
1 24 0.07
2 320 0.92
3 3 0.01
ACGTcount: A:0.01, C:0.62, G:0.00, T:0.36
Consensus pattern (2 bp):
CT
Found at i:1949424 original size:110 final size:109
Alignment explanation
Indices: 1949185--1949635 Score: 455
Period size: 113 Copynumber: 4.1 Consensus size: 109
1949175 GTGGGACTCT
* * * * *
1949185 CTCTCTCTCTCTCTCTTCTCTTTCTCTCTCTCCCTCCCCTCCTCTCTCTCCTCTCTCTCCCTCTC
1 CTCTCTCCCTCTCTCCTCTCTCTC-CTCTCTCCCTCCTCTCCTCTCTC-CCTCTCTCTCCCCCTC
* * * *
1949250 TCTCCCTCTCTCTC-CCCTCTCTCTCCCTCTCTCCCCCTCTCTCTCCC
64 TCTCCCTCCCTCCCTCCCTCTCCCTCCCTCCCTCCCCCTC-C-CTCCC
*
1949297 TTCTCTCTCCCTCTCTCCTCTCTCTCCTCCCTCCCTCCTCTCCTCTCTCCCTCTCTC-CCTCCCT
1 --CTCTCTCCCTCTCTCCTCTCTCTCCTCTCTCCCTCCTCTCCTCTCTCCCTCTCTCTCC-CCCT
1949361 CTCTCCCTCCCTCCCTCCCTCTCCCTCCCTCCCTCCTCCCTCCCTCCC
63 CTCTCCCTCCCTCCCTCCCTCTCCCTCCCTCCCTCC-CCCTCCCTCCC
*
1949409 CTCTC-CGCCTCTCTCCCCTCTCT-CTCTCT-CCT-CTCTCCCTCTCTCCCTCTCTCT--CCCTC
1 CTCTCTC-CCTCTCTCCTCTCTCTCCTCTCTCCCTCCTCT-CCTCTCTCCCTCTCTCTCCCCCTC
* * *
1949468 TCTCCCTCCCTCCCTCCCTCT--CTCTCTCCC-CCCCCTCTCTCTC
64 TCTCCCTCCCTCCCTCCCTCTCCCTCCCTCCCTCCCCCTCCCTCCC
** * * *
1949511 CTCTCTCTATCTCTCATCCCTC-CCTCTCTCCATCC-CTCCTCTCTCCGCTCTCTCTCCCTCCTC
1 CTCTCTCCCTCTCTCCTCTCTCTCCTCTCTCCCTCCTCTCCTCTCTCC-CTCTCTCTCCC-CCTC
* * *
1949574 TCTCCTCTCCTCTCTCTCCCTCTCCCTCCC-CCC-CCCCCCCCCTCTCT
64 TCTCC-CTCC-CTCCCTCCCTCTCCCTCCCTCCCTCCCCCTCCCTC-CC
*
1949621 CTCTCTCTCTCTCTC
1 CTCTCTCCCTCTCTC
1949636 ATTTGGGTTT
Statistics
Matches: 290, Mismatches: 28, Indels: 42
0.81 0.08 0.12
Matches are distributed among these distances:
102 39 0.13
103 15 0.05
104 9 0.03
105 1 0.00
106 35 0.12
107 8 0.03
108 30 0.10
109 18 0.06
110 38 0.13
111 2 0.01
112 29 0.10
113 40 0.14
114 26 0.09
ACGTcount: A:0.01, C:0.63, G:0.00, T:0.36
Consensus pattern (109 bp):
CTCTCTCCCTCTCTCCTCTCTCTCCTCTCTCCCTCCTCTCCTCTCTCCCTCTCTCTCCCCCTCTC
TCCCTCCCTCCCTCCCTCTCCCTCCCTCCCTCCCCCTCCCTCCC
Found at i:1949453 original size:102 final size:102
Alignment explanation
Indices: 1949218--1949603 Score: 359
Period size: 106 Copynumber: 3.7 Consensus size: 102
1949208 CTCTCTCTCC
* *
1949218 CTCCCCTC-CTCTCTCTCCTCTCTCTCCCTCTCTCTCCCT-CTCTCTCCC-CTCTCTCTCCCTCT
1 CTCCCCTCTCTCTCTCT-C-CTCTCTCCCTCTCTCTCCCTCCTCTCTCCCTCCCTCCCTCCCTCT
* *
1949280 CTCC-CCCTCTCT-CTCCCTTCTCTCTCCCTCTCTCCTCTCT
64 CTCCTCCCTCCCTCCTCCC-TCTC-CTCCC-CTCTCCCCTCT
*
1949320 CTCCTCC-CTCCCTCCTCTCCTCTCT-CC-CTCTCTCCCTCCCTCTCTCCCTCCCTCCCTCCCTC
1 CTCC-CCTCTCTCT-CTCTCCTCTCTCCCTCTCTCTCCCT-CCTCTCTCCCTCCCTCCCTCCCTC
1949382 TC-CCTCCCTCCCTCCTCCCTC-CCTCCCCTCTCCGCCTCT
63 TCTCCTCCCTCCCTCCTCCCTCTCCTCCCCTCTCC-CCTCT
1949421 CTCCCCTCTCTCTCTCTCCTCTCTCCCTCTCTCCCTCTCTCTCCCTCTCTCCCTCCCTCCCTCCC
1 CTCCCCTCTCTCTCTCTCCTCTCTCCCTCTCT--CTC-C-CT-CCTCTCTCCCTCCCTCCCTCCC
* * * *
1949486 TCTCTCTCTCCC-CCC-CCTCTCTCTCCT-CTCTCTATCTCTCAT
61 TCTCTC-CTCCCTCCCTCCTCCCTCTCCTCCCCTCT-CCCCTC-T
* * *
1949528 CCCTCCCTCTCTCCATCCCTCCTCTCTCCGCTCTCTCTCCCTCCTCTCTCCTCTCCTCTCTCTCC
1 CTC-CCCTCTCT-C-TCTCTCCTCTCTCC-CTCTCTCTCCCTCCTCTCTCC-CTCC-CTCCCTCC
1949593 CTCTC-CCTCCC
60 CTCTCTCCTCCC
1949604 CCCCCCCCCC
Statistics
Matches: 244, Mismatches: 13, Indels: 50
0.79 0.04 0.16
Matches are distributed among these distances:
100 29 0.12
101 22 0.09
102 27 0.11
103 28 0.11
104 12 0.05
105 1 0.00
106 58 0.24
107 18 0.07
108 26 0.11
109 4 0.02
110 13 0.05
111 6 0.02
ACGTcount: A:0.01, C:0.63, G:0.01, T:0.35
Consensus pattern (102 bp):
CTCCCCTCTCTCTCTCTCCTCTCTCCCTCTCTCTCCCTCCTCTCTCCCTCCCTCCCTCCCTCTCT
CCTCCCTCCCTCCTCCCTCTCCTCCCCTCTCCCCTCT
Found at i:1955709 original size:14 final size:14
Alignment explanation
Indices: 1955690--1955728 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1955680 TCTAATCACT
1955690 GAGTCAACTCGTCC
1 GAGTCAACTCGTCC
* *
1955704 GAGTCAACTCTTTC
1 GAGTCAACTCGTCC
1955718 GAGTCAACTCG
1 GAGTCAACTCG
1955729 GTCTGAGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.26
Consensus pattern (14 bp):
GAGTCAACTCGTCC
Found at i:1955766 original size:14 final size:14
Alignment explanation
Indices: 1955744--1955795 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
1955734 AGTGAACCCT
* *
1955744 TTGATTTTGACCTG
1 TTGACTTTGACCAG
1955758 TTGACTTTGACCAG
1 TTGACTTTGACCAG
*
1955772 TTGCCTTTGA-CAG
1 TTGACTTTGACCAG
1955785 TTGACTTTGAC
1 TTGACTTTGAC
1955796 AAAAAAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 12 0.36
14 21 0.64
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.42
Consensus pattern (14 bp):
TTGACTTTGACCAG
Found at i:1955787 original size:13 final size:13
Alignment explanation
Indices: 1955757--1955796 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
1955747 ATTTTGACCT
1955757 GTTGACTTTGACCA
1 GTTGACTTTGA-CA
*
1955771 GTTGCCTTTGACA
1 GTTGACTTTGACA
1955784 GTTGACTTTGACA
1 GTTGACTTTGACA
1955797 AAAAAAGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (13 bp):
GTTGACTTTGACA
Found at i:1957511 original size:20 final size:22
Alignment explanation
Indices: 1957464--1957517 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
1957454 ACTGAGAGAA
*
1957464 AGGTATCAGTACCATAGTATAG
1 AGGTATCAATACCATAGTATAG
* *
1957486 ACGTATCAATACCAT-G-GTAG
1 AGGTATCAATACCATAGTATAG
1957506 AGGTATCAATAC
1 AGGTATCAATAC
1957518 TATCGAGCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.50
21 1 0.04
22 13 0.46
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (22 bp):
AGGTATCAATACCATAGTATAG
Found at i:1957908 original size:56 final size:55
Alignment explanation
Indices: 1957833--1958609 Score: 1034
Period size: 56 Copynumber: 14.0 Consensus size: 55
1957823 ATTACCGAAT
*
1957833 GGCACTATATGTGTGCAAAAACTAAAAAATTCATAATGAGTTTATGAATTTCAGTATG
1 GGCACT-T-TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTC-GTATG
* *
1957891 GGCACTTTGTGTACAAAAGA-AAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAA-ACTAAGAAATTCATAATGAGTTTATGAATTT-CGTATG
* ** *
1957947 AGCACTTTGCATGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTT-CGTATG
* * *
1958003 GGCACTTTGTGTGCAAAAGCTAAAAAATTCATAATGACTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTT-CGTATG
* *
1958059 GGTACTTTATGTGC-AAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAA-TTTCGTATG
*
1958114 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAACGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTT-CGTATG
* * * *
1958170 GGCGCTTTGTGTACAAAAGCTAAGAAATTCATAATGAGTTTATGAAATTTCGTATA
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATG-AATTTCGTATG
* *
1958226 GGCACTTTGTGTAC-AAAACTAAGAAATTTATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAA-TTTCGTATG
* *
1958281 GGAACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT-
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAA-TTTCGTATG
*
1958336 GGCACTTTGT-TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTC-GTATG
*
1958391 GACACTTTGTGTGC-AAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAA-TTTCGTATG
* * *
1958446 GGCACTTTGTGTG-TAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTT-CGTATG
* * * * *
1958501 GGTAATTTATATGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTT-CGTATG
*
1958556 GGTCA-TTTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 GG-CACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAA-TTTCGTAT
1958610 TGGTAGTGGG
Statistics
Matches: 652, Mismatches: 49, Indels: 39
0.88 0.07 0.05
Matches are distributed among these distances:
53 4 0.01
54 44 0.07
55 290 0.44
56 300 0.46
57 8 0.01
58 6 0.01
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (55 bp):
GGCACTTTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCGTATG
Found at i:1958139 original size:167 final size:167
Alignment explanation
Indices: 1957833--1958609 Score: 1152
Period size: 167 Copynumber: 4.7 Consensus size: 167
1957823 ATTACCGAAT
* * *
1957833 GGCACTATATGTGTGCAAAAACTAAAAAATTCATAATGAGTTTATGAATTTCAGTATGGGCACTT
1 GGCACT-T-TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
* ** * * **
1957898 TGTGTACAAAAGAAAAGAAATTCATAATGAGTTTATGAATTTCCGTATGAGCACTTTGCATGCAA
64 TGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAA
*
1957963 AAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
128 AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * * *
1958003 GGCACTTTGTGTGCAAAAGCTAAAAAATTCATAATGACTTTATGAATTTCCGTATGGGTACTTTA
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTG
1958068 TGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAA
66 TGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAA
*
1958133 CTAAGAAATTCATAACGAGTTTATGAATTTCCGTATG
131 CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * *
1958170 GGCGCTTTGTGTACAAAAGCTAAGAAATTCATAATGAGTTTATGAAATTT-CGTATAGGCACTTT
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATG-AATTTCCGTATGGGCACTTT
* * *
1958234 GTGTACAAAACTAAGAAATTTATAATGAGTTTATGAATTTTCGTATGGGAACTTTGTGTGCAAAA
65 GTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAA
* *
1958299 GCTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT-
130 ACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* *
1958336 GGCACTTTGT-TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGACACTTTG
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTG
*
1958400 TGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTG-TAAAA
66 TGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAA
* *
1958464 CTAAGAAATTCATAATAAGTTTATGAATTTCCATATG
131 CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
* * * * *
1958501 GGTAATTTATATGCAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGTCA-TTT
1 GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGG-CACTTT
*
1958564 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
65 GTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT
1958610 TGGTAGTGGG
Statistics
Matches: 555, Mismatches: 47, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
164 41 0.07
165 191 0.34
166 18 0.03
167 232 0.42
168 66 0.12
169 1 0.00
170 6 0.01
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (167 bp):
GGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTG
TGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAA
CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
Found at i:1958626 original size:55 final size:55
Alignment explanation
Indices: 1957833--1958609 Score: 1087
Period size: 55 Copynumber: 14.0 Consensus size: 55
1957823 ATTACCGAAT
*
1957833 GGCACTATATGTGTGCAAAAACTAAAAAATTCATAATGAGTTTATGAA-TTTCAGTATG
1 GGCACT-T-TGTGTGC-AAAACTAAGAAATTCATAATGAGTTTATGAATTTTC-GTATG
* ** *
