Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 389 of 444
Found at i:112738633 original size:9 final size:9
Alignment explanation
Indices: 112738619--112738819 Score: 120
Period size: 9 Copynumber: 22.8 Consensus size: 9
112738609 CCAGCAACTC
112738619 ACATAATTT
1 ACATAATTT
112738628 ACATAATTT
1 ACATAATTT
112738637 ACATAA--T
1 ACATAATTT
*
112738644 ACATAACTT
1 ACATAATTT
112738653 ACATAATTT
1 ACATAATTT
*
112738662 --A-AAGTT
1 ACATAATTT
112738668 -CA-AATTT
1 ACATAATTT
*
112738675 -CATAACTT
1 ACATAATTT
112738683 ACATAATTT
1 ACATAATTT
* * *
112738692 AAAAAACTT
1 ACATAATTT
112738701 ACATAA--T
1 ACATAATTT
* *
112738708 ACATAACTA
1 ACATAATTT
112738717 ACATAATTT
1 ACATAATTT
*
112738726 AAAGATCAAATTT
1 --ACAT--AATTT
*
112738739 -CATAACTT
1 ACATAATTT
112738747 ACATAATTT
1 ACATAATTT
*
112738756 ACATAATCT
1 ACATAATTT
112738765 ACATAATTT
1 ACATAATTT
*
112738774 AAAGATCAAATTT
1 --ACAT--AATTT
*
112738787 -CATAACTT
1 ACATAATTT
112738795 ACATAATTT
1 ACATAATTT
*
112738804 ACATAACTT
1 ACATAATTT
112738813 ACATAAT
1 ACATAAT
112738820 ACATAAATAT
Statistics
Matches: 150, Mismatches: 25, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
6 4 0.03
7 22 0.15
8 12 0.08
9 92 0.61
10 4 0.03
11 6 0.04
13 10 0.07
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.36
Consensus pattern (9 bp):
ACATAATTT
Found at i:112738681 original size:30 final size:30
Alignment explanation
Indices: 112738645--112738756 Score: 136
Period size: 30 Copynumber: 3.6 Consensus size: 30
112738635 TTACATAATA
112738645 CATAACTTACATAATTTAAAGTTCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
* *
112738675 CATAACTTACATAATTTAAAAAACTTACATAA-TA
1 CATAACTTACATAATTT---AAAGTT-CA-AATTT
* *
112738709 CATAACTAACATAATTTAAAGATCAAATTT
1 CATAACTTACATAATTTAAAGTTCAAATTT
112738739 CATAACTTACATAATTTA
1 CATAACTTACATAATTTA
112738757 CATAATCTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
29 2 0.03
30 37 0.54
31 4 0.06
33 5 0.07
34 19 0.28
35 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (30 bp):
CATAACTTACATAATTTAAAGTTCAAATTT
Found at i:112738690 original size:64 final size:64
Alignment explanation
Indices: 112738614--112738771 Score: 253
Period size: 64 Copynumber: 2.5 Consensus size: 64
112738604 GTTCACCAGC
* * *
112738614 AACTCACATAATTTACATAATTTACATAATACATAACTTACATAATTTAAAGTTCAAATTTCAT
1 AACTTACATAATTTACATAATTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCAT
* * *
112738678 AACTTACATAATTTAAAAAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCAT
1 AACTTACATAATTTACATAATTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCAT
*
112738742 AACTTACATAATTTACATAATCTACATAAT
1 AACTTACATAATTTACATAATTTACATAAT
112738772 TTAAAGATCA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 84 1.00
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.35
Consensus pattern (64 bp):
AACTTACATAATTTACATAATTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCAT
Found at i:112738769 original size:48 final size:47
Alignment explanation
Indices: 112738696--112738819 Score: 207
Period size: 48 Copynumber: 2.6 Consensus size: 47
112738686 TAATTTAAAA
112738696 AACTTACATAA--TACATAACTAACATAATTTAAAGATCAAATTTCAT
1 AACTTACATAATTTACATAACT-ACATAATTTAAAGATCAAATTTCAT
112738742 AACTTACATAATTTACATAATCTACATAATTTAAAGATCAAATTTCAT
1 AACTTACATAATTTACATAA-CTACATAATTTAAAGATCAAATTTCAT
112738790 AACTTACATAATTTACATAACTTACATAAT
1 AACTTACATAATTTACATAAC-TACATAAT
112738820 ACATAAATAT
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
46 11 0.15
47 1 0.01
48 60 0.81
49 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (47 bp):
AACTTACATAATTTACATAACTACATAATTTAAAGATCAAATTTCAT
Found at i:112740574 original size:12 final size:12
Alignment explanation
Indices: 112740557--112740582 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
112740547 AAGATCAATG
112740557 GATGAATCTGAT
1 GATGAATCTGAT
112740569 GATGAATCTGAT
1 GATGAATCTGAT
112740581 GA
1 GA
112740583 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:112743897 original size:13 final size:14
Alignment explanation
Indices: 112743881--112743909 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
112743871 TTATAAATAT
112743881 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
112743894 TTATAATGGTTTAA
1 TTATAATGGTTTAA
112743908 TT
1 TT
112743910 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:112744351 original size:21 final size:22
Alignment explanation
Indices: 112744326--112744373 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
112744316 GCGGATGCAA
*
112744326 CAGCGAAG-GAGGCAGCGACAG
1 CAGCGAAGAGAGGCAGAGACAG
*
112744347 CAGCG-AGAGAGGCAGAGGCAG
1 CAGCGAAGAGAGGCAGAGACAG
112744368 CAGCGA
1 CAGCGA
112744374 TGGCAGCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.23, G:0.44, T:0.00
Consensus pattern (22 bp):
CAGCGAAGAGAGGCAGAGACAG
Found at i:112744815 original size:43 final size:43
Alignment explanation
Indices: 112744768--112744902 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 43
112744758 AAAAGCTCCA
*
112744768 CTAAAAGCCATGACTTTTAGCGGTGCCTTTCCCACAAACGCCG
1 CTAAAAGCCATGACTTTTAGCGGTGCTTTTCCCACAAACGCCG
* * *
112744811 CTAAAAGCCATGA-TCTTTAACGGCAG-TTTTCCCACAAACGCTG
1 CTAAAAGCCATGACT-TTTAGCGG-TGCTTTTCCCACAAACGCCG
* *
112744854 CTAAAAGCCATGACTTTTAGCGATGCTTTTCCTACAAACGCCG
1 CTAAAAGCCATGACTTTTAGCGGTGCTTTTCCCACAAACGCCG
112744897 CTAAAA
1 CTAAAA
112744903 TTCATGATCT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
42 2 0.03
43 75 0.95
44 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (43 bp):
CTAAAAGCCATGACTTTTAGCGGTGCTTTTCCCACAAACGCCG
Found at i:112749899 original size:42 final size:43
Alignment explanation
Indices: 112749793--112749900 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 43
112749783 ATATGTGTTA
* *
112749793 TCGTGTAATACCATGTCTGGGATGTTGGCATCGACTTATGATT
1 TCGTGTAAGACCATGTCTGGGATGTTGCCATCGACTTATGATT
*
112749836 TACATGTAAGACCATGTCTGGGATGTTGCCATCGTAC-T-TGATT
1 T-CGTGTAAGACCATGTCTGGGATGTTGCCATCG-ACTTATGATT
*
112749879 TCGTGTAAGACCCTGTCTGGGA
1 TCGTGTAAGACCATGTCTGGGA
112749901 CAGTGGCATC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
42 19 0.33
43 7 0.12
44 30 0.52
45 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGATGTTGCCATCGACTTATGATT
Found at i:112749933 original size:43 final size:42
Alignment explanation
Indices: 112749796--112749952 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
112749786 TGTGTTATCG
* * * *
112749796 TGTAATACCATGTCTGGGATGTTGGCATC-GACTTATGATTTACA
1 TGTAAGACCCTGTCTGGGACGTTGGCATCATAC-T-TGA-TTACA
* * * * * *
112749840 TGTAAGACCATGTCTGGGATGTTGCCATCGTACTTGATTTCG
1 TGTAAGACCCTGTCTGGGACGTTGGCATCATACTTGATTACA
112749882 TGTAAGACCCTGTCTGGGACAG-TGGCATCAATA-TTGGATTACA
1 TGTAAGACCCTGTCTGGGAC-GTTGGCATC-ATACTT-GATTACA
112749925 TGTAAGACCAC-GTCTGGGACGTTGGCAT
1 TGTAAGACC-CTGTCTGGGACGTTGGCAT
112749953 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
42 30 0.31
43 35 0.36
44 29 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACGTTGGCATCATACTTGATTACA
Found at i:112756917 original size:43 final size:42
Alignment explanation
Indices: 112756806--112756918 Score: 106
Period size: 43 Copynumber: 2.7 Consensus size: 42
112756796 TGTGTTATCG
* * * * *
112756806 TGTAAAACCACGTCTGGGACGTTGCCATCGTACTTGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCATACTTGATTACA
*
112756848 TGAAAGACC-CTGTCTGGGACAG-TGGCATCAATA-TTGGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATC-ATACTT-GATTACA
*
112756891 TGTAAGACCACGTCTGAGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
112756919 TGTACGAGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.02
42 25 0.44
43 30 0.53
44 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATACTTGATTACA
Found at i:112762410 original size:19 final size:19
Alignment explanation
Indices: 112762328--112762412 Score: 56
Period size: 19 Copynumber: 4.6 Consensus size: 19
112762318 ATATGTTAGC
*
112762328 ATTTAATTAAACTTTTAAA
1 ATTTAATTAAATTTTTAAA
* *
112762347 TTTTAAATT---TTTTTTAA
1 ATTT-AATTAAATTTTTAAA
*
112762364 ATTT--TTATACTTTTTAAA
1 ATTTAATTA-AATTTTTAAA
*
112762382 A-TTATTTTAAATTTTTAAA
1 ATTTA-ATTAAATTTTTAAA
112762401 ATTTAATTAAAT
1 ATTTAATTAAAT
112762413 ACTGACATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 18
0.67 0.09 0.24
Matches are distributed among these distances:
14 2 0.04
17 11 0.22
18 8 0.16
19 19 0.38
20 10 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTAATTAAATTTTTAAA
Found at i:112768160 original size:45 final size:45
Alignment explanation
Indices: 112768096--112768188 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
112768086 CACAATATCA
112768096 ACACATATCACTTGAATTATAATATTGATTATTCATATTTAATTC
