Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 200 of 378
Found at i:58983069 original size:13 final size:13
Alignment explanation
Indices: 58983051--58983076 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58983041 CCTAAAATCC
58983051 ACATGCTCGTGTG
1 ACATGCTCGTGTG
58983064 ACATGCTCGTGTG
1 ACATGCTCGTGTG
58983077 GGCCCACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
ACATGCTCGTGTG
Found at i:58983758 original size:13 final size:13
Alignment explanation
Indices: 58983728--58983752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58983718 TGTAAAAAGA
58983728 AATAAAAGAAAAT
1 AATAAAAGAAAAT
58983741 AATAAAAGAAAA
1 AATAAAAGAAAA
58983753 ATATAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AATAAAAGAAAAT
Found at i:58990457 original size:6 final size:6
Alignment explanation
Indices: 58990446--58990496 Score: 70
Period size: 6 Copynumber: 8.7 Consensus size: 6
58990436 AAAGGTCAGA
*
58990446 TTTTAT TTTTAT TTGTT-T TTCT-T TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
58990493 TTTT
1 TTTT
58990497 GTGATATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 5 0.12
6 34 0.83
7 2 0.05
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:58994904 original size:55 final size:54
Alignment explanation
Indices: 58994816--58994925 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 54
58994806 TAACAACTCA
*
58994816 TTTTTAAAATTATTTCAGATCACTTCGGTGATCAATGTGACCTCTGAAATTCGG
1 TTTTTAAAATTATTTCAGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGG
*
58994870 TTTTGTAAAATTGTTTCAGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGG
1 TTTT-TAAAATTATTTCAGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGG
58994925 T
1 T
58994926 CTAAACTCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 4 0.08
55 49 0.92
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTTTAAAATTATTTCAGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGG
Found at i:58997554 original size:29 final size:29
Alignment explanation
Indices: 58997493--58997593 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
58997483 CCTCCGAGCT
** * *
58997493 CGCACACCCAGTGCCGTAT-TTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
58997521 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
58997550 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
58997579 CACACACTTAGTGCC
1 CGCACACTTAGTGCC
58997594 GATCTCGTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 15 0.23
29 50 0.77
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:58999436 original size:19 final size:19
Alignment explanation
Indices: 58999412--58999450 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
58999402 TGACTATTGA
58999412 TTTAATTTTAACCAATTAT
1 TTTAATTTTAACCAATTAT
*
58999431 TTTAATTTTAATCAATTAT
1 TTTAATTTTAACCAATTAT
58999450 T
1 T
58999451 AAAAGTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAATTTTAACCAATTAT
Found at i:59001967 original size:40 final size:40
Alignment explanation
Indices: 59001840--59001969 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
59001830 ATGCTGGAAA
* *
59001840 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
59001880 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
59001920 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
59001960 TTATATCCGG
1 TTATATCCGG
59001970 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:59010025 original size:40 final size:40
Alignment explanation
Indices: 59009898--59010027 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
59009888 ATGCTGGAAA
* *
59009898 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
59009938 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
59009978 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
59010018 TTATATCCGG
1 TTATATCCGG
59010028 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:59013937 original size:26 final size:26
Alignment explanation
Indices: 59013908--59013990 Score: 157
Period size: 26 Copynumber: 3.2 Consensus size: 26
59013898 TGATAAAAAT
*
59013908 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59013934 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59013960 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59013986 TGATA
1 TGATA
59013991 GGCATTTCAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59015626 original size:27 final size:27
Alignment explanation
Indices: 59015586--59015726 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
59015576 AGGAAGCGTC
59015586 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
*
59015613 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
59015639 CCTAGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
* *
59015667 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
* *
59015694 TTGGTGGCTTTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
59015721 CTGGTG
1 CTGGTG
59015727 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 11 0.11
27 82 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:59015665 original size:54 final size:54
Alignment explanation
Indices: 59015583--59015726 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
59015573 TGGAGGAAGC
59015583 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
59015637 GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
** *
59015691 GTTTTGGTGGCTTTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
59015727 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:59015737 original size:27 final size:27
Alignment explanation
Indices: 59015586--59015743 Score: 134
Period size: 27 Copynumber: 5.9 Consensus size: 27
59015576 AGGAAGCGTC
59015586 CTGGTGGCTAT-GCCACAATTATCTG-AT
1 CTGGTGGCT-TCGCCACAA-TATCTGTAT
*
59015613 CTGGTGGC-TCTGCCACATATATCTGT-C
1 CTGGTGGCTTC-GCCACA-ATATCTGTAT
*
59015640 CTAGTGGCTAT-GCCACAATTATCTG-AT
1 CTGGTGGCT-TCGCCACAA-TATCTGTAT
59015667 CTGGTGGC-TCTGCCACATATATCTGT-T
1 CTGGTGGCTTC-GCCACA-ATATCTGTAT
* *
59015694 TTGGTGGCTTTGCCACAATATCTGTAT
1 CTGGTGGCTTCGCCACAATATCTGTAT
* *
59015721 CTGGTGACTTCGTCACAATATCT
1 CTGGTGGCTTCGCCACAATATCT
59015744 AGCAGTTTCG
Statistics
Matches: 107, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
25 2 0.02
26 9 0.08
27 92 0.86
28 3 0.03
29 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTTCGCCACAATATCTGTAT
Found at i:59026579 original size:20 final size:21
Alignment explanation
Indices: 59026538--59026579 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
59026528 CACAGTGTAG
*
59026538 CAAAGGTAGCCAAAAAGAAAAA
1 CAAAGGTA-CCAAAAAAAAAAA
59026560 CAAAGGTA-CAAAAAAAAAAA
1 CAAAGGTACCAAAAAAAAAAA
59026580 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.69, C:0.12, G:0.14, T:0.05
Consensus pattern (21 bp):
CAAAGGTACCAAAAAAAAAAA
Found at i:59028203 original size:29 final size:29
Alignment explanation
Indices: 59028171--59028243 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
59028161 CTTCGAGCTC
*
59028171 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
59028200 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
59028229 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
59028244 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:59036154 original size:29 final size:29
Alignment explanation
Indices: 59036122--59036194 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
59036112 CTTCGAGCTC
*
59036122 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
59036151 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
59036180 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
59036195 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:59038312 original size:19 final size:19
Alignment explanation
Indices: 59038276--59038311 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
59038266 TTGAGACCTT
59038276 AAAAAATAAAAAGAAAAAG
1 AAAAAATAAAAAGAAAAAG
*
59038295 AAAAAAT-CAAAGAAAAA
1 AAAAAATAAAAAGAAAAA
59038312 ATAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.83, C:0.03, G:0.08, T:0.06
Consensus pattern (19 bp):
AAAAAATAAAAAGAAAAAG
Found at i:59038317 original size:19 final size:19
Alignment explanation
Indices: 59038275--59038319 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
59038265 CTTGAGACCT
59038275 TAAAAAATAAAAAGAAAAA
1 TAAAAAATAAAAAGAAAAA
* *
59038294 GAAAAAAT-CAAAGAAAAAA
1 TAAAAAATAAAAAG-AAAAA
59038313 TAAAAAA
1 TAAAAAA
59038320 ATTTATTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.09
Consensus pattern (19 bp):
TAAAAAATAAAAAGAAAAA
Found at i:59039662 original size:44 final size:45
Alignment explanation
Indices: 59039610--59039777 Score: 142
Period size: 45 Copynumber: 3.8 Consensus size: 45
59039600 CGAAGACGGC
* * *
59039610 AAATCTTATCTTCCCGAGGTAGCAAGGGAGCAGGCCAGAGATTGT
1 AAATCTTATCTTCCTGAGGTAGCAAGGGAGCAGACCAAAGATTGT
* * * * * *
59039655 -AGTCTTATCTTCTTGAAGTAGCAAGGAAGCAAACTAAAGATTGT
1 AAATCTTATCTTCCTGAGGTAGCAAGGGAGCAGACCAAAGATTGT
* *** * *
59039699 AAATCTTATC-TCCATGAGGTAGCAATGGAGCAGATTGAACATGGT
1 AAATCTTATCTTCC-TGAGGTAGCAAGGGAGCAGACCAAAGATTGT
* * * *
59039744 GAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGA
1 AAATCTTATCTTCCTGAGGTAGCAAGGGAGCAGA
59039778 TTTTAGCCAC
Statistics
Matches: 96, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
44 37 0.39
45 56 0.58
46 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (45 bp):
AAATCTTATCTTCCTGAGGTAGCAAGGGAGCAGACCAAAGATTGT
Found at i:59039912 original size:178 final size:178
Alignment explanation
Indices: 59039626--59040423 Score: 949
Period size: 178 Copynumber: 4.5 Consensus size: 178