1957891 GGCACTTTGTGTACAAAAGAAAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
* ** *
1957947 AGCACTTTGCATGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
* * *
1958003 GGCACTTTGTGTGCAAAAGCTAAAAAATTCATAATGACTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
* *
1958059 GGTACTTTATGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
* *
1958114 GGCACTTTGTGTGCAAAAACTAAGAAATTCATAACGAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGC-AAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
* * * *
1958170 GGCGCTTTGTGTACAAAAGCTAAGAAATTCATAATGAGTTTATGAAATTTCGTATA
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
* *
1958226 GGCACTTTGTGTACAAAACTAAGAAATTTATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
*
1958281 GGAACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT-
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
1958336 GGCACTTTGT-TGCAAAAGCTAAGAAATTCATAATGAGTTTATGAA-TTTCTGTATG
1 GGCACTTTGTGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTTC-GTATG
*
1958391 GACACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
* * * *
1958446 GGCACTTTGTGTGTAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
* * * * * *
1958501 GGTAATTTATATGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
*
1958556 GGTCA-TTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 GG-CACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT
1958610 TGGTAGTGGG
Statistics
Matches: 654, Mismatches: 55, Indels: 23
0.89 0.08 0.03
Matches are distributed among these distances:
53 4 0.01
54 39 0.06
55 301 0.46
56 300 0.46
57 4 0.01
58 6 0.01
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (55 bp):
GGCACTTTGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATG
Found at i:1958962 original size:46 final size:45
Alignment explanation
Indices: 1958909--1959125 Score: 308
Period size: 46 Copynumber: 4.7 Consensus size: 45
1958899 TAACAATATG
* * *
1958909 TAATTGGCATGAAAGAATACCATAAATGAAAATGTATAATAGTGCA
1 TAATTGGCATGAAAG-ATGCCATAAATGAAAATGTATAACAATGCA
* *
1958955 TAATTGGCATAAAAGGATGCCATAAATGAAAATGTATAACAATTCA
1 TAATTGGCATGAAA-GATGCCATAAATGAAAATGTATAACAATGCA
*
1959001 TAATTGGCATGAAATGATTCCATAAATGAAAATGTATAACAATGCA
1 TAATTGGCATGAAA-GATGCCATAAATGAAAATGTATAACAATGCA
*
1959047 TAATTGTCATGAAAGGATGCCATAAATGAAAATGTATAACAATGCA
1 TAATTGGCATGAAA-GATGCCATAAATGAAAATGTATAACAATGCA
* *
1959093 TAATTGGCAAGAAATGATGCCACAAATGAAAAT
1 TAATTGGCATGAAA-GATGCCATAAATGAAAAT
1959126 ACATAGCAGT
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 153 0.99
47 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.26
Consensus pattern (45 bp):
TAATTGGCATGAAAGATGCCATAAATGAAAATGTATAACAATGCA
Found at i:1960149 original size:26 final size:26
Alignment explanation
Indices: 1960119--1960211 Score: 105
Period size: 26 Copynumber: 3.5 Consensus size: 26
1960109 TTTCTTAATG
1960119 TAAGCTTAAATAATTGAGGAAATGAA
1 TAAGCTTAAATAATTGAGGAAATGAA
* ** **
1960145 TAAGCGGTAAATACATTGTCTGCTATGAA
1 TAAGC-TTAAATA-ATTG-AGGAAATGAA
*
1960174 TAAGCTTAAATAATTGAGGAAATGAG
1 TAAGCTTAAATAATTGAGGAAATGAA
1960200 TAAGCTTAAATA
1 TAAGCTTAAATA
1960212 TTAATTTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
26 22 0.42
27 10 0.19
28 10 0.19
29 11 0.21
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (26 bp):
TAAGCTTAAATAATTGAGGAAATGAA
Found at i:1960882 original size:2 final size:2
Alignment explanation
Indices: 1960875--1960917 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1960865 TTTCAAAAAG
1960875 AT AT AT AT AT 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 AT AT AT AT AT
1960917 A
1 A
1960918 GTTTTTATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1964324 original size:56 final size:56
Alignment explanation
Indices: 1964172--1964517 Score: 588
Period size: 56 Copynumber: 6.2 Consensus size: 56
1964162 TGACACTATA
* *
1964172 TGTGTGAAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTT
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
* *
1964228 TATGTGCAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATAGGCACTT
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1964283 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
*
1964339 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCTTATGGGCACTT
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
* *
1964395 TGTGTGCAAAA-CTTAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
* *
1964450 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAAATTCCGTATGGTCACTT
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1964506 TGTGTGCTAAAA
1 TGTGTGC-AAAA
1964518 ATACCCCAAA
Statistics
Matches: 273, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
55 104 0.38
56 165 0.60
57 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (56 bp):
TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
Found at i:1964413 original size:111 final size:112
Alignment explanation
Indices: 1964172--1964517 Score: 588
Period size: 111 Copynumber: 3.1 Consensus size: 112
1964162 TGACACTATA
* * *
1964172 TGTGTGAAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTTATGTGCAA
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
*
1964237 AA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATAGGCACTT
66 AAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1964283 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
*
1964348 AAGCTAAGAAATTCATAATGAGTTTATGAATTTCCTTATGGGCACTT
66 AAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
* *
1964395 TGTGTGCAAAA-CTTAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAA
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
* *
1964459 AAGCTAAGAAATTCATAATGAGTTTATGAAATTCCGTATGGTCACTT
66 AAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1964506 TGTGTGCTAAAA
1 TGTGTGC-AAAA
1964518 ATACCCCAAA
Statistics
Matches: 223, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
111 166 0.74
112 57 0.26
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (112 bp):
TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
AAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
Found at i:1964455 original size:167 final size:167
Alignment explanation
Indices: 1964172--1964517 Score: 604
Period size: 167 Copynumber: 2.1 Consensus size: 167
1964162 TGACACTATA
*
1964172 TGTGTGAAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTTATGTGCAA
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTTATGTGCAA
1964237 AACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAGCTAAGAA
66 AACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAGCTAAGAA
*
1964302 ATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
131 ATTCATAATGAGTTTATGAAATTCCGTATGGGCACTT
*
1964339 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCT-TATGGGCACTTTGTGTGCA
1 TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTT-CTGTATGGGCACTTTATGTGCA
* * *
1964403 AAACTTAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAGCTAAGA
65 AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAGCTAAGA
*
1964468 AATTCATAATGAGTTTATGAAATTCCGTATGGTCACTT
130 AATTCATAATGAGTTTATGAAATTCCGTATGGGCACTT
1964506 TGTGTGCTAAAA
1 TGTGTGC-AAAA
1964518 ATACCCCAAA
Statistics
Matches: 170, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
167 164 0.96
168 6 0.04
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (167 bp):
TGTGTGCAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATGGGCACTTTATGTGCAA
AACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATAGGCACTTTGTGTGCAAAAGCTAAGAA
ATTCATAATGAGTTTATGAAATTCCGTATGGGCACTT
Found at i:1966078 original size:46 final size:46
Alignment explanation
Indices: 1966011--1966098 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
1966001 ACCGCTATGT
* * *
1966011 ATTTTCATTTGTGGAATCCTTTCATGCCAATTATGCATTGTTATAC
1 ATTTTCATTTATGGAATCCTTTCATGACAATTATGCAATGTTATAC
1966057 ATTTTCATTTAT-GACATCCTTTCATGACAATTATGCAATGTT
1 ATTTTCATTTATGGA-ATCCTTTCATGACAATTATGCAATGTT
1966099 CTTAATCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 2 0.05
46 36 0.95
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.45
Consensus pattern (46 bp):
ATTTTCATTTATGGAATCCTTTCATGACAATTATGCAATGTTATAC
Found at i:1966454 original size:55 final size:55
Alignment explanation
Indices: 1966389--1966620 Score: 324
Period size: 55 Copynumber: 4.2 Consensus size: 55
1966379 TCCACTATCA
* ** * * *
1966389 ATACGAAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAG-TTTACACATAAAGTGCCC
* *
1966444 ATATGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCA
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
*
1966499 ATAC-GAAATTTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGTCC
1 ATACGGAAA-TTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
* *
1966554 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACAAAAAGTGCTC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
*
1966609 ATACGAAAATTC
1 ATACGGAAATTC
1966621 TTAAACAAAT
Statistics
Matches: 159, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
54 4 0.03
55 149 0.94
56 6 0.04
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (55 bp):
ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
Found at i:1966644 original size:110 final size:111
Alignment explanation
Indices: 1966387--1966649 Score: 379
Period size: 110 Copynumber: 2.4 Consensus size: 111
1966377 CATCCACTAT
* *
1966387 CAATACGAAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACAAAGTGCCCATATGGA
1 CAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTTTACACACAAAGTGCCCATACGGA
*
1966451 AATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGC
66 AATTCATCCACTTAGTATGAATTTCTTAAGTTTACACAAAAAGTGC
* ** * * *
1966497 CAATACGAAATTTCATCCACTTAGTATGAATTTCTTAAG-TTTACACATAAAGTGTCCATACGGA
1 CAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTTTACACACAAAGTGCCCATACGGA
1966561 AATTCATCCACTTAGTATGAATTTCTTAAGTTTACACAAAAAGTGC
66 AATTCATCCACTTAGTATGAATTTCTTAAGTTTACACAAAAAGTGC
* ** *
1966607 TC-ATACGAAAATTCTTAAACAAATTATGAATTTCTTAACTTTT
1 -CAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTTT
1966650 TGCACACTCA
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
110 127 0.95
111 6 0.05
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (111 bp):
CAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGTTTTACACACAAAGTGCCCATACGGA
AATTCATCCACTTAGTATGAATTTCTTAAGTTTACACAAAAAGTGC
Found at i:1967089 original size:20 final size:20
Alignment explanation
Indices: 1967064--1967116 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1967054 GTTAGTAATG