1 ACACATATCACTTGAATTATAATATTGATTATTCATATTTAATTC
112768141 ACACATATCACTTGAATTATAATATTGATTATTCATATTTAATTC
1 ACACATATCACTTGAATTATAATATTGATTATTCATATTTAATTC
112768186 ACA
1 ACA
112768189 AATACTTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (45 bp):
ACACATATCACTTGAATTATAATATTGATTATTCATATTTAATTC
Found at i:112769286 original size:12 final size:13
Alignment explanation
Indices: 112769270--112769299 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
112769260 TTTTCCTTCA
112769270 CTTTTCTTTCTCT
1 CTTTTCTTTCTCT
112769283 -TTTTCTTTCTCT
1 CTTTTCTTTCTCT
112769295 CTTTT
1 CTTTT
112769300 TCCTTATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTCTTTCTCT
Found at i:112769340 original size:18 final size:17
Alignment explanation
Indices: 112769319--112769368 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
112769309 TTCGTTTCAA
* *
112769319 TTCTTTGTTCTTTTTTTT
1 TTCTTTGTT-TATTTTAT
112769337 TTCTTTTGTTTATTTTAT
1 TTC-TTTGTTTATTTTAT
112769355 TTCTTTTGTTTATT
1 TTC-TTTGTTTATT
112769369 CTTTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 23 0.79
19 6 0.21
ACGTcount: A:0.06, C:0.08, G:0.06, T:0.80
Consensus pattern (17 bp):
TTCTTTGTTTATTTTAT
Found at i:112769373 original size:30 final size:29
Alignment explanation
Indices: 112769326--112769383 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
112769316 CAATTCTTTG
* * *
112769326 TTCTTTTTTTTTTCTTTTGTTTATTTTAT
1 TTCTTTTTTTATTCTTTTATTTACTTTAT
112769355 TTCTTTTGTTTATTCTTTTATTTACTTTA
1 TTCTTTT-TTTATTCTTTTATTTACTTTA
112769384 GTATTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.10, C:0.09, G:0.03, T:0.78
Consensus pattern (29 bp):
TTCTTTTTTTATTCTTTTATTTACTTTAT
Found at i:112769463 original size:19 final size:20
Alignment explanation
Indices: 112769433--112769472 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
112769423 AATACTTATT
*
112769433 TATTATTTTATACATGTGTA
1 TATTATTTTATACATATGTA
112769453 TATTA-TTTATACATATGTA
1 TATTATTTTATACATATGTA
112769472 T
1 T
112769473 TCATTTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (20 bp):
TATTATTTTATACATATGTA
Found at i:112771429 original size:46 final size:45
Alignment explanation
Indices: 112771369--112771634 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
112771359 TTTGACATGA
* * * * * *
112771369 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
112771415 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
112771461 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
112771507 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
112771553 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
112771591 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
112771635 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:112771598 original size:38 final size:38
Alignment explanation
Indices: 112771547--112771622 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
112771537 ACATTTTATA
112771547 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
112771585 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
112771623 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:112773786 original size:11 final size:11
Alignment explanation
Indices: 112773770--112773821 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
112773760 TATACTAAAT
112773770 AAATAATAATA
1 AAATAATAATA
*
112773781 AAATAAT-ATT
1 AAATAATAATA
* *
112773791 AAATATCTCATA
1 AAATA-ATAATA
*
112773803 AAATATTAATA
1 AAATAATAATA
112773814 AAATAATA
1 AAATAATA
112773822 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:112776719 original size:46 final size:45
Alignment explanation
Indices: 112776659--112776924 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
112776649 TTTGACATGA
* * * * * *
112776659 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
112776705 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
112776751 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
112776797 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
112776843 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
112776881 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
112776925 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:112776888 original size:38 final size:38
Alignment explanation
Indices: 112776837--112776912 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
112776827 ACATTTTATA
112776837 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
112776875 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
112776913 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:112779487 original size:17 final size:18
Alignment explanation
Indices: 112779445--112779493 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
112779435 AGTTGAAAAG
112779445 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
112779464 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
112779481 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
112779494 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:112780380 original size:40 final size:40
Alignment explanation
Indices: 112780314--112780464 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
112780304 AAATTGAATG
* * *
112780314 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
112780353 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
112780393 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
112780433 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
112780465 ACTGATTATA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:112787462 original size:17 final size:18
Alignment explanation
Indices: 112787420--112787468 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
112787410 AGTTGAAAAG
112787420 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
112787439 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
112787456 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
112787469 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:112788351 original size:40 final size:39
Alignment explanation
Indices: 112788285--112788434 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
112788275 AAATTGAATG
* * *
112788285 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
112788324 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
112788363 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* *
112788403 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
112788435 ACTGATTATA
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 41 0.45
40 45 0.49
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:112790257 original size:11 final size:11
Alignment explanation
Indices: 112790241--112790292 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
112790231 TATACTAAAT
112790241 AAATAATAATA
1 AAATAATAATA
*
112790252 AAATAAT-ATT
1 AAATAATAATA
* *
112790262 AAATATCTCATA
1 AAATA-ATAATA
*
112790274 AAATATTAATA
1 AAATAATAATA
112790285 AAATAATA
1 AAATAATA
112790293 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:112791551 original size:12 final size:12
Alignment explanation
Indices: 112791534--112791563 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
112791524 ACTTAGTATT
112791534 TTTCTCATTTAC
1 TTTCTCATTTAC
112791546 TTTCTCATTTAC
1 TTTCTCATTTAC
112791558 TTTCTC
1 TTTCTC
112791564 CTATCAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTCTCATTTAC
Found at i:112798280 original size:16 final size:17
Alignment explanation
Indices: 112798255--112798288 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
112798245 AAATATCACT
*
112798255 AAAATAATATTTTTTTA
1 AAAATAATATATTTTTA
112798272 AAAAT-ATATATTTTTA
1 AAAATAATATATTTTTA
112798288 A
1 A
112798289 TGAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAATAATATATTTTTA
Found at i:112798320 original size:26 final size:27
Alignment explanation
Indices: 112798270--112798321 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
112798260 AATATTTTTT
* **
112798270 TAAAAATATATATTTTTAATGAATTTA
1 TAAAAATATATATTTATAAACAATTTA
112798297 TAAAAATATA-ATTTATAAACAATTT
1 TAAAAATATATATTTATAAACAATTT
112798322 CATATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TAAAAATATATATTTATAAACAATTTA
Found at i:112798359 original size:15 final size:14
Alignment explanation
Indices: 112798337--112798370 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
112798327 TTTTTATTAC
112798337 AATTTATTTTTAAA
1 AATTTATTTTTAAA
112798351 AATTATATTTTTAAA
1 AATT-TATTTTTAAA
*
112798366 TATTT
1 AATTT
112798371 TATATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTATTTTTAAA
Found at i:112798415 original size:27 final size:25
Alignment explanation