59039616 TATCTTCCCG
* * *
59039626 AGGTAGCAAGGGAGCAGGC-CAGAGATTGTAGTCTTATCTTCTTGAAGTAGCAAGGAAGCAAACT
1 AGGTAGCAAGGGAGCAGGCTGA-AGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACT
* * * * **
59039690 AAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAACATGGTGAATCTTATCT
65 GAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGACGAATCTTATCT
* * *
59039755 TCCCGAGGTAGTAGGGGAGCAGATTTTAGCCACTAGTCTTATCTCCCTA
130 TCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTA
* * * * * *
59039804 AGGTGGCACGAGG-GCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGAAAGGAAGTAGACT
1 AGGTAGCAAG-GGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACT
* * *
59039868 GAAGATTGTAGATCTTATCTCTATGAGGCAACAATGGAGCAGATTGAAGACGACGAATCTTATCT
65 GAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGACGAATCTTATCT
* * ** * *
59039933 TTCTGATATAGTAGGGGAGTAGATTTTAGCCACCAGCCTTATCTCCCTGA
130 TCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCT-A
* *
59039983 A-GTAGCAAGGGAGCAGGC-CAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGATT
1 AGGTAGCAAGGGAGCAGGCTGA-AGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACT
* * *
59040046 GAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACAACGAATCTTATCT
65 GAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGACGAATCTTATCT
* *
59040111 TCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTG
130 TCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTA
* * * * * * *
59040160 AGGAAGCACGGGGGCAAGCTTAAGATTGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTG
1 AGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTG
** * * * * * * * * * *
59040225 AAGATTAAAGATCTTATCTCCCTAAGATAGTAGTGGAGCAAATCGAATATGGCGAATCTTATCTT
66 AAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGACGAATCTTATCTT
* * *
59040290 CCTGAGGTAGCA-GGGAGCAAGATTTTAGCCACCATCCTTATCTCACTA
131 CCCGAGGTAGCAGGGGAGC-AGATTTTAGCCACCAGCCTTATCTCCCTA
** * * * *
59040338 AGGTAGCAAGGGAGCAGATTGAAGATTGTAGACTTATCTTCTTGAGGTAGTAAGGGAGCAAACTG
1 AGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTG
*
59040403 AAGATTGTAGATCTTGTCTCC
66 AAGATTGTAGATCTTATCTCC
59040424 TCGAGATAGC
Statistics
Matches: 522, Mismatches: 90, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
177 10 0.02
178 506 0.97
179 6 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (178 bp):
AGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTG
AAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAAGACGACGAATCTTATCTT
CCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTA
Found at i:59040077 original size:45 final size:44
Alignment explanation
Indices: 59039970--59040095 Score: 130
Period size: 45 Copynumber: 2.8 Consensus size: 44
59039960 AGCCACCAGC
* * * ** *
59039970 CTTATCTCCCTGAAGTAGCAAGGGAGCAGGCCAG-AGATTGTAGT
1 CTTATCTCCATGAGGTAGCAATGGAGCA-GATAGAAGATTGTAAT
* * *
59040014 CTTATCTTCTTGAGGTAGCAA-GGAAGCAGATTGAAGATTGTAAAT
1 CTTATCTCCATGAGGTAGCAATGG-AGCAGATAGAAGATTGT-AAT
59040059 CTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGA
1 CTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGA
59040096 CAACGAATCT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
43 4 0.06
44 29 0.43
45 33 0.49
46 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (44 bp):
CTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGATTGTAAT
Found at i:59040229 original size:44 final size:44
Alignment explanation
Indices: 59039613--59040434 Score: 301
Period size: 44 Copynumber: 18.5 Consensus size: 44
59039603 AGACGGCAAA
* * *
59039613 TCTTATCTTCCCGAGGTAGCAAGGGAGCAGGC-CAGAGATTGTAG
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGA-AGATTGTAG
* * * * * *
59039657 TCTTATCTTCTTGAAGTAGCAAGGAAGCAAACTAAAGATTGTAAA
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT-AG
* * * * *
59039702 TCTTATC-TCCATGAGGTAGCAATGGAGCAGATTGAACATGGTGAA
1 TCTTATCTTCC-TGAGGTAGCAAGGGAGCAGACTGAAGATTGT-AG
* * * * ** ****
59039747 TCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTTAGCCACTAG
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
* * * * *
59039791 TCTTATCTCCCTAAGGTGGCACGAGG-GCAGGCTGAAGATTGTAG
1 TCTTATCTTCCTGAGGTAGCAAG-GGAGCAGACTGAAGATTGTAG
* * * *
59039835 TCTTATCTTCCTGAGATAGAAAGGAAGTAGACTGAAGATTGTAG
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
* * * * * *
59039879 ATCTTATC-TCTATGAGGCAACAATGGAGCAGATTGAAGA-CG-ACG
1 -TCTTATCTTC-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGTA-G
* ** * * * * ** *****
59039923 AATCTTATCTTTCTGATATAGTAGGGGAGTAGATTTTAGCCACCAG
1 --TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
* * * * *
59039969 CCTTATCTCCCTGAAGTAGCAAGGGAGCAGGC-CAGAGATTGTAG
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGA-AGATTGTAG
* * * *
59040013 TCTTATCTTCTTGAGGTAGCAAGGAAGCAGATTGAAGATTGTAAA
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT-AG
* ** *
59040058 TCTTATC-TCCATGAGGTAGCAATGGAGCAGA-TAGAAGACAACG-AA
1 TCTTATCTTCC-TGAGGTAGCAAGGGAGCAGACT-GAAG--ATTGTAG
* * * ** ****
59040103 TCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAG
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
* * * * * *
59040147 CCTTATCTCCCTGAGGAAGCACGGGGGCA-AGCTTAAGATTGTAG
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGA-CTGAAGATTGTAG
* * **
59040191 TCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTAAAG
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
* * * * * * * * *
59040235 ATCTTATCTCCCTAAGATAG-TAGTGGAGCA-AATCGAATATGGCGAA
1 -TCTTATCTTCCTGAGGTAGCAAG-GGAGCAGACT-GAAGATTG-TAG
* ** *****
59040281 TCTTATCTTCCTGAGGTAGC-AGGGAGCAAGATTTTAGCCACCA-
1 TCTTATCTTCCTGAGGTAGCAAGGGAGC-AGACTGAAGATTGTAG
* *
59040324 TCCTTATC-TCACTAAGGTAGCAAGGGAGCAGATTGAAGATTGTAG
1 T-CTTATCTTC-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
* * * *
59040369 ACTTATCTTCTTGAGGTAGTAAGGGAGCAAACTGAAGATTGTAG
1 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
* *
59040413 ATCTTGTC-TCCTCGAGATAGCA
1 -TCTTATCTTCCT-GAGGTAGCA
59040435 GTGGGGCATA
Statistics
Matches: 557, Mismatches: 182, Indels: 77
0.68 0.22 0.09
Matches are distributed among these distances:
43 6 0.01
44 295 0.53
45 241 0.43
46 12 0.02
47 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (44 bp):
TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
Found at i:59040283 original size:356 final size:356
Alignment explanation
Indices: 59039614--59040423 Score: 1079
Period size: 356 Copynumber: 2.3 Consensus size: 356
59039604 GACGGCAAAT
* *
59039614 CTTATCTTCCC-GAGGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAAGTAGCA
1 CTTATC-TCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCA
* * ***
59039678 AGGAAGCAAACTAAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAACATGG
65 AGGAAGCAAACTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAACACAA
* * * *
59039743 TGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAGATTTTAGCCACTAGTCTTATCTCCCTAAGGT
130 CGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGA
* * * *
59039808 GGCACGAGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGAAAGGAAGTAGACTGAAGA
195 AGCACGAGGGCAAGCTGAAGATTGTAGTCTTATCTTCCTAAGATAGAAAGGAAGCAGACTGAAGA
** * * * * * *
59039873 TTGTAGATCTTATCTCTATGAGGCAACAATGGAGCAGATTGAAGACGACGAATCTTATCTTTCTG
260 TTAAAGATCTTATCTCCATAAGACAACAATGGAGCAAATCGAAGACGACGAATCTTATCTTCCTG
* * *
59039938 ATATAGTAGGGGAG-TAGATTTTAGCCACCAGC
325 AGATAGCA-GGGAGCAAGATTTTAGCCACCAGC
59039970 CTTATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAA
1 CTTATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAA
* * *
59040035 GGAAGCAGATTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACAAC
66 GGAAGCAAACTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAACACAAC
*
59040100 GAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTGAGGAA
131 GAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGAA
* * * *
59040165 GCACGGGGGCAAGCTTAAGATTGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGAT
196 GCACGAGGGCAAGCTGAAGATTGTAGTCTTATCTTCCTAAGATAGAAAGGAAGCAGACTGAAGAT
* * ** * * * *
59040230 TAAAGATCTTATCTCCCTAAGATAGTAGTGGAGCAAATCGAATATGGCGAATCTTATCTTCCTGA
261 TAAAGATCTTATCTCCATAAGACAACAATGGAGCAAATCGAAGACGACGAATCTTATCTTCCTGA
* *
59040295 GGTAGCAGGGAGCAAGATTTTAGCCACCATC
326 GATAGCAGGGAGCAAGATTTTAGCCACCAGC
* *** * *
59040326 CTTATCTCACT-AAGGTAGCAAGGGAGCA-GATTGAAGATTGTAGACTTATCTTCTTGAGGTAGT
1 CTTATCTCCCTGAA-GTAGCAAGGGAGCAGGCCAG-AGATTGTAGTCTTATCTTCTTGAGGTAGC
* * *
59040389 AAGGGAGCAAACTGAAGATTGTAGATCTTGTCTCC
64 AAGGAAGCAAACTGAAGATTGTAAATCTTATCTCC
59040424 TCGAGATAGC
Statistics
Matches: 395, Mismatches: 55, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
355 13 0.03
356 382 0.97
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (356 bp):
CTTATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAA
GGAAGCAAACTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAACACAAC
GAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGAA
GCACGAGGGCAAGCTGAAGATTGTAGTCTTATCTTCCTAAGATAGAAAGGAAGCAGACTGAAGAT
TAAAGATCTTATCTCCATAAGACAACAATGGAGCAAATCGAAGACGACGAATCTTATCTTCCTGA
GATAGCAGGGAGCAAGATTTTAGCCACCAGC
Found at i:59040476 original size:28 final size:28
Alignment explanation
Indices: 59040436--59040492 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
59040426 GAGATAGCAG
59040436 TGGGGCATATCAAAAGCGGCAAATTTTA
1 TGGGGCATATCAAAAGCGGCAAATTTTA
59040464 TGGGGCATATCAAAAGCGGCAAATTTTA
1 TGGGGCATATCAAAAGCGGCAAATTTTA
59040492 T
1 T
59040493 CTTCCTGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (28 bp):