*
1967064 GTATCGATACCATCCTCATA
1 GTATCGATACCACCCTCATA
* *
1967084 GTATCGATACTC-CCCTCTTG
1 GTATCGATAC-CACCCTCATA
1967104 GTATCGATACCAC
1 GTATCGATACCAC
1967117 TTAAATCAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (20 bp):
GTATCGATACCACCCTCATA
Found at i:1968570 original size:46 final size:46
Alignment explanation
Indices: 1968500--1968740 Score: 419
Period size: 46 Copynumber: 5.2 Consensus size: 46
1968490 AATCGAATCT
*
1968500 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
*
1968546 ATAAATGAAATGCATGAAATGATGCATTAACGCATGAAAGGATGCC
1 ATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
* * *
1968592 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATTAAAGGATGCA
1 ATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
1968638 ATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
* *
1968684 ATAAATGAAATGCATGAAATGATGCATTAAGACATGAAAAGATGCC
1 ATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
1968730 ATAAATGAAAT
1 ATAAATGAAAT
1968741 TAACAAAAAA
Statistics
Matches: 184, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 184 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (46 bp):
ATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC
Found at i:1968778 original size:21 final size:20
Alignment explanation
Indices: 1968745--1968783 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1968735 TGAAATTAAC
1968745 AAAAAATTAATAAAGAAAATG
1 AAAAAATTAAT-AAGAAAATG
1968766 AAAAAATGT-ATAAGAAAA
1 AAAAAAT-TAATAAGAAAA
1968784 AAATGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 9 0.53
22 1 0.06
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (20 bp):
AAAAAATTAATAAGAAAATG
Found at i:1969389 original size:85 final size:85
Alignment explanation
Indices: 1969246--1969417 Score: 299
Period size: 85 Copynumber: 2.0 Consensus size: 85
1969236 GGTTTTCAAA
* * *
1969246 TGAGGAACTGCTTTAAAAGTGATGTGACATATGTACCTCGTGTACGGAAAGATATACGGGAGATA
1 TGAGGAACTGCTTTAAAAGTGATGTGACATATGTACATCGTGTACGAAAACATATACGGGAGATA
*
1969311 GGTGTTACAGGTACTTTGTG
66 GGTGTTACAGGCACTTTGTG
*
1969331 TGAGGAACTGCTTTAAAAGTGATGTGACATATGTACATCGTGTACGAAAACATATACGGGAGATG
1 TGAGGAACTGCTTTAAAAGTGATGTGACATATGTACATCGTGTACGAAAACATATACGGGAGATA
1969396 GGTGTTACAGGCACTTTGTG
66 GGTGTTACAGGCACTTTGTG
1969416 TG
1 TG
1969418 CAAAACTAAG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (85 bp):
TGAGGAACTGCTTTAAAAGTGATGTGACATATGTACATCGTGTACGAAAACATATACGGGAGATA
GGTGTTACAGGCACTTTGTG
Found at i:1969640 original size:55 final size:55
Alignment explanation
Indices: 1969405--1969623 Score: 357
Period size: 55 Copynumber: 4.0 Consensus size: 55
1969395 GGGTGTTACA
* *
1969405 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATGTCCGTATA
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
1969460 GGTATTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * *
1969515 GACACTTTGTGTACAAAACTAAGAAATTCTTAATAAGTTTATAAATTTCCGTATG
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
1969570 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1969624 TGTTAGTGGG
Statistics
Matches: 149, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 149 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (55 bp):
GGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:1969709 original size:54 final size:53
Alignment explanation
Indices: 1969434--1969711 Score: 147
Period size: 55 Copynumber: 5.1 Consensus size: 53
1969424 TAAGAAATTC
* * * * ** * *
1969434 ATAATAAGTTTATGAATGTCCGTATAGGTATTTTGTGTGCAAAACTA-AGAAATTC
1 ATAATAAGTTTATGAAT-TTCGTATTGGCACTACGTGTGC-AAACTATAG-AGTTT
** * *
1969489 ATAATAAGTTTATGAATTTCCGTA-TGGACACTTTGTGTACAAAACTA-AGAAATTCT
1 ATAATAAGTTTATGAATTT-CGTATTGG-CACTACGTGTGC-AAACTATAG-AGTT-T
* * ** * *
1969545 -TAATAAGTTTATAAATTTCCGTATGGGCACTTTGTGTGCAAAACTA-AGAAATTC
1 ATAATAAGTTTATGAATTT-CGTATTGGCACTACGTGTGC-AAACTATAG-AGTTT
** * ** *
1969599 ATAATAAGTTTATGAATTTTCGTATTGTTAGTGGGTGTGCAACCCATATA-AG-TT
1 ATAATAAGTTTATGAA-TTTCGTATTGGCACTACGTGTGCAA-AC-TATAGAGTTT
*
1969653 ATAATAAGTTTTTGAATTATCGTATTGGCACTACGTGTGCAAACTATAGAGTTT
1 ATAATAAGTTTATGAATT-TCGTATTGGCACTACGTGTGCAAACTATAGAGTTT
1969707 ATAAT
1 ATAAT
1969712 GAATTGAAAG
Statistics
Matches: 184, Mismatches: 27, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
52 4 0.02
53 5 0.03
54 46 0.25
55 121 0.66
56 7 0.04
57 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (53 bp):
ATAATAAGTTTATGAATTTCGTATTGGCACTACGTGTGCAAACTATAGAGTTT
Found at i:1969986 original size:46 final size:46
Alignment explanation
Indices: 1969915--1970131 Score: 362
Period size: 46 Copynumber: 4.7 Consensus size: 46
1969905 GAACAATACG
* * *
1969915 TAATTGTCATGAAAGAATACCATAAATGAAAATGTATAACAGTGCA
1 TAATTGGCATGAAAGGATGCCATAAATGAAAATGTATAACAGTGCA
* *
1969961 TAATTGGCATCAATGGATGCCATAAATGAAAATGTATAACAGTGCA
1 TAATTGGCATGAAAGGATGCCATAAATGAAAATGTATAACAGTGCA
*
1970007 TAATTGGCATGAAAGGATGCCATAAATGAAAATGTATAACAATGCA
1 TAATTGGCATGAAAGGATGCCATAAATGAAAATGTATAACAGTGCA
1970053 TAATTGGCATGAAAGGATGCCATAAATGAAAATGTATAACAGTGCA
1 TAATTGGCATGAAAGGATGCCATAAATGAAAATGTATAACAGTGCA
* *
1970099 TAATTGGCATGAAATGATGCCACAAATGAAAAT
1 TAATTGGCATGAAAGGATGCCATAAATGAAAAT
1970132 ACATAGTGGT
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 160 1.00
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.25
Consensus pattern (46 bp):
TAATTGGCATGAAAGGATGCCATAAATGAAAATGTATAACAGTGCA
Found at i:1971895 original size:16 final size:16
Alignment explanation
Indices: 1971874--1971906 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1971864 TTTAAATGTA
1971874 TGATTAGATCCATTAG
1 TGATTAGATCCATTAG
1971890 TGATTAGATCCATTAG
1 TGATTAGATCCATTAG
1971906 T
1 T
1971907 AATCGATCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (16 bp):
TGATTAGATCCATTAG
Found at i:1977626 original size:47 final size:44
Alignment explanation
Indices: 1977552--1977678 Score: 130
Period size: 47 Copynumber: 2.8 Consensus size: 44
1977542 TATAAAATCT
*
1977552 CTTACCATT-TATCTCATAAGCTTGTAAGCTTATTTTACCAAAATA
1 CTTACCATTAT-TC-CATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1977597 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCA-TT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* ** *
1977644 CTTGCCATTATTCTGTAAGCTCATAAGCTTATTTT
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTTT
1977679 CATGGTTACC
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
44 23 0.33
45 7 0.10
46 4 0.06
47 33 0.47
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (44 bp):
CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:1983807 original size:2 final size:2
Alignment explanation
Indices: 1983802--1983826 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1983792 CCTTGTGTGC
1983802 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1983827 GTTTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1986779 original size:19 final size:17
Alignment explanation
Indices: 1986755--1986795 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
1986745 ATGATTAAAA
*
1986755 AAATTAAATTTAATAGATT
1 AAATTAAAATT-AT-GATT
1986774 AAATTAAAATTATGATT
1 AAATTAAAATTATGATT
1986791 AAATT
1 AAATT
1986796 GATATAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 2 0.10
19 10 0.48
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
AAATTAAAATTATGATT
Found at i:1987633 original size:21 final size:21
Alignment explanation
Indices: 1987609--1987668 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
1987599 TTAGAAAGAT
*
1987609 AAAAATAATAAAACTAATATG
1 AAAAATAATAAAATTAATATG
1987630 AAAAA-ATATAAAATTTAAT-TG
1 AAAAATA-ATAAAA-TTAATATG
*
1987651 AGAAAT-ATAAAATTAATA
1 AAAAATAATAAAATTAATA
1987669 ATTTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 5 0.15
20 7 0.21
21 17 0.52
22 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAAATAATAAAATTAATATG
Found at i:1987648 original size:22 final size:20
Alignment explanation
Indices: 1987609--1987668 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
1987599 TTAGAAAGAT
*
1987609 AAAAATAATAAAACTAATATG
1 AAAAAT-ATAAAATTAATATG
1987630 AAAAAATATAAAATTTAAT-TG
1 -AAAAATATAAAA-TTAATATG
*
1987651 AGAAATATAAAATTAATA
1 AAAAATATAAAATTAATA
1987669 ATTTTAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 5 0.15
20 11 0.32
21 8 0.24
22 10 0.29
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAAATATAAAATTAATATG
Found at i:1994662 original size:29 final size:29
Alignment explanation
Indices: 1994600--1994667 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
1994590 TTGTTGTTGT
** * *
1994600 TTTTAAAAAACTATAGAATTTTTTAAATTT
1 TTTT-AAAAACTATAGAATTTTCAAAAATG
*
1994630 TTTTAAAAACTATATAATTTTCAAAAATG
1 TTTTAAAAACTATAGAATTTTCAAAAATG
1994659 TTTTAAAAA
1 TTTTAAAAA
1994668 TTTTATATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 29 0.88
30 4 0.12
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (29 bp):
TTTTAAAAACTATAGAATTTTCAAAAATG
Found at i:1994701 original size:38 final size:37
Alignment explanation
Indices: 1994640--1994983 Score: 324
Period size: 37 Copynumber: 9.2 Consensus size: 37
1994630 TTTTAAAAAC
* *
1994640 TATATAA-TTTTCAAAAATGTTTTAAAAATTTTATAT
1 TATATAAGTTTTCAAAAATGTTTTAAAAACTATATAT
*
1994676 TATATAAGTTTTCAAAAATGTTTTTAAAACTATATAT
1 TATATAAGTTTTCAAAAATGTTTTAAAAACTATATAT
* *
1994713 TATATAATTTTTCAAAAATGTTTTTAAAACTATATAT
1 TATATAAGTTTTCAAAAATGTTTTAAAAACTATATAT
*
1994750 TATATAATTTTTCAAAAATGTTTTTCAAAAAAACTATATAT
1 TATATAAGTTTTCAAAAATG-TTTT---AAAAACTATATAT
*
1994791 TATATAAGTTTTC-AAAATGTTTTAAAAACTATATAA
1 TATATAAGTTTTCAAAAATGTTTTAAAAACTATATAT
*
1994827 TATATAAATGTTTTC-AAAATGTTTTCAAAACTATATAT
1 TATAT-AA-GTTTTCAAAAATGTTTTAAAAACTATATAT
* *** * * * *
1994865 TATAT-ATTTTTTTTAAATATTTCAAAATCTATATAA
1 TATATAAGTTTTCAAAAATGTTTTAAAAACTATATAT
* * * *
1994901 TATATAAATTTTCGAAAATCGTTTTCTGAAAATTATATAT
1 TATATAAGTTTTCAAAAAT-G-TTT-TAAAAACTATATAT
* * *
1994941 TATAT---TTTGTCAAAAATATTTTCACAAACTATATTAC
1 TATATAAGTTT-TCAAAAATGTTTT-AAAAACTATA-TAT
1994978 TATATA
1 TATATA
1994984 CATATACATA
Statistics
Matches: 259, Mismatches: 33, Indels: 30
0.80 0.10 0.09
Matches are distributed among these distances:
35 5 0.02
36 57 0.22
37 103 0.40
38 43 0.17
39 7 0.03
40 20 0.08
41 24 0.09
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (37 bp):
TATATAAGTTTTCAAAAATGTTTTAAAAACTATATAT
Found at i:1994848 original size:11 final size:11
Alignment explanation
Indices: 1994832--1994856 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1994822 TATAATATAT