Indices: 112798385--112798465 Score: 92
Period size: 25 Copynumber: 3.1 Consensus size: 25
112798375 TAATTTTTTG
112798385 AAATATATATTTTTAATGAATTCATAA
1 AAATATA-ATTTTTAATGAATT-ATAA
* *
112798412 AAATATAATTTATAAAAGAATTA-AA
1 AAATATAATTT-TTAATGAATTATAA
*
112798437 ATATATAATTTTTAATGAATTTATAA
1 AAATATAATTTTTAATGAA-TTATAA
112798463 AAA
1 AAA
112798466 AAATTATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
24 6 0.13
25 15 0.33
26 9 0.20
27 15 0.33
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (25 bp):
AAATATAATTTTTAATGAATTATAA
Found at i:112798878 original size:20 final size:20
Alignment explanation
Indices: 112798845--112798897 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
112798835 TTAAATGAGA
112798845 TTAATAAAATAAAAAAT-TAT
1 TTAA-AAAATAAAAAATATAT
112798865 TTAAAAAATAAAAAATATAT
1 TTAAAAAATAAAAAATATAT
* *
112798885 TTTAAAATTAAAA
1 TTAAAAAATAAAA
112798898 TACTATTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAAAAAATAAAAAATATAT
Found at i:112802798 original size:21 final size:21
Alignment explanation
Indices: 112802774--112802834 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
112802764 AGATAAGAAT
112802774 AAACAAACATAGTTACAGT--
1 AAACAAACATAGTTACAGTAC
* *
112802793 --ACAAAC-TAGATA-AGAAC
1 AAACAAACATAGTTACAGTAC
*
112802810 AAACAAACAGAGTTACAGTAC
1 AAACAAACATAGTTACAGTAC
112802831 AAAC
1 AAAC
112802835 TAATAATGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
15 2 0.06
16 5 0.16
17 6 0.19
19 6 0.19
20 4 0.13
21 8 0.26
ACGTcount: A:0.56, C:0.18, G:0.11, T:0.15
Consensus pattern (21 bp):
AAACAAACATAGTTACAGTAC
Found at i:112802814 original size:36 final size:36
Alignment explanation
Indices: 112802764--112802840 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 36
112802754 TAGGCAAAGG
* *
112802764 AGATAAGAATAAACAAACATAGTTACAGTACAAACT
1 AGATAAGAACAAACAAACAGAGTTACAGTACAAACT
112802800 AGATAAGAACAAACAAACAGAGTTACAGTACAAACT
1 AGATAAGAACAAACAAACAGAGTTACAGTACAAACT
112802836 A-ATAA
1 AGATAA
112802841 TGCATTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 4 0.10
36 35 0.90
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.17
Consensus pattern (36 bp):
AGATAAGAACAAACAAACAGAGTTACAGTACAAACT
Found at i:112810010 original size:23 final size:23
Alignment explanation
Indices: 112809977--112810020 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
112809967 AAAACAAATA
112809977 TTATTAAAACAAGTGAAAATTAT
1 TTATTAAAACAAGTGAAAATTAT
* * *
112810000 TTATTACAACAGGTTAAAATT
1 TTATTAAAACAAGTGAAAATT
112810021 TATAGTGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (23 bp):
TTATTAAAACAAGTGAAAATTAT
Found at i:112811424 original size:46 final size:45
Alignment explanation
Indices: 112811364--112811629 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
112811354 TTTGACATGA
* * * * * *
112811364 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
112811410 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
112811456 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
112811502 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
112811548 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
112811586 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
112811630 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:112811593 original size:38 final size:38
Alignment explanation
Indices: 112811542--112811617 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
112811532 ACATTTTATA
112811542 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
112811580 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
112811618 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:112817671 original size:17 final size:17
Alignment explanation
Indices: 112817651--112817692 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
112817641 TTTTTACTAA
112817651 TTTTTTTC-C-CTCATAT
1 TTTTTTTCTCACTC-TAT
112817667 TTTTTTTCTCACTCTAT
1 TTTTTTTCTCACTCTAT
112817684 TTTTTTTCT
1 TTTTTTTCT
112817693 TTCATTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.33
17 13 0.54
18 3 0.12
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTTCTCACTCTAT
Found at i:112818073 original size:24 final size:24
Alignment explanation
Indices: 112818026--112818080 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
112818016 AAAATGATAA
* *
112818026 TTATATTATAAAATCATAGTTTAT
1 TTATAATATAAAATCATAGATTAT
*
112818050 TTTTAATATAAAAT-ATAGAATTAT
1 TTATAATATAAAATCATAG-ATTAT
112818074 TTATAAT
1 TTATAAT
112818081 TCTTTTTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (24 bp):
TTATAATATAAAATCATAGATTAT
Found at i:112818572 original size:10 final size:11
Alignment explanation
Indices: 112818549--112818581 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
112818539 TAAAAATAAA
112818549 TTTAAAATTTT
1 TTTAAAATTTT
*
112818560 TTTAAAGTTTT
1 TTTAAAATTTT
112818571 TTTAAAATTTT
1 TTTAAAATTTT
112818582 ATAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TTTAAAATTTT
Found at i:112819750 original size:31 final size:30
Alignment explanation
Indices: 112819682--112819756 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 30
112819672 CGATAAATCC
*
112819682 TAAAATTATACATTGAATATTTAATTTATACA
1 TAAAATTATA-ATT-AATATTTAATATATACA
*
112819714 T-AAATTATAATT-ATAGTTTAAATATATATA
1 TAAAATTATAATTAATA-TTT-AATATATACA
*
112819744 TAAAATTTTAATT
1 TAAAATTATAATT
112819757 TTAATTCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 3 0.08
29 3 0.08
30 12 0.32
31 18 0.49
32 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAAATTATAATTAATATTTAATATATACA
Found at i:112821121 original size:6 final size:6
Alignment explanation
Indices: 112821112--112821177 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
112821102 GTGAAGACCC
* * * *
112821112 TGAGGA TGAGGA TGAGGA TGACGA CGAGGA TGACGACGA CGACGA TGATGGA
1 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGA-G--GA TGAGGA TGA-GGA
112821164 -GAGGA TGAGGA TGA
1 TGAGGA TGAGGA TGA
112821178 AGAGGATGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
5 3 0.06
6 37 0.79
7 3 0.06
9 4 0.09
ACGTcount: A:0.33, C:0.09, G:0.44, T:0.14
Consensus pattern (6 bp):
TGAGGA
Found at i:112821142 original size:18 final size:18
Alignment explanation
Indices: 112821119--112821161 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
112821109 CCCTGAGGAT
* *
112821119 GAGGATGAGGATGACGAC
1 GAGGATGACGACGACGAC
112821137 GAGGATGACGACGACGAC
1 GAGGATGACGACGACGAC
*
112821155 GATGATG
1 GAGGATG
112821162 GAGAGGATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.42, T:0.12
Consensus pattern (18 bp):
GAGGATGACGACGACGAC
Found at i:112821217 original size:21 final size:21
Alignment explanation
Indices: 112821191--112821236 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
112821181 GGATGTTGAA
112821191 GAAGAAGAAAATGAAGATGAG
1 GAAGAAGAAAATGAAGATGAG
*
112821212 GAAGAAGAAGATGAAGATGAG
1 GAAGAAGAAAATGAAGATGAG
112821233 GAAG
1 GAAG
112821237 CCCTGCAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.37, T:0.09
Consensus pattern (21 bp):
GAAGAAGAAAATGAAGATGAG
Found at i:112821236 original size:15 final size:15
Alignment explanation
Indices: 112821187--112821228 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
112821177 AAGAGGATGT
*
112821187 TGAAGAAGAAGAAAA
1 TGAAGATGAAGAAAA
*
112821202 TGAAGATGAGGAAGAA
1 TGAAGATGAAGAA-AA
112821218 -GAAGATGAAGA
1 TGAAGATGAAGA
112821229 TGAGGAAGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (15 bp):
TGAAGATGAAGAAAA
Found at i:112832404 original size:17 final size:18
Alignment explanation
Indices: 112832382--112832418 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
112832372 AGCTTTAATT
112832382 TTAAAT-CTTATTC-ACTA
1 TTAAATCCTT-TTCTACTA
112832399 TTAAATCCTTTTCTACTA
1 TTAAATCCTTTTCTACTA
112832417 TT
1 TT
112832419 TTTAGTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAATCCTTTTCTACTA
Found at i:112833323 original size:108 final size:110
Alignment explanation
Indices: 112833171--112833373 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
112833161 GTATCATTTT
* * *
112833171 GAAACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACC
112833234 AA-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* * * * *
112833279 GAAACTTATCAATGCCATGTCTTGACATGGTCTTATATGATATCCTTGCCTTAGAAACCTTACTA
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
112833344 ATTGCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
112833374 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 6 0.07
110 28 0.33
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:112833328 original size:55 final size:55
Alignment explanation
Indices: 112833171--112833380 Score: 241