TGGGGCATATCAAAAGCGGCAAATTTTA
Found at i:59044104 original size:7 final size:7
Alignment explanation
Indices: 59044092--59044118 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
59044082 AATAATGTTC
59044092 GATAAAT
1 GATAAAT
59044099 GATAAAT
1 GATAAAT
59044106 GATAAAT
1 GATAAAT
59044113 GATAAA
1 GATAAA
59044119 AATGTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:59046090 original size:19 final size:19
Alignment explanation
Indices: 59046066--59046107 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
59046056 AATCTAACAA
59046066 AAAAGCTTAGAAATCTTGG
1 AAAAGCTTAGAAATCTTGG
*
59046085 AAAAGCTTAGAAATCTTTG
1 AAAAGCTTAGAAATCTTGG
59046104 AAAA
1 AAAA
59046108 ACTTCAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.26
Consensus pattern (19 bp):
AAAAGCTTAGAAATCTTGG
Found at i:59048233 original size:15 final size:17
Alignment explanation
Indices: 59048208--59048243 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
59048198 ATGTGAAGAA
59048208 TATTGTTTAAAA-TTAT
1 TATTGTTTAAAATTTAT
59048224 TATT-TTTAAAATTTAT
1 TATTGTTTAAAATTTAT
59048240 TATT
1 TATT
59048244 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTGTTTAAAATTTAT
Found at i:59048239 original size:13 final size:14
Alignment explanation
Indices: 59048208--59048249 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
59048198 ATGTGAAGAA
59048208 TATTGTTTAAAATTAT
1 TATT-TTTAAAA-TAT
59048224 TATTTTTAAAAT-T
1 TATTTTTAAAATAT
*
59048237 TATTATTAAAATA
1 TATTTTTAAAATA
59048250 AAATTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
15 7 0.29
16 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TATTTTTAAAATAT
Found at i:59048956 original size:15 final size:14
Alignment explanation
Indices: 59048920--59048964 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
59048910 TAAAAGCTAA
* *
59048920 AAAAATAAGTGTTG
1 AAAATTAAGTATTG
59048934 AAAATTAAGTATTG
1 AAAATTAAGTATTG
*
59048948 AAAATTTAAGTACTG
1 AAAA-TTAAGTATTG
59048963 AA
1 AA
59048965 TTTAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.51, C:0.02, G:0.16, T:0.31
Consensus pattern (14 bp):
AAAATTAAGTATTG
Found at i:59056481 original size:26 final size:26
Alignment explanation
Indices: 59056444--59056527 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
59056434 TGATACAAAT
* *
59056444 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59056470 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59056496 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59056522 TGATAA
1 TGATAA
59056528 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:59058036 original size:26 final size:26
Alignment explanation
Indices: 59058007--59058059 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
59057997 TTTACAGTTT
59058007 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
59058033 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
59058059 T
1 T
59058060 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:59059486 original size:43 final size:43
Alignment explanation
Indices: 59059379--59059512 Score: 134
Period size: 43 Copynumber: 3.1 Consensus size: 43
59059369 AGACCACATA
*
59059379 TGGGAC-GTTGACATCGACT-TATGATTTACGTGTAAGA-CTATGTC
1 TGGGACAG-TGACATCGA-TATTTGATTT-CGTGTAAGACCT-TGTC
*
59059423 TGGGACA-TCGGCATCG-TATTTGATTTCGTGTAAGACCTTGTC
1 TGGGACAGT-GACATCGATATTTGATTTCGTGTAAGACCTTGTC
* * **
59059465 TGGGACAGTGACATCGATATTTGATTACATGTAAGACCAAGTC
1 TGGGACAGTGACATCGATATTTGATTTCGTGTAAGACCTTGTC
59059508 TGGGA
1 TGGGA
59059513 TGTTGGCATT
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
42 27 0.35
43 38 0.49
44 12 0.16
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TGGGACAGTGACATCGATATTTGATTTCGTGTAAGACCTTGTC
Found at i:59063366 original size:41 final size:41
Alignment explanation
Indices: 59063321--59063438 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
59063311 TGAAAGATAA
59063321 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
59063362 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59063392 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59063433 ATGTAG
1 ATGTAG
59063439 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:59063377 original size:71 final size:71
Alignment explanation
Indices: 59063289--59063452 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59063279 GAGATGTATC
59063289 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59063354 AGGACA
66 AGGACA
59063360 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59063425 AGGACA
66 AGGACA
59063431 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
59063453 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:59075443 original size:27 final size:28
Alignment explanation
Indices: 59075402--59075457 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
59075392 TATAATGGAA
59075402 AAAAGGAGAAATCATTTTCCTCTACTTT
1 AAAAGGAGAAATCATTTTCCTCTACTTT
* *
59075430 AAAA-GAGAAGTCATTTTCCTCTTCTTT
1 AAAAGGAGAAATCATTTTCCTCTACTTT
59075457 A
1 A
59075458 TCTTCATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (28 bp):
AAAAGGAGAAATCATTTTCCTCTACTTT
Found at i:59079998 original size:93 final size:93
Alignment explanation
Indices: 59079839--59080009 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
59079829 GCCCATAAGT
* * *
59079839 GAACTCAGACTCAACTCAACTAGCTCGGGCGTTCGAATCCATAAGTAAACTAGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTAAACTAGGACTCAACTCAA
59079904 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * * *
59079932 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTAAACTAGGACTCAACTCAA
*
59079997 CGAGTTCGGATGC
66 CGAGCTCGGATGC
59080010 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTAAACTAGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:59079999 original size:46 final size:46
Alignment explanation
Indices: 59079831--59080006 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
59079821 TGTAACCCGC
* * * * *
59079831 CCATAAGTGAACTCAGACTCAACTCAACTAGCTCGGGCGTTCGAAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
59079877 CCATAAGTAAACTAGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
59079923 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
59079970 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
59080007 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
44 3 0.03
46 66 0.63
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:59081565 original size:29 final size:27
Alignment explanation
Indices: 59081531--59081633 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
59081521 TACTCAATCA
*
59081531 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
59081560 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
59081589 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
59081618 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
59081634 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:59089364 original size:29 final size:27
Alignment explanation
Indices: 59089330--59089432 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
59089320 TACTCAATCA
*
59089330 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
59089359 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
59089388 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
59089417 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
59089433 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:59093954 original size:27 final size:25
Alignment explanation
Indices: 59093913--59094064 Score: 162
Period size: 27 Copynumber: 5.7 Consensus size: 25
59093903 TAGAAAGTCA
**
59093913 AGGGTATTTCT-GTAATTTTGTAAATC
1 AGGGTATTT-TGGTAATTTTACAAA-C
59093939 ATGGGTATTTTGGTAATTTTACAAAC
1 A-GGGTATTTTGGTAATTTTACAAAC
* *
59093965 TGAGGGTATTTCGGTAATTTCACAAACC
1 --AGGGTATTTTGGTAATTTTACAAA-C
59093993 AGTGGTATTTTGGTAATTTTACAAAC
1 AG-GGTATTTTGGTAATTTTACAAAC
59094019 TAGGGGTATTTTGGTAATTTTACAAAC
1 -A-GGGTATTTTGGTAATTTTACAAAC
59094046 TAGGGGTATTTTGGTAATT
1 -A-GGGTATTTTGGTAATT
59094065 CTATCTTATA
Statistics
Matches: 112, Mismatches: 6, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
26 6 0.05
27 103 0.92
28 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (25 bp):
AGGGTATTTTGGTAATTTTACAAAC
Found at i:59094077 original size:54 final size:54
Alignment explanation
Indices: 59093914--59094097 Score: 201
Period size: 54 Copynumber: 3.4 Consensus size: 54
59093904 AGAAAGTCAA
* *** * * *
59093914 GGGTATTTCTGTAATTTTGTAAATCATGGGTATTTTGGTAATTTTACAAACT-G
1 GGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTCTACAAACTAG
* *
59093967 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTCTACAAACTAG
* * * **
59094022 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCTTA-TAG
1 GGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTCTA-CAAACTAG
*
59094076 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTCACAA
59094098 TCGAGGGTAA
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
54 108 0.97
55 3 0.03
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTGGTAATTCTACAAACTAG
Found at i:59094081 original size:81 final size:81
Alignment explanation
Indices: 59093941--59094097 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 81
59093931 TGTAAATCAT
* **
59093941 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCAG
*
59094006 TAATTTTACAAACTAG
66 TAATTTCACAAACTAG
* ** *
59094022 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAA-TTCTATCTTA-TAGGGGTATTT
1 GGGTATTTTGGTAATTTTACAAACTGA-GGGTATTTCGGTAATTTC-A-CAAACCAGGGGTATTT