1994832 AAATGTTTTCA
1 AAATGTTTTCA
1994843 AAATGTTTTCA
1 AAATGTTTTCA
1994854 AAA
1 AAA
1994857 CTATATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:1994996 original size:2 final size:2
Alignment explanation
Indices: 1994978--1995054 Score: 60
Period size: 2 Copynumber: 42.0 Consensus size: 2
1994968 ACTATATTAC
* * * *
1994978 TA TA TA CA TA TA CA TA TA TA TA TG CA TA TA TA TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1995018 -A TA -A TA -A TA -A AA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1995055 AAACAAAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
1 7 0.12
2 52 0.88
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (2 bp):
TA
Found at i:1996326 original size:65 final size:65
Alignment explanation
Indices: 1996223--1996382 Score: 182
Period size: 65 Copynumber: 2.5 Consensus size: 65
1996213 AATTAAATTG
* * * * * *
1996223 AACATCAAATGCATTTCATGCATCGATACA-CATACCATGCACCGATGCATTGAGGAT-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGAAGCACTCAGGATATTT-TG
1996286 AA
65 -A
* * * *
1996288 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGAAGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGAAGCACTCAGGATATTTTGA
*
1996352 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
1996383 TCTTAGTGCA
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 31 0.38
65 46 0.56
66 5 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGAAGCACTCAGGATATTTTGA
Found at i:1996382 original size:17 final size:19
Alignment explanation
Indices: 1996354--1996402 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1996344 TATTTTGAAA
1996354 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
1996372 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
1996391 CACCGATGCACT
1 CATCGATGCACT
1996403 GAGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:2003862 original size:21 final size:21
Alignment explanation
Indices: 2003820--2003863 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2003810 ACCCCGGGAG
*
2003820 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
2003841 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
2003862 CT
1 CT
2003864 CCTCCTACGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:2004987 original size:46 final size:45
Alignment explanation
Indices: 2004931--2005036 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 45
2004921 ATACAATACC
* *
2004931 ATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTGAGGATATTT-TG-AAACATCGAATGCACTTG
** *
2004977 ATGCATCGATGCACTTTGGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGCACTGAGGATATTTTGAAACATCGAATGCACTTG
2005022 ATGCATCGATGCACT
1 ATGCATCGATGCACT
2005037 CTTAGTGCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
45 32 0.59
46 19 0.35
47 3 0.06
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (45 bp):
ATGCATCGATGCACTGAGGATATTTTGAAACATCGAATGCACTTG
Found at i:2005035 original size:17 final size:19
Alignment explanation
Indices: 2005007--2005055 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2004997 TATTTTGAAA
2005007 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
2005025 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
2005044 CACCGATGCACT
1 CATCGATGCACT
2005056 GAGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:2007550 original size:39 final size:39
Alignment explanation
Indices: 2007494--2007573 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
2007484 ATAGGAATTT
2007494 TCTATATATATAAAAATTTAAATTCAATAGTTGATTTAA
1 TCTATATATATAAAAATTTAAATTCAATAGTTGATTTAA
*
2007533 TCTATATATATATAAATTTAAATTCAATAGTTGATTTAA
1 TCTATATATATAAAAATTTAAATTCAATAGTTGATTTAA
2007572 TC
1 TC
2007574 GATACGAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (39 bp):
TCTATATATATAAAAATTTAAATTCAATAGTTGATTTAA
Found at i:2013331 original size:19 final size:19
Alignment explanation
Indices: 2013307--2013346 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
2013297 AGGTAGGATG
2013307 GACAGTGACGAAACTTGGT
1 GACAGTGACGAAACTTGGT
*
2013326 GACAGTGACGAAATTTGGT
1 GACAGTGACGAAACTTGGT
2013345 GA
1 GA
2013347 TAGAATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.23
Consensus pattern (19 bp):
GACAGTGACGAAACTTGGT
Found at i:2013424 original size:32 final size:31
Alignment explanation
Indices: 2013366--2013426 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
2013356 AGGGGTCAAC
*
2013366 TTAAAATTTTAAAAAATATTAGAGGTTTAAA
1 TTAAAATTTTAAAAAATATTAAAGGTTTAAA
* * *
2013397 TTAAGATTTTTAAAAATTTTGAAAGGTTTA
1 TTAAAATTTTAAAAAATATT-AAAGGTTTA
2013427 GTTTATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (31 bp):
TTAAAATTTTAAAAAATATTAAAGGTTTAAA
Found at i:2017511 original size:31 final size:32
Alignment explanation
Indices: 2017475--2017577 Score: 135
Period size: 31 Copynumber: 3.3 Consensus size: 32
2017465 AATGATAATG
* *
2017475 ATAATGCTCAA-TCAACTAGTATTGAATATTG
1 ATAATGCTCAATTCAACTAATATTGAATATTA
*
2017506 ATAATGCTCAATTC-ACTAATATTGAATGTTA
1 ATAATGCTCAATTCAACTAATATTGAATATTA
2017537 ATAATGCTCAATTCAA-TAATATT-AA-ATGTA
1 ATAATGCTCAATTCAACTAATATTGAATAT-TA
2017567 ATAATGCTCAA
1 ATAATGCTCAA
2017578 ACCACTAGTA
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
29 1 0.02
30 15 0.23
31 46 0.71
32 3 0.05
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.36
Consensus pattern (32 bp):
ATAATGCTCAATTCAACTAATATTGAATATTA
Found at i:2017584 original size:61 final size:62
Alignment explanation
Indices: 2017475--2017590 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 62
2017465 AATGATAATG
* * **
2017475 ATAATGCTCAATCAACTAGTATTGAATATTGATAATGCTCAATTCACTAATATTGAATGTTA
1 ATAATGCTCAATCAACTAATATTGAATATTAATAATGCTCAAACCACTAATATTGAATGTTA
*
2017537 ATAATGCTCAATTCAA-TAATATT-AA-ATGTAATAATGCTCAAACCACTAGTATTG
1 ATAATGCTCAA-TCAACTAATATTGAATAT-TAATAATGCTCAAACCACTAATATTG
2017591 GAAATGACAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
60 2 0.04
61 24 0.51
62 17 0.36
63 4 0.09
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (62 bp):
ATAATGCTCAATCAACTAATATTGAATATTAATAATGCTCAAACCACTAATATTGAATGTTA
Found at i:2018920 original size:6 final size:6
Alignment explanation
Indices: 2018909--2018936 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2018899 TAAATAATTA
2018909 AATTCG AATTCG AATTCG AATTCG AATT
1 AATTCG AATTCG AATTCG AATTCG AATT
2018937 TGAACTAGGT
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:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (6 bp):
AATTCG
Found at i:2019841 original size:36 final size:36
Alignment explanation
Indices: 2019789--2019862 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
2019779 AAGGGAAAGC
*
2019789 ATTTGATTAGTAATTATTGAACTGTGATTTATTTTT
1 ATTTCATTAGTAATTATTGAACTGTGATTTATTTTT
2019825 ATTTCATTAGTAATTATTGAACTGTGATTTATTTTT
1 ATTTCATTAGTAATTATTGAACTGTGATTTATTTTT
2019861 AT
1 AT
2019863 ACATGTGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.55
Consensus pattern (36 bp):
ATTTCATTAGTAATTATTGAACTGTGATTTATTTTT
Found at i:2021799 original size:61 final size:60
Alignment explanation
Indices: 2021666--2021809 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 60
2021656 ACTTATAAAT
* * * * ***
2021666 ATTCTAATTTCATCTCTAAACTATGACTATCATTCTAAATTAGTCCTTGAATTTTTGAAC
1 ATTCCAATTTCATCCCCAAACTATGACTATCATTCTAAATTACTCCAAAAATTTTTGAAC
* *
2021726 ATTTCAATTTCATCCCCAAACTATTATCTA-CATTCTAAATTACTCCAAAAACTTTTTGAAC
1 ATTCCAATTTCATCCCCAAACTATGA-CTATCATTCTAAATTACTCCAAAAA-TTTTTGAAC
*
2021787 ATTCCAATTTCAT-CACAAACTAT
1 ATTCCAATTTCATCCCCAAACTAT
2021810 ATGCATATAC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
60 47 0.66
61 24 0.34
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.40
Consensus pattern (60 bp):
ATTCCAATTTCATCCCCAAACTATGACTATCATTCTAAATTACTCCAAAAATTTTTGAAC
Found at i:2022109 original size:59 final size:60
Alignment explanation
Indices: 2021929--2022113 Score: 187
Period size: 60 Copynumber: 3.1 Consensus size: 60
2021919 CATTCTGATG
* * * ** * * * *
2021929 GTTTGGGGATGGAATTAGAACATTCAAAAGTTTGGGAATCAATTTAAAGTGATG-GTCATA
1 GTTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGAACCAATTTAAAAT-AAGAATCATA
* * * *
2021989 TTTTAGGGATGAAATTAGAATGTTCAAAAGTTTAAGAACTAATTTAGAATAAGAATCATA
1 GTTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGAACCAATTTAAAATAAGAATCATA
* * *
2022049 GTTTAGGGATGAAATTAGAATATTTAAAA-TTTAAGGACCAATTTAAAATAA-AAGTTATA
1 GTTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGAACCAATTTAAAATAAGAA-TCATA
2022108 GTTTAG
1 GTTTAG
2022114 AGATATATGA
Statistics
Matches: 103, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
58 2 0.02
59 31 0.30
60 70 0.68
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.34
Consensus pattern (60 bp):
GTTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGAACCAATTTAAAATAAGAATCATA
Found at i:2023837 original size:51 final size:51
Alignment explanation
Indices: 2023764--2023861 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
2023754 TTGCAGTAAG
* ** *
2023764 GCGCCCCCTACAGTGCGTTTTACGCTGATCTGGCGCCACGTGGGGTAAGGC
1 GCGCCCCCTACAGCGCACTTTACGCAGATCTGGCGCCACGTGGGGTAAGGC
* *
2023815 GCGCCCCCTGCAGCGCACTTTACGCAGATCTGGTGCCACGTGGGGTA
1 GCGCCCCCTACAGCGCACTTTACGCAGATCTGGCGCCACGTGGGGTA
2023862 TAGCGCAGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.14, C:0.33, G:0.33, T:0.20
Consensus pattern (51 bp):
GCGCCCCCTACAGCGCACTTTACGCAGATCTGGCGCCACGTGGGGTAAGGC
Found at i:2024156 original size:16 final size:16
Alignment explanation
Indices: 2024105--2024157 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
2024095 ATATTTTGTT
2024105 TTTAATTTATTTAAGTA
1 TTTAATTTATTTAA-TA
2024122 TTTAAATTT-TTTAATA
1 TTT-AATTTATTTAATA
* *
2024138 TTTAATTTAATTAAAA
1 TTTAATTTATTTAATA
2024154 TTTA
1 TTTA
2024158 TTTGCAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 5 0.16
16 14 0.44
17 8 0.25
18 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTAATTTATTTAATA
Found at i:2026467 original size:33 final size:34
Alignment explanation
Indices: 2026430--2026503 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 34
2026420 TAATACTTAC
2026430 TTTATTTCATT-AATTTGGTTGGATTTATT-TTAA
1 TTTATTTCATTAAATTT-GTTGGATTTATTGTTAA
** *
2026463 TTTATTTTGTTAAATTTGTTGGATTTTTTGTTAA
1 TTTATTTCATTAAATTTGTTGGATTTATTGTTAA
*
2026497 TGTATTT
1 TTTATTT
2026504 TGGTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 20 0.57
34 15 0.43
ACGTcount: A:0.22, C:0.01, G:0.14, T:0.64
Consensus pattern (34 bp):
TTTATTTCATTAAATTTGTTGGATTTATTGTTAA
Found at i:2026497 original size:34 final size:34
