Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 44 of 284
Found at i:15591282 original size:13 final size:13
Alignment explanation
Indices: 15591264--15591319 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
15591254 TTTTTCTATT
15591264 TTATTTATCTTAA
1 TTATTTATCTTAA
*
15591277 TTATTTATTTTAA
1 TTATTTATCTTAA
15591290 TTCATTT-TCTTTAA
1 TT-ATTTATC-TTAA
* *
15591304 TTTTTTCATCTGAA
1 TTATTT-ATCTTAA
15591318 TT
1 TT
15591320 GAATTCTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
13 18 0.51
14 15 0.43
15 2 0.06
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (13 bp):
TTATTTATCTTAA
Found at i:15601351 original size:50 final size:50
Alignment explanation
Indices: 15601280--15601660 Score: 297
Period size: 50 Copynumber: 7.7 Consensus size: 50
15601270 GGTACGTATT
* *
15601280 GTAGCCTGCACATAGTACTACAGATGCGACCTATCAATCTGGTACATGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTA
* * * * *
15601330 GTAGCCTGCACTTAGTGCTACACATGTGACTTATCCATCTGATACATGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTA
* * * * * ***
15601380 GTAGCCCGCACTTAGTACTACACACGTGA-TTGAAGTTAA-CTGGTACGCATA
1 GTAGCCTGCACTTAGTACTACACATGCGACCT--A-TCAATCTGGTACATGTA
* * *
15601431 GTAGCCTGCACTTAGTACTACACATACGACCTATCAATCCGGTACAAGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTA
* * * * *
15601481 GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA---A
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTA
* * * * ** * * * ***
15601528 GTAGCCTGTACTTAGTATTACACACGTGATCGAAACTATCGGGTACGCATA
1 GTAGCCTGCACTTAGTACTACACATGCGA-CCTATCAATCTGGTACATGTA
* * * * *
15601579 GTAGCCTGCACTTAGTAGTA-ACATGCGGCCTAACAATCTAGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTA
* * *
15601628 GTAGCCTACACTTAGTACTATACATGTGACCTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTA
15601661 AAACTGTCTT
Statistics
Matches: 264, Mismatches: 57, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
47 28 0.11
48 11 0.04
49 37 0.14
50 132 0.50
51 53 0.20
52 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTA
Found at i:15601445 original size:51 final size:49
Alignment explanation
Indices: 15601378--15601595 Score: 181
Period size: 51 Copynumber: 4.4 Consensus size: 49
15601368 CTGATACATG
* * *
15601378 TAGTAGCCCGCACTTAGTACTACACACGTGATTGAAGTTAACTGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-CTAACTGGTAC-CA
*** * * * * *
15601429 TAGTAGCCTGCACTTAGTACTACACATACGACCTATC-AATCCGGTACAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAACTAA-CTGGTACCA
* * * * *
15601478 GTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATA-CA
1 -TAGTAGCCTGCACTTAGTACTACACACGTGATCGAACTAACTGGTACCA
* * * *
15601527 -AGTAGCCTGTACTTAGTATTACACACGTGATCGAAACTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCG-AACTAACTGGTAC-CA
15601577 TAGTAGCCTGCACTTAGTA
1 TAGTAGCCTGCACTTAGTA
15601596 GTAACATGCG
Statistics
Matches: 133, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
47 29 0.22
48 9 0.07
49 4 0.03
50 45 0.34
51 46 0.35
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCGAACTAACTGGTACCA
Found at i:15601454 original size:101 final size:101
Alignment explanation
Indices: 15601328--15601509 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
15601318 CTGGTACATG
* ** * * * *
15601328 TAGTAGCCTGCACTTAGTGCTACACATGTGACTTATCCATCTGATACATGTAGTAGCCCGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCCGATACAAGTAGTAGCCCGCACTT
15601393 AGTACTACACACGTGATTGAAGTTAACTGGTACGCA
66 AGTACTACACACGTGATTGAAGTTAACTGGTACGCA
* *
15601429 TAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCCGGTACAAGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCCGATACAAGTAGTAGCCCGCACTT
15601494 AGTACTACACACGTGA
66 AGTACTACACACGTGA
15601510 CCTAACCATC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATACGACCTATCAATCCGATACAAGTAGTAGCCCGCACTT
AGTACTACACACGTGATTGAAGTTAACTGGTACGCA
Found at i:15601598 original size:151 final size:150
Alignment explanation
Indices: 15601270--15601661 Score: 506
Period size: 151 Copynumber: 2.6 Consensus size: 150
15601260 AAAGCTTTCT
* * * *
15601270 GGTACGTATTGTAGCCTGCAC-ATAGTACTACAGATGCGACCTATCAATCTGGTACATGTAGTAG
1 GGTACGCATAGTAGCCTGCACTATAGTACTACACATGCGACCTATCAATCTGGTACAAGTAGTAG
* * *
15601334 CCTGCACTTAGTGCTACACATGTGACTTATCCATCTGATACATGTAGTAGCCCGCACTTAGTACT
66 CCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA--TAGTAGCCCGCACTTAGTACT
* ** *
15601399 ACACACGTGATTGAAGTTAACT
129 ACACACGTGATCGAAACTAACG
* *
15601421 GGTACGCATAGTAGCCTGCACT-TAGTACTACACATACGACCTATCAATCCGGTACAAGTAGTAG
1 GGTACGCATAGTAGCCTGCACTATAGTACTACACATGCGACCTATCAATCTGGTACAAGTAGTAG
* * * *
15601485 CCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA-AGTAGCCTGTACTTAGTATTAC
66 CCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACATAGTAGCCCGCACTTAGTACTAC
*
15601549 ACACGTGATCGAAACTATCG
131 ACACGTGATCGAAACTAACG
* * * * *
15601569 GGTACGCATAGTAGCCTGCACT-TAGTAGTA-ACATGCGGCCTAACAATCTAGTACACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTATAGTACTACACATGCGACCTATCAATCTGGTACAAGTAGTAG
* *
15601632 CCTACACTTAGTACTATACATGTGACCTAA
66 CCTGCACTTAGTACTACACATGTGACCTAA
15601662 AACTGTCTTA
Statistics
Matches: 212, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
147 54 0.25
148 63 0.30
151 95 0.45
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTATAGTACTACACATGCGACCTATCAATCTGGTACAAGTAGTAG
CCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACATAGTAGCCCGCACTTAGTACTAC
ACACGTGATCGAAACTAACG
Found at i:15610624 original size:101 final size:100
Alignment explanation
Indices: 15610369--15610798 Score: 278
Period size: 101 Copynumber: 4.2 Consensus size: 100
15610359 TGGTACGCAC
* * * * * * * * * *
15610369 AGTAGCCTGCACTTAGTACTATACATGCAACCTATCAATCCGGTACACGTAGTATCATGCACTTA
1 AGTAGCCTGCACTTAATACTACACACGCGACCTAACAATCTGATACATGTAGTAGCCTGCACTTA
* * * * * * *
15610434 GTATTACACACGTGACTTATCCATCTGATACACGT
66 GTACTACACACGTGACCTAACAATCGGCTACACAT
* * ** * * * * * *
15610469 AGTAGCCCGCACTTAGTACTACACACATGATCGAAGTTAA-CGGGT--ATGCATAGTAGCTTGCA
1 AGTAGCCTGCACTTAATACTACACACGCGACCTAA--CAATCTGATACATG--TAGTAGCCTGCA
* * *
15610531 CTTAGTACTACACATGTGACCTATCAATCCGG-TACACGT
62 CTTAGTACTACACACGTGACCTAACAAT-CGGCTACACAT
* * * * * *
15610570 AGTAGCCTGCACTTAAGTACTACACACGTGACTTGACCATCTGATCCATGTAGTATCCTGCACTT
1 AGTAGCCTGCACTTAA-TACTACACACGCGACCTAACAATCTGATACATGTAGTAGCCTGCACTT
* ** * * **
15610635 AGTACTACACACCTGATCGAAACTATTGGCTATGCAT
65 AGTACTACACACGTGA-CCTAACAATCGGCTACACAT
* * *
15610672 AGTGGCCTGCACTTAATACTACACATGCGACCTAACAATCTGGTACATGTAGTAGCCTGCACTTA
1 AGTAGCCTGCACTTAATACTACACACGCGACCTAACAATCTGATACATGTAGTAGCCTGCACTTA
*
15610737 GTACTACACACGTGACCTAA-AA-CTGTCTTAAACACAT
66 GTACTACACACGTGACCTAACAATC-GGC-T--ACACAT
* *
15610774 AGTAGCCTGCACATAGTACTACACA
1 AGTAGCCTGCACTTAATACTACACA
15610799 TGTGTTCTCA
Statistics
Matches: 253, Mismatches: 62, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
99 5 0.02
100 31 0.12
101 146 0.58
102 68 0.27
103 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (100 bp):
AGTAGCCTGCACTTAATACTACACACGCGACCTAACAATCTGATACATGTAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACAATCGGCTACACAT
Found at i:15610669 original size:152 final size:151
Alignment explanation
Indices: 15610369--15610752 Score: 545
Period size: 152 Copynumber: 2.5 Consensus size: 151
15610359 TGGTACGCAC
* * * *
15610369 AGTAGCCTGCACTTAGTACTATACATGCAACCTATCAATCCGGTACACGTAGTATCATGCACTTA