59094084 CAGTAATTTCACAA
63 CAGTAATTTCACAA
59094098 TCGAGGGTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 4 0.06
81 59 0.91
82 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCAG
TAATTTCACAAACTAG
Found at i:59094083 original size:27 final size:27
Alignment explanation
Indices: 59093941--59094064 Score: 196
Period size: 27 Copynumber: 4.6 Consensus size: 27
59093931 TGTAAATCAT
59093941 GGGTATTTTGGTAATTTTACAAACT-G
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
59093967 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
59093995 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
59094022 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
59094049 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
59094065 CTATCTTATA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 87 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:59094130 original size:27 final size:27
Alignment explanation
Indices: 59094096--59094187 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
59094086 GTAATTTCAC
59094096 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
**
59094123 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACAGTAATTTTGTA
* *
59094150 AATCGAGGGTAAAAC-GATAATTCTATA
1 AATCGAGGGTAAAACAG-TAATTTTGTA
59094177 AATCGAGGGTA
1 AATCGAGGGTA
59094188 CTTTGGTAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.04
27 54 0.95
28 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTTTGTA
Found at i:59096578 original size:30 final size:31
Alignment explanation
Indices: 59096502--59096584 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
59096492 TCAGTCTCGA
59096502 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
59096532 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
59096563 CATATCA-TTGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
59096585 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 19 0.37
31 32 0.63
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:59096818 original size:24 final size:24
Alignment explanation
Indices: 59096791--59096874 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
59096781 CTAAAGGCCT
*
59096791 AGCCTCTTTTAAT-AATTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
59096815 AGCCCTTTCTGATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTGGGGCAA
** *
59096840 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTGGGGCAA
59096865 AGCCCTTTTA
1 AGCCCTTTTA
59096875 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 4 0.08
24 8 0.15
25 40 0.77
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:59096839 original size:25 final size:25
Alignment explanation
Indices: 59096807--59096873 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
59096797 TTTTAATAAT
59096807 TGGGGCAAAGCCC-TTTCTGATAAAC
1 TGGGGCAAAGCCCTTTTC-GATAAAC
*
59096832 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
59096857 TGGGGCAGAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
59096874 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 35 0.90
26 4 0.10
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGATAAAC
Found at i:59097713 original size:27 final size:27
Alignment explanation
Indices: 59097683--59097747 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
59097673 GGGCATATTT
59097683 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
59097710 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
59097737 GTCTTTTTACC
1 GTCATTTTACC
59097748 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:59097831 original size:27 final size:27
Alignment explanation
Indices: 59097801--59097898 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
59097791 GTAAATCTAC
59097801 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
59097828 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
59097854 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
59097884 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
59097899 TGGTAATTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.02
27 33 0.53
28 7 0.11
29 20 0.32
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:59097905 original size:27 final size:26
Alignment explanation
Indices: 59097888--59098043 Score: 159
Period size: 27 Copynumber: 5.8 Consensus size: 26
59097878 TTTTGTAAAT
59097888 CAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
** * *
59097914 TTGAGGGTATTTCGGTAATTTCACAAA
1 CAG-GGGTATTTTGGTAATTTTACAAA
*
59097941 CCAGTGGTATTTTGGTAATTTTACAAA
1 -CAGGGGTATTTTGGTAATTTTACAAA
*
59097968 CTAGGAGTATTTTGGTAATTTTACAAA
1 C-AGGGGTATTTTGGTAATTTTACAAA
* * **
59097995 CTAAGGGTATTTTGGTAATTCTATCCTA
1 C-AGGGGTATTTTGGTAATTTTA-CAAA
**
59098023 CAGGGGTATTTCAGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
59098044 GCAATCGAGG
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.02
27 100 0.94
28 4 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (26 bp):
CAGGGGTATTTTGGTAATTTTACAAA
Found at i:59097950 original size:54 final size:54
Alignment explanation
Indices: 59097891--59098014 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 54
59097881 TGTAAATCAG
* *
59097891 GGGTATTTTGGTAATTTTACAAATTGAGG-GTATTTCGGTAATTTCACAAAC-CA
1 GGGTATTTTGGTAATTTTACAAACT-AGGAGTATTTCGGTAATTTCACAAACTAA
* *
59097944 GTGGTATTTTGGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTACAAACTAA
1 G-GGTATTTTGGTAATTTTACAAACTAGGAGTATTTCGGTAATTTCACAAACTAA
59097999 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
59098015 CTATCCTACA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
53 4 0.06
54 58 0.91
55 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGAGTATTTCGGTAATTTCACAAACTAA
Found at i:59098031 original size:81 final size:81
Alignment explanation
Indices: 59097893--59098043 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
59097883 TAAATCAGGG
* * * **
59097893 GTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTA
1 GTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCAGTA
59097958 ATTTTACAAACTAGGA
66 ATTTTACAAACTAGGA
* **
59097974 GTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAA-TTCTATCCTA-CAGGGGTATTTCAG
1 GTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTC-A-CAAACCAGGGGTATTTCAG
59098037 TAATTTT
64 TAATTTT
59098044 GCAATCGAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 3 0.05
81 55 0.92
82 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (81 bp):
GTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCAGTA
ATTTTACAAACTAGGA
Found at i:59098032 original size:54 final size:54
Alignment explanation
Indices: 59097777--59098043 Score: 170
Period size: 54 Copynumber: 4.9 Consensus size: 54
59097767 ATTTCATCCT
* * * * * **
59097777 ACAAG-GGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAA
1 ACAAGTGGTATTTTGGTAATTCTACAAACTAGGGGTATTTCGGTAATTTTACAA
* * * * * ** **
59097830 ACCAA-TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAATTTTGTAA
1 A-CAAGTGGTATTT-TGGTAA-TTCTACAAACT-AGGGGTATTTCGGTAATTTTACAA
* * * *
59097886 ATC-AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAA
1 A-CAAGTGGTATTTTGGTAATTCTACAAACTAG-GGGTATTTCGGTAATTTTACAA
* * * *
59097940 ACCAGTGGTATTTTGGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTACAA
1 ACAAGTGGTATTTTGGTAATTCTACAAACTAGGGGTATTTCGGTAATTTTACAA
** *
59097994 ACTAAG-GGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTT
1 AC-AAGTGGTATTTTGGTAATTCTA-CAAACTAGGGGTATTTCGGTAATTTT
59098044 GCAATCGAGG
Statistics
Matches: 170, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
53 2 0.01
54 110 0.65
55 24 0.14
56 34 0.20
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
ACAAGTGGTATTTTGGTAATTCTACAAACTAGGGGTATTTCGGTAATTTTACAA
Found at i:59098128 original size:27 final size:27
Alignment explanation
Indices: 59098037--59098137 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
59098027 GGTATTTCAG
* *
59098037 TAATTTTG-CAATCGAGGGTAAAACAA
1 TAATTTTGTAAATCGAGGGTAAAACGA
* *
59098063 TAATTTTGTAAA-CTGAGGGTAAAATGG
1 TAATTTTGTAAATC-GAGGGTAAAACGA
59098090 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAATTTTGTAAATCGAGGGTAAAACGA
* *
59098117 TAATTCTATAAATCGAGGGTA
1 TAATTTTGTAAATCGAGGGTA
59098138 CTTTGGTAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
26 9 0.14
27 54 0.84
28 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
TAATTTTGTAAATCGAGGGTAAAACGA
Found at i:59098160 original size:54 final size:53
Alignment explanation
Indices: 59098036--59098162 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 53
59098026 GGGTATTTCA
* *
59098036 GTAATTTTGCAATCGAGGGTAAAACAATAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTGCAATCGAGGGTAAAACAATAATTCTATAAACTGAGGGTAAAATG
* * ***
59098089 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAA-TCGAGGGTACTTTG
1 GTAATTTTG-CAATCGAGGGTAAAACAATAATTCTATAAACT-GAGGGTAAAATG
*
59098143 GTAATTTTACAAGTCGAGGG
1 GTAATTTTGCAA-TCGAGGG
59098163 CATTTCAATA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
53 12 0.19
54 50 0.81
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (53 bp):
GTAATTTTGCAATCGAGGGTAAAACAATAATTCTATAAACTGAGGGTAAAATG
Found at i:59105543 original size:35 final size:35
Alignment explanation
Indices: 59105466--59105544 Score: 104
Period size: 35 Copynumber: 2.3 Consensus size: 35
59105456 AGACAATAGG
* **
59105466 TAGAGCCAGTAGATCATTTCTATGATGCCGCTCTG
1 TAGAGCCAGTAGATCATTTCCATGATGCCGCTCCA
* **
59105501 TAAAGCCAGTAGATCATTTCCATGATGTTGCTCCA
1 TAGAGCCAGTAGATCATTTCCATGATGCCGCTCCA
59105536 TAGAGCCAG
1 TAGAGCCAG