Alignment explanation
Indices: 2026441--2026517 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 34
2026431 TTATTTCATT
*
2026441 AATTTGGTTGGATTTATTTTAATTTATTTT-GTTA
1 AATTT-GTTGGATTTATTTTAATGTATTTTGGTTA
*
2026475 AATTTGTTGGATTTTTTGTTAATGTATTTTGGTTA
1 AATTTGTTGGATTTATT-TTAATGTATTTTGGTTA
*
2026510 ATTTTGTT
1 AATTTGTT
2026518 TATTACCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 11 0.29
34 16 0.42
35 11 0.29
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (34 bp):
AATTTGTTGGATTTATTTTAATGTATTTTGGTTA
Found at i:2030767 original size:64 final size:64
Alignment explanation
Indices: 2030666--2030793 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
2030656 TATGTTATAT
** * *
2030666 CATTTAACTGGAAATATCATCAAGTTCAATAACATATTAGGTAGCGCTTATATAATGTAATAGG
1 CATTTAACCAGAAATATCATCAAGTACAATAACATATTAGGCAGCGCTTATATAATGTAATAGG
* *
2030730 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGCAGCGTTTATATAATGTAATAGG
1 CATTTAACCAGAAATATCATCAAGTACAATAACATATTAGGCAGCGCTTATATAATGTAATAGG
2030794 TAGAGCTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (64 bp):
CATTTAACCAGAAATATCATCAAGTACAATAACATATTAGGCAGCGCTTATATAATGTAATAGG
Found at i:2031247 original size:200 final size:198
Alignment explanation
Indices: 2030800--2031324 Score: 696
Period size: 200 Copynumber: 2.6 Consensus size: 198
2030790 TAGGTAGAGC
* * * * *
2030800 TTATATTGACCTATTTTCTAACTAAACCGGTTTATTTATACCGGTAACATTGCAAATTTACCTAT
1 TTATGTTGACCTATTTTCTAA-TAAACTGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * * *
2030865 TACATTATAATTATTAGTTTCGGTGTTTTTGGGATCGATACAATTT--TAAATGTATCAACACTT
65 TACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCAACACTT
* * * * * *
2030928 TCTTCGTATACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGTCACATATTTAAAAAGTTTCG
129 TATGCGTACACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAATTTAAAAAGTGTCG
2030993 ATACA
194 ATACA
* *
2030998 TTATGTTGACCTATTCTCTCATAAAACTGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
1 TTATGTTGACCTATTTTCTAAT-AAACTGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * **
2031063 TACATCATAATTATCGGTTTTGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGGCACTTT
65 TACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACTTTTAATAAATGTATCAACACTTT
* * *
2031128 ATGCGTACACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTTCACAAGTGTC
130 ATGCGTACACCTCG-TTGGGCATTCATTCTGGA-AAAAAGTATCGACACAAATTTAAAAAGTGTC
2031193 GATACA
193 GATACA
* * * * *
2031199 TTATGTTTACCTATTTTGTAATTAACTGGTATATTTATACCAGTTACATTGTTAATTTACCTATT
1 TTATGTTGACCTATTTTCTAATAAACTGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
* *
2031264 ACATTATAATTATTGGTTTTGATGTTTTTGGGGTCGACACTTTTAGA-AAATGTATCAACAC
66 ACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACTTTTA-ATAAATGTATCAACAC
2031325 ATGTTTTTAC
Statistics
Matches: 284, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
197 4 0.01
198 92 0.32
199 27 0.10
200 111 0.39
201 50 0.18
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (198 bp):
TTATGTTGACCTATTTTCTAATAAACTGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
ACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACTTTTAATAAATGTATCAACACTTTA
TGCGTACACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAATTTAAAAAGTGTCGAT
ACA
Found at i:2034081 original size:19 final size:19
Alignment explanation
Indices: 2034057--2034103 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
2034047 TACATTCACG
2034057 TACAAAATTATAAATCGTA
1 TACAAAATTATAAATCGTA
*
2034076 TACAAAATTATGAATCGTA
1 TACAAAATTATAAATCGTA
2034095 TACAAAATT
1 TACAAAATT
2034104 TCCCTTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (19 bp):
TACAAAATTATAAATCGTA
Found at i:2035331 original size:199 final size:198
Alignment explanation
Indices: 2034757--2036822 Score: 2095
Period size: 201 Copynumber: 10.4 Consensus size: 198
2034747 GCTTGCACTC
* * * * * *
2034757 TTACATTGTAAAGTTTCCTATTACCTTATAATTATCAATTTCGATGGTTTTGGGATCGATACAAT
1 TTACATTG-AAAATTACCTATTACATTATAATTATC-GTTTCGATGTTTTTGGGATCGATACATT
* * ** *
2034822 TT-TAAATGTATTGACACTTTATGT-GTGCA-CTCTTTTACGTATTCATTCTGGACAAAAAGTAT
64 TTATAAATGTATCGACACTTTAT-TCGTGCACCTCGTTTGGGCATTCATTCTGGACAAAAAGTAT
* * * * *
2034884 CGACACAGA-TTACACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAACCGGTATATTT
128 CGACACAAATTTA-AAAAGTGTCGATACATTATGTAGACCTATTCTCTAATAAACCGGTATATTT
* *
2034948 CTACCAG
192 ATACCGG
* * *
2034955 TTACATTGTAAAGTTACATATTACATTATAATTATCAGTTTCGATGTTTTTGGGATCGATACAAT
1 TTACATTG-AAAATTACCTATTACATTATAATTATC-GTTTCGATGTTTTTGGGATCGATACATT
* * * * *
2035020 TT-TAAATGTATCGACACTTTATGCGTGCA-CTCTTTTAGACATTCATTCAGGACAAAAAGTATC
64 TTATAAATGTATCGACACTTTATTCGTGCACCTCGTTTGGGCATTCATTCTGGACAAAAAGTATC
** * * * * * *
2035083 GACACAAATTCCACAAGTGTCGATAAATGATGTAGACCTGTTCTCTAATTAACCGGTATATTTCT
129 GACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTAATAAACCGGTATATTTAT
2035148 ACCGG
194 ACCGG
* * * * *
2035153 TTACATTGGAAATGTACCTATTACATTATATTTATCTTATTCGATGTTTTTGGGATCAATACGTT
1 TTACATTGAAAAT-TACCTATTACATTATAATTATCGT-TTCGATGTTTTTGGGATCGATACATT
* *
2035218 TTATAAATGTATCGACACTTTATTCGTGCACCTCG-TTGGGCATTCATTCTGGTCAAAATGTATC
64 TTATAAATGTATCGACACTTTATTCGTGCACCTCGTTTGGGCATTCATTCTGGACAAAAAGTATC
* * * *
2035282 GACACAAATTTAAAAAGTGTCGATACATTATGTATACCTATTTTCTAATTAACCGGTATATTTCT
129 GACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTAATAAACCGGTATATTTAT
*
2035347 ACCAG
194 ACCGG
* * * * *
2035352 TTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATATTTTTTGGATCGATACTTT
1 TTACATTGAAAATT-ACCTATTACATTATAATTATCGT-TTCGATGTTTTTGGGATCGATACATT
* * * *
2035417 TTATAAATGTATCGACACTTTATTCGTGCACCTCGGTTGGTCCTTCATTCTGGACAAAAATTATC
64 TTATAAATGTATCGACACTTTATTCGTGCACCTCGTTTGGGCATTCATTCTGGACAAAAAGTATC
* * * * * *
2035482 GACAC-AATTTAAAAAGTGTCGATATATTATGTAGACCTATTTTCTAATTAACTGGTATATATCT
129 GACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTAATAAACCGGTATATTTAT
*
2035546 ACAGG
194 ACCGG
* * * * * *
2035551 ATATATTGTAAATTTACCTATTACATTATAATTATCTTATTCGATGCTTTTGGGATTGATAC-TT
1 TTACATTG-AAAATTACCTATTACATTATAATTATCGT-TTCGATGTTTTTGGGATCGATACATT
* * * * *
2035615 TTAATAAATGTATCGACACTTTATTCATGCACCTC-TGTTGAGCATTTATTCTGG----AGATTA
64 TT-ATAAATGTATCGACACTTTATTCGTGCACCTCGT-TTGGGCATTCATTCTGGACAAAAAGTA
* * * * * * **
2035675 -CTGAAAACGATTATTTAATAATTTGTTTCGAT--A-TAT-TTG--C-ATGC-AGATATAAA---
127 TC-G-ACAC-A-AATTTAA-AA--AGTGTCGATACATTATGTAGACCTATTCTCTA-ATAAACCG
* * * * **
2035728 ATACATTAATAACTA
184 GTATATTTATACCGG
* * * *
2035743 TT--ATTG-ATATT-TC-A--ACACTT-TAATTATCGGTTTCGATGTTTTTGGGATTGATACTTT
1 TTACATTGAAAATTACCTATTACA-TTATAATTATC-GTTTCGATGTTTTTGGGATCGATACATT
* * * * *
2035800 TTATAAATGTATAGACACTTTATGT-GTGCACCTAGTTTGAGCATTTATTCTGGACGAAAAGTAT
64 TTATAAATGTATCGACACTTTAT-TCGTGCACCTCGTTTGGGCATTCATTCTGGACAAAAAGTAT
** * * * *
2035864 CGACACAAATTCCACAAGTTTC-ATTACATTATGTAGACCTATTCTCTTATAAAACCGATATATT
128 CGACACAAATTTAAAAAGTGTCGA-TACATTATGTAGACCTATTCTCTAAT-AAACCGGTATATT
2035928 TATACCGG
191 TATACCGG
* *
2035936 TTACATTGAAAAATTACATATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACATT
1 TTACATTG-AAAATTACCTATTACATTATAATTAT-CGTTTCGATGTTTTTGGGATCGATACATT
* * *
2036001 TTATAAATGTATTGACACTTTATGT-GTGCACCTCGTTTTGGCATTCATTCTGGACAATAAGTAT
64 TTATAAATGTATCGACACTTTAT-TCGTGCACCTCGTTTGGGCATTCATTCTGGACAAAAAGTAT
** * ** * *
2036065 CGACACAAATTCCACAAGTGTCGATACATTATGTTTACCTATTCTCTCAAAAAACTGGTATATTT
128 CGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCT-AATAAACCGGTATATTT
2036130 ATACCGG
192 ATACCGG
* * * * *
2036137 TTACATTGAAAATTACATATTACATTATAATTATTGGTTTTGATGTTTTTGGGGTCGATGC-TTT
1 TTACATTGAAAATTACCTATTACATTATAATTA-TCGTTTCGATGTTTTTGGGATCGATACATTT
* * * * *
2036201 TAGAAAATATATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATTTTGGACAAAAAAGTAT
65 TA-TAAATGTATCGACACTTTATTCGTGCACCTCGTTTGGGCATTCATTCTGGAC-AAAAAGTAT
* * * ** *
2036266 CGACACAAACTTAAAAAGTGTCGATACATTATATCGACCTATTCTCTCTTAAAACAGGTATATTT
128 CGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTAAT-AAACCGGTATATTT
2036331 ATACCGG
192 ATACCGG
* *
2036338 TTACATTGAAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGATACGTT
1 TTACATTG-AAAATTACCTATTACATTATAATTAT-CGTTTCGATGTTTTTGGGATCGATACATT
* * * *
2036403 TCATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATTATGGACAAAAAGTATC
64 TTATAAATGTATCGACACTTTATTCGTGCACCTCGTTTGGGCATTCATTCTGGACAAAAAGTATC
* * *
2036468 GACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTC-ACATAAAATCAGTATATTT
129 GACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTA-AT-AAACCGGTATATTT
2036532 ATACCGG
192 ATACCGG
*
2036539 TTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGGATCGATACATT
1 TTACATTG-AAAATTACCTATTACATTATAATTAT-CGTTTCGATGTTTTTGGGATCGATACATT
* * * *
2036604 TTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATTATGGACAAAACGTATC
64 TTATAAATGTATCGACACTTTATTCGTGCACCTCGTTTGGGCATTCATTCTGGACAAAAAGTATC
** * * * *
2036669 GACACAAATTTAAAAAGTGTTAATACATCATGTAGACATATTCTCTCATAAAACTGGTATATTTA
129 GACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTAAT-AAACCGGTATATTTA
2036734 TACCGG
193 TACCGG
* *
2036740 TTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACGTT
1 TTACATTG-AAAATTACCTATTACATTATAATTAT-CGTTTCGATGTTTTTGGGATCGATACATT
2036805 TTATAAATGTATCGACAC
64 TTATAAATGTATCGACAC
2036823 ATCTATTTAC
Statistics
Matches: 1610, Mismatches: 193, Indels: 127
0.83 0.10 0.07
Matches are distributed among these distances:
181 1 0.00
182 6 0.00
184 79 0.05
185 16 0.01
186 4 0.00
187 4 0.00
188 9 0.01
189 6 0.00
190 7 0.00
192 7 0.00
193 12 0.01
194 2 0.00
195 16 0.01
196 4 0.00
197 8 0.00
198 237 0.15
199 371 0.23
200 133 0.08
201 580 0.36
202 104 0.06
203 4 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (198 bp):
TTACATTGAAAATTACCTATTACATTATAATTATCGTTTCGATGTTTTTGGGATCGATACATTTT
ATAAATGTATCGACACTTTATTCGTGCACCTCGTTTGGGCATTCATTCTGGACAAAAAGTATCGA
CACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTAATAAACCGGTATATTTATAC
CGG
Found at i:2037295 original size:19 final size:19
Alignment explanation
Indices: 2037271--2037319 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2037261 TTACATTCAC
2037271 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2037290 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2037309 ATACAAAATTA
1 ATACAAAATTA
2037320 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2038878 original size:18 final size:18
Alignment explanation
Indices: 2038855--2038893 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