Period size: 55 Copynumber: 3.9 Consensus size: 55
112833161 GTATCATTTT
* * * *
112833171 GAAACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
112833225 G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * * *
112833279 GAAACTTATCAATGCCATGTCTTGACATGGTCTTATATGATATCCTTGCC-T-TA
1 GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
112833332 GAAACCTTACTAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 GAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
112833381 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 48 0.37
54 9 0.07
55 69 0.53
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (55 bp):
GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:112846985 original size:26 final size:26
Alignment explanation
Indices: 112846948--112847005 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
112846938 TGATACAAAT
112846948 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
112846974 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
112847000 TGATAA
1 TGATAA
112847006 GAATTTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:112848658 original size:27 final size:27
Alignment explanation
Indices: 112848617--112848729 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
112848607 GAGGAAGCGT
*
112848617 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
112848644 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
112848671 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
112848699 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
112848725 TCTGG
1 TCTGG
112848730 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:112848722 original size:54 final size:54
Alignment explanation
Indices: 112848615--112848729 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
112848605 TGGAGGAAGC
*
112848615 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
112848669 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
112848723 GTTCTGG
1 GTTCTGG
112848730 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:112852726 original size:26 final size:26
Alignment explanation
Indices: 112852689--112852746 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
112852679 TGATACAAAT
112852689 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
112852715 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
112852741 TGATAA
1 TGATAA
112852747 GAATTTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:112854445 original size:26 final size:26
Alignment explanation
Indices: 112854358--112854470 Score: 147
Period size: 27 Copynumber: 4.3 Consensus size: 26
112854348 TGGAGGAAGC
* *
112854358 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
112854385 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
112854412 GTTCTGGTGGCTCTGCCACGATT-TCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* *
112854438 GTTCTGGTGACTCTGTCACATTATCT
1 GTTCTGGTGGCTCTGCCACATTATCT
112854464 GTTCTGG
1 GTTCTGG
112854471 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
25 3 0.04
26 31 0.40
27 41 0.53
28 2 0.03
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:112863614 original size:17 final size:18
Alignment explanation
Indices: 112863588--112863621 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
112863578 CTTATTTTTA
112863588 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
112863605 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
112863622 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:112870919 original size:16 final size:16
Alignment explanation
Indices: 112870898--112870929 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
112870888 AATTCGGTTA
*
112870898 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
112870914 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
112870930 TAAATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:112872141 original size:16 final size:16
Alignment explanation
Indices: 112872120--112872166 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
112872110 TTTCTATTTT
112872120 AATATAATAAATATTA
1 AATATAATAAATATTA
* * *
112872136 AATATAATTATTAATA
1 AATATAATAAATATTA
*
112872152 AATATCATAAATATT
1 AATATAATAAATATT
112872167 GATTCTAGTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATAATAAATATTA
Found at i:112873839 original size:26 final size:26
Alignment explanation
Indices: 112873787--112873840 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
112873777 TTTCTCATCC
*
112873787 AAATTTTACACTCGATAACATTATGA
1 AAATTTTACACTCGATAAAATTATGA
* * * *
112873813 AAATTTTACCCTTGGTAAAATTTTGA
1 AAATTTTACACTCGATAAAATTATGA
112873839 AA
1 AA
112873841 TAATATATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (26 bp):
AAATTTTACACTCGATAAAATTATGA
Found at i:112886656 original size:36 final size:36
Alignment explanation
Indices: 112886616--112886684 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
112886606 TAAATTGAAC
112886616 TAAACCTAAATCTACTCCTAAGTAAATGTATCGACT
1 TAAACCTAAATCTACTCCTAAGTAAATGTATCGACT
* *
112886652 TAAACCTATATCTACTCCTAGGTAAATGTATCG
1 TAAACCTAAATCTACTCCTAAGTAAATGTATCG
112886685 GCTTTTCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (36 bp):
TAAACCTAAATCTACTCCTAAGTAAATGTATCGACT
Found at i:112888934 original size:21 final size:21
Alignment explanation
Indices: 112888896--112888940 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
112888886 CTGTGTACAA
* *
112888896 TTTCTATCTATCAAAAATTGT
1 TTTCAATCTATCAAAAATTAT
**
112888917 TTTCAATCTATCTCAAATTAT
1 TTTCAATCTATCAAAAATTAT
112888938 TTT
1 TTT
112888941 AATAATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTCAATCTATCAAAAATTAT
Found at i:112893413 original size:13 final size:13
Alignment explanation
Indices: 112893395--112893421 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
112893385 AAAGCAATTG
112893395 CACACGGGCGTGT
1 CACACGGGCGTGT
112893408 CACACGGGCGTGT
1 CACACGGGCGTGT
112893421 C
1 C
112893422 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:112898292 original size:49 final size:49
Alignment explanation
Indices: 112898226--112898463 Score: 296
Period size: 49 Copynumber: 4.8 Consensus size: 49
112898216 TAGCCAAACC
* * * *
112898226 TATCTGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
112898275 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
112898324 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACAAACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * * *
112898374 CATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* ** *
112898425 TTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
112898464 TGCGACCTCA
Statistics
Matches: 162, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 88 0.54
50 40 0.25
51 33 0.20
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:112898471 original size:101 final size:99
Alignment explanation
Indices: 112898226--112898471 Score: 332
Period size: 101 Copynumber: 2.5 Consensus size: 99
112898216 TAGCCAAACC
* * ** *
112898226 TATCTGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
*
112898290 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
66 GTAGCCTACACTTAGTACTACACACGTGACCAAT
* * * *
112898324 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
*
112898389 GTAGCCTACACTTAGTACTACACACGTGATCACAGT
66 GTAGCCTACACTTAGTACTACACACGTGA-C-CAAT
* ** *
112898425 TTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT
112898472 CACAATAGAT
Statistics
Matches: 127, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 41 0.32
99 42 0.33
100 1 0.01
101 43 0.34
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
GTAGCCTACACTTAGTACTACACACGTGACCAAT
Found at i:112901404 original size:101 final size:101
Alignment explanation
Indices: 112901286--112901511 Score: 274
Period size: 101 Copynumber: 2.2 Consensus size: 101
112901276 ACACATGCAT
* * * ** * * ** *
112901286 TGCCATGGCCCAGCCATGATCTTACATTCGTAGTGTCATAACCCAGTTATG-GTTTTATCATCAG
1 TGCCATGGTCCAACCATGGTCTTACATTCAAAGTGCCATAAACCAGTTATGAAATTT-TCATCAA
*
112901350 AATGCCATAGCCCAACTATGGTCTTACTTATAAATAC
65 AATGCCATAGCCCAACTATGGTCTTACATATAAATAC
** * *
112901387 TGCCATGGTCCAACCATGGTCTTATGTTCAAAGTGCCATAAACTAGTTATGAAATTTTCATTAAA
1 TGCCATGGTCCAACCATGGTCTTACATTCAAAGTGCCATAAACCAGTTATGAAATTTTCATCAAA
* *
112901452 ATGCCATAGCCCAGCTATGGTCTTACATATAAATAT
66 ATGCCATAGCCCAACTATGGTCTTACATATAAATAC
*
112901488 TTCCATGGTCCAACCATGGTCTTA
1 TGCCATGGTCCAACCATGGTCTTA
112901512 TCCGTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
101 103 0.97
102 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (101 bp):
TGCCATGGTCCAACCATGGTCTTACATTCAAAGTGCCATAAACCAGTTATGAAATTTTCATCAAA
ATGCCATAGCCCAACTATGGTCTTACATATAAATAC