59105545 CAGACTATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (35 bp):
TAGAGCCAGTAGATCATTTCCATGATGCCGCTCCA
Found at i:59111819 original size:93 final size:93
Alignment explanation
Indices: 59111707--59111878 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59111697 GCCCATAAGT
* *
59111707 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59111772 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59111800 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59111865 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59111879 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59111874 original size:46 final size:46
Alignment explanation
Indices: 59111699--59111874 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
59111689 TGTAACCCGC
* * *
59111699 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59111745 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
59111795 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
59111838 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59111875 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59114301 original size:30 final size:30
Alignment explanation
Indices: 59114257--59114345 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
59114247 CAAAGATAAC
*
59114257 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
59114286 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
59114316 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
59114346 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:59114305 original size:15 final size:14
Alignment explanation
Indices: 59114257--59114339 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
59114247 CAAAGATAAC
*
59114257 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
59114271 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
59114286 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
59114301 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
59114316 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
59114331 AAGAAACCC
1 AAGAAACCC
59114340 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:59114345 original size:15 final size:15
Alignment explanation
Indices: 59114268--59114345 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
59114258 AGAAAACCGA
59114268 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
59114283 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
59114297 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
59114312 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59114328 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59114343 ATA
1 ATA
59114346 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:59117381 original size:93 final size:93
Alignment explanation
Indices: 59117269--59117440 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59117259 GCCCATAAGT
* *
59117269 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59117334 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59117362 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59117427 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59117441 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59117436 original size:46 final size:46
Alignment explanation
Indices: 59117261--59117436 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
59117251 TGTAACCCGC
* * *
59117261 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59117307 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
59117357 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
59117400 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59117437 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59140130 original size:48 final size:48
Alignment explanation
Indices: 59140059--59140228 Score: 313
Period size: 48 Copynumber: 3.5 Consensus size: 48
59140049 CAAGATAAAT
* * *
59140059 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
59140107 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
59140155 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
59140203 ATATGTATATGTGGTAAAGCCGAATG
1 ATATGTATATGTGGTAAAGCCGAATG
59140229 ACCAAATGTG
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:59140397 original size:37 final size:37
Alignment explanation
Indices: 59140347--59140449 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
59140337 GGAAATATAT
59140347 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
59140384 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
59140421 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
59140450 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:59146814 original size:12 final size:13
Alignment explanation
Indices: 59146797--59146825 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59146787 TAAACAGAAA
59146797 CATAT-AATAAAT
1 CATATAAATAAAT
59146809 CATATAAATAAAT
1 CATATAAATAAAT
59146822 CATA
1 CATA
59146826 ACTAGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (13 bp):
CATATAAATAAAT
Found at i:59153699 original size:40 final size:39
Alignment explanation
Indices: 59153634--59153837 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
59153624 CGGAATACAA
* *
59153634 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
59153674 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
59153714 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
59153754 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59153794 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
59153834 CCGG
1 CCGG
59153838 GTATCATTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59154029 original size:123 final size:123
Alignment explanation
Indices: 59153806--59154513 Score: 1317
Period size: 123 Copynumber: 5.8 Consensus size: 123
59153796 GGATATAATT
* * * * * * *
59153806 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
59153871 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
59153929 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
**
59153994 ATAATCATTACACATCCATATTTCATTTTAATTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
59154052 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
59154117 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
59154175 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
59154240 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
59154298 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
59154363 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
59154421 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
59154486 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
59154514 CACATAATTC
Statistics
Matches: 572, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 572 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:59156209 original size:46 final size:48
Alignment explanation
Indices: 59156024--59156283 Score: 168
Period size: 46 Copynumber: 5.5 Consensus size: 48
59156014 GGTCATTTGT
* * * * * *
59156024 GAGCTAGTATAAGA-CATGTCTGGGACATGCATCAGCCA-TATTATG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATACATCGGCTACGA-GATGTA
* * * * * *
59156070 GAGCCATTGTAAGGCCATGTCTGGGACATGGCATTGGC-ATTGAGATG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-ACATCGGCTA-CGAGATGTA
* * * * *
59156118 GAGCTAGTGTAAGA-CATGTTTGGGACATGCATTAGCCT-CGTGATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATACA-TCGGCTACGAGATGTA
*
59156165 -AGCTAGTGTAAGA-TATGTCTGGGACATACATCGGCTACGAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATACATCGGCTACGAGATGTA
* * *
59156210 G-TC-AGTGTAAGACCATGTCTAGGACATGACATCGGC-ACGGATATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-ACATCGGCTAC-GAGATGT-A
*
59156258 GAGCTAATGTAAGACCATGTCTGGGA
1 GAGCTAGTGTAAGACCATGTCTGGGA
59156284 TATGGTGTCG
Statistics
Matches: 169, Mismatches: 29, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
44 9 0.05
45 19 0.11
46 66 0.39
47 32 0.19
48 22 0.13
49 2 0.01
50 19 0.11
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATACATCGGCTACGAGATGTA
Found at i:59162770 original size:17 final size:18
Alignment explanation
Indices: 59162737--59162772 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
59162727 CATGTAGCTT
*
59162737 GCCCGTGTGGGCCCACAC
1 GCCCGTGTGGACCCACAC
59162755 GCCCGTGT-GACCCACAC
1 GCCCGTGTGGACCCACAC
59162772 G
1 G
59162773 ACCTGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.14, C:0.44, G:0.31, T:0.11
Consensus pattern (18 bp):
GCCCGTGTGGACCCACAC
Found at i:59164772 original size:38 final size:38
Alignment explanation
Indices: 59164721--59164812 Score: 148
Period size: 38 Copynumber: 2.4 Consensus size: 38
59164711 ATTTCCTTTT
* *
59164721 GAAAATCCATTTACAACCTAGTGGTTTGCTACCAAGAG
1 GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
* *
59164759 GAAAATCCATTTACAACTTAATGGTTTGCTACTAAGAA
1 GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
59164797 GAAAATCCATTTACAA
1 GAAAATCCATTTACAA
59164813 TGACTTAACA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (38 bp):
GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
Found at i:59166453 original size:44 final size:46
Alignment explanation
Indices: 59166373--59166498 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 46
59166363 TTGAATTTTA
*
59166373 AAAACTCTTTTAAATAATAATTTCAATTCTATTTAATTATCT-TCTATTT
1 AAAACTCTTTTAAATAATAA--T-AATTCTATTTAATTAT-TATCTATCT
* *
59166422 AAAACTCTTTTAAATAATAAT-ATT-TTTTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAATAATTCTATTTAATTATTATCTATCT
59166466 AAAACTCTTTTAAATAATAATTAAATTCTATTT
