Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 372 of 433
Found at i:116631721 original size:52 final size:50
Alignment explanation
Indices: 116631545--116632098 Score: 687
Period size: 48 Copynumber: 10.9 Consensus size: 50
116631535 CATCGCCTAC
*
116631545 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
116631595 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC--ATAC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
116631643 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATAT
* *
116631695 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATAT
* * *
116631747 ATATTTCACATTAACCATTCAGCTTTACCACATATACACATCTCATATATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC------ATATAT
* *
116631803 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTC--ATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
116631851 ATATTTCACATTAGCCATTCGG-TTTACCACATATACATATCTCATATATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC------ATATAT
* **
116631906 ATATTTCACATTAACCATTCAACTTTACCACATATACATATCTCATATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATATAT
* *
116631960 ATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTC--ATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* * *
116632008 ATATTTCACGTTAGCCATTTGGCTTTACCACATATACATATCTC--ATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
116632056 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
116632099 TATGCATCAA
Statistics
Matches: 459, Mismatches: 26, Indels: 40
0.87 0.05 0.08
Matches are distributed among these distances:
47 21 0.05
48 157 0.34
49 2 0.00
50 40 0.09
52 96 0.21
54 52 0.11
55 22 0.05
56 69 0.15
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:116645965 original size:52 final size:52
Alignment explanation
Indices: 116645887--116645991 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
116645877 AACTTAAATA
116645887 ACAACATCAATTCAACTTATCATTCCCTTTTTCATCATTTTACACTTCAAGT
1 ACAACATCAATTCAACTTATCATTCCCTTTTTCATCATTTTACACTTCAAGT
116645939 ACAACATCAATTCAACTTATCATTCCCTTTTTCATCATTTTACACTTCAAGT
1 ACAACATCAATTCAACTTATCATTCCCTTTTTCATCATTTTACACTTCAAGT
116645991 A
1 A
116645992 TGAACTTACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.40
Consensus pattern (52 bp):
ACAACATCAATTCAACTTATCATTCCCTTTTTCATCATTTTACACTTCAAGT
Found at i:116652678 original size:40 final size:40
Alignment explanation
Indices: 116652623--116652906 Score: 327
Period size: 40 Copynumber: 7.1 Consensus size: 40
116652613 TTGAATGATA
* * * * **
116652623 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTATAT
* * * * *
116652663 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GACTACAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG-TTATAT
* * *
116652703 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTATAT
* *
116652743 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTATAT
* * * *
116652783 CCGGGCTAAGACCCGAAGGCATTCGTGGAAGTTGTTAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTATAT
* *
116652823 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTATAT
* * *
116652863 CCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTATAT
116652903 CCGG
1 CCGG
116652907 TTGTATTCCG
Statistics
Matches: 206, Mismatches: 36, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
40 205 1.00
41 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTATAT
Found at i:116652757 original size:80 final size:80
Alignment explanation
Indices: 116652623--116652906 Score: 383
Period size: 80 Copynumber: 3.5 Consensus size: 80
116652613 TTGAATGATA
* * ** * ** * * * *
116652623 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTG
* *
116652688 TGCTAGT-G-ACTACAT
66 TGCAAGTCGTTCT--AT
116652703 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTG
116652768 TGCAAGTCGTTCTAT
66 TGCAAGTCGTTCTAT
*
116652783 CCGGGCTAAGACCCGAAGGCATTCGTGGAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTG
116652848 TGCAAGTCGTTCTAT
66 TGCAAGTCGTTCTAT
* * *
116652863 CCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGG
116652907 TTGTATTCCG
Statistics
Matches: 184, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
80 181 0.98
81 1 0.01
82 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTG
TGCAAGTCGTTCTAT
Found at i:116656623 original size:40 final size:40
Alignment explanation
Indices: 116656564--116656749 Score: 210
Period size: 40 Copynumber: 4.7 Consensus size: 40
116656554 CAATTGAATG
* * * *
116656564 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
116656604 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
116656644 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
116656684 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
*
116656724 CTATCCGGGCTAAGACCCGAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCAT
116656750 CGTGCATGTG
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 124 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:116656702 original size:80 final size:80
Alignment explanation
Indices: 116656565--116656770 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
116656555 AATTGAATGA
* * ** * * *
116656565 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
116656630 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
116656643 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
116656708 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
116656725 TATCCGGGCTAAGACCCGAAGGCA-TCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
116656771 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 19 0.18
80 85 0.79
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:116662824 original size:29 final size:29
Alignment explanation
Indices: 116662791--116662864 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
116662781 CCTTCGAGCT
116662791 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
116662820 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
116662849 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
116662865 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:116662825 original size:58 final size:58
Alignment explanation
Indices: 116662732--116662864 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
116662722 ATACTCGATT
* * * * *
116662732 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
116662790 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
116662848 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
116662865 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:116670701 original size:29 final size:29
Alignment explanation
Indices: 116670668--116670741 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
116670658 CCTTCGAGCT
116670668 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
116670697 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
116670726 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
116670742 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:116670702 original size:58 final size:58
Alignment explanation
Indices: 116670609--116670741 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
116670599 ATACTCGATT
* * * * *
116670609 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
116670667 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
116670725 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
116670742 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:116674472 original size:29 final size:29
Alignment explanation
Indices: 116674439--116674512 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
116674429 CCTTCGAGCT
116674439 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
116674468 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
116674497 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
116674513 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:116674473 original size:58 final size:58
Alignment explanation
Indices: 116674380--116674512 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
116674370 ATACTCGATT
* * * * *
116674380 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
116674438 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
116674496 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
116674513 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:116682333 original size:29 final size:29
Alignment explanation
Indices: 116682300--116682373 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
116682290 CCTTCGAGCT
116682300 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
116682329 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
116682358 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
116682374 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:116682334 original size:58 final size:58
Alignment explanation
Indices: 116682241--116682373 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
116682231 ATACTCGATT
* * * * *
116682241 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
116682299 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
116682357 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
116682374 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:116686607 original size:40 final size:40
Alignment explanation
Indices: 116686548--116686835 Score: 288
Period size: 40 Copynumber: 7.2 Consensus size: 40
116686538 CAATTGAATG
* * * *
116686548 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
116686588 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
116686628 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
116686668 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
116686708 CTATCCGGGCTAAGACCCGAAGGCATTCGTGGAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
116686748 AAATCCGGGCTAATACCCGCAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
116686788 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
116686828 ATATCCGG
1 ATATCCGG
116686836 TTGTATTCCG
Statistics
Matches: 208, Mismatches: 40, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:116686686 original size:80 final size:80
Alignment explanation
Indices: 116686549--116686835 Score: 380
Period size: 80 Copynumber: 3.6 Consensus size: 80
116686539 AATTGAATGA
* * ** * ** * * * *
116686549 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
* *
116686614 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTTC
116686627 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
116686692 ATTTGTGCAAGTCGTTC
64 ATTTGTGCAAGTCGTTC
* *
116686709 TATCCGGGCTAAGACCCGAAGGCATTCGTGGAAGTTGTTAAATCCGGGCTAATACCCGCAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
116686774 TTGTGCAAGTCGTTC
66 TTGTGCAAGTCGTTC
* * *
116686789 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGG
116686836 TTGTATTCCG
Statistics
Matches: 186, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
78 1 0.01
80 182 0.98
81 1 0.01
82 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
TTGTGCAAGTCGTTC
Found at i:116686766 original size:120 final size:120
Alignment explanation
Indices: 116686550--116686835 Score: 335