1 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACGTAGTAGCCTGCACTTA
*
15610434 GTATTACACACGTGACTTATCCATCTGATACACGTAGTAGCCCGCACTTAGTACTACACACATGA
66 GTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCCGCACTTAGTACTACACACATGA
** *
15610499 TCGAAGTTAACGGGTATGCAT
131 TCGAAACTAACGGCTATGCAT
* *
15610520 AGTAGCTTGCACTTAGTACTACACATGTGACCTATCAATCCGGTACACGTAGTAGCCTGCACTTA
1 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACGTAGTAGCCTGCACTT-
* * * * *
15610585 AGTACTACACACGTGACTTGA-CCATCTGATCCATGTAGTATCCTGCACTTAGTACTACACACCT
65 AGTACTACACACGTGACTT-ATCCATCTGATACACGTAGTAGCCCGCACTTAGTACTACACACAT
**
15610649 GATCGAAACTATTGGCTATGCAT
129 GATCGAAACTAACGGCTATGCAT
* * * * *
15610672 AGTGGCCTGCACTTAATACTACACATGCGACCTAACAATCTGGTACATGTAGTAGCCTGCACTTA
1 AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACGTAGTAGCCTGCACTTA
15610737 GTACTACACACGTGAC
66 GTACTACACACGTGAC
15610753 CTAAAACTGT
Statistics
Matches: 207, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
151 75 0.36
152 131 0.63
153 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (151 bp):
AGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACGTAGTAGCCTGCACTTA
GTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCCGCACTTAGTACTACACACATGA
TCGAAACTAACGGCTATGCAT
Found at i:15610756 original size:50 final size:50
Alignment explanation
Indices: 15610369--15610756 Score: 293
Period size: 50 Copynumber: 7.7 Consensus size: 50
15610359 TGGTACGCAC
* * ** * * *
15610369 AGTAGCCTGCACTTAGTACTATACATGCAACCTATCAATCCGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACATGT
* * * * * * * *
15610419 AGTATCATGCACTTAGTATTACACACGTGACTTATCCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACATGT
* * * * * *
15610469 AGTAGCCCGCACTTAGTACTACACACATGATCGAAGTTAA-CGGGT--ATGCAT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAATCTGGTACATG--T
* * * * *
15610520 AGTAGCTTGCACTTAGTACTACACATGTGACCTATCAATCCGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACATGT
* * * * *
15610570 AGTAGCCTGCACTTAAGTACTACACACGTGACTTGACCATCTGATCCATGT
1 AGTAGCCTGCACTT-AGTACTACACACGTGACCTAACAATCTGGTACATGT
* * ** *
15610621 AGTATCCTGCACTTAGTACTACACACCTGATCGAAACTAT-TGG--CTATGCAT
1 AGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAATCTGGTAC-ATG--T
* * * *
15610672 AGTGGCCTGCACTTAATACTACACATGCGACCTAACAATCTGGTACATGT
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACATGT
15610722 AGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 AGTAGCCTGCACTTAGTACTACACACGTGACCTAA
15610757 AACTGTCTTA
Statistics
Matches: 258, Mismatches: 65, Indels: 30
0.73 0.18 0.08
Matches are distributed among these distances:
48 1 0.00
49 7 0.03
50 138 0.53
51 105 0.41
52 6 0.02
53 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
AGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACATGT
Found at i:15620780 original size:101 final size:100
Alignment explanation
Indices: 15620642--15620971 Score: 294
Period size: 99 Copynumber: 3.3 Consensus size: 100
15620632 ATATGTACTT
* * * *
15620642 GCCTGCTCTTAGTACTACACACTTGACTTATCCATCTGATACACGTAGTAGCCCGCACTTAGTAC
1 GCCTGCACTTAGTACTACACACTCGACCTATCAATCTGATACACGTAGTAGCCCGCACTTAGTAC
* * * *
15620707 TACACACGTGATCGAAGTTAA-CGGGTACGCATAGTA
66 TACACACGTGACCGAA--CAATCGGATACACATAGTA
* **
15620743 GCCTGCACTTAGTACTACACA-TGCGACCTATCAATCTGGTACACGTAGTAGCTTGCACTTAGTA
1 GCCTGCACTTAGTACTACACACT-CGACCTATCAATCTGATACACGTAGTAGCCCGCACTTAGTA
* * *
15620807 CTACACACGTGACCTAACAATCTGATACACGTAGTA
65 CTACACACGTGACCGAACAATCGGATACACATAGTA
* ** * * * * * * *
15620843 GCCTGCACTTAGTACTACAC-GT-GATCGAAACTATCGGGTACGCATAGTAGCCTGCACTTAGTA
1 GCCTGCACTTAGTACTACACACTCGA-CCTATCAATCTGATACACGTAGTAGCCCGCACTTAGTA
* * * * *
15620906 CTACACATGCGACCTAACAATCTTG-TACACGTAGTA
65 CTACACACGTGACCGAACAATC-GGATACACATAGTA
*
15620942 GCCTGCATTTAGTACTACACACAT-GACCTA
1 GCCTGCACTTAGTACTACACAC-TCGACCTA
15620972 AAACTGTCTT
Statistics
Matches: 194, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
98 2 0.01
99 82 0.42
100 37 0.19
101 73 0.38
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (100 bp):
GCCTGCACTTAGTACTACACACTCGACCTATCAATCTGATACACGTAGTAGCCCGCACTTAGTAC
TACACACGTGACCGAACAATCGGATACACATAGTA
Found at i:15620934 original size:149 final size:150
Alignment explanation
Indices: 15620579--15620972 Score: 592
Period size: 151 Copynumber: 2.6 Consensus size: 150
15620569 AAAGCTCTCT
* * * * * *
15620579 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCTATCAATCTGGTATATGTACTTGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * * *
15620644 CTGCTCTTAGTACTACACACTTGACTTATCCATCTGATACACGTAGTAGCCCGCACTTAGTACTA
66 CTGCACTTAGTACTACACACATGACCTAACAATCTGATACACGTAGTAGCCCGCACTTAGTACTA
**
15620709 CACACGTGATCGAAGTTAACG
131 -ACACGTGATCGAAACTAACG
15620730 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
15620795 TTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTTAGTACT-
66 CTGCACTTAGTACTACACACATGACCTAACAATCTGATACACGTAGTAGCCCGCACTTAGTACTA
*
15620859 ACACGTGATCGAAACTATCG
131 ACACGTGATCGAAACTAACG
* *
15620879 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTTGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
15620944 CTGCATTTAGTACTACACACATGACCTAA
66 CTGCACTTAGTACTACACACATGACCTAA
15620973 AACTGTCTTA
Statistics
Matches: 222, Mismatches: 21, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
149 106 0.48
151 116 0.52
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACATGACCTAACAATCTGATACACGTAGTAGCCCGCACTTAGTACTA
ACACGTGATCGAAACTAACG
Found at i:15620970 original size:50 final size:50
Alignment explanation
Indices: 15620576--15620972 Score: 386
Period size: 50 Copynumber: 7.9 Consensus size: 50
15620566 ACCAAAGCTC
* * **** *
15620576 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * * * * * * *
15620626 TCTGGTATATGTACTTGCCTGCTCTTAGTACTACACACTTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * * *
15620676 TCTGATACACGTAGTAGCCCGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAA
* * * * * *
15620728 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
*
15620777 TCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* ** *
15620827 TCTGATACACGTAGTAGCCTGCACTTAGTACT--ACACGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAA
* * * * *
15620876 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * *
15620926 TCTTGTACACGTAGTAGCCTGCATTTAGTACTACACACATGACCTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
15620973 AACTGTCTTA
Statistics
Matches: 274, Mismatches: 67, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
48 8 0.03
49 35 0.13
50 188 0.69
51 42 0.15
52 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
Found at i:15622135 original size:14 final size:14
Alignment explanation
Indices: 15622116--15622148 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15622106 CCCAAACATC
15622116 AAAATTTTTAAAAA
1 AAAATTTTTAAAAA
15622130 AAAA-TTTTAAAAA
1 AAAATTTTTAAAAA
*
15622143 ATAATT
1 AAAATT
15622149 CCATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATTTTTAAAAA
Found at i:15622697 original size:47 final size:47
Alignment explanation
Indices: 15622577--15622746 Score: 197
Period size: 47 Copynumber: 3.6 Consensus size: 47
15622567 GTAAGGTGCC
*
15622577 GATGCCATGTCCGAGACATGGTCTTACACTAGCTCACATCTCAAGTC
1 GATGCCATGTCCGAGACATGGTCTTACACTAGCTCACATCTCAAGTT
* **
15622624 CATGCCATGTCCGAGACACAGTCTTACACTAGCTCACATCTCAAGTT
1 GATGCCATGTCCGAGACATGGTCTTACACTAGCTCACATCTCAAGTT
* * *
15622671 GATGCCATGTACC-AGACATGGACTTACACT-GACT-ATCATCTCGTAGCT