Found at i:112903472 original size:22 final size:18
Alignment explanation
Indices: 112903426--112903478 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 18
112903416 TTATATACTA
112903426 AATAAAATAATAAAATAT
1 AATAAAATAATAAAATAT
112903444 AATTAAAATCAAATCAAAATATT
1 AA-TAAAAT--AAT-AAAATA-T
*
112903467 AATAAACTAATA
1 AATAAAATAATA
112903479 TTTATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
18 2 0.07
19 7 0.24
20 3 0.10
21 3 0.10
22 11 0.38
23 3 0.10
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
AATAAAATAATAAAATAT
Found at i:112904993 original size:31 final size:31
Alignment explanation
Indices: 112904950--112905009 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
112904940 CACACAATCA
*
112904950 TGTCCCAGCCCGTGTAACTC-CTTGACTTGTT
1 TGTCCCAACCCGTGTAACTCACTT-ACTTGTT
112904981 TGTCCCAACCCGTGTAACTCACTTACTTG
1 TGTCCCAACCCGTGTAACTCACTTACTTG
112905010 GGTCACACGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (31 bp):
TGTCCCAACCCGTGTAACTCACTTACTTGTT
Found at i:112908100 original size:21 final size:20
Alignment explanation
Indices: 112908076--112908115 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
112908066 CATGTATTTT
112908076 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
112908097 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
112908116 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:112908123 original size:20 final size:21
Alignment explanation
Indices: 112908081--112908123 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
112908071 ATTTTAATGA
*
112908081 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
112908102 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
112908122 TT
1 TT
112908124 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:112910914 original size:43 final size:43
Alignment explanation
Indices: 112910844--112911012 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 43
112910834 ATAACTTGTA
* * * * *
112910844 CAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCTAGACATGGTCTTACACGTAATCACATAT
* * * * *
112910886 CAATGCCACTGTCCTAGACAAGGTCTTACACGAAATCAAATAA
1 CAATGCCAATGTCCTAGACATGGTCTTACACGTAATCACATAT
* *
112910929 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-AT
1 CAATGCCAATGTCCTAGACATGGTCTTACACGTAATCACATAT
*
112910971 ACAATGCCAATGTCCTAGACATTGTCTTACATC-TAATCACAT
1 -CAATGCCAATGTCCTAGACATGGTCTTACA-CGTAATCACAT
112911013 CTCGATAACC
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
42 8 0.08
43 94 0.91
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (43 bp):
CAATGCCAATGTCCTAGACATGGTCTTACACGTAATCACATAT
Found at i:112926061 original size:62 final size:59
Alignment explanation
Indices: 112925952--112926068 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
112925942 ATCACTTTAA
* * *
112925952 TATTAAAATAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
112926011 TATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA--T-CAAGATAAACATTAAATTAAATTTAATATTAA
112926069 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.39
61 1 0.02
62 30 0.59
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:112930776 original size:15 final size:16
Alignment explanation
Indices: 112930735--112930779 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
112930725 ATTATCTTAA
112930735 ATTATGAATATGTGTGT
1 ATTATG-ATATGTGTGT
* *
112930752 ATTGTGATATGTGTTT
1 ATTATGATATGTGTGT
112930768 A-TATGATATGTG
1 ATTATGATATGTG
112930780 ACCATTATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (16 bp):
ATTATGATATGTGTGT
Found at i:112935636 original size:39 final size:39
Alignment explanation
Indices: 112935593--112935810 Score: 348
Period size: 39 Copynumber: 5.5 Consensus size: 39
112935583 TAATGGAGAA
112935593 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
112935632 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
112935671 TTATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
112935710 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
112935749 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
112935788 TTATATCCAGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
112935811 CATGCTTTGT
Statistics
Matches: 169, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 147 0.87
40 22 0.13
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:112947696 original size:5 final size:5
Alignment explanation
Indices: 112947686--112947710 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
112947676 ATTTTTCTAT
112947686 TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA
112947711 ACGCATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:112951436 original size:18 final size:18
Alignment explanation
Indices: 112951413--112951695 Score: 162
Period size: 18 Copynumber: 15.3 Consensus size: 18
112951403 GAATAATTAT
112951413 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
112951431 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
112951449 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
112951467 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
*
112951493 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
112951511 TTATTCAGTAA-AATTAG
1 TTATTCAGTAACAGTCAG
* * *
112951528 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
* *
112951547 TTATTTAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
112951564 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
112951583 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
112951601 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
112951619 TTATTCAGTAATAGTC--
1 TTATTCAGTAACAGTCAG
* *
112951635 TAATATCTAGTAACAGTCAA
1 TTAT-TC-AGTAACAGTCAG
*
112951655 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
112951673 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
112951691 TTATT
1 TTATT
112951696 TTATACCTTT
Statistics
Matches: 203, Mismatches: 44, Indels: 36
0.72 0.16 0.13
Matches are distributed among these distances:
16 3 0.01
17 17 0.08
18 145 0.71
19 18 0.09
20 3 0.01
21 2 0.01
22 1 0.00
23 2 0.01
26 12 0.06
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:112951462 original size:54 final size:54
Alignment explanation
Indices: 112951400--112951695 Score: 217
Period size: 54 Copynumber: 5.4 Consensus size: 54
112951390 TCATTAACAC
* * *
112951400 TCAG-AATAATTATTTATTCAGTAACAGTCAGTTATTCGGTAACAATCAATTAT
1 TCAGTAATAATTAGTTATTCAGTAACAGTCAGTTATTCAGTAACAGTCAATTAT
* ** *
112951453 TCAATAATAACCAGTTATTCAGTATCGATCAATTGATCGGTTATTCAGTAACAGTCAATTAT
1 TCAGTAATAATTAGTTATTCAGTA---A-C-A--G-TCAGTTATTCAGTAACAGTCAATTAT
* * * * *
112951515 TCAGTAA-AATTAGATATTCAGTAACTATTAAGTTATTTAGTAGCAGTC-ATTCAT
1 TCAGTAATAATTAGTTATTCAGTAAC-AGTCAGTTATTCAGTAACAGTCAATT-AT
* * * * * * * *
112951569 TCAGTGACAATCAGTTATTCAGTAA-TGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAATAATTAGTTATTCAGTAACAG-TCAGTTATTCAGTAACAGTCAATTAT
* * *
112951623 TCAGTAATAGTCTA-ATA-TCTAGTAACAGTCAATTATTCAGTAACAGTCAATTAT
1 TCAGTAATAAT-TAGTTATTC-AGTAACAGTCAGTTATTCAGTAACAGTCAATTAT
*
112951677 TCAGTAATAATCAGTTATT
1 TCAGTAATAATTAGTTATT
112951696 TTATACCTTT
Statistics
Matches: 184, Mismatches: 41, Indels: 34
0.71 0.16 0.13
Matches are distributed among these distances:
53 9 0.05
54 106 0.58
55 20 0.11
57 3 0.02
58 2 0.01
59 1 0.01
61 14 0.08
62 29 0.16
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.38
Consensus pattern (54 bp):
TCAGTAATAATTAGTTATTCAGTAACAGTCAGTTATTCAGTAACAGTCAATTAT
Found at i:112951621 original size:72 final size:69
Alignment explanation
Indices: 112951495--112951696 Score: 217
Period size: 72 Copynumber: 2.8 Consensus size: 69
112951485 TTGATCGGTT
* * *
112951495 ATTCAGTAACAGTCAATTATTCAGTAAAATTAGA-TATTCAGTAACTATTAAGTTATTTAGTAGC
1 ATTCAGTAACAGTCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTTAGTAAC
*
112951559 AGTCATTC
64 AGTC--TA
* * * * * *
112951567 ATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAATA
1 ATTCAGTAACAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTTAGTAACA
112951632 GTCTA
65 GTCTA
* *
112951637 ATATCTAGTAACAGTCAATTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATTT
1 AT-TC-AGTAACAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTT
112951697 TATACCTTTA
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
70 3 0.03
71 2 0.02
72 90 0.83
73 13 0.12
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (69 bp):
ATTCAGTAACAGTCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTTAGTAACAG
TCTA
Found at i:112951912 original size:45 final size:45
Alignment explanation
Indices: 112951863--112952057 Score: 282
Period size: 45 Copynumber: 4.3 Consensus size: 45
112951853 ATCTGGAATA
* * * **