Period size: 120 Copynumber: 2.4 Consensus size: 120
116686540 ATTGAATGAT
* * * * *
116686550 ATCCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATCCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
* * *
116686614 TTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
65 TTGTGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* *
116686670 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* * * * * **
116686734 TCGTGGAAGTTG-TTAAATCCGGGCTAATACCCGCAGGCATTTGTGCAAGTCGTTCT
66 T-GTGCAAG-TGACTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * * *
116686790 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGG
116686836 TTGTATTCCG
Statistics
Matches: 141, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
119 4 0.03
120 135 0.96
121 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (120 bp):
ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
Found at i:116690652 original size:54 final size:54
Alignment explanation
Indices: 116690570--116690713 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
116690560 TGGAGGAAGC
116690570 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
116690624 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
116690678 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
116690714 ACTTCGTCAC
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 6 0.07
54 81 0.93
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:116690724 original size:27 final size:27
Alignment explanation
Indices: 116690573--116690731 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
116690563 AGGAAGCGTC
*
116690573 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
116690600 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
116690627 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
116690654 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
116690681 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
116690708 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
116690732 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:116690725 original size:81 final size:80
Alignment explanation
Indices: 116690573--116690731 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 80
116690563 AGGAAGCGTC
*
116690573 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
116690638 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
116690654 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
116690717 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
116690732 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
80 17 0.24
81 53 0.76
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:116698592 original size:27 final size:25
Alignment explanation
Indices: 116698544--116698701 Score: 138
Period size: 27 Copynumber: 5.9 Consensus size: 25
116698534 GGAAGCGTCC
* *
116698544 TGGTGGCTATGCCATAATTATCTGATT
1 TGGTGGCTCTGCCACAA-TATCTG-TT
* *
116698571 TGCTGGCTCTGCCACATATATCTGTCC
1 TGGTGGCTCTGCCACA-ATATCTGT-T
*
116698598 TGGTGGCTATGCCACAATTATCTGATT
1 TGGTGGCTCTGCCACAA-TATCTG-TT
*
116698625 TGGTGGCTCAGCCACATATATCTGTT
1 TGGTGGCTCTGCCACA-ATATCTGTT
116698651 CTGGTGGCTCTGCCACAATATCTGTAT
1 -TGGTGGCTCTGCCACAATATCTGT-T
* *
116698678 CTGGTGACT-TCGTCACAATATCTG
1 -TGGTGGCTCT-GCCACAATATCTG
116698702 GCAGCCTCAC
Statistics
Matches: 111, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
26 13 0.12
27 95 0.86
28 3 0.03
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (25 bp):
TGGTGGCTCTGCCACAATATCTGTT
Found at i:116698683 original size:54 final size:54
Alignment explanation
Indices: 116698540--116698683 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
116698530 TGGAGGAAGC
* * *
116698540 GTCCTGGTGGCTATGCCATAATTATCTGATTTGCTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCAGCCACATATATCT
116698594 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCAGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCAGCCACATATATCT
* * *
116698648 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATTTGGTG
116698684 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 6 0.07
54 77 0.93
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCAGCCACATATATCT
Found at i:116708703 original size:8 final size:8
Alignment explanation
Indices: 116708676--116708709 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
116708666 AATTAAGAAT
116708676 TATTATTA
1 TATTATTA
* *
116708684 TGTTAATA
1 TATTATTA
116708692 TATTATTA
1 TATTATTA
116708700 TATTATTA
1 TATTATTA
116708708 TA
1 TA
116708710 ATATAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (8 bp):
TATTATTA
Found at i:116709488 original size:5 final size:5
Alignment explanation
Indices: 116709480--116709505 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
116709470 GAGTATTGGT
116709480 ATTGA ATTGA ATTGA ATTGA ATTGA A
1 ATTGA ATTGA ATTGA ATTGA ATTGA A
116709506 GTATGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTGA
Found at i:116711025 original size:19 final size:20
Alignment explanation
Indices: 116710995--116711033 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
116710985 AAAGGGACAT
116710995 TATGATTAAATTATGATGTG
1 TATGATTAAATTATGATGTG
*
116711015 TATGA-TAAATTATTATGTG
1 TATGATTAAATTATGATGTG
116711034 GTTATTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TATGATTAAATTATGATGTG
Found at i:116711389 original size:2 final size:2
Alignment explanation
Indices: 116711382--116711451 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
116711372 TATGAAAATA
116711382 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
116711424 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
116711452 CTCTCAATTC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:116711795 original size:14 final size:14
Alignment explanation
Indices: 116711778--116711804 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
116711768 TTTAAAACCA
116711778 TAAATTTATTTTTC
1 TAAATTTATTTTTC
116711792 TAAATTTATTTTT
1 TAAATTTATTTTT
116711805 ATTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
TAAATTTATTTTTC
Found at i:116711807 original size:20 final size:21
Alignment explanation
Indices: 116711782--116711823 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
116711772 AAACCATAAA
*
116711782 TTTATTTTTCTAAAT-TTATT
1 TTTATTTTTCAAAATATTATT
116711802 TTTATTTTTCAAAATATTATT
1 TTTATTTTTCAAAATATTATT
116711823 T
1 T
116711824 ACCGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATTTTTCAAAATATTATT
Found at i:116713278 original size:14 final size:14
Alignment explanation
Indices: 116713259--116713353 Score: 111
Period size: 14 Copynumber: 6.8 Consensus size: 14
116713249 TCACATTCAA
*
116713259 ATTCATAGATGTGG
1 ATTCATAGATGTAG
* *
116713273 ATTCAT-GCTTGTGG
1 ATTCATAG-ATGTAG
*
116713287 ATTCATAGATGCAG
1 ATTCATAGATGTAG
116713301 ATTCATAGATGTAG
1 ATTCATAGATGTAG
*
116713315 ATTCATAGATATAG
1 ATTCATAGATGTAG
* *
116713329 ATTCATAAATGCAG
1 ATTCATAGATGTAG
116713343 ATTCATAGATG
1 ATTCATAGATG
116713354 AGGATTGTCC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
13 1 0.01
14 67 0.97
15 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.35
Consensus pattern (14 bp):
ATTCATAGATGTAG
Found at i:116713318 original size:42 final size:42
Alignment explanation
Indices: 116713259--116713353 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
116713249 TCACATTCAA
* * * * *
116713259 ATTCATAGATGTGGATTCAT-GCTTGTGGATTCATAGATGCAG
1 ATTCATAGATGTAGATTCATAG-ATATAGATTCATAAATGCAG
116713301 ATTCATAGATGTAGATTCATAGATATAGATTCATAAATGCAG
1 ATTCATAGATGTAGATTCATAGATATAGATTCATAAATGCAG
116713343 ATTCATAGATG
1 ATTCATAGATG
116713354 AGGATTGTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.35
Consensus pattern (42 bp):
ATTCATAGATGTAGATTCATAGATATAGATTCATAAATGCAG
Found at i:116726214 original size:19 final size:19
Alignment explanation
Indices: 116726179--116726257 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
116726169 AGATTATAAG
116726179 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
116726200 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
116726219 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
116726236 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
116726255 ATC
1 ATC
116726258 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:116726221 original size:14 final size:15
Alignment explanation
Indices: 116726201--116726257 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
116726191 AGATTGCATA
116726201 TCATATCTAAGATTG
1 TCATATCTAAGATTG
116726216 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
116726235 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
116726252 -CATATC
1 TCATATC
116726258 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:116726243 original size:36 final size:39
Alignment explanation
Indices: 116726179--116726257 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
116726169 AGATTATAAG
116726179 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
116726219 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
116726255 ATC
1 ATC
116726258 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:116730672 original size:7 final size:7
Alignment explanation
Indices: 116730660--116730684 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
116730650 ACATTTCTAA
116730660 TCATCCC
1 TCATCCC
116730667 TCATCCC
1 TCATCCC
116730674 TCATCCC
1 TCATCCC
116730681 TCAT
1 TCAT
116730685 TCATCATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:116730691 original size:14 final size:14
Alignment explanation
Indices: 116730659--116730692 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
116730649 CACATTTCTA
116730659 ATCATCCCTCATCC
1 ATCATCCCTCATCC
* *
116730673 CTCATCCCTCATTC
1 ATCATCCCTCATCC
116730687 ATCATC
1 ATCATC
116730693 ATTCTCTCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.21, C:0.47, G:0.00, T:0.32
Consensus pattern (14 bp):
ATCATCCCTCATCC
Found at i:116733191 original size:22 final size:22
Alignment explanation
Indices: 116733163--116733206 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
116733153 TGAAGATTGA
116733163 AAGACAATTGGAGAGTCAACAC
1 AAGACAATTGGAGAGTCAACAC
116733185 AAGACAATTGGAGAGTCAACAC
1 AAGACAATTGGAGAGTCAACAC
116733207 GCTATCATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (22 bp):
AAGACAATTGGAGAGTCAACAC
Found at i:116736069 original size:41 final size:41
Alignment explanation
Indices: 116735988--116736147 Score: 198
Period size: 41 Copynumber: 3.9 Consensus size: 41
116735978 ATACTCAATA
* *
116735988 TCTCGCACACTAAGTGCCAATACCTAGCC-AGAGCTATTATAG
1 TCTCGCACATTAAGTGCC-ATACATAGCCGA-AGCTATTATAG
* *
116736030 TCTCGCACATTAAGTGCCTTACATAGCCGAAGCTATTATAA
1 TCTCGCACATTAAGTGCCATACATAGCCGAAGCTATTATAG
* * **
116736071 TCTCGCACATTAAGTGCCTTACATAGCTGAAGCTATCT-CGG
1 TCTCGCACATTAAGTGCCATACATAGCCGAAGCTAT-TATAG
*
116736112 TCTCGCACATTAAGTGCCATATATAGCCGAAGCTAT
1 TCTCGCACATTAAGTGCCATACATAGCCGAAGCTAT
116736148 ATTGAATCGA
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
41 86 0.82
42 19 0.18
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (41 bp):