1 GATGCCATGT-CCGAGACATGGTCTTACACTAG-CTCA-CATCTC-AAGTT
*
15622719 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCGAGACATGGTCTTACACT
15622747 GGCTTACGTC
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
46 13 0.12
47 85 0.79
48 9 0.08
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCGAGACATGGTCTTACACTAGCTCACATCTCAAGTT
Found at i:15622759 original size:46 final size:46
Alignment explanation
Indices: 15622577--15622794 Score: 185
Period size: 47 Copynumber: 4.7 Consensus size: 46
15622567 GTAAGGTGCC
*
15622577 GATGCCATGTCCGAGACATGGTCTTACACTAGCTCACATCTCAAG-T
1 GATGCCATGTCCCAGACAT-GTCTTACACTAGCTCACATCTCAAGCT
* * * *
15622623 CCATGCCATGTCCGAGACACAGTCTTACACTAGCTCACATCTCAAGTT
1 -GATGCCATGTCCCAGACA-TGTCTTACACTAGCTCACATCTCAAGCT
* * *
15622671 GATGCCATGTACCAGACATGGACTTACACT-GACT-ATCATCTCGTAGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTAG-CTCA-CATCTC-AAGCT
* * * * *
15622719 GATG-CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTAGCTCACATCTC-AAGCT
* * *
15622765 GATG-CATGTCCCAAAAATGTCTTATACTAG
1 GATGCCATGTCCCAGACATGTCTTACACTAG
15622795 AACTCGTCTC
Statistics
Matches: 144, Mismatches: 19, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
46 47 0.33
47 89 0.62
48 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGTCTTACACTAGCTCACATCTCAAGCT
Found at i:15626242 original size:68 final size:68
Alignment explanation
Indices: 15626095--15626250 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
15626085 AGCCGATTTG
* * * * *
15626095 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
15626160 TATC
65 TATA
* *
15626164 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
15626226 ATATAGTA
62 ATATA-TA
15626234 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
15626251 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:15632452 original size:47 final size:46
Alignment explanation
Indices: 15632383--15632644 Score: 278
Period size: 47 Copynumber: 5.6 Consensus size: 46
15632373 TAAGGTACCA
*
15632383 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGTCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCAAGTCG
* * *
15632430 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCATTGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCTCA-AGTCG
* *
15632478 ATG-CATGCCCCAGACATGTCTTACACTGGCTTACATCTCAAGTCG
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGTCG
* * * * *
15632523 ATACCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAA-GTCG
* * * * ***
15632570 ATGCCATGTCCTAGACACGATCTTACACTGGCTCTCATAATGTGGTCG
1 ATGCCATGTCCCAGACATG-TCTTACACTGGCTCACAT-CTCAAGTCG
15632618 ATG-CATGTCCCAGACATGTCTTACACT
1 ATGCCATGTCCCAGACATGTCTTACACT
15632645 AGCCCACACA
Statistics
Matches: 181, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
45 5 0.03
46 63 0.35
47 84 0.46
48 28 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGTCG
Found at i:15632632 original size:94 final size:91
Alignment explanation
Indices: 15632402--15632644 Score: 283
Period size: 93 Copynumber: 2.6 Consensus size: 91
15632392 CCCAAACATG
* *
15632402 GTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCA
1 GTCTTACACTGGCTTACATATCAAGTCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCA
* *
15632467 TCTCATTGCCGATGCATGCCCCAGACAT
64 TCTCAATGCCGATGCATGCCCCAGACAC
* * * *
15632495 GTCTTACACTGGCTTACATCTCAAGTCGATACCATGTCCCAGACATGTCTTACACTGGC-ACTCG
1 GTCTTACACTGGCTTACATATCAAGTCGAT-GCATGTCCCAGACATGTCTTACACTGACTA-TCA
* *
15632559 TCTCAATGCCGATGCCATGTCCTAGACAC
64 TCTCAATGCCGATG-CATGCCCCAGACAC
***
15632588 GATCTTACACTGGCTCT-CATAATGTGGTCGATGCATGTCCCAGACATGTCTTACACT
1 G-TCTTACACTGGCT-TACAT-ATCAAGTCGATGCATGTCCCAGACATGTCTTACACT
15632645 AGCCCACACA
Statistics
Matches: 131, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
91 1 0.01
92 27 0.21
93 55 0.42
94 40 0.31
95 8 0.06
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (91 bp):
GTCTTACACTGGCTTACATATCAAGTCGATGCATGTCCCAGACATGTCTTACACTGACTATCATC
TCAATGCCGATGCATGCCCCAGACAC
Found at i:15632638 original size:140 final size:139
Alignment explanation
Indices: 15632386--15632644 Score: 351
Period size: 140 Copynumber: 1.8 Consensus size: 139
15632376 GGTACCAATG
* * * *
15632386 CCATGTCCCAAACATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGACATGGT
1 CCATGTCCCAAACATGGTCTTACACTGGCACACATCTCAAGCCGATGCCATGTCCCAGACACGAT
*
15632451 CTTACACTGACTATCATCTCATTGCCGATGCATGCCCCAGACATGTCTTACACTGGCTTACATCT
66 CTTACACTGACTATCA-CTAATTGCCGATGCATGCCCCAGACATGTCTTACACTGGCTTACATCT
15632516 CAAGTCGATA
130 CAAGTCGATA
* * * *
15632526 CCATGTCCCAGACAT-GTCTTACACTGGCACTCGTCTCAATGCCGATGCCATGTCCTAGACACGA
1 CCATGTCCCAAACATGGTCTTACACTGGCACACATCTCAA-GCCGATGCCATGTCCCAGACACGA
* * * *
15632590 TCTTACACTGGCTCTCA-TAATGTGGTCGATGCATGTCCCAGACATGTCTTACACT
65 TCTTACACTGACTATCACTAAT-T-GCCGATGCATGCCCCAGACATGTCTTACACT
15632645 AGCCCACACA
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
138 3 0.03
139 22 0.21
140 78 0.76
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (139 bp):
CCATGTCCCAAACATGGTCTTACACTGGCACACATCTCAAGCCGATGCCATGTCCCAGACACGAT
CTTACACTGACTATCACTAATTGCCGATGCATGCCCCAGACATGTCTTACACTGGCTTACATCTC
AAGTCGATA
Found at i:15633625 original size:21 final size:22
Alignment explanation
Indices: 15633585--15633625 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15633575 GGCCAAGATC
*
15633585 TTTTAAAATGACCTAATTTTCG
1 TTTTAAAATGACCCAATTTTCG
*
15633607 TTTTAAGAT-ACCCAATTTT
1 TTTTAAAATGACCCAATTTT
15633626 TATTCTCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (22 bp):
TTTTAAAATGACCCAATTTTCG
Found at i:15640123 original size:46 final size:46
Alignment explanation
Indices: 15639972--15640285 Score: 233
Period size: 46 Copynumber: 6.7 Consensus size: 46
15639962 GGGTAAGGTA
* * * * *
15639972 CCGATGCCATGTCCCAAACACGGTCTTACATTGGCTCACATCTCAAG
1 CCGATGCCATGTCCCAGACA-TGTCTTACACTAGCTTACATCTCAAG
* * * * *
15640019 TCAATGCCATGCCCCAGACATGGTCTTACACTAAC-TATCATCTCGTAG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTTA-CATCTC-AAG
*
15640067 CCGATG-CATGTCCCAGACATGTCTTACACTAGCTTACGTCTCAAG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAG
* * * * * *
15640112 TCGATGCCATGTCCTAGACATGTCTTACATTGGCTTACGTCTCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTTACATCTC-AAG
* * *
15640159 CCGATG-CATGTCCCAAACATCTCTTACACTAGCACT-CATCTCAATG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGC-TTACATCTCAA-G
* * * * * * ***
15640205 CCGATGCCATGTACTAGACACGGTCTTACACTGGCTTTCATAATGTGG
1 CCGATGCCATGTCCCAGACA-TGTCTTACACTAGCTTACAT-CTCAAG
* *
15640253 CTGATG-CGTGTCCCAGACATGTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGC
15640286 CCACACACAA
Statistics
Matches: 208, Mismatches: 47, Indels: 25
0.74 0.17 0.09
Matches are distributed among these distances:
45 8 0.04
46 97 0.47
47 76 0.37
48 26 0.12
49 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAG
Found at i:15640265 original size:94 final size:92
Alignment explanation
Indices: 15639972--15640286 Score: 271
Period size: 94 Copynumber: 3.4 Consensus size: 92
15639962 GGGTAAGGTA
* * * * * * ** *
15639972 CCGATGCCATGTCCCAAACACGGTCTTACA-TTGGCTCACATCTCAAGTCAATGCCATGCCCCAG
1 CCGATG-CATGTCCCAGACA-TGTCTTACACTAGCCT-ACATCTCAAGCCGATGCCATGTACTAG
** *
15640036 ACATGGTCTTACACTAAC-TATCATCTCGTA-G
63 ACA-GGTCTTACACTGGCTTA-CATATCG-AGG
* * * *
15640067 CCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCAAGTCGATGCCATGTCCTAGACA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCCTACATCTCAAGCCGATGCCATGTACTAGACA