112951863 GTAACAGTAACAATAACAGTATTCAACACACAAAGTGTTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
112951908 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCAAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
112951953 GTAACGGTAACAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
112951998 GTAACAGTAGCAGTAACAGTATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
112952043 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
112952058 GCGGTAACAG
Statistics
Matches: 137, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 137 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:112952485 original size:5 final size:5
Alignment explanation
Indices: 112952477--112952522 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
112952467 ATTCCAGTCC
* * *
112952477 ATTCA ATTCA ATTCA ATTCA ATTCA ATCCA AATCA AATCAA ATTCA
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA ATTC-A ATTCA
112952523 CTTTTCCACT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
5 32 0.89
6 4 0.11
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.33
Consensus pattern (5 bp):
ATTCA
Found at i:112952689 original size:4 final size:4
Alignment explanation
Indices: 112952680--112952719 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
112952670 ATTCAATTCA
112952680 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
112952720 GTCCAATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:112952929 original size:21 final size:21
Alignment explanation
Indices: 112952904--112952964 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
112952894 TTCAATTTCA
112952904 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
112952925 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
112952946 AATCAATATTCAATCCAAT
1 ATTCAATAATCAATTCAAT
112952965 TCATATACTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:112953229 original size:14 final size:14
Alignment explanation
Indices: 112953210--112953248 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
112953200 CTTCGTCTCC
112953210 TTCTTTGTTTCTTT
1 TTCTTTGTTTCTTT
* *
112953224 TTCTTTCTCTCTTT
1 TTCTTTGTTTCTTT
112953238 TTCTTTTGTTT
1 TTC-TTTGTTT
112953249 TACTTTATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (14 bp):
TTCTTTGTTTCTTT
Found at i:112953261 original size:2 final size:2
Alignment explanation
Indices: 112953254--112953283 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
112953244 TGTTTTACTT
112953254 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112953284 ATAACAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112956253 original size:42 final size:43
Alignment explanation
Indices: 112956202--112956294 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 43
112956192 ACAAACATGC
112956202 GTGTGTCTATGCCGTATGTGACACACGGCTTGCCCCTTGGGCAT
1 GTGT-TCTATGCCGTATGTGACACACGGCTTGCCCCTTGGGCAT
** * *
112956246 GT-TTCTATGTTGTATGTGACACTCGGCTTGCCCCTTGGGCGT
1 GTGTTCTATGCCGTATGTGACACACGGCTTGCCCCTTGGGCAT
112956288 GTGTTCT
1 GTGTTCT
112956295 GGCTGTGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 37 0.84
43 5 0.11
44 2 0.05
ACGTcount: A:0.11, C:0.25, G:0.29, T:0.35
Consensus pattern (43 bp):
GTGTTCTATGCCGTATGTGACACACGGCTTGCCCCTTGGGCAT
Found at i:112956586 original size:18 final size:19
Alignment explanation
Indices: 112956563--112956612 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
112956553 AGGGTTAGGG
**
112956563 ACACGGGCGTGTGTGA-CC
1 ACACGGGCGTGTGCAAGCC
*
112956581 ACACGGGCGTGTCCAAGCC
1 ACACGGGCGTGTGCAAGCC
112956600 ACACGGGCGTGTG
1 ACACGGGCGTGTG
112956613 ACCCCTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.18, C:0.30, G:0.38, T:0.14
Consensus pattern (19 bp):
ACACGGGCGTGTGCAAGCC
Found at i:112973737 original size:26 final size:26
Alignment explanation
Indices: 112973708--112973840 Score: 221
Period size: 26 Copynumber: 5.1 Consensus size: 26
112973698 TGGTACAAAT
*
112973708 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
112973734 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112973760 TGATAATGGGTTAGGTAAACGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112973786 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112973812 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112973838 TGA
1 TGA
112973841 CGGGCATTTC
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 99 1.00
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112978735 original size:23 final size:20
Alignment explanation
Indices: 112978671--112978725 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
112978661 AATATTTTAC
*
112978671 ATATAAAATATAAT-AAAAT
1 ATATAACATATAATAAAAAT
*
112978690 AAAT-A-ATATAATAAAAAT
1 ATATAACATATAATAAAAAT
112978708 ATATAACATATAATAAAA
1 ATATAACATATAATAAAA
112978726 TTTATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 7 0.23
18 9 0.29
19 4 0.13
20 11 0.35
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATATAACATATAATAAAAAT
Found at i:112978738 original size:18 final size:17
Alignment explanation
Indices: 112978671--112978739 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 17
112978661 AATATTTTAC
*
112978671 ATATAAAATATAATAAA
1 ATATATAATATAATAAA
*
112978688 ATAAATAATATAATAAAA
1 ATATATAATATAAT-AAA
112978706 ATATATAACATATAATAAA
1 ATATAT-A-ATATAATAAA
*
112978725 ATTTATATATATAAT
1 ATATATA-ATATAAT
112978740 GTTACAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
17 12 0.27
18 16 0.36
19 9 0.20
20 7 0.16
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATATAATATAATAAA
Found at i:112978866 original size:33 final size:34
Alignment explanation
Indices: 112978804--112978867 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
112978794 TTAAAAAAAA
*
112978804 TATATAAAGTATTTTAAATAAATTAAATTAAAGG
1 TATATAAAGTATTTAAAATAAATTAAATTAAAGG
*
112978838 TATATAAAG-A-TTAAAATTAAATTTAATTAA
1 TATATAAAGTATTTAAAA-TAAATTAAATTAA
112978868 GGAATTTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 5 0.19
33 13 0.48
34 9 0.33
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (34 bp):
TATATAAAGTATTTAAAATAAATTAAATTAAAGG
Found at i:112981126 original size:40 final size:40
Alignment explanation
Indices: 112981071--112981280 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
112981061 AACATTGGAA
112981071 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
112981111 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
112981151 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
112981191 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
112981230 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
112981271 CTATATCCGG
1 ATATATCCGG
112981281 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:112989236 original size:40 final size:40
Alignment explanation
Indices: 112989181--112989390 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
112989171 AACATTGGAA
112989181 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
112989221 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
112989261 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
112989301 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
112989340 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
112989381 CTATATCCGG
1 ATATATCCGG
112989391 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:112997373 original size:40 final size:40
Alignment explanation
Indices: 112997318--112997527 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
112997308 AACATTGGAA
112997318 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
112997358 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
112997398 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
112997438 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
112997477 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
112997518 CTATATCCGG
1 ATATATCCGG
112997528 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:113022253 original size:17 final size:18
Alignment explanation
Indices: 113022233--113022278 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
113022223 GTATTGAACT
113022233 ATAATAATAATT-AAATA
1 ATAATAATAATTAAAATA
113022250 ATAAT--TAATTTAAAATA
1 ATAATAATAA-TTAAAATA
113022267 ATAACTAATAAT
1 ATAA-TAATAAT
113022279 AATTAGGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
15 3 0.12
16 2 0.08
17 14 0.58
18 1 0.04
19 1 0.04
20 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATAATAATTAAAATA
Found at i:113022276 original size:10 final size:10
Alignment explanation
Indices: 113022234--113022283 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
113022224 TATTGAACTA
113022234 TAATAATAAT
1 TAATAATAAT
113022244 TAAATAATAAT
1 T-AATAATAAT
*
113022255 TAAT-TTAA-