2038845 TCCTCCTAAT
2038855 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
2038873 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
2038891 TTC
1 TTC
2038894 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:2039120 original size:33 final size:34
Alignment explanation
Indices: 2039075--2039142 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
2039065 CCATCTTAAG
2039075 TTCACCCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCCTCAACACCTCAACTTCTTTCACCAC
2039109 TTCA-CCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCCTCAACACCTCAACTTCTTTCACCAC
2039142 T
1 T
2039143 CCATCTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 30 0.88
34 4 0.12
ACGTcount: A:0.24, C:0.49, G:0.00, T:0.28
Consensus pattern (34 bp):
TTCACCCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:2039357 original size:9 final size:9
Alignment explanation
Indices: 2039345--2039380 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
2039335 TCTCCTCTTT
2039345 CTCCTCTGC
1 CTCCTCTGC
2039354 CTCCTCTGC
1 CTCCTCTGC
*
2039363 CTCCTCTAC
1 CTCCTCTGC
2039372 CTCCT-TGC
1 CTCCTCTGC
2039380 C
1 C
2039381 AATAACCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 3 0.12
9 22 0.88
ACGTcount: A:0.03, C:0.56, G:0.08, T:0.33
Consensus pattern (9 bp):
CTCCTCTGC
Found at i:2039637 original size:22 final size:21
Alignment explanation
Indices: 2039609--2039664 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
2039599 AACCTGTATT
*
2039609 TATAATAAAATTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
2039631 TATAATAACTACACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
2039655 TATAA-AAAAC
1 TATAATAAAAC
2039665 AAAAACGTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 2 0.07
21 1 0.03
22 8 0.27
23 2 0.07
24 16 0.53
25 1 0.03
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:2042083 original size:181 final size:182
Alignment explanation
Indices: 2041620--2042279 Score: 927
Period size: 182 Copynumber: 3.6 Consensus size: 182
2041610 TACGCGTACT
* * *
2041620 TATTAAAGTATAGACACTTTCAATATAT-CTAGTAGCGCTTTACCGGTTTTATCATTTCAAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCT-GTAGCGCTTTACCGGTTTTGTCATTTCGAGACC
*
2041684 GATTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATTGACAC
65 GATTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACAC
* *
2041749 TTTATAGGTGCTATTACTACTTCTCTTTTAAATTCCCAAAGTGTCGATATTTA
130 TTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATATTTA
* *
2041802 TATGAAAGTATCGACACTTTCAATATATCC-GCTAGCGCTTTACCGGTTTTTTCATTTCGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCTG-TAGCGCTTTACCGGTTTTGTCATTTCGAGACC
*
2041866 GATTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCAACAC
65 GATTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACAC
* * * *
2041931 TTTATAGGCGCTATTACTGTTTCTCTTTGAAATT-CTAAAGTGTCGATACTTA
130 TTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATATTTA
* * **
2041983 TATTAAAGTATCGACATTTTCAATATATCCTGTAGTGCTTTACAAGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCTGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
*
2042048 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 ATTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* *
2042113 TTATAGGCGTTATTACTGCTTCTTTTTTAAATTCCCAAAGTGTCGATATTTA
131 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATATTTA
** * * * * * *
2042165 T-TTCAATCTAATCGATACTTTCAACATATCCGGTAGTGCTTTACCGATTTTGTCATAATT--AA
1 TATT-AAAGT-ATCGACACTTTCAATATATCCTGTAGCGCTTTACCGGTTTTGTCAT--TTCGAG
* * * * *
2042227 ACCGGTTTTGTCATATATTTACATGTTATATTGATATGGATCGATACATTTTT
62 ACCGATTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTT
2042280 TATTTGGATC
Statistics
Matches: 430, Mismatches: 40, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
181 168 0.39
182 170 0.40
183 90 0.21
185 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCTGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
ATTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATATTTA
Found at i:2044065 original size:20 final size:20
Alignment explanation
Indices: 2044042--2044086 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2044032 GAAAAATGTA
2044042 AAAAAAATATACAAAATT-TT
1 AAAAAAATAT-CAAAATTATT
* *
2044062 AAAAATATATGAAAATTATT
1 AAAAAAATATCAAAATTATT
2044082 AAAAA
1 AAAAA
2044087 TTTAGGTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAAAATATCAAAATTATT
Found at i:2044067 original size:18 final size:20
Alignment explanation
Indices: 2044044--2044087 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
2044034 AAAATGTAAA
2044044 AAAAATATA-CAAAATT-TT
1 AAAAATATATCAAAATTATT
*
2044062 AAAAATATATGAAAATTATT
1 AAAAATATATCAAAATTATT
2044082 AAAAAT
1 AAAAAT
2044088 TTAGGTGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
19 6 0.26
20 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAATATATCAAAATTATT
Found at i:2051407 original size:64 final size:65
Alignment explanation
Indices: 2051248--2051408 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
2051238 TGAATAAATT
* * * * * * *
2051248 AAACATCGAATGCAGTTTATGCACCAATGCACTATACATGCATCGATGCACTCAGGGTTTTATGA
1 AAACATTGAATGCACTTCATGCATCGATGCACAATACATGCATCGATGCACTCAGGCTTTTATGA
* * * *
2051313 AAACATTGAATGCATTTGATGCATCGATGCACAATCCATGCATCGATGCACTTAGGCTATTT-TG
1 AAACATTGAATGCACTTCATGCATCGATGCACAATACATGCATCGATGCACTCAGGCT-TTTATG
2051377 -
65 A
2051377 AAACATTGAATGCACTTCATGCATCGATGCAC
1 AAACATTGAATGCACTTCATGCATCGATGCAC
2051409 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 30 0.36
65 51 0.61
66 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (65 bp):
AAACATTGAATGCACTTCATGCATCGATGCACAATACATGCATCGATGCACTCAGGCTTTTATGA
Found at i:2051408 original size:17 final size:19
Alignment explanation
Indices: 2051386--2051428 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
2051376 GAAACATTGA
*
2051386 ATGCACT-TCA-TGCATCG
1 ATGCACTCTCAGTGCACCG
*
2051403 ATGCACTCTTAGTGCACCG
1 ATGCACTCTCAGTGCACCG
2051422 ATGCACT
1 ATGCACT
2051429 AAGGATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (19 bp):
ATGCACTCTCAGTGCACCG
Found at i:2051491 original size:21 final size:21
Alignment explanation
Indices: 2051467--2051522 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
2051457 TTTACACTTG
*
2051467 ATGCATTGATGCACCTTGTGT
1 ATGCATCGATGCACCTTGTGT
2051488 ATGCATCGATGCACCTTGTGT
1 ATGCATCGATGCACCTTGTGT
2051509 ATGCATCGATGCAC
1 ATGCATCGATGCAC
2051523 TGATGCACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (21 bp):
ATGCATCGATGCACCTTGTGT
Found at i:2056166 original size:13 final size:13
Alignment explanation
Indices: 2056148--2056173 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2056138 TGCAAATTAG
2056148 ATAGGAAAAGCAC
1 ATAGGAAAAGCAC
2056161 ATAGGAAAAGCAC
1 ATAGGAAAAGCAC
2056174 CTCTGGTACT
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:0.54, C:0.15, G:0.23, T:0.08
Consensus pattern (13 bp):
ATAGGAAAAGCAC
Found at i:2058680 original size:47 final size:47
Alignment explanation
Indices: 2058626--2058720 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
2058616 AGGGGAGAAG
*
2058626 TGTTAGAGTAAGGGGGAGTAATTTCAAACTTAATTTCAAAATTTATT
1 TGTTAGAGTAAGGGGGAGTAATTTCAAACTTAATTTCAAAATGTATT
*
2058673 TGTTAGAGTAAGGGGGAGTAATTTCAAACTTGATTTCAAAATGTATT
1 TGTTAGAGTAAGGGGGAGTAATTTCAAACTTAATTTCAAAATGTATT
2058720 T
1 T
2058721 TCAAAGAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (47 bp):
TGTTAGAGTAAGGGGGAGTAATTTCAAACTTAATTTCAAAATGTATT
Found at i:2059053 original size:20 final size:20
Alignment explanation
Indices: 2059024--2059061 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2059014 TTTCAAAGGG
2059024 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
2059044 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
2059062 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:2059141 original size:65 final size:63
Alignment explanation
Indices: 2059024--2059228 Score: 218
Period size: 65 Copynumber: 3.2 Consensus size: 63
2059014 TTTCAAAGGG
* ** **
2059024 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CAATGAATAAATTG-AACATCGAATGCAGT
1 ATGCATCGATGCA-CAATCCATGCATCGATGCACTC-A-GGCTATTTTGAAACATCGAATGCA-T
2059087 TT
62 TT
* * * *
2059089 ATGCATCGATGCACTATCTATGCATCGATGCACTTAGGGT-TTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACAATCCATGCATCGATGCACTCAGGCTATTT-TG-AAACATCGAATGCATTT
* *
2059153 GATGCATCGATGCACAATCCATGCATCGATGCACTCAGGCTATTTTGAAACATTGAATGCACTTC
1 -ATGCATCGATGCACAATCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCA-TTT
2059218 ATGCATCGATG
1 ATGCATCGATG
2059229 TACTCTTAGT
Statistics
Matches: 119, Mismatches: 14, Indels: 15
0.80 0.09 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 46 0.39
65 65 0.55
66 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (63 bp):
ATGCATCGATGCACAATCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTT
Found at i:2059247 original size:129 final size:130
Alignment explanation
Indices: 2059023--2059257 Score: 300
Period size: 129 Copynumber: 1.8 Consensus size: 130
2059013 TTTTCAAAGG
*
2059023 GATGCACCGATGCACCAATCCATGCATCGATGCACCAATGAATAAATTGAACATCGAATGCAGTT
1 GATGCACCGATGCACCAATCCATGCATCGATGCACCAATGAATAAATTGAACATCGAATGCACTT
* *
2059088 TATGCATCGATGCACTATCTATGCATCGATGCACTT-AGGGTTTTATGAAAACATCGAATGCATT
66 CATGCATCGATGCACTATCTATGCACCGATGCA-TTAAGGGTTTTATGAAAACATCGAATGCATT
2059152 T
130 T
* ** ** *
2059153 GATGCATCGATGCA-CAATCCATGCATCGATGCACTC-A-GGCTATTTTGAAACATTGAATGCAC
1 GATGCACCGATGCACCAATCCATGCATCGATGCAC-CAATGAATAAATTG-AACATCGAATGCAC
* *
2059215 TTCATGCATCGATGTACTCT-TAGTGCACCGATGCATTAAGGGT
64 TTCATGCATCGATGCACTATCTA-TGCACCGATGCATTAAGGGT
2059258 CCAACGGTCA
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
128 10 0.11
129 66 0.73
130 14 0.16
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (130 bp):
GATGCACCGATGCACCAATCCATGCATCGATGCACCAATGAATAAATTGAACATCGAATGCACTT
CATGCATCGATGCACTATCTATGCACCGATGCATTAAGGGTTTTATGAAAACATCGAATGCATTT
Found at i:2059534 original size:17 final size:18
Alignment explanation
Indices: 2059512--2059554 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2059502 TGTTTGAGCA
*
2059512 TTTCAAGCCT-ATTTTTC
1 TTTCAAGACTCATTTTTC
* *
2059529 TTTCAATATTCATTTTTC
1 TTTCAAGACTCATTTTTC
2059547 TTTCAAGA
1 TTTCAAGA
2059555 ATACCATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.23, C:0.19, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTCAAGACTCATTTTTC
Found at i:2065162 original size:21 final size:21
Alignment explanation
Indices: 2065115--2065163 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
2065105 TTTTGATCAT
*
2065115 AAAATTTTTAAAAATTATAAA
1 AAAATTATTAAAAATTATAAA
** **
2065136 GTAATTATTAAATTTTATAAA
1 AAAATTATTAAAAATTATAAA
2065157 AAAATTA
1 AAAATTA
2065164 CAAACTAAAT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAATTATTAAAAATTATAAA
Found at i:2065990 original size:141 final size:138
Alignment explanation
Indices: 2065688--2065990 Score: 296
Period size: 141 Copynumber: 2.1 Consensus size: 138
2065678 ATAAATAAAA
* * * *
2065688 TATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCTTAAGACAGCTCTTTTCTTAAA
1 TATTTATATATATA-AAATATCAGAAAAGGACTTCTAGGTGCCTTAAGACAGCTCTATTCTTAAA
*
2065753 AATAAATAAATATTAAAATAACATCTTTCTAAAATAATTAAATAAATTAAATATATATAATTATA
65 AATAAATAAATATTAAAATAACATCTTTCTAAAATAATT--ATAAATTAAATATATAAAATTATA
*
2065818 AAAATGATATT
128 AAAAGGATATT
* * *
2065829 TATTTATTTATTTAAGAATATCAGAAAAGGACTTCTAGGTGCTTTAAGA-AGC-CTATTCTTAAT
1 TATTTATATATATAA-AATATCAGAAAAGGACTTCTAGGTGCCTTAAGACAGCTCTATTCTTAA-
* * *
2065892 ATTAA-AAATAAATATTAAAATATGATTATTTTTCTTAAAAGTAATT-TATA-TAAA-AT-TAAA
64 A--AATAAATAAATATTAAAATA--A-CATCTTTC-TAAAA-TAATTATAAATTAAATATATAAA
* * *
2065952 ATTTTAAATAGGATTTT
122 ATTATAAAAAGGATATT
2065969 TATTTAATATATATATAAATAT
1 TATTT-ATATATATA-AAATAT
2065991 AAAAATAAGT
Statistics
Matches: 138, Mismatches: 13, Indels: 22
0.80 0.08 0.13
Matches are distributed among these distances:
139 9 0.07
140 26 0.19
141 76 0.55
142 7 0.05
143 4 0.03
144 6 0.04
145 5 0.04
146 5 0.04
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (138 bp):
TATTTATATATATAAAATATCAGAAAAGGACTTCTAGGTGCCTTAAGACAGCTCTATTCTTAAAA
ATAAATAAATATTAAAATAACATCTTTCTAAAATAATTATAAATTAAATATATAAAATTATAAAA
AGGATATT
Found at i:2067497 original size:39 final size:38
Alignment explanation
Indices: 2067452--2067587 Score: 182
Period size: 39 Copynumber: 3.5 Consensus size: 38
2067442 AGGTTTAACA
2067452 AGTTCTTCTCATTATGAATTTCTTCTTCCTCTCAAGATG
1 AGTTCTTCTCATTATGAATTTCTTCTTCCTCTC-AGATG
* * * *
2067491 AGTTCTTCTCATTATGAACTTATTCTTCTTCTTTAGATG
1 AGTTCTTCTCATTATGAATTTCTTCTTCCTC-TCAGATG
*
2067530 AGTTCTTCTCATTATGAATTTCTTATTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAATTTCTTCTTCC-TC-TCAGATG
*
2067570 AGTTTTTCTCATTATGAA
1 AGTTCTTCTCATTATGAA
2067588 CTCTTCCACT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 58 0.68
40 27 0.32
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.49
Consensus pattern (38 bp):
AGTTCTTCTCATTATGAATTTCTTCTTCCTCTCAGATG
Found at i:2067905 original size:113 final size:115
Alignment explanation
Indices: 2067774--2068049 Score: 333
Period size: 124 Copynumber: 2.3 Consensus size: 115
2067764 AAATTAAGGC
**
2067774 AAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTGATGAGTTCTTATCATTATGAACATT-
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTTCTTCTGATGAGTTCTTATCATTATGAACATTC
** **
2067837 TCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAAAGTCAAACAA
66 TCTGGAAAAATTGATACTGATCTATCTCCTTCTGTGATAAAGTCAAACAA
*
2067887 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGCTCTTCTCATTATGAA---C-T-TT-CTTC-T--GATGAGTTCTTATCATTA
* * ** **
2067952 TGAACTTTCTCTGGAAAAATTGATACTGATTTATCTCCTTCTGTGATAGTGTCATGCAA
57 TGAACATTCTCTGGAAAAATTGATACTGATCTATCTCCTTCTGTGATAAAGTCAAACAA
2068011 AAGGTTGAACAAGCTCTTCTCATTATGAACTTT-TTCTGA
1 AAGGTTGAACAAGCTCTTCTCATTATGAACTTTCTTCTGA
2068050 AAATGTTGAT
Statistics
Matches: 139, Mismatches: 13, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
113 27 0.19
114 2 0.01
116 1 0.01
117 3 0.02
118 1 0.01
119 4 0.03
120 5 0.04
121 2 0.01
123 24 0.17
124 70 0.50
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (115 bp):
AAGGTTGAACAAGCTCTTCTCATTATGAACTTTCTTCTGATGAGTTCTTATCATTATGAACATTC
TCTGGAAAAATTGATACTGATCTATCTCCTTCTGTGATAAAGTCAAACAA
Found at i:2067950 original size:123 final size:124
Alignment explanation
Indices: 2067804--2068047 Score: 364
Period size: 124 Copynumber: 2.0 Consensus size: 124
2067794 CATTATGAAT
* ** **
2067804 TTCTTCTGATGAGTTCTTATCATTATGAACATT-TCTGGAAATGTTGATGTTGATCTATCTCCTT
1 TTCTTCAGATGAGTTCTTATCATTATGAACATTCTCTGGAAAAATTGATACTGATCTATCTCCTT
2067868 CTGTGATAAAGTCAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC
66 CTGTGATAAAGTCAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC
* * *
2067927 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATACTGATTTATCTCCTT
1 TTCTTCAGATGAGTTCTTATCATTATGAACATTCTCTGGAAAAATTGATACTGATCTATCTCCTT
** ** *
2067992 CTGTGATAGTGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCT
66 CTGTGATAAAGTCAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCT
2068048 GAAAATGTTG
Statistics
Matches: 107, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
123 30 0.28
124 77 0.72
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (124 bp):
TTCTTCAGATGAGTTCTTATCATTATGAACATTCTCTGGAAAAATTGATACTGATCTATCTCCTT
CTGTGATAAAGTCAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC
Found at i:2068225 original size:113 final size:113
Alignment explanation
Indices: 2068025--2068506 Score: 610
Period size: 113 Copynumber: 4.2 Consensus size: 113
2068015 TTGAACAAGC
* ** * * * *
2068025 TCTTCTCATTATGAACTTTTTCTGAAAATGTTGATCTATCGAGTGATGAATTCGAGCAAAAGGTT
1 TCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
*
2068090 GAACAAGTTCTTCTCATTATGAACTTATTTTTCCTTCTTCAGATGAGT
66 GAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
* *
2068138 TATTCTCATTATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
1 TCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
* *
2068203 GAATAAGTTCTTCTCATTATGAACTTATTCTTCCTTTTTCAGATGAGT
66 GAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
* *
2068251 TCTTCTCATTATGAACTCTACCTGGCAATGCTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
1 TCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
2068316 GAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
66 GAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
* *** *
2068364 TCTTCTCATTATGAACTCCT-TCTGGAAATGTTGATGCTGATCTATCTCTTTCTGCCGAT-AGAG
1 TCTTCTCATTATGAACT-CTACCTGGAAATGTTGAT-C----C-A--TC-GAAT---GATGA-AT
* * * *
2068427 TCGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTAC-TCTTCAGATGGGT
52 TCGAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
2068488 TCTTCTCATTATGAACTCT
1 TCTTCTCATTATGAACTCT
2068507 TCTTCTTTTG
Statistics
Matches: 327, Mismatches: 28, Indels: 18
0.88 0.08 0.05
Matches are distributed among these distances:
113 238 0.73
114 3 0.01
118 1 0.00
119 1 0.00
121 2 0.01
122 1 0.00
123 2 0.01
124 30 0.09
125 49 0.15
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (113 bp):
TCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCGAGCAAAAAGTT
GAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGT
Found at i:2068509 original size:19 final size:19
Alignment explanation
Indices: 2068448--2068512 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
2068438 GTTGAACAAG
2068448 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAAC-TC
****
2068468 TTCTTACTC-TTCA-GATGGG
1 TTCTT-CTCATT-ATGAACTC
2068487 TTCTTCTCATTATGAACTC
1 TTCTTCTCATTATGAACTC
2068506 TTCTTCT
1 TTCTTCT
2068513 TTTGTAAGGT
Statistics
Matches: 33, Mismatches: 8, Indels: 9
0.66 0.16 0.18
Matches are distributed among these distances:
18 4 0.12
19 16 0.48
20 9 0.27
21 4 0.12
ACGTcount: A:0.17, C:0.25, G:0.09, T:0.49
Consensus pattern (19 bp):
TTCTTCTCATTATGAACTC
Found at i:2068996 original size:22 final size:21
Alignment explanation
Indices: 2068938--2069011 Score: 107
Period size: 20 Copynumber: 3.6 Consensus size: 21
2068928 CAATAAAGTT
2068938 TTCATCTTTGAAAAGAGAATC
1 TTCATCTTTGAAAAGAGAATC
*
2068959 TT-ATCTTTAAAAAGAGAATC
1 TTCATCTTTGAAAAGAGAATC
*
2068979 TATCATCTTTGAAGAGAGAATC
1 T-TCATCTTTGAAAAGAGAATC
2069001 -TCATCTTTGAA
1 TTCATCTTTGAA
2069012 GAATGTAGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
20 29 0.60
21 3 0.06
22 16 0.33
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (21 bp):
TTCATCTTTGAAAAGAGAATC
Found at i:2073300 original size:32 final size:32
Alignment explanation
Indices: 2073259--2073320 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
2073249 GAAGAAATGA
* *
2073259 TTGTTATGCTTATCTTATAGAGATACTTCTCG
1 TTGTTATGCTCATCTCATAGAGATACTTCTCG
* *
2073291 TTGTTATGCTCATCTCGTAGAGATATTTCT
1 TTGTTATGCTCATCTCATAGAGATACTTCT
2073321 TGTGTCTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (32 bp):
TTGTTATGCTCATCTCATAGAGATACTTCTCG
Found at i:2073955 original size:16 final size:16
Alignment explanation
Indices: 2073936--2073989 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
2073926 ATTTTCCTTT
2073936 TTTTTTCTTTTTTTCC
1 TTTTTTCTTTTTTTCC
2073952 TTTTTGT-TTTTTTTCC
1 TTTTT-TCTTTTTTTCC
*
2073968 TTTTTCCTTTTTTT-C
1 TTTTTTCTTTTTTTCC
2073983 TTTTTTC
1 TTTTTTC
2073990 CTTCTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 7 0.21
16 26 0.76
17 1 0.03
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTTCTTTTTTTCC
Found at i:2073971 original size:23 final size:22
Alignment explanation
Indices: 2073933--2073992 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
2073923 TCAATTTTCC
*
2073933 TTTTTTTTTCTTTTTTTCCTTTT
1 TTTTTTTTTC-CTTTTTCCTTTT
2073956 TGTTTTTTTTCCTTTTTCCTTTT
1 T-TTTTTTTTCCTTTTTCCTTTT
2073979 TTTCTTTTTTCCTT
1 TTT-TTTTTTCCTT
2073993 CTTCTTTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 2 0.06
23 23 0.68
24 9 0.26
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.82
Consensus pattern (22 bp):
TTTTTTTTTCCTTTTTCCTTTT
Found at i:2073990 original size:16 final size:16
Alignment explanation
Indices: 2073935--2074003 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
2073925 AATTTTCCTT
*
2073935 TTTTTTTCTTTTTTTC
1 TTTTTTCCTTTTTTTC
* **
2073951 CTTTTTGTTTTTTTTC
1 TTTTTTCCTTTTTTTC
*
2073967 CTTTTTCCTTTTTTTC
1 TTTTTTCCTTTTTTTC
2073983 TTTTTTCCTTCTTCTTTC
1 TTTTTTCCTT-TT-TTTC
2074001 TTT
1 TTT
2074004 GCTGGATGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
16 36 0.80
17 2 0.04
18 7 0.16
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTTTTCCTTTTTTTC
Found at i:2076445 original size:12 final size:13
Alignment explanation
Indices: 2076422--2076450 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2076412 ATAAACGTAA
2076422 AAATGCAAAATGT
1 AAATGCAAAATGT
2076435 AAATG-AAAATGT
1 AAATGCAAAATGT
2076447 AAAT
1 AAAT
2076451 ATGTGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.59, C:0.03, G:0.14, T:0.24