TCTCGCACATTAAGTGCCATACATAGCCGAAGCTATTATAG
Found at i:116736591 original size:40 final size:40
Alignment explanation
Indices: 116736547--116736627 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
116736537 CCAAATTTAA
*
116736547 TACATGTTACTAGCAGCCCATATTTTCAATTTATTCACAC
1 TACATGTTACTAGCAGCCCATATTTTAAATTTATTCACAC
*
116736587 TACATGTTACTAGTAGCCCATATTTTAAATTTATTCACAC
1 TACATGTTACTAGCAGCCCATATTTTAAATTTATTCACAC
116736627 T
1 T
116736628 TTTAACCACC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (40 bp):
TACATGTTACTAGCAGCCCATATTTTAAATTTATTCACAC
Found at i:116739499 original size:19 final size:19
Alignment explanation
Indices: 116739468--116739505 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
116739458 TAAGGGTCAT
116739468 AAATTTTATAAATAATAAA
1 AAATTTTATAAATAATAAA
*
116739487 AAATATTTA-AAATCATAAA
1 AAAT-TTTATAAATAATAAA
116739506 TTTAGTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTTTATAAATAATAAA
Found at i:116755932 original size:43 final size:42
Alignment explanation
Indices: 116755879--116755996 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 42
116755869 TGACGTATCG
* *
116755879 TACCAATGCCATGTCCCAGACATGGTCTTACATAGAAATCTCA
1 TACCGATGCCATGTCCCAGACATGGTCTTACA-AGAAACCTCA
** * **
116755922 TATTGATGCCAATAG-CCCAG-CTATGGTCTTACACGATGCCTCA
1 TACCGATGCC-AT-GTCCCAGAC-ATGGTCTTACAAGAAACCTCA
* *
116755965 TGCCGATGCCATGTCCCAAACATGGTCTTACA
1 TACCGATGCCATGTCCCAGACATGGTCTTACA
116755997 CTGGCTCACA
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
41 1 0.02
42 17 0.29
43 22 0.37
44 18 0.31
45 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (42 bp):
TACCGATGCCATGTCCCAGACATGGTCTTACAAGAAACCTCA
Found at i:116756042 original size:48 final size:47
Alignment explanation
Indices: 116755968--116756237 Score: 342
Period size: 48 Copynumber: 5.6 Consensus size: 47
116755958 TGCCTCATGC
* * *
116755968 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAATAATG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
** * * * *
116756015 TCGATGCCATGTCCCAGACATATTCTTACACTGTCTTACATAATAATG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
116756063 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
* *
116756111 CCGATGCTATGTCCCAGACATGCTCTTACACTGGCTCACGTAACAATG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
* * *
116756159 CTGATGACATGTCCTAGACATGGTCTTACACTGGATCACGTAACAATG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
* * *
116756207 CCATTTCCATGTCCCAAACATGGTCTTACAC
1 CGA-TGCCATGTCCCAGACATGGTCTTACAC
116756238 GGTTACACAT
Statistics
Matches: 195, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
47 3 0.02
48 191 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATG
Found at i:116762268 original size:2 final size:2
Alignment explanation
Indices: 116762261--116762303 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
116762251 TATAACCAAG
116762261 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
116762303 A
1 A
116762304 AACCATAAGC
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:116772722 original size:21 final size:21
Alignment explanation
Indices: 116772697--116772740 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
116772687 ATAAGTCTTC
116772697 AAAAATAAATAAAAGAAAAAAT
1 AAAAAT-AATAAAAGAAAAAAT
* *
116772719 AAAAATAATAAAATAATAAAT
1 AAAAATAATAAAAGAAAAAAT
116772740 A
1 A
116772741 GACTCAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAAATAATAAAAGAAAAAAT
Found at i:116775417 original size:10 final size:10
Alignment explanation
Indices: 116775404--116775429 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
116775394 CGTTTTGTCC
116775404 CTTTTTTGCT
1 CTTTTTTGCT
116775414 CTTTTTTGCT
1 CTTTTTTGCT
116775424 CTTTTT
1 CTTTTT
116775430 GACTCTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (10 bp):
CTTTTTTGCT
Found at i:116776882 original size:91 final size:91
Alignment explanation
Indices: 116776723--116776903 Score: 301
Period size: 91 Copynumber: 2.0 Consensus size: 91
116776713 AGAGTCTAAG
116776723 CTCGACTTACCTCGTATTTGCACAGTCATGGTGGCTCGAGGAGTTAAAACTCCTCATTCCTGTAA
1 CTCGACTTACCTCGTATTTGCACAGTCATGGTGGCTCGAGGAGTTAAAACTCCTCATTCCTGTAA
116776788 TCAATCTTATCAAAATAAGGTTTTAA
66 TCAATCTTATCAAAATAAGGTTTTAA
* * * * *
116776814 CTCGACTTACCTCGTATTTGTACGGTCATGGTGGCTCGAGGAGTTGAAACTCCTTATTCTTGCT-
1 CTCGACTTACCTCGTATTTGCACAGTCATGGTGGCTCGAGGAGTTAAAACTCCTCATTCCTG-TA
116776878 ATCAATCTTATCAAAATAAGGTTTTA
65 ATCAATCTTATCAAAATAAGGTTTTA
116776904 GATGAGTACT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
91 83 0.99
92 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (91 bp):
CTCGACTTACCTCGTATTTGCACAGTCATGGTGGCTCGAGGAGTTAAAACTCCTCATTCCTGTAA
TCAATCTTATCAAAATAAGGTTTTAA
Found at i:116781072 original size:46 final size:47
Alignment explanation
Indices: 116781014--116781287 Score: 211
Period size: 50 Copynumber: 5.7 Consensus size: 47
116781004 AGGGCATTGT
116781014 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-TATGA
* * * * * *
116781060 GAGCTAGAGTAAGACCATTTTTGGGACATGGCATCGAAG-TAGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG--GCCACATATGA
** * * *
116781108 GTCCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-AGA-GA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATATGA
** **
116781151 TTTTGCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCACACATATGCGA
1 --GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATAT--GA
* * **
116781203 GAGTTAGTGTAAGACCATGTCTGGGACATGGCATTAGAACACATATACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCCACATAT--GA
* *
116781253 GAGCTAGTGTAAGACTATGTATGGGACATGGCATC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
116781288 AACATCTTAC
Statistics
Matches: 182, Mismatches: 31, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
43 2 0.01
44 4 0.02
45 14 0.08
46 32 0.18
47 29 0.16
48 22 0.12
49 5 0.03
50 71 0.39
51 1 0.01
52 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATATGA
Found at i:116781220 original size:50 final size:50
Alignment explanation
Indices: 116781155--116781286 Score: 219
Period size: 50 Copynumber: 2.6 Consensus size: 50
116781145 AAGAGATTTT
* *
116781155 GCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCACACATATGCGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTAGAACACATATACGAGA
*
116781205 GTTAGTGTAAGACCATGTCTGGGACATGGCATTAGAACACATATACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATTAGAACACATATACGAGA
* *
116781255 GCTAGTGTAAGACTATGTATGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
116781287 CAACATCTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATTAGAACACATATACGAGA
Found at i:116788714 original size:47 final size:46
Alignment explanation
Indices: 116788604--116788817 Score: 177
Period size: 47 Copynumber: 4.6 Consensus size: 46
116788594 GGCATTGTTA
* * * * * *
116788604 GCTAGTGTAAGACATGTTTAGGACATGCATCAACTATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTAGATGATGAGT
* * *
116788650 GCCAGAGTAAGACCATGTTTGGGACATGGCATCAGCGTAGA-GATGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-TAGATGATGAGT
* *
116788698 GTTAGTGTAAGACATGTCTGGGACATGCATC-GTCCTCGATGATGA-T
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG--CTAGATGATGAGT
* ** **
116788744 AGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTAAGA-GAT-TTT
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCAGCT-AGATGATGAGT
116788790 GCTAGTGTAAGACGATGTCTGGGACATG
1 GCTAGTGTAAGAC-ATGTCTGGGACATG
116788818 GTATCAGCAC
Statistics
Matches: 139, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
45 13 0.09
46 39 0.28
47 62 0.45
48 22 0.16
49 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTAGATGATGAGT
Found at i:116788767 original size:94 final size:92
Alignment explanation
Indices: 116788604--116788817 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 92
116788594 GGCATTGTTA
* * * * *
116788604 GCTAGTGTAAGACATGTTTAGGACATGCATCAACTATATTATGAGAGCCAGAGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAACTAGATGATGAGAGCCAGAGTAAGACCATGTC
116788669 TGGGACATGGCATCAGCGT-AGAGATGAGT
66 TGGGACAT-GCATCAGC-TAAGAGAT-AGT
* ** * * *
116788698 GTTAGTGTAAGACATGTCTGGGACATGCATCGTCCTCGATGATGATAGCCAGTGTAAGA-CATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-AACTAGATGATGAGAGCCAGAGTAAGACCATGT
** **
116788762 CTGGGACATGCATTGGCTAAGAGATTTT
65 CTGGGACATGCATCAGCTAAGAGATAGT
116788790 GCTAGTGTAAGACGATGTCTGGGACATG
1 GCTAGTGTAAGAC-ATGTCTGGGACATG
116788818 GTATCAGCAC
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
92 14 0.14
93 26 0.26
94 41 0.41
95 20 0.20
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAACTAGATGATGAGAGCCAGAGTAAGACCATGTC
TGGGACATGCATCAGCTAAGAGATAGT
Found at i:116802953 original size:2 final size:2
Alignment explanation
Indices: 116802946--116802984 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
116802936 TATAACCAAG
116802946 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116802985 AACCACAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:116804130 original size:20 final size:20
Alignment explanation
Indices: 116804105--116804146 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
116804095 TTAAGTACGT
116804105 CTATTTGCTTATAAACTTAC
1 CTATTTGCTTATAAACTTAC
116804125 CTATTTGCTTATAAACTTAC
1 CTATTTGCTTATAAACTTAC
116804145 CT
1 CT
116804147 CGGACGATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (20 bp):
CTATTTGCTTATAAACTTAC
Found at i:116808482 original size:26 final size:26
Alignment explanation
Indices: 116808453--116808560 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
116808443 TTAAATGCCC
*
116808453 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
116808479 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
116808505 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
116808531 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
116808557 ATCA
1 ATCA
116808561 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:116811437 original size:228 final size:227
Alignment explanation
Indices: 116810759--116811441 Score: 722
Period size: 228 Copynumber: 3.0 Consensus size: 227
116810749 TCCAATTAAG
* * * * ** *
116810759 ATGCAGATCTTCGTTAAGACCCTGACCGGCAAGACCATCACCCTCGAAGTCGAGAGTTCCGACAC
1 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * * *
116810824 GATCGACAACGTTAAGGCGAAAATCCAAGACAAGGAAGGGATCCCACCAGACCAAC-AACGTCTC
66 GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGAATCCCACCAGACCAGCAAAGGT-TC
* * * *
116810888 ATCTTCGCCGGAAAACAGCTCGAAGATGGCCGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
130 ATTTTCGCCGGGAAACAACTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
* * * * *
116810953 CACCCTACATCTCGTCCTCCGTCTACGTGGTGGC
195 CACCCTCCA-CTTGTCTTGCGTCTTCGTGGTGGC
* * * *
116810987 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAGACCATAACTTTGGAAGTCGAAAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * * * * *
116811052 CATTGACAACGTCAAGGCAAAGATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGCTCA
66 GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGAATCCCACCAGACCAGCAAAGGTTCA
* * * *