* * * *
15640132 TGTCTTACATTGGCTTACGTCTCGAGG
66 GGTCTTACACTGGCTTACATATCGAGG
* *
15640159 CCGATGCATGTCCCAAACATCTCTTACACTAGCACT-CATCTCAATGCCGATGCCATGTACTAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC-CTACATCTCAA-GCCGATGCCATGTACTAGA
* *
15640223 CACGGTCTTACACTGGCTTTCATAAT-GTGG
64 CA-GGTCTTACACTGGCTTACAT-ATCGAGG
* *
15640253 CTGATGCGTGTCCCAGACATGTCTTACACTAGCC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCC
15640287 CACACACAAA
Statistics
Matches: 183, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
91 1 0.01
92 55 0.30
93 57 0.31
94 63 0.34
95 7 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCCTACATCTCAAGCCGATGCCATGTACTAGACA
GGTCTTACACTGGCTTACATATCGAGG
Found at i:15648075 original size:40 final size:40
Alignment explanation
Indices: 15647989--15648246 Score: 326
Period size: 40 Copynumber: 6.5 Consensus size: 40
15647979 AAGCCAAGTA
* * *
15647989 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
15648027 CCTTCGGGACATAGCCCGGATATCGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15648067 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
15648107 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
15648147 CCTTCGGGACATAGCTCGAATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** *
15648187 CCTTCGGGACTTAGCCCGGACCTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT--CGCACAAATG
15648228 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15648247 TTATCATCCA
Statistics
Matches: 193, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 137 0.71
41 24 0.12
42 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15651170 original size:47 final size:46
Alignment explanation
Indices: 15651088--15651297 Score: 228
Period size: 46 Copynumber: 4.5 Consensus size: 46
15651078 GTACCAACGC
* * * * * *
15651088 CATGTCCAAGACACGGTCTTACATTGGCTCACATCT-AAAGTCGATG
1 CATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCGAAGCCGATG
* *
15651134 CGATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTAGCCGATG
1 C-ATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGAAGCCGATG
* * *
15651182 CATGTCCCAGACATGTCATACACTGGCTTACGTCTC-AAGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
* *
15651227 CCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
*
15651274 CATGTCCCAGACATGTTTTACACT
1 CATGTCCCAGACATGTCTTACACT
15651298 AGCACTCGTC
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
45 7 0.05
46 73 0.53
47 49 0.36
48 8 0.06
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAAGCCGATG
Found at i:15651276 original size:92 final size:93
Alignment explanation
Indices: 15651088--15651349 Score: 280
Period size: 93 Copynumber: 2.8 Consensus size: 93
15651078 GTACCAACGC
* * * * * * * *
15651088 CATGTCCAAGACACGGTCTTACATTGGCTCACATCTAAAGTCGATGCGATGTCCCAGACATGGTC
1 CATGTCCCAGACA-TGTCTTACACTGGCTTACGTCTCAAGTCGATGCCATGTCCTAGACAT-GTC
*
15651153 TTACACTGAC-TATCATCTCGTAGCCGATG
64 TTACACTGGCTTATCATCTCGTAGCCGATG
*
15651182 CATGTCCCAGACATGTCATACACTGGCTTACGTCTCAAGTCGATGCCATGTCCTAGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGTCGATGCCATGTCCTAGACATGTCTT
15651247 ACACTGGCTTA-CATCTCG-AGGCCGATG
66 ACACTGGCTTATCATCTCGTA-GCCGATG
* * * * * * *
15651274 CATGTCCCAGACATGTTTTACACTAGCACT-CGTCTCAATGCCAATGCCATGGCCTAGACACGGT
1 CATGTCCCAGACATGTCTTACACTGGC-TTACGTCTCAA-GTCGATGCCATGTCCTAGACA-TGT
*
15651338 CTTACATTGGCT
63 CTTACACTGGCT
15651350 CTTGTAACAC
Statistics
Matches: 144, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
91 1 0.01
92 58 0.40
93 60 0.42
94 25 0.17
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGTCGATGCCATGTCCTAGACATGTCTT
ACACTGGCTTATCATCTCGTAGCCGATG
Found at i:15652902 original size:43 final size:43
Alignment explanation
Indices: 15652854--15652947 Score: 188
Period size: 43 Copynumber: 2.2 Consensus size: 43
15652844 TCAATAATGT
15652854 CGCACACTTAGTGCCCATATGATTCAAAAATATATATTAAGTC
1 CGCACACTTAGTGCCCATATGATTCAAAAATATATATTAAGTC
15652897 CGCACACTTAGTGCCCATATGATTCAAAAATATATATTAAGTC
1 CGCACACTTAGTGCCCATATGATTCAAAAATATATATTAAGTC
15652940 CGCACACT
1 CGCACACT
15652948 CTGTGCTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (43 bp):
CGCACACTTAGTGCCCATATGATTCAAAAATATATATTAAGTC
Found at i:15652970 original size:27 final size:28
Alignment explanation
Indices: 15652940--15653006 Score: 102
Period size: 27 Copynumber: 2.4 Consensus size: 28
15652930 ATATTAAGTC
*
15652940 CGCACACTCT-GTGCTATATAATC-AACT
1 CGCACACT-TAGTCCTATATAATCAAACT
15652967 CGCACACTTAGTCCTATATAATCAAACT
1 CGCACACTTAGTCCTATATAATCAAACT
15652995 CGCACACTTAGT
1 CGCACACTTAGT
15653007 GCTGAACAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.54
28 16 0.43
ACGTcount: A:0.31, C:0.30, G:0.10, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTCCTATATAATCAAACT
Found at i:15660541 original size:27 final size:27
Alignment explanation
Indices: 15660511--15660689 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
15660501 ATATTGAGTC
* *
15660511 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
15660538 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
15660565 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
15660593 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
15660620 CGCACACTTTAGTGC-ATCATATTCATTT
1 CGCACAC-TTAGTGCTA-CATAATCAACT
* * *
15660648 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
15660675 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15660690 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 83 0.64
28 46 0.36
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:15660603 original size:55 final size:54
Alignment explanation
Indices: 15660511--15660689 Score: 207
Period size: 55 Copynumber: 3.3 Consensus size: 54
15660501 ATATTGAGTC
* * * * *
15660511 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
15660565 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
15660620 CGCACACTTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACAC-TTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
15660675 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15660690 GTACAATTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
54 27 0.26
55 65 0.62
56 13 0.12
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:15676893 original size:19 final size:19
Alignment explanation
Indices: 15676869--15676908 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
15676859 ATCAACCTCG
15676869 CTTAATTATGACAAATGTA
1 CTTAATTATGACAAATGTA
15676888 CTTAATTATGACAAATGTA
1 CTTAATTATGACAAATGTA
15676907 CT
1 CT
15676909 CTCAGACAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (19 bp):
CTTAATTATGACAAATGTA
Found at i:15692255 original size:43 final size:42
Alignment explanation
Indices: 15692100--15692256 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
15692090 TGTGTTATCG
*
15692100 TGTAAGACCATGTCTGGGACGTTGGCATCA-ATTTGTGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCATA-TT-TGA-TTACA
* * * * *
15692144 TGTAAGACCATGTCTGGGACATTGGCATCATATATGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
*** *
15692186 TGTAAGACC-CTGTCTAAAACAG-TGGCATCGATATTTCATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATC-ATATTTGATTACA
15692229 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
15692257 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 26 0.29
43 33 0.36
44 31 0.34
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