1 TAATAATAAT
*
113022263 -AATAATAAC
1 TAATAATAAT
113022272 TAATAATAAT
1 TAATAATAAT
113022282 TA
1 TA
113022284 GGCAAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
7 3 0.09
8 3 0.09
9 3 0.09
10 14 0.42
11 10 0.30
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATAATAAT
Found at i:113023021 original size:49 final size:49
Alignment explanation
Indices: 113022964--113023272 Score: 384
Period size: 49 Copynumber: 6.2 Consensus size: 49
113022954 TTCAATATAC
* *
113022964 TTGCATTCATAAATAAAGTTGCTTTATTTATGCTTTATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * * *
113023013 TTGCATTCATAAATCAAGTTGTTTTATTTATGCTTAATTTATTATTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * * * *
113023062 TTGCATTCATAAATAGAGTTGCTTTAGTTATGCTTCATTCATTGTTCTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* *
113023111 TTGCATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATTGATTATTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTG
* * * *
113023162 TTGCATTCATATATAGAGTTGTTTTATTTATGCTTCATTCATTGTTCTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * *
113023211 TTGCATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATTGTTTTTTTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTG-ATTGTTTTG
*
113023263 TTGTATTCAT
1 TTGCATTCAT
113023273 TTAGGTTATG
Statistics
Matches: 222, Mismatches: 33, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
49 146 0.66
51 61 0.27
52 15 0.07
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (49 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
Found at i:113023178 original size:100 final size:100
Alignment explanation
Indices: 113022964--113023272 Score: 469
Period size: 100 Copynumber: 3.1 Consensus size: 100
113022954 TTCAATATAC
* * * * *
113022964 TTGCATTCATAAATAAAGTTGCTTTATTTATGCTTTATTGATTGTTTTGTTGCATTCATAAATCA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTCTGTTGCATTCATAAATAA
* * *
113023029 AGT--TGTTTTATTTATGCTTAATTTATTATTTTG
66 AGTGGTGTTTTAATTATGCTTCATTGATTATTTTG
*
113023062 TTGCATTCATAAATAGAGTTGCTTTAGTTATGCTTCATTCATTGTTCTGTTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTCTGTTGCATTCATAAATAA
113023127 AGTGGTGTTTTAATTATGCTTCATTGATTATTTTG
66 AGTGGTGTTTTAATTATGCTTCATTGATTATTTTG
* *
113023162 TTGCATTCATATATAGAGTTGTTTTATTTATGCTTCATTCATTGTTCTGTTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTCTGTTGCATTCATAAATAA
* *
113023227 AGTGGTGTTTTAATTATGCTTCATTGTTTTTTTTTG
66 AGTGGTGTTTTAATTATGCTTCATTG-ATTATTTTG
*
113023263 TTGTATTCAT
1 TTGCATTCAT
113023273 TTAGGTTATG
Statistics
Matches: 193, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
98 62 0.32
100 115 0.60
101 16 0.08
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (100 bp):
TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTCTGTTGCATTCATAAATAA
AGTGGTGTTTTAATTATGCTTCATTGATTATTTTG
Found at i:113028613 original size:93 final size:93
Alignment explanation
Indices: 113028506--113028676 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
113028496 GCCCCTAAGT
* *
113028506 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
113028571 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
113028599 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
113028664 CGAGTTCGGATGC
66 CGAGTTCGGATGC
113028677 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:113028673 original size:46 final size:46
Alignment explanation
Indices: 113028501--113028673 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
113028491 AACCCGCCCC
* * *
113028501 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
* *
113028547 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* *
113028595 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
113028640 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
113028674 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 60 0.56
47 28 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:113031093 original size:30 final size:30
Alignment explanation
Indices: 113031049--113031137 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
113031039 CAAAGATAAC
*
113031049 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
113031078 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
113031108 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
113031138 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:113031097 original size:15 final size:14
Alignment explanation
Indices: 113031049--113031131 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
113031039 CAAAGATAAC
*
113031049 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
113031063 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
113031078 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
113031093 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
113031108 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
113031123 AAGAAACCC
1 AAGAAACCC
113031132 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:113031137 original size:15 final size:15
Alignment explanation
Indices: 113031060--113031137 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
113031050 AGAAAACCGA
113031060 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
113031075 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
113031089 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
113031104 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
113031120 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
113031135 ATA
1 ATA
113031138 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:113044021 original size:21 final size:22
Alignment explanation
Indices: 113043991--113044031 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
113043981 TAGTAAAAGT
113043991 CATTTCTCTAACCA-TAAACAAG
1 CATTTCTCT-ACCATTAAACAAG
113044013 CATTT-TCTACCATTAAACA
1 CATTTCTCTACCATTAAACA
113044032 TCAAAATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (22 bp):
CATTTCTCTACCATTAAACAAG
Found at i:113047443 original size:2 final size:2
Alignment explanation
Indices: 113047436--113047472 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
113047426 ATAACACATG
113047436 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
113047473 CATGATAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:113050395 original size:14 final size:15
Alignment explanation
Indices: 113050376--113050404 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
113050366 AACATATACG
113050376 TACAACCAA-ACATC
1 TACAACCAAGACATC
113050390 TACAACCAAGACATC
1 TACAACCAAGACATC
113050405 AACACATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.34, G:0.03, T:0.14
Consensus pattern (15 bp):
TACAACCAAGACATC
Found at i:113055053 original size:51 final size:49
Alignment explanation
Indices: 113054853--113055149 Score: 303
Period size: 49 Copynumber: 5.9 Consensus size: 49
113054843 TAAAGCATAC
* *
113054853 TTGCATTCATAAATAAAGTTGCTTTATTTATGCTTCATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTAATTATGCTTCATTGATTGTTTTG
* * *
113054902 TTGCA-TCAAGAAATAAAGTTGTTTTATTTATTCTTCATTGATTGTTTTG
1 TTGCATTC-ATAAATAAAGTTGTTTTAATTATGCTTCATTGATTGTTTTG
* * * * * *
113054951 CT-CTATTCATAAA-AAGAGTTGCTTTATTTATACTTCATTCATTGTTCTG
1 TTGC-ATTCATAAATAA-AGTTGTTTTAATTATGCTTCATTGATTGTTTTG
* * *
113055000 TTGCATCCATAAATAAAGTGGTGTTTTAATTATGCTTCATTGACTATTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTAATTATGCTTCATTGATTGTTTTG
* * * * *
113055051 TTGCATTCATACATAGAGTTGTTTTATATTTATGCTTCATTCATTGTTCTA
1 TTGCATTCATAAATAAAGTTGTTTTA-A-TTATGCTTCATTGATTGTTTTG
* *
113055102 TTGCATTTATAAATAAAGTGGTGTTTTAATTATGCTTCATTGTTTGTT
1 TTGCATTCATAAATAAAGT--TGTTTTAATTATGCTTCATTGATTGTT
113055150 GTTTTTTTTT
Statistics
Matches: 205, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
48 5 0.02
49 97 0.47
50 6 0.03
51 89 0.43
52 1 0.00
53 7 0.03
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (49 bp):
TTGCATTCATAAATAAAGTTGTTTTAATTATGCTTCATTGATTGTTTTG
Found at i:113055120 original size:102 final size:100
Alignment explanation
Indices: 113054853--113055143 Score: 381
Period size: 102 Copynumber: 2.9 Consensus size: 100
113054843 TAAAGCATAC
* * * *
113054853 TTGCATTCATAAATAAAGTTGCTTTATTTATGCTTCATTGATTGTTTTGTTGCATCAAGAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTCTGTTGCATCAATAAATAA
* * * *
113054918 AGT--TGTTTTATTTATTCTTCATTGATTGTTTTG
66 AGTGGTGTTTTAATTATGCTTCATTGACTATTTTG
* * * *
113054951 CT-CTATTCATAAAAAGAGTTGCTTTATTTATACTTCATTCATTGTTCTGTTGCATCCATAAATA
1 TTGC-ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTCTGTTGCATCAATAAATA
113055015 AAGTGGTGTTTTAATTATGCTTCATTGACTATTTTG
65 AAGTGGTGTTTTAATTATGCTTCATTGACTATTTTG
* * * **