116811117 TATTT-GCCGGGAAACAACTCGAGGACGGTCGCACCTTGGCCGATTACAACATCCAGAAGGAGTC
131 T-TTTCGCCGGGAAACAACTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTC
* * * * *
116811181 CACCCTCCATTTGGTATTGAGGCTTCGTGGTGGG
195 CACCCTCCACTT-GTCTTGCGTCTTCGTGGTGGC
* * ** * * * * *
116811215 ATGCAGATTTTCGTCAAGACGTTGACTGGGAAAACCATAACTTTGGAGGTGGAGAGTTCCGATAC
1 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
* * * * * * *
116811280 GATCGACAATGTTAAGGCGAAGATTCAGGACAAAGAAGGAATTCCACCAGATCAGCAAAGGTTGA
66 GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGAATCCCACCAGACCAGCAAAGGTTCA
* * * * * * * * *
116811345 TTTTCGCTGGGAAACAATTGGAAGATGGAAGGACTTTGGCTGATTACAATATTCAGAAGGAATCC
131 TTTTCGCCGGGAAACAACTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTCC
*
116811410 ACTCTCCACCTTGTCTTGCGTCTTCGTGGTGG
196 ACCCTCCA-CTTGTCTTGCGTCTTCGTGGTGG
116811442 TTTCTAAGCT
Statistics
Matches: 371, Mismatches: 79, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
227 4 0.01
228 360 0.97
229 7 0.02
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.20
Consensus pattern (227 bp):
ATGCAGATCTTCGTCAAAACCCTGACCGGCAAAACCATAACTTTGGAAGTCGAGAGTTCCGACAC
GATCGACAACGTTAAGGCGAAGATCCAAGACAAGGAAGGAATCCCACCAGACCAGCAAAGGTTCA
TTTTCGCCGGGAAACAACTCGAAGATGGACGGACCTTGGCCGATTACAACATCCAGAAGGAGTCC
ACCCTCCACTTGTCTTGCGTCTTCGTGGTGGC
Found at i:116823084 original size:33 final size:33
Alignment explanation
Indices: 116823042--116823107 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
116823032 GGGCAAAATG
116823042 GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAA
1 GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAA
*
116823075 GTCAATTGGAAGAGAGAGAAGTCTAGAAAGTAA
1 GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAA
116823108 TGATGATGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.47, C:0.06, G:0.29, T:0.18
Consensus pattern (33 bp):
GTCAATTGGAAGAGAGAGAAATCTAGAAAGTAA
Found at i:116823178 original size:31 final size:31
Alignment explanation
Indices: 116823136--116823201 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
116823126 TTTATAGTTA
*
116823136 TTTAATTAGATAAT-TATTATT-TATTTAATAT
1 TTTAATAAGAT-ATGTATTATTAT-TTTAATAT
*
116823167 TTTAATAAGATATGTATTATTATTTTATTAT
1 TTTAATAAGATATGTATTATTATTTTAATAT
116823198 TTTA
1 TTTA
116823202 CTTAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 28 0.90
32 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (31 bp):
TTTAATAAGATATGTATTATTATTTTAATAT
Found at i:116823220 original size:2 final size:2
Alignment explanation
Indices: 116823215--116823258 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
116823205 AATATATATA
*
116823215 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TC TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
116823257 TG
1 TG
116823259 AAAGAAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.02, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:116824284 original size:19 final size:19
Alignment explanation
Indices: 116824260--116824297 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
116824250 ATAATTTAGT
*
116824260 GACTATGACTCAAATGGAC
1 GACTATAACTCAAATGGAC
116824279 GACTATAACTCAAATGGAC
1 GACTATAACTCAAATGGAC
116824298 AACTTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (19 bp):
GACTATAACTCAAATGGAC
Found at i:116826187 original size:20 final size:21
Alignment explanation
Indices: 116826162--116826210 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
116826152 ATTATTTAAT
*
116826162 TATAATTAACTTAA-TTAACC
1 TATAATTAACTAAACTTAACC
*
116826182 TATAATTAACTAAACTTAAGC
1 TATAATTAACTAAACTTAACC
116826203 T-TAATTAA
1 TATAATTAA
116826211 AAAATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (21 bp):
TATAATTAACTAAACTTAACC
Found at i:116831304 original size:60 final size:60
Alignment explanation
Indices: 116831169--116831307 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
116831159 ATCAGTGTTA
* *
116831169 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAAAAGAGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTAAAAGAGTAT
* * * **
116831230 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-CGAGA-TAT
1 ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTAAAAGAGTAT
*
116831290 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTTGCCCATAT
116831308 TAACACAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
60 48 0.72
61 16 0.24
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (60 bp):
ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTAAAAGAGTAT
Found at i:116831343 original size:19 final size:20
Alignment explanation
Indices: 116831300--116831355 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
116831290 ATTGGGCCTT
116831300 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
116831320 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
116831339 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
116831356 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:116835633 original size:60 final size:60
Alignment explanation
Indices: 116835498--116835636 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
116835488 ATCAGTGTTA
* *
116835498 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAAAAGAGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTAAAAGAGTAT
* * * **
116835559 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-CGAGA-TAT
1 ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTAAAAGAGTAT
*
116835619 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTTGCCCATAT
116835637 TAACACAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
60 48 0.72
61 16 0.24
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (60 bp):
ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTAAAAGAGTAT
Found at i:116835672 original size:19 final size:20
Alignment explanation
Indices: 116835629--116835684 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
116835619 ATTGGGCCTT
116835629 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
116835649 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
116835668 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
116835685 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:116836296 original size:8 final size:8
Alignment explanation
Indices: 116836283--116836315 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
116836273 TTCATAAATG
116836283 TCGGCTTT
1 TCGGCTTT
116836291 TCGGCTTT
1 TCGGCTTT
*
116836299 TCGACTTT
1 TCGGCTTT
116836307 TCGGCTTT
1 TCGGCTTT
116836315 T
1 T
116836316 ACCGATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.21, T:0.52
Consensus pattern (8 bp):
TCGGCTTT
Found at i:116837857 original size:19 final size:18
Alignment explanation
Indices: 116837820--116837863 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
116837810 ATACATACAG
116837820 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
116837837 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
116837856 TACTAATT
1 TAATAATT
116837864 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:116839061 original size:58 final size:58
Alignment explanation
Indices: 116838971--116839088 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
116838961 ATCCAAACAT
* * *
116838971 TGGAATCACGATACCTACAATAGATGTGAAGATTGGTGATCACCTCTCAATGGTATCG
1 TGGAATCACGATACCTACAATAGACGTGAAGATTGGAGACCACCTCTCAATGGTATCG
*
116839029 TGGAATCACGATACCTACAATAGACGTGAAGATTGGAGACCGCCTCTCAATGGTATCG
1 TGGAATCACGATACCTACAATAGACGTGAAGATTGGAGACCACCTCTCAATGGTATCG
116839087 TG
1 TG
116839089 ATATCCACCC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (58 bp):
TGGAATCACGATACCTACAATAGACGTGAAGATTGGAGACCACCTCTCAATGGTATCG
Found at i:116847988 original size:44 final size:44
Alignment explanation
Indices: 116847935--116848026 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
116847925 CTGAAGTAAC
* * *
116847935 AGTAGCAGTACAACACACGTGGTGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTC-AAGGTCGA
* **
116847979 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAGGTCGA
116848023 AGTA
1 AGTA
116848027 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAGGTCGA
Found at i:116854677 original size:23 final size:25
Alignment explanation
Indices: 116854651--116854697 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
116854641 TATCATTCAT
*
116854651 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
116854674 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
116854698 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:116855014 original size:46 final size:46
Alignment explanation
Indices: 116854954--116855257 Score: 345
Period size: 46 Copynumber: 7.0 Consensus size: 46
116854944 TTTGACGTGA
* * * ** * *
116854954 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
116855000 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
116855046 TGCCATGGTATCTTTCAACGATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
116855092 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
116855138 TGCCATGGTATGTTTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
116855176 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
116855214 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
116855258 AGAGCACACT
Statistics
Matches: 232, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
38 68 0.29
39 2 0.01
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 5 0.02
46 149 0.64
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:116855185 original size:38 final size:38
Alignment explanation
Indices: 116855134--116855247 Score: 210
Period size: 38 Copynumber: 3.0 Consensus size: 38
116855124 ATTTCATATC
*
116855134 AGGTTGCCATGGTATGTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
*
116855172 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
116855210 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
116855248 TTCATATCAG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 73 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:116863165 original size:40 final size:40
Alignment explanation
Indices: 116863121--116863288 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
116863111 TCGGATACAA
*
116863121 CCGGATATAACCAC-ATGCACGAATGCCTTCGAGTCTTAGC
1 CCGGATATAACCACTA-GCACGAATGCCTTCGGGTCTTAGC
* * * *
116863161 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
*
116863201 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *
116863241 CCGGATA-AAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCACTAGCACGAA-TGCCTTCGGGTCTTAGC
116863281 CCGGATAT
1 CCGGATAT
116863289 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:116863261 original size:80 final size:80
Alignment explanation
Indices: 116863121--116863288 Score: 250
Period size: 80 Copynumber: 2.1 Consensus size: 80
116863111 TCGGATACAA
*
116863121 CCGGATATAACCACATGCACGAATGCCTTCGAGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACCACATGCACGAATGCCTTCGAGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
116863186 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * *
116863201 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACCACATGCACGAATGCCTTCGAGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
116863264 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
116863281 CCGGATAT
1 CCGGATAT
116863289 CATTCAATTG
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 77 0.96
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CCGGATATAACCACATGCACGAATGCCTTCGAGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:116867746 original size:39 final size:40
Alignment explanation
Indices: 116867693--116867802 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
116867683 CTGGAAATTA
* *
116867693 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-T-GGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
**
116867731 TATTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTC
1 TA-TCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTAGGC
*
116867772 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
116867803 AGGTGATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
38 5 0.08
39 26 0.42
40 26 0.42
41 5 0.08
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
Found at i:116867816 original size:40 final size:40
Alignment explanation
Indices: 116867652--116867818 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
116867642 AAATTGAATG
* * * * **
116867652 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGGTGATT
* **
116867692 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTA-GTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGGTGATT
*
116867732 AT-TCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAG-GTGATT
* *
116867771 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAGGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGGTGATT
116867811 ATATCCGG
1 ATATCCGG
116867819 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 28 0.27
40 69 0.67
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGGTGATT
Found at i:116871083 original size:40 final size:40
Alignment explanation
Indices: 116871004--116871229 Score: 326
Period size: 40 Copynumber: 5.7 Consensus size: 40
116870994 CGGAATACAA
* * * *
116871004 CCGGATATAACCACATGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
116871044 CCAGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
116871084 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* *
116871124 CCGGCTTTAACTACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* *
116871164 CTGGATTTAACTACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
116871204 CCGGATTTAACAACTTGCACGAATGC
1 CCGGATTTAACAACTTGCACGAATGC
116871230 ACACACATAC
Statistics
Matches: 167, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 167 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:116874717 original size:32 final size:32
Alignment explanation
Indices: 116874676--116874741 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
116874666 ATGGACATGT
116874676 TTTAATTATTTTTATAAGTTATATAGTAAAGG
1 TTTAATTATTTTTATAAGTTATATAGTAAAGG
116874708 TTTAATTATTTTTATAAGTTATATAGTAAAGG
1 TTTAATTATTTTTATAAGTTATATAGTAAAGG
116874740 TT
1 TT
116874742 AAAAGTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
TTTAATTATTTTTATAAGTTATATAGTAAAGG
Found at i:116875670 original size:10 final size:10
Alignment explanation
Indices: 116875655--116875683 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
116875645 GAAATGTTTG
116875655 ATGATATAAT
1 ATGATATAAT
116875665 ATGATATAAT
1 ATGATATAAT
116875675 A-GATATAAT
1 ATGATATAAT
116875684 TGTTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (10 bp):
ATGATATAAT
Found at i:116879696 original size:30 final size:30
Alignment explanation
Indices: 116879662--116879723 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
116879652 ACTTCATGAA
116879662 AAGTTTGGTGCATATGTAATGTATCTTATG
1 AAGTTTGGTGCATATGTAATGTATCTTATG
116879692 AAGTTTGGTGCATATGTAATGTATCTTATG
1 AAGTTTGGTGCATATGTAATGTATCTTATG
116879722 AA
1 AA
116879724 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (30 bp):
AAGTTTGGTGCATATGTAATGTATCTTATG
Found at i:116881375 original size:13 final size:13
Alignment explanation
Indices: 116881343--116881375 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
116881333 ATATTTATTA
116881343 ATATTTTAATAAG
1 ATATTTTAATAAG
116881356 A-ATTTTAATAAG
1 ATATTTTAATAAG
116881368 ATATTTTA
1 ATATTTTA
116881376 TTATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (13 bp):
ATATTTTAATAAG
Found at i:116883848 original size:39 final size:39
Alignment explanation
Indices: 116883805--116883882 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
116883795 TAATTCGTCT
116883805 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
1 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
116883844 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
1 AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
116883883 CTTAGTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.05, G:0.33, T:0.18
Consensus pattern (39 bp):
AAATCGGTGAAGTTGAGATGGAGAGATAAAATGGAAGCA
Found at i:116886711 original size:5 final size:5
Alignment explanation
Indices: 116886701--116886734 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
116886691 ATTATTATTA
*
116886701 AATAT AATAT AATAT AATAT AATTT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATA
116886735 ACTAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:116888511 original size:86 final size:83
Alignment explanation
Indices: 116888029--116888693 Score: 387
Period size: 85 Copynumber: 7.9 Consensus size: 83
116888019 TACGTCTTTG
* * * * * * ** *
116888029 TTTGGAAACAAAACAATATCGAATAAAATCTTTTTAAACAACGGGAATAAATCCTAAAATAGATT
1 TTTGGAAATAAAATAAAATCGAATAAAATC-TGTTAAACAGCAGGAATAAATCCCGAAACAGATT
*
116888094 TTATTTAATTTAATTCTAA
65 TTATTTAATTTAATTCTCA
* * * * ** *
116888113 TTTGGAAACAAAATAAAATCAAATAAAATATTGTTAAACCGGCAGGAATAAATCTTGAAATAGAT
1 TTTGGAAATAAAATAAAATCGAATAAAAT-CTGTTAAA-CAGCAGGAATAAATCCCGAAACAGAT
* *
116888178 TTTATTTAATTTAACTCTAA
64 TTTATTTAATTTAATTCTCA
* * * *
116888198 TTTGGAAATAAAATGAAATCAAATAAAATCTTGTTAAACAGTAGGAATAAATCCCG-AACAAATT
1 TTTGGAAATAAAATAAAATCGAATAAAATC-TGTTAAACAGCAGGAATAAATCCCGAAACAGATT
*
116888262 TAATTTAATTTAATTTCTCA
65 TTATTTAATTTAA-TTCTCA
* * ** * * *
116888282 TTTTTGACAACAAAATCAAAAT-GAA-ATAAATCCATTGAACGGCAGAAATAAATCCCGAAACAG
1 -TTTGGA-AATAAAAT-AAAATCGAATA-AAATCTGTTAAACAGCAGGAATAAATCCCGAAACAG
*
116888345 ATTTTATTTTAATTTTAATACTCA
62 ATTTTA-TTTAA-TTTAATTCTCA
* * * * *
116888369 TTTTTTTGGAAATAAAATCAAAATTAGAATAAAATAC-ATTAAACGGCGGGAGTAAATCCCGAAA
1 ----TTTGGAAATAAAAT-AAAA-TCGAATAAAAT-CTGTTAAACAGCAGGAATAAATCCCGAAA
*
116888433 CAGATTTTATTTAACTTTAATTTCCCA
59 CAGATTTTATTTAA-TTTAA-TTCTCA
* ** **
116888460 TTTGGAAATAAAATAAAAAAT-GAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAATGGAT
1 TTTGGAAATAAAAT--AAAATCGAATAAAATCTGTTAAACAGCAGGAATAAATCCCGAAACAGAT
* *
116888524 TTTATTT-A-CT--TT-TAA
64 TTTATTTAATTTAATTCTCA
* * * * * *
116888539 TTTGG-----AAACAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATCCTGAAACAAATTT
1 TTTGGAAATAAAATAAAATCGAATAAAATCTGTTAAACAGCAGGAATAAATCCCGAAACAGATTT
* * *
116888599 TATATAGTTTTAATAT-TCG
66 TATTTA-ATTTAAT-TCTCA
* * * * * * ** * *
116888618 TTTGTAAATAAAA-AAAATAGAGAAAAAAATATTTTGAATGGCGGGAA-AAATCCCAAAACAGA-
1 TTTGGAAATAAAATAAAAT--CGAATAAAATCTGTTAAACAGCAGGAATAAATCCCGAAACAGAT
116888680 TTTATTTAATTTAA
64 TTTATTTAATTTAA
116888694 AAAATTTATT
Statistics
Matches: 466, Mismatches: 80, Indels: 72
0.75 0.13 0.12
Matches are distributed among these distances:
72 5 0.01
73 43 0.09
74 3 0.01
76 1 0.00
78 1 0.00
79 12 0.03
80 2 0.00
82 5 0.01
83 31 0.07
84 65 0.14
85 122 0.26
86 64 0.14
87 29 0.06
88 9 0.02
89 12 0.03
90 17 0.04
91 43 0.09
92 2 0.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (83 bp):
TTTGGAAATAAAATAAAATCGAATAAAATCTGTTAAACAGCAGGAATAAATCCCGAAACAGATTT
TATTTAATTTAATTCTCA
Found at i:116888511 original size:177 final size:169
Alignment explanation
Indices: 116888029--116888539 Score: 469
Period size: 169 Copynumber: 3.0 Consensus size: 169
116888019 TACGTCTTTG
* * * * * * ** *
116888029 TTTGGAAACAAAACAATATCGAATAAAATCTTTTTAAACAACGGGAATAAATCCTAAAATAGATT
1 TTTGGAAATAAAATAAAATCAAATAAAATC-TATTAAACAGCGGGAATAAATCCCGAAACAGATT
* * *
116888094 TTATTTAATTTAA-TTCTAATTTGGAAACAAAATAAAATCAAATAAAATATTGTTAAACCGGCAG
65 TTATTTAATTTAATTTCTCATTTGGAAACAAAATAAAAT-GAATAAAAT-CTGTTAAA-CGGCAG
*
116888158 GAATAAATCTTGAAATAGATTTTATTTAA-TTT-A-ACTCTAA
127 GAATAAATCTAGAAATAGATTTTATTTAATTTTAATACTCTAA
* * ** *
116888198 TTTGGAAATAAAATGAAATCAAATAAAATCTTGTTAAACAGTAGGAATAAATCCCG-AACAAATT
1 TTTGGAAATAAAATAAAATCAAATAAAATC-TATTAAACAGCGGGAATAAATCCCGAAACAGATT
* * ** *
116888262 TAATTTAATTTAATTTCTCATTTTTGACAACAAAATCAAAATGAA-ATAAATCCATTGAACGGCA
65 TTATTTAATTTAATTTCTCA-TTTGGA-AACAAAAT-AAAATGAATA-AAATCTGTTAAACGGCA
* ** * **
116888326 GAAATAAATCCCGAAACAGATTTTATTTTAATTTTAATACTCATTTT
126 GGAATAAATCTAGAAATAGATTTTA-TTTAATTTTAATACTC--TAA
* * *
116888373 TTTGGAAATAAAATCAAAATTAGAATAAAATAC-ATTAAACGGCGGGAGTAAATCCCGAAACAGA
1 TTTGGAAATAAAAT-AAAATCA-AATAAAAT-CTATTAAACAGCGGGAATAAATCCCGAAACAGA
* * *
116888437 TTTTATTTAACTTTAATTTCCCATTTGGAAATAAAATAAAAAATGAATAAAATCTGTTAAACAGC
63 TTTTATTTAA-TTTAATTTCTCATTTGGAAACAAAAT--AAAATGAATAAAATCTGTTAAACGGC
* * *
116888502 GGGAATAAATCTAGAAATGGATTTTATTTACTTTTAAT
125 AGGAATAAATCTAGAAATAGATTTTATTTAATTTTAAT
116888540 TTGGAAACAA
Statistics
Matches: 273, Mismatches: 51, Indels: 29
0.77 0.14 0.08
Matches are distributed among these distances:
168 18 0.07
169 76 0.28
170 15 0.05
171 17 0.06
172 6 0.02
173 4 0.01
175 15 0.05
176 42 0.15
177 67 0.25
178 13 0.05
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (169 bp):
TTTGGAAATAAAATAAAATCAAATAAAATCTATTAAACAGCGGGAATAAATCCCGAAACAGATTT
TATTTAATTTAATTTCTCATTTGGAAACAAAATAAAATGAATAAAATCTGTTAAACGGCAGGAAT
AAATCTAGAAATAGATTTTATTTAATTTTAATACTCTAA
Found at i:116888599 original size:73 final size:72
Alignment explanation
Indices: 116888476--116888612 Score: 195
Period size: 73 Copynumber: 1.9 Consensus size: 72
116888466 AATAAAATAA
*** *
116888476 AAAATGAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAATGGATTTTATTTACTTTTAATT
1 AAAATGAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAACAAATTTTATATACTTTTAATT
116888541 TGGAAAC
66 TGGAAAC
* *
116888548 AAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATCCT-GAAACAAATTTTATATAGTTTTAA
1 AAAAT-GAATAAAATCTGTTAAACAGCGGGAATAAAT-CTAGAAACAAATTTTATATACTTTTAA
116888612 T
64 T
116888613 ATTCGTTTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
72 5 0.09
73 50 0.88
74 2 0.04
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (72 bp):
AAAATGAATAAAATCTGTTAAACAGCGGGAATAAATCTAGAAACAAATTTTATATACTTTTAATT
TGGAAAC
Found at i:116888872 original size:32 final size:34
Alignment explanation
Indices: 116888836--116888902 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 34
116888826 AATAAGTTTT
116888836 TTTATATATAA-TG-CAAA-ACATAAATAGAATAA
1 TTTATATATAAGTGTCAAATACATAAATA-AATAA
*
116888868 TTTATATTTAAGTTGTCAAATACATAAATAAATAA
1 TTTATATATAAG-TGTCAAATACATAAATAAATAA
116888903 AAATCATGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 10 0.33