Found at i:15719719 original size:20 final size:20
Alignment explanation
Indices: 15719694--15719741 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
15719684 TTCATTATGT
15719694 CCCTAAAAGGGTCCTCAAGA
1 CCCTAAAAGGGTCCTCAAGA
15719714 CCCTAAAAGGGTCCTCAAGA
1 CCCTAAAAGGGTCCTCAAGA
15719734 CCCTAAAA
1 CCCTAAAA
15719742 CATGAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.15
Consensus pattern (20 bp):
CCCTAAAAGGGTCCTCAAGA
Found at i:15721165 original size:13 final size:13
Alignment explanation
Indices: 15721147--15721173 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15721137 GAAGTAATCG
15721147 CACACGGGCGTGT
1 CACACGGGCGTGT
15721160 CACACGGGCGTGT
1 CACACGGGCGTGT
15721173 C
1 C
15721174 CCTACCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:15722534 original size:55 final size:53
Alignment explanation
Indices: 15722377--15722577 Score: 210
Period size: 55 Copynumber: 3.7 Consensus size: 53
15722367 TACGTGGTAT
* * *
15722377 CCTTTTGAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCA-TGCCATGTCTTGACATGGTCTTACATGGTATCTTTG
* * * *
15722431 CCTTATG-AACTCACCAATGCCATG-CTTGGCGTGGTCTTACATGGTATCTTTT
1 CCTTATGAAACTTACC-ATGCCATGTCTTGACATGGTCTTACATGGTATCTTTG
*
15722483 CCTTATAGAAACTTATCCATGCCATGTCTTGACATGGTCTTACATGATATCTTTG
1 CCTTAT-GAAACTTA-CCATGCCATGTCTTGACATGGTCTTACATGGTATCTTTG
* * * *
15722538 CATTA-GAATCCTTACCAATTGCCATGCCTTGGCATGGTCT
1 CCTTATGAA-ACTTACC-A-TGCCATGTCTTGACATGGTCT
15722578 AACGTGGCAT
Statistics
Matches: 123, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
52 29 0.24
53 20 0.16
54 25 0.20
55 49 0.40
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CCTTATGAAACTTACCATGCCATGTCTTGACATGGTCTTACATGGTATCTTTG
Found at i:15728811 original size:18 final size:17
Alignment explanation
Indices: 15728766--15728812 Score: 85
Period size: 17 Copynumber: 2.7 Consensus size: 17
15728756 TTTGGTTTTC
15728766 GTGGGCCACACGAGCAT
1 GTGGGCCACACGAGCAT
15728783 GTGGGCCACACGAGCAT
1 GTGGGCCACACGAGCAT
15728800 GTGGGCCCACACG
1 GTGGG-CCACACG
15728813 GCCCGCATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.21, C:0.32, G:0.36, T:0.11
Consensus pattern (17 bp):
GTGGGCCACACGAGCAT
Found at i:15733961 original size:46 final size:46
Alignment explanation
Indices: 15733909--15734080 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 46
15733899 TAGGCATCCA
* *
15733909 AACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * * * *
15733955 AACTCGTTGAGTTGAGTGCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
*
15734002 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * **
15734048 AGCTCATTGTGTTGAG-CCTGAGTTTGCTTATGG
1 AACTCGTTGAGTTGAGTCC-GAGTTCACTTATGG
15734081 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
43 4 0.04
45 5 0.05
46 52 0.53
47 29 0.30
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:15734071 original size:93 final size:93
Alignment explanation
Indices: 15733899--15734071 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
15733889 TTCAGATATT
* * * *
15733899 TAGGCATCCAAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTG
1 TAGGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTG
*
15733964 AGTTGAGTGCGAGTTCGTGAAATGTAAC
66 AGTTGAGTCCGAGTTCGTGAAATGTAAC
* *
15733992 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTG
1 TAGGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTG
*
15734057 TGTTGAG-CCTGAGTT
66 AGTTGAGTCC-GAGTT
15734072 TGCTTATGGG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
TAGGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTG
AGTTGAGTCCGAGTTCGTGAAATGTAAC
Found at i:15737458 original size:39 final size:39
Alignment explanation
Indices: 15737404--15737483 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
15737394 ATTTTAGATT
15737404 TTAGCAGATAAGGAAGTGCCAAGTTATCCTTGAGAGACC
1 TTAGCAGATAAGGAAGTGCCAAGTTATCCTTGAGAGACC
15737443 TTAGCAGATAAGGAAGTGCCAAGTTATCCTTGAGAGACC
1 TTAGCAGATAAGGAAGTGCCAAGTTATCCTTGAGAGACC
15737482 TT
1 TT
15737484 TTTTAGCCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (39 bp):
TTAGCAGATAAGGAAGTGCCAAGTTATCCTTGAGAGACC
Found at i:15751625 original size:40 final size:40
Alignment explanation
Indices: 15751581--15751842 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
15751571 GCTCCTCGTT
* *
15751581 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
15751621 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
15751661 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
15751700 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
15751739 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
15751778 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
15751819 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15751843 CATCATTCAA
Statistics
Matches: 204, Mismatches: 10, Indels: 17
0.88 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 127 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:15756938 original size:31 final size:31
Alignment explanation
Indices: 15756900--15756959 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
15756890 TTCATATTTC
*
15756900 ATATTTCATAACACTGGGTTGAAGCCTTTTA
1 ATATTTCATAACACTGGGCTGAAGCCTTTTA
**
15756931 ATATTTCATATTACTGGGCTGAAGCCTTT
1 ATATTTCATAACACTGGGCTGAAGCCTTT
15756960 ACTGTAAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (31 bp):
ATATTTCATAACACTGGGCTGAAGCCTTTTA
Found at i:15757203 original size:24 final size:24
Alignment explanation
Indices: 15757153--15757270 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
15757143 ACTTTATCAT
*
15757153 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
15757178 ATAACTGGGGCAAAATCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
15757202 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
15757225 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
15757248 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
15757271 GCACTTCCTC
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 45 0.53
24 29 0.34
25 11 0.13
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:15757345 original size:20 final size:20
Alignment explanation
Indices: 15757320--15757386 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
15757310 TTATGAATAC
15757320 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
15757340 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
* *
15757360 GTCATGTGCATATCACACAT
1 ATCATGTGCATATCATACAT
*
15757380 ACCATGT
1 ATCATGT
15757387 TTACTAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:15759268 original size:13 final size:13
Alignment explanation
Indices: 15759250--15759274 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15759240 CATATTTTAT
15759250 GTGTGAAAATTTC
1 GTGTGAAAATTTC
15759263 GTGTGAAAATTT
1 GTGTGAAAATTT
15759275 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:15760394 original size:44 final size:43
Alignment explanation
Indices: 15760332--15760457 Score: 146
Period size: 44 Copynumber: 2.9 Consensus size: 43
15760322 AAAAGTCCCA
*
15760332 TTGTGATTTCGTGTAAGACCACGTCTAGGACATTGGCATCAAT
1 TTGTGATTTCGTGTAAGACCACGTCTAGGAAATTGGCATCAAT
* * *
15760375 TTGTGATTTGCGTGTAAGACC-CTGTCTAGGAAAATGGCACCGAT
1 TTGTGATTT-CGTGTAAGACCAC-GTCTAGGAAATTGGCATCAAT
* * * **
15760419 ATGTGATTACATGTAAGACCACGTCTAGGATGTTGGCAT
1 TTGTGATTTCGTGTAAGACCACGTCTAGGAAATTGGCAT
15760458 TGTACTAGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
43 33 0.48
44 36 0.52