1 AAAACTCTTTTAAATAATAA-T-AATTCTATTT
59166499 CCTTATTTGA
Statistics
Matches: 68, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
43 1 0.01
44 35 0.51
45 4 0.06
47 4 0.06
48 4 0.06
49 20 0.29
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.51
Consensus pattern (46 bp):
AAAACTCTTTTAAATAATAATAATTCTATTTAATTATTATCTATCT
Found at i:59166893 original size:12 final size:12
Alignment explanation
Indices: 59166878--59166902 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59166868 AAATCGAGCC
59166878 ATAAATATTTTT
1 ATAAATATTTTT
59166890 ATAAATATTTTT
1 ATAAATATTTTT
59166902 A
1 A
59166903 GAGTGTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:59167857 original size:20 final size:23
Alignment explanation
Indices: 59167832--59167876 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 23
59167822 AGTTCGTATG
59167832 GTTAAAATT-T-AATGTT-ATAT
1 GTTAAAATTATGAATGTTAATAT
*
59167852 GTTAAATTTATGAATGTTAATAT
1 GTTAAAATTATGAATGTTAATAT
59167875 GT
1 GT
59167877 ATTTGTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 6 0.29
23 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
GTTAAAATTATGAATGTTAATAT
Found at i:59168170 original size:101 final size:101
Alignment explanation
Indices: 59167995--59168214 Score: 284
Period size: 101 Copynumber: 2.2 Consensus size: 101
59167985 TGATGGATAT
* * * * *
59167995 GACCATTGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTTTAATGA
1 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTGGGTTATGGCATTCTAATGA
* *
59168060 AAAGACCATAA-TTGAGTTATGGCACCT-TGAAC-GTAA
66 AAAGACCATAAGTAG-GTTACGGCA-CTATG-ACTGTAA
* *
59168096 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACTATAGCTGGGTTATGGCATTCTGATGA
1 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTGGGTTATGGCATTCTAATGA
*
59168161 TAAGACCATAAGTAGGTTACGGCACTATGACTGTAA
66 AAAGACCATAAGTAGGTTACGGCACTATGACTGTAA
* *
59168197 GACCATGGTAGGGCCATG
1 GACCATGGTTGGACCATG
59168215 GCAATGCATG
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
100 4 0.04
101 98 0.94
102 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (101 bp):
GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTGGGTTATGGCATTCTAATGA
AAAGACCATAAGTAGGTTACGGCACTATGACTGTAA
Found at i:59169126 original size:16 final size:16
Alignment explanation
Indices: 59169105--59169138 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
59169095 TTTATGAATG
59169105 AATCGTTCTTGAGACT
1 AATCGTTCTTGAGACT
59169121 AATCGTTCTTGAGACT
1 AATCGTTCTTGAGACT
59169137 AA
1 AA
59169139 CTTATTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (16 bp):
AATCGTTCTTGAGACT
Found at i:59183187 original size:9 final size:9
Alignment explanation
Indices: 59183101--59183199 Score: 60
Period size: 10 Copynumber: 10.6 Consensus size: 9
59183091 ATATGTGACA
59183101 AAAAATTAT
1 AAAAATTAT
59183110 AAAAA--AT
1 AAAAATTAT
59183117 AAAAATTAGT
1 AAAAATTA-T
*
59183127 AAAAGTTAT
1 AAAAATTAT
*
59183136 AAAAATCATT
1 AAAAATTA-T
**
59183146 AAATTTTAAT
1 AAAAATT-AT
59183156 AAAAA-TATT
1 AAAAATTA-T
*
59183165 TAAAATTGATT
1 AAAAATT-A-T
59183176 AAAAATTAT
1 AAAAATTAT
*
59183185 AAAAAATTCT
1 -AAAAATTAT
59183195 AAAAA
1 AAAAA
59183200 AATTTATAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
7 7 0.10
8 1 0.01
9 25 0.36
10 27 0.39
11 10 0.14
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:59183454 original size:28 final size:28
Alignment explanation
Indices: 59183402--59183472 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
59183392 TTTATAATTT
**
59183402 TTTTTTATGAATTTTATATTTCTTTAT-A
1 TTTTTTAT-AATTTTATATGACTTTATAA
59183430 TTTTTTATAATTTTATTATGACTTTATAA
1 TTTTTTATAATTTTA-TATGACTTTATAA
**
59183459 AATTTTATAATTTT
1 TTTTTTATAATTTT
59183473 TTTTACAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 7 0.19
28 17 0.46
29 13 0.35
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (28 bp):
TTTTTTATAATTTTATATGACTTTATAA
Found at i:59183503 original size:19 final size:20
Alignment explanation
Indices: 59183455--59183532 Score: 88
Period size: 21 Copynumber: 4.0 Consensus size: 20
59183445 TTATGACTTT
*
59183455 ATAAAATTTTATAATTTTTT
1 ATAAAATTTTATAATTTTTA
*
59183475 TTACAAATTTTATAATTTTTA
1 ATA-AAATTTTATAATTTTTA
*
59183496 AT-ATATTTTAT-ATTTTTA
1 ATAAAATTTTATAATTTTTA
* *
59183514 TTAAAATTTAATAATTTTT
1 ATAAAATTTTATAATTTTT
59183533 GTAATTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 8 0.17
19 15 0.31
20 8 0.17
21 17 0.35
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAAAATTTTATAATTTTTA
Found at i:59183523 original size:28 final size:29
Alignment explanation
Indices: 59183492--59183546 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
59183482 TTTTATAATT
59183492 TTTAAT-ATATTTTAT-ATTTTTATTAAAA
1 TTTAATAAT-TTTTATAATTTTTATTAAAA
*
59183520 TTTAATAATTTTTGTAATTTTTATTAA
1 TTTAATAATTTTTATAATTTTTATTAA
59183547 TTTTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTAATAATTTTTATAATTTTTATTAAAA
Found at i:59183541 original size:10 final size:10
Alignment explanation
Indices: 59183482--59183554 Score: 57
Period size: 10 Copynumber: 7.7 Consensus size: 10
59183472 TTTTTACAAA
59183482 TTTTA-TAAT
1 TTTTATTAAT
*
59183491 TTTTAAT-AT
1 TTTTATTAAT
59183500 ATTTTA-T-AT
1 -TTTTATTAAT
*
59183509 TTTTATTAAA
1 TTTTATTAAT
* *
59183519 ATTTAATAAT
1 TTTTATTAAT
*
59183529 TTTT-GTAAT
1 TTTTATTAAT
59183538 TTTTATTAAT
1 TTTTATTAAT
59183548 TTTTATT
1 TTTTATT
59183555 TTTATCATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
8 5 0.10
9 19 0.37
10 28 0.54
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:59188210 original size:28 final size:28
Alignment explanation
Indices: 59188140--59188234 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 28
59188130 GGCAAGTTGA
59188140 GTTTGCTAGTTTGTTTAGCAAACAGAGG
1 GTTTGCTAGTTTGTTTAGCAAACAGAGG
** * * * *
59188168 GTTCACCAGTTTGTTTAGCGAACTGGGG
1 GTTTGCTAGTTTGTTTAGCAAACAGAGG
* * **
59188196 GTTTGCTAGTCTGTTTGGCTAATTA-AGG
1 GTTTGCTAGTTTGTTTAGC-AAACAGAGG
59188224 GTTTGCTAGTT
1 GTTTGCTAGTT
59188235 GAGTTGTGAA
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
28 48 0.98
29 1 0.02
ACGTcount: A:0.19, C:0.13, G:0.29, T:0.39
Consensus pattern (28 bp):
GTTTGCTAGTTTGTTTAGCAAACAGAGG
Found at i:59196225 original size:19 final size:19
Alignment explanation
Indices: 59196201--59196239 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
59196191 ATTTTGAGTT
59196201 AGACGAATTGAGTTATTCG
1 AGACGAATTGAGTTATTCG
59196220 AGACGAATTGAGTTATTCG
1 AGACGAATTGAGTTATTCG
59196239 A
1 A
59196240 ATTTTTCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (19 bp):
AGACGAATTGAGTTATTCG
Found at i:59200750 original size:18 final size:19
Alignment explanation
Indices: 59200708--59200751 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
59200698 ATTAAGATCT
59200708 GGTTTTCACTAAAATGAAC
1 GGTTTTCACTAAAATGAAC
*
59200727 GGTTTTC-CTAGAATAGAA-
1 GGTTTTCACTAAAAT-GAAC
59200745 GGTTTTC
1 GGTTTTC
59200752 TAAAGTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (19 bp):
GGTTTTCACTAAAATGAAC
Found at i:59203543 original size:20 final size:20
Alignment explanation
Indices: 59203518--59203558 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
59203508 ATTTAAAAGA
*
59203518 AATGGCATCGATGAGGTGTT
1 AATGGCACCGATGAGGTGTT
*
59203538 AATGGCGCCGATGAGGTGTT
1 AATGGCACCGATGAGGTGTT
59203558 A
1 A
59203559 TGTACCGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.12, G:0.37, T:0.27
Consensus pattern (20 bp):
AATGGCACCGATGAGGTGTT
Found at i:59212812 original size:26 final size:26
Alignment explanation
Indices: 59212783--59212890 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
59212773 TGGTACAAAT
59212783 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
59212809 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59212835 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
59212861 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
59212887 TGAT
1 TGAT
59212891 GGGCATTTCA
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:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:59214584 original size:27 final size:27
Alignment explanation
Indices: 59214487--59214573 Score: 133
Period size: 27 Copynumber: 3.2 Consensus size: 27
59214477 AGGAAGCGTC
*
59214487 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
59214514 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
59214541 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
59214568 CTGGTG
1 CTGGTG
59214574 ACTTCGTCAC
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
26 8 0.14
27 47 0.84
28 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:59216281 original size:106 final size:107
Alignment explanation
Indices: 59216086--59216302 Score: 355
Period size: 106 Copynumber: 2.0 Consensus size: 107
59216076 CTAATAGGAC
*
59216086 TACCAGTCTGGGCTAAATCCTAAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACA
1 TACCAGTCTAGGCTAAATCCTAAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACA
* *
59216151 CTCGTCCGGGCTAGATTCCTTTTCACACTTGAGATCA-CGAT
66 CCCGTCCGGGCTAGATTCCTTTTCACACTTAAGATCATCGAT
* * *
59216192 TACCCGTCTAGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGGAACA
1 TACCAGTCTAGGCTAAATCCTAAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACA
* *
59216257 CCCGTCCGGGCTAGATTCCTTTTCATACTTAAGATCATGGAT
66 CCCGTCCGGGCTAGATTCCTTTTCACACTTAAGATCATCGAT
59216299 TACC
1 TACC
59216303 TATTCGGGTT
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
106 95 0.93
107 7 0.07