34 2 0.07
35 9 0.30
36 9 0.30
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (34 bp):
TTTATATATAAGTGTCAAATACATAAATAAATAA
Found at i:116899365 original size:25 final size:26
Alignment explanation
Indices: 116899318--116899366 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
116899308 TTTTATATAT
116899318 ATATATATATATATAATTGATTTTAA
1 ATATATATATATATAATTGATTTTAA
* * *
116899344 ATAT-TATATGTATTATTTATTTT
1 ATATATATATATATAATTGATTTT
116899367 TTAAACACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (26 bp):
ATATATATATATATAATTGATTTTAA
Found at i:116899418 original size:17 final size:15
Alignment explanation
Indices: 116899394--116899479 Score: 51
Period size: 16 Copynumber: 5.9 Consensus size: 15
116899384 GTAAAAATAG
116899394 TATA-TATATTATTTA
1 TATATTATATTA-TTA
116899409 TCATATTATATTATTA
1 T-ATATTATATTATTA
116899425 TATA-T-T-TTATT-
1 TATATTATATTATTA
* *
116899436 TATA-AATTTTATTA
1 TATATTATATTATTA
* *
116899450 TATGTTATA-TATTT
1 TATATTATATTATTA
116899464 TACTATATATATTATT
1 TA-TAT-TATATTATT
116899480 CCTTACATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
11 4 0.07
12 6 0.11
13 6 0.11
14 10 0.18
15 8 0.14
16 11 0.20
17 11 0.20
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (15 bp):
TATATTATATTATTA
Found at i:116899438 original size:13 final size:13
Alignment explanation
Indices: 116899394--116899452 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
116899384 GTAAAAATAG
*
116899394 TATATATATTATT
1 TATATATTTTATT
*
116899407 TATCATATTATATTAT
1 TAT-ATATTTTA-T-T
116899423 TATATATTTTATT
1 TATATATTTTATT
*
116899436 TATAAATTTTA-T
1 TATATATTTTATT
116899448 TATAT
1 TATAT
116899453 GTTATATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 5 0.13
13 14 0.37
14 7 0.18
15 8 0.21
16 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TATATATTTTATT
Found at i:116899438 original size:21 final size:21
Alignment explanation
Indices: 116899414--116899479 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
116899404 ATTTATCATA
*
116899414 TTATATTATTATATATTTTAT
1 TTATATTATTATATATATTAT
*
116899435 TTATAAATT-TTATTATATGTTAT
1 TTAT--ATTATTA-TATATATTAT
* * *
116899458 ATATTTTACTATATATATTAT
1 TTATATTATTATATATATTAT
116899479 T
1 T
116899480 CCTTACATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
21 15 0.43
22 5 0.14
23 15 0.43
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATATTATTATATATATTAT
Found at i:116899923 original size:16 final size:15
Alignment explanation
Indices: 116899895--116899924 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
116899885 GAATTACTTG
116899895 TTATTTTTATATTTA
1 TTATTTTTATATTTA
116899910 TTATTTTATATATTT
1 TTATTTT-TATATTT
116899925 GCATGAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTTTATATTTA
Found at i:116903480 original size:8 final size:8
Alignment explanation
Indices: 116903461--116903514 Score: 56
Period size: 8 Copynumber: 6.9 Consensus size: 8
116903451 AAATTAACAA
*
116903461 AGAGAGAG
1 AGAGAAAG
*
116903469 AGAGAAAA
1 AGAGAAAG
116903477 AGAGAAAG
1 AGAGAAAG
116903485 AGAGAAAG
1 AGAGAAAG
***
116903493 AGAGTGTG
1 AGAGAAAG
116903501 AGAGAAAG
1 AGAGAAAG
116903509 AG-GAAA
1 AGAGAAA
116903515 CCTGGAAGCA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
7 4 0.11
8 33 0.89
ACGTcount: A:0.57, C:0.00, G:0.39, T:0.04
Consensus pattern (8 bp):
AGAGAAAG
Found at i:116903480 original size:16 final size:16
Alignment explanation
Indices: 116903459--116903507 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
116903449 TAAAATTAAC
116903459 AAAGAGAGAGAGAGAA
1 AAAGAGAGAGAGAGAA
*
116903475 AAAGAGAAAGAGAGAA
1 AAAGAGAGAGAGAGAA
* * *
116903491 AGAGAGTGTGAGAGAA
1 AAAGAGAGAGAGAGAA
116903507 A
1 A
116903508 GAGGAAACCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.37, T:0.04
Consensus pattern (16 bp):
AAAGAGAGAGAGAGAA
Found at i:116911659 original size:44 final size:44
Alignment explanation
Indices: 116911530--116911864 Score: 422
Period size: 44 Copynumber: 7.6 Consensus size: 44
116911520 TTTAGAAGGT
* * * * *
116911530 AGATTTGGTGTCTCTGTTATTGACAGGGAGCGGATCAAAGATAGT
1 AGATTTGGCGTCTCTG-TATTGACAGAGAGCAGATCGAAGATAGC
* *
116911575 AGATTTGGCGTCTCTGTATCGAC-GGGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * * * *
116911618 AAATGTGGCATCTCTGTATTGACAGAGAGCTGATCGAAGATAGA
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * *
116911662 AGATTTGGCATCTCTGTATTGACAGAGAGTAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* *
116911706 AGATTTGGCGTCTCTATATTGACAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * *
116911750 TGATTTGGCTTCTCTGTATTGACAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
* * *
116911794 AGATTTGGCGTCTCTGTATCGAC-GAGGAGCAGATCAAATATAGC
1 AGATTTGGCGTCTCTGTATTGACAGA-GAGCAGATCGAAGATAGC
*
116911838 AGATTTGGCGTCTCTATATTGACAGAG
1 AGATTTGGCGTCTCTGTATTGACAGAG
116911865 GATAGCAGAT
Statistics
Matches: 254, Mismatches: 33, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
43 38 0.15
44 199 0.78
45 17 0.07
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
Found at i:116911767 original size:132 final size:131
Alignment explanation
Indices: 116911530--116912087 Score: 642
Period size: 132 Copynumber: 4.3 Consensus size: 131
116911520 TTTAGAAGGT
* * * * * *
116911530 AGATTTGGTGTCTCTGTTATTGACAGGGAGCGGATCAAAGATAGTAGATTTGGCGTCTCTGTATC
1 AGATTTGGCGTCTCTG-TATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATATT
* * *
116911595 GACG-GGAGCAGATCGAAGATAGCAAATGTGGCATCTCTGTATTGACAGAGAGCTGATCGAAGAT
65 GACGAGG-GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT
116911659 AGA
129 AGA
* * * *
116911662 AGATTTGGCATCTCTGTATTGACAGAGAGTAGATCGAAGATAGTAGATTTGGCGTCTCTATATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATATTG
* * *
116911727 ACAGAGGGCAGATCGAAGATAGCTGATTTGGCTTCTCTGTATTGACAGAGGGCAGATCGAAGATA
66 AC-GAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATA
*
116911792 GC
130 GA
* *
116911794 AGATTTGGCGTCTCTGTATCGAC-GAGGAGCAGATCAAATATAGCAGATTTGGCGTCTCTATATT
1 AGATTTGGCGTCTCTGTATTGACAGA-GAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATATT
*
116911858 ---GA---CAGA--G--GATAGCAGATTTGACGAT-TCTGTATTGACAGAGAGCAGATCGAAGAT
65 GACGAGGGCAGATCGAAGATAGCAGATTTGGC-ATCTCTGTATTGACAGAGAGCAGATCGAAGAT
*
116911912 AGC
129 AGA
* * * * * * *
116911915 AGATTTGGCATCTCTATATTGACAGAAAACAGATCGAAGATAGCAGATTTGGCGTCTTTGTATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATATTG
* * * * *
116911980 ACAGAGGGTAGATCGAAGATAACAGATTTGGCCTCTCTGTATTGACAGAGAGTAGATCGAATAT-
66 AC-GAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATA
116912044 GA
130 GA
116912046 CAGATTTGGCGTCTCTGTATTGACAGAG-GACAGATCAAAGAT
1 -AGATTTGGCGTCTCTGTATTGACAGAGAG-CAGATCAAAGAT
116912088 GAAAAATTTG
Statistics
Matches: 361, Mismatches: 46, Indels: 38
0.81 0.10 0.09
Matches are distributed among these distances:
121 96 0.27
122 3 0.01
123 1 0.00
125 6 0.02
128 5 0.01
130 1 0.00
131 49 0.14
132 198 0.55
133 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (131 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATATTG
ACGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAG
A
Found at i:116911875 original size:33 final size:33
Alignment explanation
Indices: 116911833--116911897 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
116911823 CAGATCAAAT
*
116911833 ATAGCAGATTTGGCG-TCTCTATATTGACAGAGG
1 ATAGCAGATTTGACGAT-TCTATATTGACAGAGG
*
116911866 ATAGCAGATTTGACGATTCTGTATTGACAGAG
1 ATAGCAGATTTGACGATTCTATATTGACAGAG
116911898 AGCAGATCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (33 bp):
ATAGCAGATTTGACGATTCTATATTGACAGAGG
Found at i:116911915 original size:44 final size:44
Alignment explanation
Indices: 116911865--116912133 Score: 287
Period size: 44 Copynumber: 6.1 Consensus size: 44
116911855 ATTGACAGAG
*
116911865 GATAGCAGATTTGACGAT-TCTGTATTGACAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCG-TCTCTGTATTGACAGAGAGCAGATCGAA
* * * *
116911909 GATAGCAGATTTGGCATCTCTATATTGACAGAAAACAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
116911953 GATAGCAGATTTGGCGTCTTTGTATTGACAGAGGGTAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
116911997 GATAACAGATTTGGCCTCTCTGTATTGACAGAGAGTAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
116912041 TAT-GACAGATTTGGCGTCTCTGTATTGACAGAG-GACAGATCAAA
1 GATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAG-CAGATCGAA
* * * * *
116912085 GAT-GAAAAATTTGGTGTCTCTGTACTTGACAG-GATGCAAATCAAA
1 GATAG-CAGATTTGGCGTCTCTGTA-TTGACAGAGA-GCAGATCGAA
116912130 GATA
1 GATA
116912134 TCAACATGGC
Statistics
Matches: 192, Mismatches: 26, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
43 2 0.01
44 171 0.89
45 18 0.09
46 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (44 bp):
GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
Found at i:116911915 original size:77 final size:78
Alignment explanation
Indices: 116911787--116912031 Score: 262
Period size: 88 Copynumber: 3.0 Consensus size: 78
116911777 GGCAGATCGA
* * * *
116911787 AGATAGCAGATTTGGCGTCTCTGTATCGAC-GAGGAGCAGATCAAATATAGCAGATTTGGCGTCT
1 AGATAGCAGATTTGGCGTCTCTGTATTGACAGA-GAGCAGATCGAAGATAGCAGATTTGGCATCT
116911851 CTATATTGACAGAG
65 CTATATTGACAGAG
*
116911865 -GATAGCAGATTTGACGAT-TCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCT
1 AGATAGCAGATTTGGCG-TCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCT
116911928 CTATATTGACAGAAAACAGATCG
65 CTATATT----G---ACAGA--G
* * * * *
116911951 AAGATAGCAGATTTGGCGTCTTTGTATTGACAGAGGGTAGATCGAAGATAACAGATTTGGCCTCT
1 -AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCT
*
116912016 CTGTATTGACAGAG
65 CTATATTGACAGAG
116912030 AG
1 AG
116912032 TAGATCGAAT
Statistics
Matches: 141, Mismatches: 12, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
77 60 0.43
78 5 0.04
79 1 0.01
81 6 0.04
84 6 0.04
86 1 0.01
87 1 0.01
88 61 0.43
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (78 bp):
AGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTC
TATATTGACAGAG
Found at i:116911921 original size:209 final size:209
Alignment explanation
Indices: 116911656--116912075 Score: 630
Period size: 209 Copynumber: 2.0 Consensus size: 209
116911646 GCTGATCGAA
* * * *
116911656 GATAGAAGATTTGGCATCTCTGTATTGACAGAGAGTAGATCGAAGATAGTAGATTTGGCGTCTCT
1 GATAGAAGATTTGACATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCT
*** * *
116911721 ATATTGACAGAGGGCAGATCGAAGATAGCTGATTTGGCTTCTCTGTATTGACAGAGGGCAGATCG
66 ATATTGACAGAAAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGGGCAGATCG
* *
116911786 AAGATAGCAGATTTGGCGTCTCTGTATCGAC-GAGGAGCAGATCAAATAT-AGCAGATTTGGCGT
131 AAGATAACAGATTTGGCCTCTCTGTATCGACAGA-GAGCAGATCAAATATGA-CAGATTTGGCGT
116911849 CTCTATATTGACAGAG
194 CTCTATATTGACAGAG
*
116911865 GATAGCAGATTTGACGAT-TCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTC
1 GATAGAAGATTTGAC-ATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTC
* *
116911929 TATATTGACAGAAAACAGATCGAAGATAGCAGATTTGGCGTCTTTGTATTGACAGAGGGTAGATC
65 TATATTGACAGAAAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGGGCAGATC
* * *
116911994 GAAGATAACAGATTTGGCCTCTCTGTATTGACAGAGAGTAGATCGAATATGACAGATTTGGCGTC
130 GAAGATAACAGATTTGGCCTCTCTGTATCGACAGAGAGCAGATCAAATATGACAGATTTGGCGTC
*
116912059 TCTGTATTGACAGAG
195 TCTATATTGACAGAG
116912074 GA
1 GA
116912076 CAGATCAAAG
Statistics
Matches: 190, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
209 185 0.97
210 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (209 bp):
GATAGAAGATTTGACATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCT
ATATTGACAGAAAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGGGCAGATCG
AAGATAACAGATTTGGCCTCTCTGTATCGACAGAGAGCAGATCAAATATGACAGATTTGGCGTCT
CTATATTGACAGAG
Found at i:116911958 original size:121 final size:121
Alignment explanation
Indices: 116911762--116911986 Score: 344
Period size: 121 Copynumber: 1.9 Consensus size: 121
116911752 ATTTGGCTTC
* * * * *
116911762 TCTGTATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACGAGGAGCAGA
1 TCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATCGACGAGAAACAGA
*
116911827 TCAAATATAGCAGATTTGGCGTCTCTATATTGACAGAGGATAGCAGATTTGACGAT
66 TCAAAGATAGCAGATTTGGCGTCTCTATATTGACAGAGGATAGCAGATTTGACGAT
*
116911883 TCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATTGAC-AGAAAACAG
1 TCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATCGACGAG-AAACAG
* * *
116911947 ATCGAAGATAGCAGATTTGGCGTCTTTGTATTGACAGAGG
65 ATCAAAGATAGCAGATTTGGCGTCTCTATATTGACAGAGG
116911987 GTAGATCGAA
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
120 2 0.02
121 91 0.98
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (121 bp):
TCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATCGACGAGAAACAGA
TCAAAGATAGCAGATTTGGCGTCTCTATATTGACAGAGGATAGCAGATTTGACGAT
Found at i:116912008 original size:165 final size:165
Alignment explanation
Indices: 116911700--116912029 Score: 466
Period size: 165 Copynumber: 2.0 Consensus size: 165
116911690 GTAGATCGAA
* * * * *
116911700 GATAGTAGATTTGGCGTCTCTATATTGACAGAGGGCAGATCGAAGATAGCTGATTTGGCTTCTCT
1 GATAGCAGATTTGACGTCTCTATATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCT
* ***
116911765 GTATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACGAGGAGCAGATCA
66 ATATTGACAGAAAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACGAGGAGCAGATCA
* * *
116911830 AATATAGCAGATTTGGCGTCTCTATATTGACAGAG
131 AAGATAACAGATTTGGCCTCTCTATATTGACAGAG
*
116911865 GATAGCAGATTTGACGAT-TCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTC
1 GATAGCAGATTTGACG-TCTCTATATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTC
* * *
116911929 TATATTGACAGAAAACAGATCGAAGATAGCAGATTTGGCGTCTTTGTATTGACAGAGG-GTAGAT
65 TATATTGACAGAAAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGAC-GAGGAGCAGAT
* *
116911993 CGAAGATAACAGATTTGGCCTCTCTGTATTGACAGAG
129 CAAAGATAACAGATTTGGCCTCTCTATATTGACAGAG
116912030 AGTAGATCGA
Statistics
Matches: 145, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
165 140 0.97
166 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (165 bp):
GATAGCAGATTTGACGTCTCTATATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCT
ATATTGACAGAAAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATCGACGAGGAGCAGATCA
AAGATAACAGATTTGGCCTCTCTATATTGACAGAG
Found at i:116913555 original size:29 final size:28
Alignment explanation
Indices: 116913523--116913581 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
116913513 ATCCTTTTTT
*
116913523 TATATATA-TATTTAATTTATTTTAAATAC
1 TATATATATTATTT-ATTT-TTTTAAACAC
*
116913552 TATATGTATTATTTATTTTTTTAAACAC
1 TATATATATTATTTATTTTTTTAAACAC
116913580 TA
1 TA
116913582 GTTATATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 11 0.41
30 5 0.19
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (28 bp):
TATATATATTATTTATTTTTTTAAACAC
Found at i:116913621 original size:12 final size:12
Alignment explanation
Indices: 116913601--116913680 Score: 62
Period size: 12 Copynumber: 6.8 Consensus size: 12
116913591 AAAAATAGTA
116913601 TATATATTAT-T
1 TATATATTATAT
116913612 TATCATATTATAT
1 TAT-ATATTATAT
*
116913625 TATATATTTTATT
1 TATATATTATA-T
* *
116913638 TATAAATTTTAT
1 TATATATTATAT
*
116913650 TATATGTTATA-
1 TATATATTATAT
116913661 TAT-T-TTACTA-
1 TATATATTA-TAT
116913671 TATATATTAT
1 TATATATTAT
116913681 TCCTTACATT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
9 3 0.05
10 6 0.10
11 8 0.14
12 26 0.45
13 15 0.26
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (12 bp):
TATATATTATAT
Found at i:116913665 original size:19 final size:19
Alignment explanation
Indices: 116913637--116913673 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
116913627 TATATTTTAT
*
116913637 TTATAAATTTTATTATATG
1 TTATAAATTTTACTATATG
*
116913656 TTATATATTTTACTATAT
1 TTATAAATTTTACTATAT
116913674 ATATTATTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATAAATTTTACTATATG
Found at i:116913734 original size:22 final size:21
Alignment explanation
Indices: 116913685--116913734 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
116913675 TATTATTCCT
*
116913685 TACATTATTTTTATTTTATTA
1 TACATTATTATTATTTTATTA
*
116913706 TAAATTATATATTATTTTATTA
1 TACATTAT-TATTATTTTATTA
*
116913728 TTCATTA
1 TACATTA
116913735 ATTAAGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TACATTATTATTATTTTATTA
Found at i:116915510 original size:25 final size:26
Alignment explanation
Indices: 116915482--116915531 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
116915472 GCCTTATATA
*
116915482 TAAATTTAAAATAAAAA-AAATTTGT
1 TAAATTGAAAATAAAAATAAATTTGT
* *
116915507 TAAATTGCAAGTAAAAATAAATTTG
1 TAAATTGAAAATAAAAATAAATTTG
116915532 AATATGTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (26 bp):
TAAATTGAAAATAAAAATAAATTTGT
Found at i:116916715 original size:20 final size:21
Alignment explanation
Indices: 116916692--116916737 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
116916682 GAATTTTATT
116916692 GATACTTGA-TTGA-AGGTATC
1 GATACTT-ATTTGATAGGTATC
*
116916712 GATA-ATATTTGATAGGTATC
1 GATACTTATTTGATAGGTATC
116916732 GATACT
1 GATACT
116916738 AGGTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.05
19 5 0.24
20 15 0.71
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.37
Consensus pattern (21 bp):
GATACTTATTTGATAGGTATC
Found at i:116916850 original size:20 final size:19
Alignment explanation
Indices: 116916822--116916861 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
116916812 ATTTTTAATA
*
116916822 AGTATCGATACATAATTACT
1 AGTAGCGATACATAA-TACT
*
116916842 AGTAGCGATACTTAATACT
1 AGTAGCGATACATAATACT
116916861 A
1 A
116916862 TTGCTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
AGTAGCGATACATAATACT
Found at i:116917155 original size:20 final size:21
Alignment explanation
Indices: 116917132--116917172 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
116917122 TAAATTTTTC
*
116917132 CAAAATATTT-TCTAAGTATT
1 CAAAATATTTATCAAAGTATT
*
116917152 CAAAGTATTTATCAAAGTATT
1 CAAAATATTTATCAAAGTATT
116917173 TGGAGTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (21 bp):
CAAAATATTTATCAAAGTATT
Found at i:116917496 original size:18 final size:18
Alignment explanation
Indices: 116917439--116917498 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
116917429 AGAACATATT
* *
116917439 TTTTTATAATTTTCAAAAA
1 TTTTTATAATTTTC-TAAG
* * *
116917458 TATATTATAATTTTTTTAG
1 T-TTTTATAATTTTCTAAG
116917477 TTTTTATAATTTTCTAAG
1 TTTTTATAATTTTCTAAG
116917495 TTTT
1 TTTT
116917499 CTTGTTTTTG
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
18 18 0.56
19 3 0.09
20 11 0.34
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTTTCTAAG
Found at i:116919923 original size:15 final size:15
Alignment explanation
Indices: 116919903--116919932 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
116919893 GTGGATTAAA
*
116919903 ATGTGATATTGTGAT
1 ATGTGAAATTGTGAT
116919918 ATGTGAAATTGTGAT
1 ATGTGAAATTGTGAT
116919933 TAATAAGTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (15 bp):
ATGTGAAATTGTGAT
Found at i:116922501 original size:17 final size:17
Alignment explanation
Indices: 116922448--116922582 Score: 171
Period size: 17 Copynumber: 7.6 Consensus size: 17
116922438 AATCATATCT
116922448 TCTAAGATTGTATATCATA
1 TCTAAGATTG--TATCATA
*
116922467 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
116922485 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
116922502 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
*
116922519 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
*
116922537 TATAAGATTGTATCATA
1 TCTAAGATTGTATCATA
* *
116922554 TCTAAGATTCCATATCACA
1 TCTAAGATT--GTATCATA
116922573 TCTAAGATTG
1 TCTAAGATTG
116922583 CATATCATTG
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
17 47 0.46
18 31 0.30
19 25 0.24
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:116922506 original size:35 final size:35
Alignment explanation
Indices: 116922448--116922582 Score: 175
Period size: 35 Copynumber: 3.8 Consensus size: 35
116922438 AATCATATCT
116922448 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTG-AATCATA
*
116922485 TCTAAGATTG-TATCATATCTAAGATTGTATCATA
1 TCTAAGATTGATATCATATCTAAGATTGAATCATA
* *
116922519 TCTAAGATTGCA-ATCATATATAAGATTGTATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGAATCATA
* *
116922554 TCTAAGATTCCATATCACATCTAAGATTG
1 TCTAAGATT-GATATCATATCTAAGATTG
116922583 CATATCATTG
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
34 16 0.18
35 49 0.55
36 14 0.16
37 10 0.11
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGATATCATATCTAAGATTGAATCATA
Found at i:116922527 original size:52 final size:52
Alignment explanation
Indices: 116922448--116922590 Score: 214
Period size: 52 Copynumber: 2.7 Consensus size: 52
116922438 AATCATATCT
*
116922448 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATATATAAGATTGTATCATA
116922502 TCTAAGATTGTATCATATCTAAGATTGCAATCATATATAAGATTGTATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATATATAAGATTGTATCATA
* *
116922554 TCTAAGATTCCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATT--GTATCATATCTAAGATTGCA-ATCAT
116922591 TGAAGATTAT
Statistics
Matches: 83, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
52 50 0.60
54 28 0.34
55 5 0.06
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (52 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATATATAAGATTGTATCATA
Found at i:116923394 original size:207 final size:207
Alignment explanation
Indices: 116922937--116924276 Score: 2157
Period size: 207 Copynumber: 6.5 Consensus size: 207
116922927 AAATCTGCTT
* * * * *
116922937 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAT
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
** *
116923002 GCAAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * * *
116923067 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATATGTCTGTCCTCCGCCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCAAATAT
116923131 GGAGACGCCAAA
196 GGAGACGCCAAA
* *
116923143 CTTCGATTTGTTCTGTGACAATACAGAA-ATGCCAAATAATCTTAGACTTGCTTCAACGTAAACA
1 CTTCGATTTGTTCTCTGACAATACA-AAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACA
116923207 CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
116923272 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCAAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCAAATA
116923337 TGGAGACGCCAAA
195 TGGAGACGCCAAA
*
116923350 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
116923415 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * * *
116923480 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATATGTCTGTCCTCCGCCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCAAATAT
*
116923544 GGAAACGCCAAA
196 GGAGACGCCAAA
* *
116923556 CTTCGATTTGTTCTGTGACAATACAGAA-ATGCCAAATAATCTTAGACTTGCTTCAACGTAAACA
1 CTTCGATTTGTTCTCTGACAATACA-AAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACA
116923620 CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
116923685 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCAAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCAAATA
116923750 TGGAGACGCCAAA
195 TGGAGACGCCAAA
*
116923763 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
116923828 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * **
116923893 GGATCTTACTTCAGTATAAACACCTGAAGGCAAGATCTGTTATGTGTCTGCCCTCCGTCAAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCAAATAT
116923958 GGAGACGCCAAA
196 GGAGACGCCAAA
116923970 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
116924035 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATTTT
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
116924100 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCAAATAT
*
116924165 GGAGATGCCAAA
196 GGAGACGCCAAA
* * * ** *
116924177 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAAATTTGCTTCATTGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
116924242 ATGAAAGCCAAATCAGCTATGTCTTTGATTTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTC
116924277 TCCGTCGAAT
Statistics
Matches: 1057, Mismatches: 71, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
206 317 0.30
207 740 0.70
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCTCCGTCAAATAT
GGAGACGCCAAA
Found at i:116923709 original size:413 final size:413
Alignment explanation
Indices: 116922937--116924276 Score: 2286
Period size: 413 Copynumber: 3.2 Consensus size: 413
116922927 AAATCTGCTT
* * * * * *
116922937 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAT
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
**
116923002 GCAAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
116923067 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATATGTCTGTCCTCCGCCGAATATG
131 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATATGTCTGTCCTCCGCCGAATATG
116923132 GAGACGCCAAACTTCGATTTGTTCTGTGACAATACAGAAATGCCAAATAATCTTAGACTTGCTTC
196 GAGACGCCAAACTTCGATTTGTTCTGTGACAATACAGAAATGCCAAATAATCTTAGACTTGCTTC
116923197 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGC
261 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGC
116923262 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCT
326 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCT
116923327 CCGTCAAATATGGAGACGCCAAA
391 CCGTCAAATATGGAGACGCCAAA
116923350 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
116923415 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
116923480 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATATGTCTGTCCTCCGCCGAATATG
131 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATATGTCTGTCCTCCGCCGAATATG
*
116923545 GAAACGCCAAACTTCGATTTGTTCTGTGACAATACAGAAATGCCAAATAATCTTAGACTTGCTTC
196 GAGACGCCAAACTTCGATTTGTTCTGTGACAATACAGAAATGCCAAATAATCTTAGACTTGCTTC
116923610 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGC
261 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGC
116923675 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCT
326 CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCT
116923740 CCGTCAAATATGGAGACGCCAAA
391 CCGTCAAATATGGAGACGCCAAA
116923763 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
* * *
116923828 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * * * ** ** * * * *
116923893 GGATCTTACTTCAGTATAAACACCTGAAGGCAAGATCTGTTATGTGTCTGCCCTCCGTCAAATAT
131 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATATGTCTGTCCTCCGCCGAATAT
* *
116923958 GGAGACGCCAAACTTCGATTTGTTCTCTGACAATACA-AAGATGCCAAATCATCTTAGACTTGCT
195 GGAGACGCCAAACTTCGATTTGTTCTGTGACAATACAGAA-ATGCCAAATAATCTTAGACTTGCT
* * *
116924022 TCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAT
259 TCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGAT
* *
116924087 GCCAAACCATTTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCC
324 GCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCC
* *
116924152 CTCCGTCGAATATGGAGATGCCAAA
389 CTCCGTCAAATATGGAGACGCCAAA
* * * *** *
116924177 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAAATTTGCTTCATTGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
*
116924242 ATGAAAGCCAAATCAGCTATGTCTTTGATTTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTC
116924277 TCCGTCGAAT
Statistics
Matches: 881, Mismatches: 44, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
413 538 0.61
414 343 0.39
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (413 bp):
CTTCGATTTGTTCTCTGACAATACAAAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACAC
GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTACTATATGTCTGTCCTCCGCCGAATATG
GAGACGCCAAACTTCGATTTGTTCTGTGACAATACAGAAATGCCAAATAATCTTAGACTTGCTTC
AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGC
CAAACCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTGTCTGCCCT
CCGTCAAATATGGAGACGCCAAA
Found at i:116924392 original size:131 final size:118
Alignment explanation
Indices: 116924087--116924392 Score: 306
Period size: 131 Copynumber: 2.5 Consensus size: 118
116924077 GCACAAGGAT
* * * *
116924087 GCCAAACCATTTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCC
1 GCCAAATCATCTTGGATC-TGCTTCAGTGT-AACACCTGAAGGCCAGATCTGCTATGTGTCTGCC
*
116924152 CTCCGTCGAATATGGAGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGAT
64 CTCCGTCGAATATGGAGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGAC
** * * * * * * *
116924207 GCCAAATCATCTTAAATTTGCTTCATTGTAAGCACATGAAAGCCAAATCAGCTATGTCTTTGATT
1 GCCAAATCATCTTGGATCTGCTTCAGTGTAA-CACCTGAAGGCCAGATCTGCTATG----TG-TC
* *
116924272 TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTATTTGATTTGTTCTCTGACAATACAGAGA
60 TGCCCTCCGTCGAATATGGAGATGCCAAA-C------TTCGATTTGTTCTCTGACAATACAGAGA
116924337 C
118 C
* *
116924338 GCCAAATCATCTTGGATCTGCTTCAGCGTGAACCCCTGAAGGCCAGATCTGCTAT
1 GCCAAATCATCTTGGATCTGCTTCAGTGT-AACACCTGAAGGCCAGATCTGCTAT
116924393 ACTTTAACCT
Statistics
Matches: 146, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
118 2 0.01
119 28 0.19
120 13 0.09
123 2 0.01
124 29 0.20
125 1 0.01
131 69 0.47
132 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (118 bp):
GCCAAATCATCTTGGATCTGCTTCAGTGTAACACCTGAAGGCCAGATCTGCTATGTGTCTGCCCT
CCGTCGAATATGGAGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGAC
Found at i:116924500 original size:43 final size:42
Alignment explanation
Indices: 116924453--116924592 Score: 128
Period size: 43 Copynumber: 3.2 Consensus size: 42
116924443 TGCTCCACTG
*
116924453 CTGCTTAGGGAGATAAGATCCTTAATTTTGATCTGTTACTCTA
1 CTGCTTAGGGAGATAAGAT-CTTAATTTTGATCTGTTACCCTA
* * *
116924496 CTGCTTAAGGGA-TTAAGGCAAGTCGTCA--TTGATCTGTT-CCGCTA
1 CTGCTT-AGGGAGATAA-G--A-TCTTAATTTTGATCTGTTACC-CTA
116924540 CTGCTTAGGGAGATAAGATCTATAATTTT-ATCCTGTTACCCTA
1 CTGCTTAGGGAGATAAGATCT-TAATTTTGAT-CTGTTACCCTA
116924583 CTGCTTAGGG
1 CTGCTTAGGG
116924593 GGTTAAGGAG
Statistics
Matches: 78, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
40 2 0.03
41 3 0.04
42 2 0.03
43 36 0.46
44 30 0.38
46 4 0.05
47 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (42 bp):
CTGCTTAGGGAGATAAGATCTTAATTTTGATCTGTTACCCTA
Found at i:116924557 original size:87 final size:86
Alignment explanation
Indices: 116924395--116924684 Score: 305
Period size: 87 Copynumber: 3.4 Consensus size: 86
116924385 TCTGCTATAC
* * * *
116924395 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGC--G-CATCTTCGATCTGCTCCACTGCTGC
1 TTTATCCTGTTACCCTACTGCTTAGGGGGTTAAGGCAAGTCGTCTT-GATCTGCTCCGCTACTGC
116924457 TTAGGGAGATAAGATCCT-TAAT
65 TTAGGGAGATAAGAT-CTATAAT
* * * *
116924479 TTTGAT-CTGTTACTCTACTGCTTAAGGGATTAAGGCAAGTCGTCATTGATCTGTTCCGCTACTG
1 TTT-ATCCTGTTACCCTACTGCTTAGGGGGTTAAGGCAAGTCGTC-TTGATCTGCTCCGCTACTG
116924543 CTTAGGGAGATAAGATCTATAAT
64 CTTAGGGAGATAAGATCTATAAT
* * *
116924566 TTTATCCTGTTACCCTACTGCTTAGGGGGTTAAGG-AGAGTTGTCGTCGATCTACTCCGCTACTG
1 TTTATCCTGTTACCCTACTGCTTAGGGGGTTAAGGCA-AGTCGTC-TTGATCTGCTCCGCTACTG
* * **
116924630 CTTAGGGAGAGAAGATTTGCAA-
64 CTTAGGGAGATAAGATCTATAAT
*
116924652 ---A-CCTGTTACCCTACTGCTTAGGGGATTAAGGCA
1 TTTATCCTGTTACCCTACTGCTTAGGGGGTTAAGGCA
116924685 CTGAATTTTG
Statistics
Matches: 176, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
82 29 0.16
83 2 0.01
84 30 0.17
85 1 0.01
86 6 0.03
87 106 0.60
88 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (86 bp):
TTTATCCTGTTACCCTACTGCTTAGGGGGTTAAGGCAAGTCGTCTTGATCTGCTCCGCTACTGCT
TAGGGAGATAAGATCTATAAT
Found at i:116925595 original size:1 final size:1
Alignment explanation
Indices: 116925585--116925674 Score: 63
Period size: 1 Copynumber: 90.0 Consensus size: 1
116925575 GGCCTCTCCA
* * * * * * * * * *
116925585 TTTTTCTTTTTTCTTTTTTCTTTTTTTCTTTTTTCTTTTTTCTTTTTTCTCTTTTTCTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
116925650 TTTTCTTCTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
116925675 GAAATAGAAG
Statistics
Matches: 63, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:116925597 original size:7 final size:7
Alignment explanation
Indices: 116925585--116925671 Score: 120
Period size: 7 Copynumber: 11.7 Consensus size: 7
116925575 GGCCTCTCCA
116925585 TTTTTCT
1 TTTTTCT
116925592 TTTTTCT
1 TTTTTCT
116925599 TTTTTCTT
1 TTTTTC-T
116925607 TTTTTCT
1 TTTTTCT
116925614 TTTTTCT
1 TTTTTCT
116925621 TTTTTCT
1 TTTTTCT
116925628 TTTTTCT
1 TTTTTCT
116925635 CTTTTTCT
1 -TTTTTCT
*
116925643 TTTCTTTT
1 TTT-TTCT
116925651 TTTCTTCTT
1 TTT-TTC-T
116925660 TTTTTCT
1 TTTTTCT
116925667 TTTTT
1 TTTTT
116925672 TTTGAAATAG
Statistics
Matches: 74, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
7 44 0.59
8 26 0.35
9 4 0.05
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:116925674 original size:22 final size:22
Alignment explanation
Indices: 116925585--116925671 Score: 124
Period size: 22 Copynumber: 3.9 Consensus size: 22
116925575 GGCCTCTCCA
116925585 TTTTTCTTTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTTTTTTCTT
116925607 TTTTTCTTTTTTCTTTTTTC-T
1 TTTTTCTTTTTTCTTTTTTCTT
116925628 TTTTTCTCTTTTTCTTTTCTT-TT
1 TTTTTCT-TTTTTCTTTT-TTCTT
116925651 TTTCTTCTTTTTTTCTTTTTT
1 TTT-TTC-TTTTTTCTTTTTT
116925672 TTTGAAATAG
Statistics
Matches: 60, Mismatches: 0, Indels: 9
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.13
22 30 0.50
23 8 0.13
24 13 0.22
25 1 0.02
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTTCTTTTTTCTTTTTTCTT
Done.