Consensus pattern (13 bp):
AAATGCAAAATGT
Found at i:2076454 original size:20 final size:19
Alignment explanation
Indices: 2076421--2076459 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2076411 TATAAACGTA
2076421 AAAATGCAAAATGTAAATG
1 AAAATGCAAAATGTAAATG
* *
2076440 AAAATGTAAATATGTGAATG
1 AAAATGCAAA-ATGTAAATG
2076460 TAACAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.03, G:0.18, T:0.26
Consensus pattern (19 bp):
AAAATGCAAAATGTAAATG
Found at i:2076549 original size:15 final size:15
Alignment explanation
Indices: 2076509--2076553 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
2076499 ATAAAAGTAT
2076509 AAATGCAAAATG-AA
1 AAATGCAAAATGCAA
*
2076523 AAATGAAAAATGCAA
1 AAATGCAAAATGCAA
**
2076538 GGATGCAAAATGCAA
1 AAATGCAAAATGCAA
2076553 A
1 A
2076554 TATATGTATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.60, C:0.09, G:0.18, T:0.13
Consensus pattern (15 bp):
AAATGCAAAATGCAA
Found at i:2076550 original size:7 final size:7
Alignment explanation
Indices: 2076509--2076553 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
2076499 ATAAAAGTAT
2076509 AAATGCA
1 AAATGCA
*
2076516 AAATGAA
1 AAATGCA
*
2076523 AAATGAA
1 AAATGCA
2076530 AAATGCA
1 AAATGCA
*
2076537 AGGATGCA
1 A-AATGCA
2076545 AAATGCA
1 AAATGCA
2076552 AA
1 AA
2076554 TATATGTATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.60, C:0.09, G:0.18, T:0.13
Consensus pattern (7 bp):
AAATGCA
Found at i:2078973 original size:43 final size:42
Alignment explanation
Indices: 2078926--2079050 Score: 112
Period size: 43 Copynumber: 2.9 Consensus size: 42
2078916 AATAGGATTT
2078926 TTATTTAATATATATATAAAATATAAAAATAAGTAAATAAATA
1 TTATTTAATATATATATAAAATATAAAAATAA-TAAATAAATA
* * * * *
2078969 TTATTTATTATATATATTTATATGATACATAATAAT-AATCAATA
1 TTATTTAATATATATA-TAAAAT-ATA-AAAATAATAAATAAATA
* * *
2079013 ATAATTAA-ATATATA-AACATATAAAAATAAATAAATAA
1 TTATTTAATATATATATAAAATATAAAAAT-AATAAATAA
2079051 CGACTAAAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
39 4 0.06
40 6 0.09
41 7 0.11
43 22 0.34
44 16 0.25
45 4 0.06
46 6 0.09
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (42 bp):
TTATTTAATATATATATAAAATATAAAAATAATAAATAAATA
Found at i:2081060 original size:3 final size:3
Alignment explanation
Indices: 2081052--2081120 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
2081042 TTTTACTTAA
** *
2081052 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
2081097 ATT A-T ATAT ATT A-T ATT ATT ATT A
1 ATT ATT AT-T ATT ATT ATT ATT ATT A
2081121 AATAATTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 44 0.80
4 5 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:2081112 original size:25 final size:22
Alignment explanation
Indices: 2081052--2081120 Score: 101
Period size: 21 Copynumber: 3.3 Consensus size: 22
2081042 TTTTACTTAA
2081052 ATTATTATTAAA-ATTATTATT
1 ATTATTATTAAATATTATTATT
2081073 ATTATTATTAAATATTATTATT
1 ATTATTATTAAATATTATTATT
*
2081095 A-TATTA-TATATATTA-TATT
1 ATTATTATTAAATATTATTATT
2081114 ATTATTA
1 ATTATTA
2081121 AATAATTTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 5 0.11
20 13 0.29
21 17 0.38
22 10 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTATTATTAAATATTATTATT
Found at i:2084946 original size:14 final size:14
Alignment explanation
Indices: 2084908--2084961 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
2084898 ATTTTAAATA
*
2084908 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
2084922 TTTTACATTTGCAT
1 ATTTACATTTGCAT
2084936 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
2084951 CTTTGCATTTG
1 ATTTACATTTG
2084962 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:2088215 original size:18 final size:17
Alignment explanation
Indices: 2088192--2088227 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2088182 CTCATCCAGC
*
2088192 AAAGAAAGAAGGAAAAAA
1 AAAGAAA-AAAGAAAAAA
2088210 AAAGAAAAAAGAAAAAA
1 AAAGAAAAAAGAAAAAA
2088227 A
1 A
2088228 TTGAATCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAGAAAAAA
Found at i:2090609 original size:83 final size:83
Alignment explanation
Indices: 2090481--2090775 Score: 527
Period size: 83 Copynumber: 3.6 Consensus size: 83
2090471 GAATGTATTC
*
2090481 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATTGAATT
2090546 TAGAAGATGAATTTGCCA
66 TAGAAGATGAATTTGCCA
*
2090564 ATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATTGAATT
2090629 TAGAAGATGAATTTGCCA
66 TAGAAGATGAATTTGCCA
* *
2090647 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATTGAATT
*
2090712 TTGAAGATGAATTTGCCA
66 TAGAAGATGAATTTGCCA
* *
2090730 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGG
2090776 TAAGAACTAC
Statistics
Matches: 202, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 202 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAATCATTGAATT
TAGAAGATGAATTTGCCA
Found at i:2093372 original size:22 final size:22
Alignment explanation
Indices: 2093341--2093395 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
2093331 ATCTACACTC
*
2093341 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
2093363 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
2093385 TTCAAAGATGA
1 TTCAAAGATGA
2093396 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:2093996 original size:113 final size:113
Alignment explanation
Indices: 2093833--2094684 Score: 1228
Period size: 113 Copynumber: 7.5 Consensus size: 113
2093823 GTACCAGTTC
* * *
2093833 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAATTCATAATGAGAAGAATTTGTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * ***
2093898 CAACCTTTTGTTCAAATCTATCACTTGATGGATTATCTTTTCCAGTTC
66 CAACCTTTTGTTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGA
* *
2093946 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGGAGAAGTTCATAATGAGAAGAATTTG-T
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* *
2094010 CAAACCTTTTGTTCAAATCTATCACTTGATGGATCAGCTTTGCCAGAGA
66 C-AACCTTTTGTTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGA
*
2094059 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTATT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* *
2094124 CAACCTTTTGTTTAAATCCATCACTTGATGGATCAGCTTTGCCAGAGA
66 CAACCTTTTGTTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGA
*
2094172 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
*
2094237 CAACCTTTTGTTTAAATCCATCACTTGATGGATCAGCTTTTCCAGAGA
66 CAACCTTTTGTTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGA
* *
2094285 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGGAGAAGTTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * *
2094350 CAACC-TTT-TACATGAATTCGTCAATTGATGGATCATCTTTTCCAGAGA
66 CAACCTTTTGTTCA--AATCCATCACTTGATGGATCAGCTTTTCCAGAGA
* *
2094398 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* ** * * * * *
2094463 CAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-GTA
66 CAACCTTTTGTTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-A
* * *
2094511 GAGTTCATAATGAGAAGAACTCGTCATCTGAAAAAGGAAGAAGAAGTTCATAATAAGAGGAATTT
1 GAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
* * *
2094576 GTTCAACCTTTTGCTCAAATCCATCACTTGATGGAGCAGTTTTTCCAGAGA
63 GTTCAACCTTTTGTTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGA
*
2094627 -AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAA
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
2094685 CTCATCAAGA
Statistics
Matches: 671, Mismatches: 57, Indels: 23
0.89 0.08 0.03
Matches are distributed among these distances:
111 2 0.00
112 40 0.06
113 527 0.79
114 5 0.01
115 20 0.03
116 76 0.11
117 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
CAACCTTTTGTTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGA
Found at i:2095702 original size:21 final size:21
Alignment explanation
Indices: 2095676--2095717 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2095666 CCAGAATGGG
*
2095676 GGGAATCGGTACCCCTGCATA
1 GGGAATCGATACCCCTGCATA
*
2095697 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTGCATA
2095718 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (21 bp):
GGGAATCGATACCCCTGCATA
Found at i:2095846 original size:19 final size:19
Alignment explanation
Indices: 2095822--2095887 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
2095812 TGAGCCTCGG
*
2095822 TTACTGTTCAAACAGTGAT
1 TTACTGTTCAAACAGTAAT
*
2095841 TTACTG-TCAAATAGTAAT
1 TTACTGTTCAAACAGTAAT
* * *
2095859 TTACTATTCAAATAGTAAA
1 TTACTGTTCAAACAGTAAT
*
2095878 TTACTATTCA
1 TTACTGTTCA
2095888 TAAAAACATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.36
19 27 0.64
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TTACTGTTCAAACAGTAAT
Found at i:2095999 original size:30 final size:31
Alignment explanation
Indices: 2095952--2096042 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
2095942 AAATTTTGAA
2095952 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2095981 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2096012 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
2096043 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 11 0.18
31 38 0.63
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:2096358 original size:76 final size:76
Alignment explanation
Indices: 2096085--2096621 Score: 904
Period size: 76 Copynumber: 7.1 Consensus size: 76
2096075 ATAAAGCCTT
*
2096085 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
*
2096150 TT-AAAGCCTTC
66 TTCAAATCC-TC
2096161 -GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
2096225 TTCAAATCCTC
66 TTCAAATCCTC
*
2096236 -GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGAGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
2096300 TTCAAATCCTC
66 TTCAAATCCTC
*
2096311 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
*
2096376 TT-AAAGCCTTC
66 TTCAAATCC-TC
2096387 -GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
2096451 TTCAAATCCTC
66 TTCAAATCCTC
*
2096462 AGGGTCATCTGTAAGTCCTTTAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
*
2096527 TTCAAACCCTC
66 TTCAAATCCTC
* * *
2096538 AGGGTCATCTGTAAGTCCTGCAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
* *
2096603 TTTAAACCCTC
66 TTCAAATCCTC
*
2096614 GGGGTCAT
1 AGGGTCAT
2096622 TCATAAGACC
Statistics
Matches: 440, Mismatches: 16, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
75 213 0.48
76 227 0.52
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (76 bp):
AGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTT
TTCAAATCCTC
Done.