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
TTGTGATTTCGTGTAAGACCACGTCTAGGAAATTGGCATCAAT
Found at i:15764823 original size:42 final size:44
Alignment explanation
Indices: 15764731--15764832 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 44
15764721 AGTTCCAACT
* * * * *
15764731 TCTGGGACGTTGGTATCGATTTGTGATTTACATGTAAGACCATG
1 TCTGGGACATTGGTATCGATATATGACTTACATGTAAGACCATA
* * *
15764775 TTTGGGACATTGGTATCG-TATATGACTT-CGTGTAAGACCCTA
1 TCTGGGACATTGGTATCGATATATGACTTACATGTAAGACCATA
*
15764817 TCTGGGACAGTGGTAT
1 TCTGGGACATTGGTAT
15764833 TAATATTTGT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 25 0.52
43 7 0.15
44 16 0.33
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (44 bp):
TCTGGGACATTGGTATCGATATATGACTTACATGTAAGACCATA
Found at i:15772225 original size:27 final size:28
Alignment explanation
Indices: 15772151--15772225 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
15772141 TTGGAAGAAG
15772151 TACTG-TATTAGTGGCTTTGCCACGTAAT
1 TACTGCTATTAGTGGCTTTGCCACGT-AT
*
15772179 TACTGCT-CTAGTGGCTTTGCCACGT-T
1 TACTGCTATTAGTGGCTTTGCCACGTAT
*
15772205 TACTGCTATTAGTAGCTTTGC
1 TACTGCTATTAGTGGCTTTGC
15772226 TGTGCTACTG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.19
27 11 0.26
28 22 0.52
29 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (28 bp):
TACTGCTATTAGTGGCTTTGCCACGTAT
Found at i:15772410 original size:33 final size:33
Alignment explanation
Indices: 15772347--15772410 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
15772337 TGGGTTACAT
* *
15772347 GACTGCACTGTTACTGTATAGGGCTAAGGCCTA
1 GACTGCACTGATACTGTATAGGGCCAAGGCCTA
* *
15772380 GACTGTACTGATACTG-AGTAGGGCCCAGGCC
1 GACTGCACTGATACTGTA-TAGGGCCAAGGCC
15772411 CAGATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (33 bp):
GACTGCACTGATACTGTATAGGGCCAAGGCCTA
Found at i:15778406 original size:46 final size:47
Alignment explanation
Indices: 15778255--15778411 Score: 171
Period size: 46 Copynumber: 3.4 Consensus size: 47
15778245 TCGAATTTCT
* * *
15778255 TGAGTGCCAGTGTAAGACATGTCT-GGACATGCATCGACCAC-ATTA
1 TGAGTGCCAGTGTAAGACATGTTTGGGACATGCATCGACCTCGATGA
* * * * *
15778300 TGAGTGCCATTATAAGACCATGTTTGGTACATGGCATCGACGTAGA-GA
1 TGAGTGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGACCTCGATGA
*
15778348 TGAGTGCTAGTGTAAGACATGTTTGGGACATGCATCG-CCTCGATGA
1 TGAGTGCCAGTGTAAGACATGTTTGGGACATGCATCGACCTCGATGA
15778394 TGA-TAGCCAGTGTAAGAC
1 TGAGT-GCCAGTGTAAGAC
15778412 GTGACTGGGA
Statistics
Matches: 91, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
45 20 0.22
46 29 0.32
47 18 0.20
48 23 0.25
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (47 bp):
TGAGTGCCAGTGTAAGACATGTTTGGGACATGCATCGACCTCGATGA
Found at i:15778473 original size:44 final size:45
Alignment explanation
Indices: 15778263--15778518 Score: 157
Period size: 46 Copynumber: 5.5 Consensus size: 45
15778253 CTTGAGTGCC
* * *
15778263 AGTGTAAGACATGTCT-GGACATGCATCGACC-ACATTATGAGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCTAGATGATGA-TGCT
* * * * *
15778308 ATTATAAGACCATGTTTGGTACATGGCATCGACGTAGA-GATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG-CCTAGATGATGA-TGCT
* * *
15778356 AGTGTAAGACATGTTTGGGACATGCATCGCCTCGATGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCTAGATGATGAT-GCT
* * * * * *
15778402 AGTGTAAGACGTGACTGGGATACGCATCGGCTA-A-GAGTTATGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCTAGATGA-TGATGCT
* *
15778446 AGTGTAAGACATGTCTAGGACATGCATCAGCACGTATATACGA-GA-GCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GC-C-TAGAT--GATGATGCT
*
15778494 AGTATAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
15778519 GTAACGGTAA
Statistics
Matches: 164, Mismatches: 32, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
44 27 0.16
45 17 0.10
46 46 0.28
47 20 0.12
48 35 0.21
49 17 0.10
51 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTAGATGATGATGCT
Found at i:15778830 original size:11 final size:11
Alignment explanation
Indices: 15778814--15778848 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
15778804 TTATGCTTAC
15778814 TCTCTTTCCTT
1 TCTCTTTCCTT
15778825 TCTCTTTCCTT
1 TCTCTTTCCTT
*
15778836 TCTCTTTTCTT
1 TCTCTTTCCTT
15778847 TC
1 TC
15778849 AGTGCCGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (11 bp):
TCTCTTTCCTT
Found at i:15779421 original size:55 final size:55
Alignment explanation
Indices: 15779303--15779421 Score: 166
Period size: 55 Copynumber: 2.2 Consensus size: 55
15779293 TTTTAGTCTA
* *
15779303 TGTTGTACACGGGTAGGCCACACGGGCGTGTGCCATGGCCGTGTCTTAAAGTCAG
1 TGTTGTACACGGGTAGGCCACACGGGCGTGTGCCATGGCCATGTATTAAAGTCAG
* * * * * *
15779358 TATCGTACACGGGTAGGTCACACGGGCGTGTGCCATGGCTATGTATTGAAGTTAG
1 TGTTGTACACGGGTAGGCCACACGGGCGTGTGCCATGGCCATGTATTAAAGTCAG
15779413 TGTTGTACA
1 TGTTGTACA
15779422 TGGGCTAAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (55 bp):
TGTTGTACACGGGTAGGCCACACGGGCGTGTGCCATGGCCATGTATTAAAGTCAG
Found at i:15786945 original size:100 final size:100
Alignment explanation
Indices: 15786807--15786987 Score: 299
Period size: 100 Copynumber: 1.8 Consensus size: 100
15786797 TCTAGTATGC
* * * * *
15786807 ATAGTAGCCTACACTTAGTACTACGCATGTGACTAATTATTCGGTAAATGTAGTAGCCTGCACTT
1 ATAGTAGCCTACACTTAGTACTACACATGCGACAAATTATCCGGTAAACGTAGTAGCCTGCACTT
15786872 AGTACTACACACGTGATCAAAGTTATCAGGTACGA
66 AGTACTACACACGTGATCAAAGTTATCAGGTACGA
* *
15786907 ATAGTAGCCTGCACTTAGTACTACACATGCGACAAATTATCCGGTACACGTAGTAGCCTGCACTT
1 ATAGTAGCCTACACTTAGTACTACACATGCGACAAATTATCCGGTAAACGTAGTAGCCTGCACTT
15786972 AGTACTACACACGTGA
66 AGTACTACACACGTGA
15786988 CCTCACAATA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 74 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (100 bp):
ATAGTAGCCTACACTTAGTACTACACATGCGACAAATTATCCGGTAAACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCAAAGTTATCAGGTACGA
Found at i:15786966 original size:49 final size:48
Alignment explanation
Indices: 15786808--15786988 Score: 227
Period size: 49 Copynumber: 3.7 Consensus size: 48
15786798 CTAGTATGCA
* * * * *
15786808 TAGTAGCCTACACTTAGTACTACGCATGTGACTAATTATTCGGTAAATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACAAATTATCCGGTACA-G
* * *
15786857 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGTACGAA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CAAA-TTATCCGGTAC-AG
*
15786908 TAGTAGCCTGCACTTAGTACTACACATGCGACAAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACAAATTATCCGGTACA-G
*
15786957 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC
15786989 CTCACAATAG
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
48 1 0.01
49 68 0.60
50 7 0.06
51 37 0.32
52 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACAAATTATCCGGTACAG
Found at i:15789002 original size:47 final size:46
Alignment explanation
Indices: 15788932--15789202 Score: 228
Period size: 47 Copynumber: 5.8 Consensus size: 46
15788922 TCGGATTTCT
* * *
15788932 TGAGTGCTAGTGTAACACATGTCTGGGACATGCATCAGCCACATTA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGA
* ** *
15788978 TGAGTGCCAGTATAAGACCATGTCTGGGACATGCATTGGCCACATTA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACATGCATCAGCCACATGA
* * * * * *
15789025 TGAGTGCCAGTATAAGACCATGTCTGGGACATGGAATCGGCGTAGA-GG
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CACATGA
* * *
15789073 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCAACGGCCTCGATGA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGA
* * *
15789120 TGA-TAGCCAGTGTAAGACGTGTCTGGGACACGCATCAGCTA-A-GA