113055051 TTGCATTCATACATAGAGTTGTTTTATATTTATGCTTCATTCATTGTTCTATTGCATTTATAAAT
1 TTGCATTCATAAATAGAGTTG-CTT-TATTTATGCTTCATTCATTGTTCTGTTGCATCAATAAAT
113055116 AAAGTGGTGTTTTAATTATGCTTCATTG
64 AAAGTGGTGTTTTAATTATGCTTCATTG
113055144 TTTGTTGTTT
Statistics
Matches: 167, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
97 1 0.01
98 58 0.35
100 42 0.25
101 3 0.02
102 63 0.38
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (100 bp):
TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTCTGTTGCATCAATAAATAA
AGTGGTGTTTTAATTATGCTTCATTGACTATTTTG
Found at i:113056855 original size:17 final size:18
Alignment explanation
Indices: 113056835--113056875 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
113056825 TTGGATAAAT
*
113056835 ATTTATAT-TATATAATA
1 ATTTATATAAATATAATA
*
113056852 ATTTA-ATAAATATTATA
1 ATTTATATAAATATAATA
113056869 ATTTATA
1 ATTTATA
113056876 GGATAATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 17 0.85
18 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTATATAAATATAATA
Found at i:113061281 original size:20 final size:20
Alignment explanation
Indices: 113061248--113061286 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
113061238 CTGAAGTTAG
*
113061248 CATGTGATTTGGATTACATGC
1 CATGTGATTAGGATT-CATGC
113061269 CATG-GATTAGGATTCATG
1 CATGTGATTAGGATTCATG
113061287 GAAAGCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (20 bp):
CATGTGATTAGGATTCATGC
Found at i:113063127 original size:15 final size:16
Alignment explanation
Indices: 113063097--113063130 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
113063087 GAAAGAAACA
*
113063097 AAGGAATGAAATAGAG
1 AAGGAATGAAAAAGAG
113063113 AAGGAA-GAAAAAGAG
1 AAGGAATGAAAAAGAG
113063128 AAG
1 AAG
113063131 CAAAAGGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.06
Consensus pattern (16 bp):
AAGGAATGAAAAAGAG
Found at i:113063865 original size:79 final size:79
Alignment explanation
Indices: 113063778--113063935 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 79
113063768 TATTTGATTT
*
113063778 GATGGTATTGAATAAATTTAATTGATCATATGAGTATATACAATTACTGAATTGAAATGAATATT
1 GATGGTATTGAATAAATTTAATTGATCATATGAGTATAGACAATTACTGAATTGAAATGAATATT
113063843 GATTGAAATTGAAA
66 GATTGAAATTGAAA
*
113063857 GATGGTATTGAATAAATTTAATTGATCATATGAGTATAGACAATTATTGAATTGAAATGAATATT
1 GATGGTATTGAATAAATTTAATTGATCATATGAGTATAGACAATTACTGAATTGAAATGAATATT
113063922 GATTGAAATTGAAA
66 GATTGAAATTGAAA
113063936 AGTGAGTTGA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (79 bp):
GATGGTATTGAATAAATTTAATTGATCATATGAGTATAGACAATTACTGAATTGAAATGAATATT
GATTGAAATTGAAA
Found at i:113089244 original size:16 final size:16
Alignment explanation
Indices: 113089223--113089257 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
113089213 AAGTAAATGG
113089223 TATTATATTACT-ATAT
1 TATTATATTA-TAATAT
113089239 TATTATATTATAATAT
1 TATTATATTATAATAT
113089255 TAT
1 TAT
113089258 ATAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.06
16 17 0.94
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATATTATAATAT
Found at i:113089365 original size:14 final size:12
Alignment explanation
Indices: 113089327--113089358 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
113089317 ACAGAGAAGG
113089327 AAGAAAAAGA-A
1 AAGAAAAAGAGA
113089338 AAGAAAAAGAGA
1 AAGAAAAAGAGA
113089350 AAGAAAAAG
1 AAGAAAAAG
113089359 GGAGAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAGA
Found at i:113093015 original size:46 final size:45
Alignment explanation
Indices: 113092962--113093137 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
113092952 TGTTTGGGCA
113092962 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
113093008 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
113093055 TCCGAGCTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
113093101 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113093138 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.63
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:113093117 original size:93 final size:93
Alignment explanation
Indices: 113092958--113093129 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
113092948 AGGATGTTTG
* * * *
113092958 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
113093023 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
113093051 GGCATCCGAGCTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
113093116 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
113093130 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:113104105 original size:26 final size:26
Alignment explanation
Indices: 113104076--113104263 Score: 331
Period size: 26 Copynumber: 7.2 Consensus size: 26
113104066 TGGTACAAAT
*
113104076 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
113104102 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
113104128 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
113104154 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
113104180 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
113104206 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
113104232 TAATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
113104258 TGATAA
1 TGATAA
113104264 GAATTTCATG
Statistics
Matches: 155, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 155 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:113105766 original size:26 final size:26
Alignment explanation
Indices: 113105703--113105778 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
113105693 AAAAGTAGCT
* * * *
113105703 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-GTGCA
113105731 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGCA
113105757 AAATTACTGTTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
113105779 GTTAATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 25 0.57
27 1 0.02
28 18 0.41
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGCA
Found at i:113105922 original size:27 final size:27
Alignment explanation
Indices: 113105881--113105993 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
113105871 GAGGAAGCGT
*
113105881 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
113105908 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
113105935 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
113105963 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
113105989 TCTGG
1 TCTGG
113105994 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:113105986 original size:54 final size:54
Alignment explanation
Indices: 113105879--113105993 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
113105869 TGGAGGAAGC
*
113105879 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
113105933 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
113105987 GTTCTGG
1 GTTCTGG
113105994 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:113106079 original size:19 final size:22
Alignment explanation
Indices: 113106055--113106094 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
113106045 CTCCCCACAC
113106055 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
113106074 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
113106095 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:113110962 original size:26 final size:26
Alignment explanation
Indices: 113110933--113111119 Score: 331
Period size: 26 Copynumber: 7.2 Consensus size: 26
113110923 TGGTACAAAT
113110933 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
113110959 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
113110985 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
113111011 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
113111037 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
113111063 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
113111088 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
113111114 TGATAA
1 TGATAA
113111120 GAATTTCATG
Statistics
Matches: 155, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
25 23 0.15
26 132 0.85
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:113112776 original size:27 final size:27
Alignment explanation
Indices: 113112735--113112847 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
113112725 GAGGAAGCGT
*
113112735 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
113112762 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
113112789 TCTAGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
113112817 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
113112843 TCTGG
1 TCTGG
113112848 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.74
28 14 0.19
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Done.