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (107 bp):
TACCAGTCTAGGCTAAATCCTAAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACA
CCCGTCCGGGCTAGATTCCTTTTCACACTTAAGATCATCGAT
Found at i:59219116 original size:17 final size:18
Alignment explanation
Indices: 59219075--59219120 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
59219065 ATAAAAGATC
59219075 AACAATTCAATAAATTGAA
1 AACAATT-AATAAATTGAA
*
59219094 AA-AATTAATTAATT-AA
1 AACAATTAATAAATTGAA
59219110 AACAATTAATA
1 AACAATTAATA
59219121 TTTTGGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 14 0.58
18 4 0.17
19 2 0.08
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (18 bp):
AACAATTAATAAATTGAA
Found at i:59219421 original size:50 final size:50
Alignment explanation
Indices: 59219346--59219460 Score: 194
Period size: 50 Copynumber: 2.3 Consensus size: 50
59219336 GGGTAAAGGA
*
59219346 GCAAGGTGCAGTAGCACGCAAAGGATCAGGGTGGCGGGCTAGTTCTACTG
1 GCAAGGTGCAGTAGCACGCAAAGGATCAGGGTGGAGGGCTAGTTCTACTG
* * *
59219396 GCAAGGTGCAGTAGCGCGCGAAGGATCAGGGTGGAGGGCTAGTTCTGCTG
1 GCAAGGTGCAGTAGCACGCAAAGGATCAGGGTGGAGGGCTAGTTCTACTG
59219446 GCAAGGTGCAGTAGC
1 GCAAGGTGCAGTAGC
59219461 TAGTTTCACT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.23, C:0.19, G:0.41, T:0.17
Consensus pattern (50 bp):
GCAAGGTGCAGTAGCACGCAAAGGATCAGGGTGGAGGGCTAGTTCTACTG
Found at i:59221309 original size:35 final size:35
Alignment explanation
Indices: 59221270--59221339 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
59221260 TCTTTAAGAG
59221270 TCTACCACGTTGGTGTTGCCTTTGAATGCTTTATC
1 TCTACCACGTTGGTGTTGCCTTTGAATGCTTTATC
* *
59221305 TCTACGACGTTGGTGTTTCCTTTGAATGCTTTATC
1 TCTACCACGTTGGTGTTGCCTTTGAATGCTTTATC
59221340 CCAAGATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.44
Consensus pattern (35 bp):
TCTACCACGTTGGTGTTGCCTTTGAATGCTTTATC
Found at i:59221758 original size:23 final size:23
Alignment explanation
Indices: 59221728--59221817 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
59221718 CTTTCATATA
*
59221728 TCAGAACAACCACAAGGGCTTCC
1 TCAGAACAACCACAAAGGCTTCC
* *
59221751 TCAGAACAACTACAAAGGCTTTCA
1 TCAGAACAACCACAAAGGC-TTCC
* *
59221775 T-AGAACATCCAAAAAGGCTTCC
1 TCAGAACAACCACAAAGGCTTCC
* * *
59221797 ACAGAACAGCCATAAAGGCTT
1 TCAGAACAACCACAAAGGCTT
59221818 TCACAGAGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
22 3 0.05
23 48 0.87
24 4 0.07
ACGTcount: A:0.40, C:0.28, G:0.16, T:0.17
Consensus pattern (23 bp):
TCAGAACAACCACAAAGGCTTCC
Found at i:59221802 original size:46 final size:46
Alignment explanation
Indices: 59221730--59221820 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
59221720 TTCATATATC
* * * *
59221730 AGAACAACCACAAGGGCTTCCTCAGAACAACTACAAAGGCTTTCAT
1 AGAACAACCAAAAAGGCTTCCACAGAACAACCACAAAGGCTTTCAT
* * *
59221776 AGAACATCCAAAAAGGCTTCCACAGAACAGCCATAAAGGCTTTCA
1 AGAACAACCAAAAAGGCTTCCACAGAACAACCACAAAGGCTTTCA
59221821 CAGAGTCGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.16
Consensus pattern (46 bp):
AGAACAACCAAAAAGGCTTCCACAGAACAACCACAAAGGCTTTCAT
Found at i:59221822 original size:23 final size:23
Alignment explanation
Indices: 59221764--59221824 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
59221754 GAACAACTAC
* *
59221764 AAAGGCTTTCATAGAACATCCAA
1 AAAGGCTTTCACAGAACAGCCAA
* *
59221787 AAAGGCTTCCACAGAACAGCCAT
1 AAAGGCTTTCACAGAACAGCCAA
59221810 AAAGGCTTTCACAGA
1 AAAGGCTTTCACAGA
59221825 GTCGGTAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (23 bp):
AAAGGCTTTCACAGAACAGCCAA
Found at i:59225494 original size:63 final size:63
Alignment explanation
Indices: 59225421--59225546 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
59225411 CGAACCCACA
59225421 CAAGGTACACACAACTTTCTCACCTTATCTTATGATTTACAAGAGATCTACACCATATAATAT
1 CAAGGTACACACAACTTTCTCACCTTATCTTATGATTTACAAGAGATCTACACCATATAATAT
59225484 CAAGGTACACACAACTTTCTCACCTTATCTTATGATTTACAAGAGATCTACACCATATAATAT
1 CAAGGTACACACAACTTTCTCACCTTATCTTATGATTTACAAGAGATCTACACCATATAATAT
59225547 TCACAGAGCC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (63 bp):
CAAGGTACACACAACTTTCTCACCTTATCTTATGATTTACAAGAGATCTACACCATATAATAT
Found at i:59228296 original size:79 final size:80
Alignment explanation
Indices: 59228213--59228360 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
59228203 TATGGTAACC
* * *
59228213 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
59228276 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
59228292 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
59228357 CCGG
66 CCGG
59228361 TTATAATTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 1 0.02
79 30 0.53
80 26 0.46
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:59228305 original size:40 final size:40
Alignment explanation
Indices: 59228253--59228360 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
59228243 TATCACGATT
** *
59228253 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
59228293 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
59228333 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
59228361 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:59236105 original size:79 final size:80
Alignment explanation
Indices: 59235986--59236169 Score: 185
Period size: 79 Copynumber: 2.3 Consensus size: 80
59235976 GCTACTCGTT
* * * *
59235986 CAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCACCAAGGCCTACGGGACTTAACCCGG
1 CAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCACCAAGGCCTACGGGACTTAACCCGG
* *
59236051 ATATCA-CGA-TTGCA
66 ATAT-AGCCACTAGCA
* * * * * * *
59236065 CAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCGCACGAATGCCTTCGGGTCTTAGCCCG
1 CAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCGCACCAAGGCCTACGGGACTTAACCCG
59236129 GATATAGCCACTAGCA
65 GATATAGCCACTAGCA
* * *
59236145 CCATTGCCTTCGGGTCTTAACCCGG
1 CAAATGCCTTCGGGTCTTAGCCCGG
59236170 TTATAATTTC
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
78 2 0.02
79 58 0.67
80 26 0.30
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (80 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCACCAAGGCCTACGGGACTTAACCCGG
ATATAGCCACTAGCA
Found at i:59236114 original size:40 final size:40
Alignment explanation
Indices: 59236062--59236169 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
59236052 TATCACGATT
** *
59236062 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
59236102 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
59236142 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
59236170 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:59238972 original size:28 final size:28
Alignment explanation
Indices: 59238932--59238988 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
59238922 ACCGCAGAAG
59238932 AAAGAGACCGAATTGATTAAAAAATTAA
1 AAAGAGACCGAATTGATTAAAAAATTAA
*
59238960 AAAGAGACCGAATTGATTAAAGAATTAA
1 AAAGAGACCGAATTGATTAAAAAATTAA
59238988 A
1 A
59238989 CAAAAAGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.56, C:0.07, G:0.16, T:0.21
Consensus pattern (28 bp):
AAAGAGACCGAATTGATTAAAAAATTAA
Found at i:59242393 original size:16 final size:16
Alignment explanation
Indices: 59242372--59242403 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59242362 AGTTCTAATA
59242372 TCCTTAATAGAAGAGT
1 TCCTTAATAGAAGAGT
59242388 TCCTTAATAGAAGAGT
1 TCCTTAATAGAAGAGT
59242404 CCCCCGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
TCCTTAATAGAAGAGT
Found at i:59249405 original size:53 final size:53
Alignment explanation
Indices: 59249325--59249430 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
59249315 ATCTCTTACA
59249325 ATTGGAACTTGATTGATATCCTTTCTCGATTTAGATGAATCCATAATTTATGC
1 ATTGGAACTTGATTGATATCCTTTCTCGATTTAGATGAATCCATAATTTATGC
59249378 ATTGGAACTTGATTGATATCCTTTCTCGATTTAGATGAATCCATAATTTATGC
1 ATTGGAACTTGATTGATATCCTTTCTCGATTTAGATGAATCCATAATTTATGC
59249431 TAAGTAAGCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (53 bp):
ATTGGAACTTGATTGATATCCTTTCTCGATTTAGATGAATCCATAATTTATGC
Found at i:59256246 original size:43 final size:43
Alignment explanation
Indices: 59256221--59256325 Score: 183
Period size: 43 Copynumber: 2.4 Consensus size: 43
59256211 GTCTTACATT
59256221 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
1 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
* *
59256264 TAATCACATATCGATGCCCCTGTCCCAAACAGGGTCTTACTGG
1 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
*
59256307 TAATCACAGATCGATGCCA
1 TAATCACATATCGATGCCA
59256326 ACGTATTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (43 bp):
TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
Found at i:59257485 original size:14 final size:14
Alignment explanation
Indices: 59257468--59257494 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59257458 AAATCACGAA
59257468 AATTTCACACATAT
1 AATTTCACACATAT
59257482 AATTTCACACATA
1 AATTTCACACATA
59257495 ATAAAAATAG
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:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:59264798 original size:14 final size:14
Alignment explanation
Indices: 59264781--59264807 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59264771 AAATCACGAA
59264781 AATTTCACACATAT
1 AATTTCACACATAT
59264795 AATTTCACACATA
1 AATTTCACACATA
59264808 ATAAAAATAG
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:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:59268471 original size:27 final size:27
Alignment explanation
Indices: 59268436--59268536 Score: 141
Period size: 27 Copynumber: 3.7 Consensus size: 27
59268426 CCAAAGTACT
59268436 CTCGATTTATAGAATTACCATTTTACC
1 CTCGATTTATAGAATTACCATTTTACC
*
59268463 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCATTTTACC
*
59268490 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCATTTTACC
* * *
59268517 TTCGATTTACAAAATTACCA
1 CTCGATTTATAGAATTACCA
59268537 AAATACCCCT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.02
27 63 0.97
28 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
CTCGATTTATAGAATTACCATTTTACC
Found at i:59268479 original size:54 final size:54
Alignment explanation
Indices: 59268419--59268544 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 54
59268409 CTCGACTTGT
* *
59268419 AAAATTACCAAAGTACTCTCGATTTATAGAATTACCATTTTACCCTC-AGTTTAT
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGA-TTTAC
* * *** * *
59268473 AGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCTTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
*
59268527 AAAATTACCAAAATACCC
1 AAAATTACCAAAGTACCC
59268545 CTGGTTTGTA
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (54 bp):
AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
Found at i:59269243 original size:27 final size:27
Alignment explanation
Indices: 59269212--59269274 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
59269202 TAGAACACGA
59269212 AATTACCCTTAAAGAGCAAAATTACCG
1 AATTACCCTTAAAGAGCAAAATTACCG
*
59269239 AATTACCCCTAAAGAGCAAAATTACCG
1 AATTACCCTTAAAGAGCAAAATTACCG
59269266 -ATATACCCT
1 AAT-TACCCT
59269275 AGGGTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.22
Consensus pattern (27 bp):
AATTACCCTTAAAGAGCAAAATTACCG
Found at i:59272350 original size:54 final size:54
Alignment explanation
Indices: 59272290--59272415 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 54
59272280 CTCGACTTGT
* *
59272290 AAAATTACCAAAGTACTCTCGATTTATAGAATTACCATTTTACCCTC-AGTTTAT
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGA-TTTAC
* * *** *
59272344 AGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
*
59272398 AAAATTACCAAAATACCC
1 AAAATTACCAAAGTACCC
59272416 CTGGTTTGTA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 57 0.98
55 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (54 bp):
AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAC
Found at i:59272415 original size:27 final size:27
Alignment explanation
Indices: 59272307--59272407 Score: 150
Period size: 27 Copynumber: 3.7 Consensus size: 27
59272297 CCAAAGTACT
59272307 CTCGATTTATAGAATTACCATTTTACC
1 CTCGATTTATAGAATTACCATTTTACC
*
59272334 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTATAGAATTACCATTTTACC
*
59272361 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTATAGAATTACCATTTTACC
* *
59272388 CTCGATTTACAAAATTACCA
1 CTCGATTTATAGAATTACCA
59272408 AAATACCCCT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 1 0.02
27 64 0.97
28 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
CTCGATTTATAGAATTACCATTTTACC
Found at i:59273113 original size:27 final size:27
Alignment explanation
Indices: 59273082--59273146 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
59273072 TAGAACACGA
*
59273082 AATTACCCTTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
59273109 AATTACCCCTAAAGAGCAAAATTACCG
1 AATTACCCCTAAAGAGCAAAATTACCG
59273136 -ATATACCCCTA
1 AAT-TACCCCTA
59273147 GGGTTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (27 bp):
AATTACCCCTAAAGAGCAAAATTACCG
Found at i:59279961 original size:26 final size:26
Alignment explanation
Indices: 59279925--59279980 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
59279915 TCATGGAGTG
59279925 TCAACCAGTCCATACCCAAAATGACA
1 TCAACCAGTCCATACCCAAAATGACA
*
59279951 TCAACCAGTCCTTACCCAAAATGACA
1 TCAACCAGTCCATACCCAAAATGACA
59279977 TCAA
1 TCAA
59279981 ACTCATTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.34, G:0.07, T:0.18
Consensus pattern (26 bp):
TCAACCAGTCCATACCCAAAATGACA
Found at i:59281893 original size:40 final size:40
Alignment explanation
Indices: 59281848--59282053 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
59281838 CGGAATACAA
*
59281848 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
59281888 CCGGATATAACGAGTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
59281928 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
59281968 CCGGATGTAGTCACTAGCAC-AATTGCCTTTGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
59282008 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
59282048 CCGGAT
1 CCGGAT
59282054 GTCATTCAAT
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 132 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:59281988 original size:80 final size:80
Alignment explanation
Indices: 59281848--59282055 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 80
59281838 CGGAATACAA
* * * * *
59281848 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGAGTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
* *
59281913 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
* * *
59281928 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-ACGACTAGCACAAAT
*
59281992 GCCTTTGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
** ** * *
59282008 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGCCCGGATGT
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGCCCGGATGT
59282056 CATTCAATTG
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 105 0.97
81 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:59288186 original size:40 final size:40
Alignment explanation
Indices: 59288131--59288212 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
59288121 GGTTGTGGAA
59288131 CAGCCGTGTTAGTTCGAATGTATTGGTTAAACCAATCATT
1 CAGCCGTGTTAGTTCGAATGTATTGGTTAAACCAATCATT
59288171 CAGCCGTGTTAGTTCGAATGTATTGGTTAAACCAATCATT
1 CAGCCGTGTTAGTTCGAATGTATTGGTTAAACCAATCATT
59288211 CA
1 CA
59288213 TCACACTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (40 bp):
CAGCCGTGTTAGTTCGAATGTATTGGTTAAACCAATCATT
Found at i:59289899 original size:40 final size:40
Alignment explanation
Indices: 59289854--59290059 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
59289844 CGGAATACAA
*
59289854 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
59289894 CCGGATATAACGAGTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
59289934 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
59289974 CCGGATGTAGTCACTAGCAC-AATTGCCTTTGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
59290014 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
59290054 CCGGAT
1 CCGGAT
59290060 GTCATTCAAT
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 132 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:59289994 original size:80 final size:80
Alignment explanation
Indices: 59289854--59290061 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 80
59289844 CGGAATACAA
* * * * *
59289854 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGAGTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
* *
59289919 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
* * *
59289934 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-ACGACTAGCACAAAT
*
59289998 GCCTTTGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
** ** * *
59290014 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGCCCGGATGT
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGCCCGGATGT
59290062 CATTCAATTG
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 105 0.97
81 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:59297996 original size:15 final size:15
Alignment explanation
Indices: 59297978--59298007 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59297968 ATTTTCATTT
59297978 TTAAAATTTAATTAC
1 TTAAAATTTAATTAC
*
59297993 TTAAAATTTGATTAC
1 TTAAAATTTAATTAC
59298008 AAATGAAAAT
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:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAAATTTAATTAC
Found at i:59299675 original size:28 final size:28
Alignment explanation
Indices: 59299614--59299689 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
59299604 CGTGCATACT
* *
59299614 GAGTTCGCACCTAGGGGTTTGCACATGCA
1 GAGTTCGCACCTA-GGGTTGGCACAAGCA
* * *
59299643 AAGTTCGCACCTAGTGTTGGCACAAGTA
1 GAGTTCGCACCTAGGGTTGGCACAAGCA
* *
59299671 GAGTTTGCATCTAGAGGTT
1 GAGTTCGCACCTAG-GGTT
59299690 CGTGCATACA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 22 0.59
29 15 0.41
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (28 bp):
GAGTTCGCACCTAGGGTTGGCACAAGCA
Found at i:59299755 original size:22 final size:22
Alignment explanation
Indices: 59299730--59299782 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
59299720 CATATACAGA
59299730 GTTCGCATAGACAACATGT-A-GG
1 GTTCGCAT-G-CAACATGTAAGGG
*
59299752 GTTCGCATGTAACATGTAAGGG
1 GTTCGCATGCAACATGTAAGGG
59299774 GTTCGCATG
1 GTTCGCATG
59299783 TAATAATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.25
21 2 0.07
22 19 0.68
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (22 bp):
GTTCGCATGCAACATGTAAGGG
Found at i:59299767 original size:20 final size:22
Alignment explanation
Indices: 59299742--59299785 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
59299732 TCGCATAGAC
59299742 AACATGT-A-GGGTTCGCATGT
1 AACATGTAAGGGGTTCGCATGT
59299762 AACATGTAAGGGGTTCGCATGT
1 AACATGTAAGGGGTTCGCATGT
59299784 AA
1 AA
59299786 TAATCATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 14 0.64
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (22 bp):
AACATGTAAGGGGTTCGCATGT
Done.