1 TGAGT-GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGA
* * * * *
15789164 -GTTGTGCTAGTGTAAGATATGACTTGGACATGCATCAGC
1 TG-AGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGC
15789203 ACGTATATAC
Statistics
Matches: 186, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
43 1 0.01
44 30 0.16
45 2 0.01
46 22 0.12
47 107 0.58
48 22 0.12
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGA
Found at i:15797051 original size:27 final size:27
Alignment explanation
Indices: 15797007--15797064 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
15796997 AAAATCATAC
* * *
15797007 ATCACATAGGGGCGTAACAATTATTTT
1 ATCACATAGAGGCATAACAATCATTTT
*
15797034 ATCACATAGAGGCATAACAGTCATTTT
1 ATCACATAGAGGCATAACAATCATTTT
15797061 ATCA
1 ATCA
15797065 ATTAGGGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (27 bp):
ATCACATAGAGGCATAACAATCATTTT
Found at i:15814328 original size:27 final size:27
Alignment explanation
Indices: 15814274--15814405 Score: 149
Period size: 27 Copynumber: 4.9 Consensus size: 27
15814264 CAAATCAGTA
* * * *
15814274 ATTTTACCTTACAGGGGTATTACAGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* *
15814301 ATTTTACCCTACAGGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* *
15814328 ATTTTACCCTATGGGGGTATATCGGTC
1 ATTTTACCCTATAGGGGTATTTCGGTC
* *
15814355 ATTTTATCCTATTA-GGGTTTTTCGGTC
1 ATTTTACCCTA-TAGGGGTATTTCGGTC
*
15814382 ATTTTACCCTATAGGGGCATTTCG
1 ATTTTACCCTATAGGGGTATTTCG
15814406 ATCCAACATT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.02
27 85 0.97
28 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCGGTC
Found at i:15815606 original size:17 final size:17
Alignment explanation
Indices: 15815584--15815616 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15815574 AAACTAAAGC
15815584 TCTCCC-CAAAGCTGAAT
1 TCTCCCTCAAA-CTGAAT
15815601 TCTCCCTCAAACTGAA
1 TCTCCCTCAAACTGAA
15815617 ATCAGTGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.24
Consensus pattern (17 bp):
TCTCCCTCAAACTGAAT
Found at i:15815734 original size:24 final size:24
Alignment explanation
Indices: 15815682--15815734 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
15815672 CCCTTGATTT
*
15815682 CCTCCTAAAATCTCTCCTCATATC
1 CCTCCTAAAATCCCTCCTCATATC
* *
15815706 TCTCCTTAAATCCCTCCTACA-ATC
1 CCTCCTAAAATCCCTCCT-CATATC
15815730 CCTCC
1 CCTCC
15815735 AGGACATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (24 bp):
CCTCCTAAAATCCCTCCTCATATC
Found at i:15816190 original size:27 final size:27
Alignment explanation
Indices: 15816176--15816356 Score: 213
Period size: 27 Copynumber: 6.7 Consensus size: 27
15816166 CTTACCATAA
*
15816176 AAGGGCAAAATAGTCATTTTA-CTACAT
1 AAGGGCAAAACAGTCATTTTACCT-CAT
** *
15816203 AAGAACAAAACAATCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
* *
15816230 AA-GGCAAAGCAATCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
* **
15816256 AAGGGCAAAATAGTCATTTTACCAAAAT
1 AAGGGCAAAACAGTCATTTTACC-TCAT
*
15816284 AAGGGCAAAACAGACATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
15816311 AAGGGCAAAACAGTTATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
* *
15816338 AAGGGAAAAATAGTCATTT
1 AAGGGCAAAACAGTCATTT
15816357 ATCAATTTGG
Statistics
Matches: 130, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 23 0.18
27 82 0.63
28 25 0.19
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.27
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTACCTCAT
Found at i:15816311 original size:55 final size:55
Alignment explanation
Indices: 15816160--15816356 Score: 199
Period size: 55 Copynumber: 3.7 Consensus size: 55
15816150 GGGCGTTATA
* * * **
15816160 AGTCATCTTACCATAA-AAGGGCAAAATAGTCATTTTA-CTACATAAGAACAAAAC
1 AGTCATTTTACCATAATAAGGGCAAAACAGACATTTTACCT-CATAAGGGCAAAAC
* * * *
15816214 AATCATTTTACC-TCATAA-GGCAAAGCA-ATCATTTTACCTCATAAGGGCAAAAT
1 AGTCATTTTACCATAATAAGGGCAAAACAGA-CATTTTACCTCATAAGGGCAAAAC
*
15816267 AGTCATTTTACCAAAATAAGGGCAAAACAGACATTTTACCTCATAAGGGCAAAAC
1 AGTCATTTTACCATAATAAGGGCAAAACAGACATTTTACCTCATAAGGGCAAAAC
* * * * *
15816322 AGTTATTTTACC-TCATAAGGGAAAAATAGTCATTT
1 AGTCATTTTACCATAATAAGGGCAAAACAGACATTT
15816357 ATCAATTTGG
Statistics
Matches: 117, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
53 38 0.32
54 36 0.31
55 42 0.36
56 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (55 bp):
AGTCATTTTACCATAATAAGGGCAAAACAGACATTTTACCTCATAAGGGCAAAAC
Found at i:15820116 original size:27 final size:27
Alignment explanation
Indices: 15820081--15820241 Score: 164
Period size: 27 Copynumber: 6.0 Consensus size: 27
15820071 GGTAAAATAG
* *
15820081 TCATCTTACCATAAAAGGGAAAAACAA
1 TCATTTTACCATATAAGGGAAAAACAA
* *
15820108 CCATTTTACCATATAAGGGAAAAACAG
1 TCATTTTACCATATAAGGGAAAAACAA
* *
15820135 TCATTTTACCATATAAGGGCAAAATAGA
1 TCATTTTACCATATAAGGGAAAAACA-A
** * * *
15820163 -CATTTTACTTTATAAGGGAAACATAG
1 TCATTTTACCATATAAGGGAAAAACAA
* *
15820189 TCATTTTACCACATAAGGGCAAAACAA
1 TCATTTTACCATATAAGGGAAAAACAA
*
15820216 TCATTTTACC-TCATAAGGGCAAAACA
1 TCATTTTACCAT-ATAAGGGAAAAACA
15820242 GTCAATTATC
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (27 bp):
TCATTTTACCATATAAGGGAAAAACAA
Found at i:15820144 original size:54 final size:52
Alignment explanation
Indices: 15820074--15820245 Score: 200
Period size: 54 Copynumber: 3.2 Consensus size: 52
15820064 ACATAGGGGT
* * * *
15820074 AAAATAGTCATCTTACCATAAAAGGGAAAAACAACCATTTTACCATATAAGGGA
1 AAAACAGTCATTTTACCATATAAGGGCAAAACAA-CATTTTACC-TATAAGGGA
* *
15820128 AAAACAGTCATTTTACCATATAAGGGCAAAATAGACATTTTACTTTATAAGGGA
1 AAAACAGTCATTTTACCATATAAGGGCAAAACA-ACATTTTAC-CTATAAGGGA
* * * *
15820182 AACATAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCTCATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGCAAAACAA-CATTTTACCT-ATAAGGGA
15820236 AAAACAGTCA
1 AAAACAGTCA
15820246 ATTATCATTT
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
53 2 0.02
54 97 0.97
55 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (52 bp):
AAAACAGTCATTTTACCATATAAGGGCAAAACAACATTTTACCTATAAGGGA
Found at i:15823535 original size:24 final size:24
Alignment explanation
Indices: 15823445--15823540 Score: 93
Period size: 24 Copynumber: 4.0 Consensus size: 24
15823435 ATAACACACC
* *
15823445 ACATTGTGGCCAAGCCACCCCATA
1 ACATTGTGGCCAAGCCACTCAATA
* * * *
15823469 GCATTGTGGCTAAGCAACTCAGTA
1 ACATTGTGGCCAAGCCACTCAATA
* * * * *
15823493 GCGTTTTGGTCAAGCCACTCAAAA
1 ACATTGTGGCCAAGCCACTCAATA
15823517 ACATTGTGGCCAAGCCACTCAATA
1 ACATTGTGGCCAAGCCACTCAATA
15823541 TTACAGATAA
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (24 bp):
ACATTGTGGCCAAGCCACTCAATA
Found at i:15824002 original size:26 final size:26
Alignment explanation
Indices: 15823973--15824025 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15823963 TACATAGTGT
*
15823973 ACTT-ATATTATTTCACATTATGAATA
1 ACTTGATAGTATTTC-CATTATGAATA
* *
15823999 ACTTGATAGTGTTTCCATTATTAATA
1 ACTTGATAGTATTTCCATTATGAATA
15824025 A
1 A
15824026 ATGTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (26 bp):
ACTTGATAGTATTTCCATTATGAATA
Found at i:15827428 original size:55 final size:54
Alignment explanation
Indices: 15827341--15827594 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
15827331 ATTAGGGTTT
*
15827341 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGA
* * * * *
15827396 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGG-A
* * * * *
15827452 AAGG-TCCCATGTAAGACCATGCCAAGGCATGAC-ATT-GTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGA
* *
15827503 AAGGATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC--A--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGA
* *
15827552 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
15827595 GTACCCGCAT
Statistics
Matches: 165, Mismatches: 26, Indels: 22
0.77 0.12 0.10
Matches are distributed among these distances:
49 40 0.24
51 6 0.04
52 30 0.18
53 9 0.05
54 13 0.08
55 62 0.38
56 5 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGA
Found at i:15827537 original size:107 final size:110
Alignment explanation
Indices: 15827348--15827547 Score: 291
Period size: 107 Copynumber: 1.8 Consensus size: 110
15827338 TTTAAGGATA
* *
15827348 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGAAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGAAAGGAAACCATGTAAGA
*
15827413 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
15827458 CCATGTAAGACCATGCCAAGGCATGAC-ATT-GTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGAAAGGAAACCATGTAAG
* *
15827519 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
15827548 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
106 3 0.04
107 46 0.57
108 3 0.04
109 3 0.04
110 26 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGAAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:15827806 original size:16 final size:16
Alignment explanation
Indices: 15827785--15827815 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15827775 ATAAATTTGA
15827785 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
15827801 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
15827816 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:15831587 original size:14 final size:14
Alignment explanation
Indices: 15831568--15831594 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15831558 TTGTTTAAAG
15831568 AGGGTGATTAAAAT
1 AGGGTGATTAAAAT
15831582 AGGGTGATTAAAA
1 AGGGTGATTAAAA
15831595 ACTAAGATTT
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:0.00, G:0.30, T:0.26
Consensus pattern (14 bp):
AGGGTGATTAAAAT
Found at i:15833198 original size:22 final size:22
Alignment explanation
Indices: 15833145--15833189 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
15833135 GAAAATAATC
**
15833145 AAAATTAATCAAAATTTATTAT
1 AAAATTAATTGAAATTTATTAT
15833167 AAAATTAATTGAAATTTATTAT
1 AAAATTAATTGAAATTTATTAT
15833189 A
1 A
15833190 TTAATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAATTAATTGAAATTTATTAT
Found at i:15836857 original size:30 final size:30
Alignment explanation
Indices: 15836799--15836857 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15836789 GCCTTTTGAA
* * *
15836799 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAATTTTT
15836829 AATATTTACAAAAAGA-ACAACCACATTTT
1 AATATTTACAAAAAGAGACAACCA-ATTTT
15836858 GAAAATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAATTTTT
Found at i:15843258 original size:34 final size:34
Alignment explanation
Indices: 15843219--15843288 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
15843209 TAACTTTTTG
15843219 ACCTTTATACTTTAAACTATCAAATTTTCTATTT
1 ACCTTTATACTTTAAACTATCAAATTTTCTATTT
15843253 ACCTTTATACTTTAAACTATCAAATTTTCTATTT
1 ACCTTTATACTTTAAACTATCAAATTTTCTATTT
15843287 AC
1 AC
15843289 GCGATTAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (34 bp):
ACCTTTATACTTTAAACTATCAAATTTTCTATTT
Found at i:15845237 original size:102 final size:102
Alignment explanation
Indices: 15845061--15845469 Score: 784
Period size: 102 Copynumber: 4.0 Consensus size: 102
15845051 CTTTCCTAGG
15845061 TGGTAATCAATCACAAGCTCGTAGTCTTTTAGTAATTCTAACCATCCACTTTGTCTCAAATTCAG
1 TGGTAATCAATCACAAGCTCGTAGTCTTTTAGTAATTCTAACCATCCACTTTGTCTCAAATTCAG
15845126 ATCTTTTTGAGTCATCAAGTATTTCAGGCTTTTGTGA
66 ATCTTTTTGAGTCATCAAGTATTTCAGGCTTTTGTGA
15845163 TGGTAATCAATCACAAGCTCGTAGTCTTTTAGTAATTCTAACCATCCACTTTGTCTCAAATTCAG
1 TGGTAATCAATCACAAGCTCGTAGTCTTTTAGTAATTCTAACCATCCACTTTGTCTCAAATTCAG
15845228 ATCTTTTTGAGTCATCAAGTATTTCAGGCTTTTGTGA
66 ATCTTTTTGAGTCATCAAGTATTTCAGGCTTTTGTGA
15845265 TGGTAATCAATCACAAGCTCGTAGTCTTTTAGTAATTCTAACCATCCACTTTGTCTCAAATTCAG
1 TGGTAATCAATCACAAGCTCGTAGTCTTTTAGTAATTCTAACCATCCACTTTGTCTCAAATTCAG
15845330 ATCTTTTTGAGTCATCAAGTATTTCAGGCTTTTGTGA
66 ATCTTTTTGAGTCATCAAGTATTTCAGGCTTTTGTGA
* *
15845367 TGGTAATCAATCACAAGCTCGTAGTCTTTTAGTAATTCTAACCATCGACATTGTCTCAAATTCTA
1 TGGTAATCAATCACAAGCTCGTAGTCTTTTAGTAATTCTAACCATCCACTTTGTCTCAAATTC-A
15845432 -ATCTTTTTGAGTCATCAAGTATTTCAGGCTTTTGTGA
65 GATCTTTTTGAGTCATCAAGTATTTCAGGCTTTTGTGA
15845469 T
1 T
15845470 CAGAATAGAC
Statistics
Matches: 304, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
102 303 1.00
103 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (102 bp):
TGGTAATCAATCACAAGCTCGTAGTCTTTTAGTAATTCTAACCATCCACTTTGTCTCAAATTCAG
ATCTTTTTGAGTCATCAAGTATTTCAGGCTTTTGTGA
Found at i:15849067 original size:33 final size:33
Alignment explanation
Indices: 15849024--15849090 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
15849014 TAAAGTGAAA
*
15849024 TTATGTGCATATATATATAGTCATATAAAAGTT
1 TTATGCGCATATATATATAGTCATATAAAAGTT
15849057 TTATGCGCATATATATATAGTCATATAAAAGTT
1 TTATGCGCATATATATATAGTCATATAAAAGTT
15849090 T
1 T
15849091 ATCAACGTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (33 bp):
TTATGCGCATATATATATAGTCATATAAAAGTT
Found at i:15853013 original size:42 final size:43
Alignment explanation
Indices: 15852903--15853021 Score: 111
Period size: 42 Copynumber: 2.8 Consensus size: 43
15852893 CTCGTACAAT
* * * ** *
15852903 GCCAATGTCCCA-AAGTGGTCTTACATGTGATCAAATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGAC
* *
15852945 GCC-ACTGTCCTAGACAG-GATCTTACACGAAATCAAATA-CGAC
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATATCGAC
15852987 GCCAACGTCCCAGACGTGGTCTTACACGTAAATCA
1 GCCAACGTCCCAGACGTGGTCTTACACG-AAATCA
15853022 TAAGTCGATG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
41 2 0.03
42 32 0.52
43 26 0.43
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGAC
Found at i:15857694 original size:22 final size:21
Alignment explanation
Indices: 15857669--15857711 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
15857659 CAAATCTATC
15857669 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTT-TTAT
*
15857691 AAAATTAATTAAAATTTTTAT
1 AAAATTAATCAAAATTTTTAT
15857712 GTTAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATTAATCAAAATTTTTAT
Found at i:15859491 original size:36 final size:36
Alignment explanation
Indices: 15859444--15859513 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
15859434 CGAACTGGGT
*
15859444 CATGTAGTCCCAATAGGCCTATCAGCCCTACACGGC
1 CATGTAGTCCCAATAGGCCTATCAGCACTACACGGC
*
15859480 CATGTATTCCCAATAGGCCTATCAGCACTACACG
1 CATGTAGTCCCAATAGGCCTATCAGCACTACACG
15859514 AAGAGAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.21
Consensus pattern (36 bp):
CATGTAGTCCCAATAGGCCTATCAGCACTACACGGC
Found at i:15860115 original size:34 final size:34
Alignment explanation
Indices: 15860036--15860099 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
15860026 GTGTGTGCAT
*
15860036 ACTG-TACTAAAATGGGCTAAGGCCCAGACTACC
1 ACTGATACTGAAATGGGCTAAGGCCCAGACTACC
*
15860069 ACTGATACTGAAATGGGCTCAGGCCCAGACT
1 ACTGATACTGAAATGGGCTAAGGCCCAGACT
15860100 GTTACTGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (34 bp):
ACTGATACTGAAATGGGCTAAGGCCCAGACTACC
Found at i:15861151 original size:12 final size:12
Alignment explanation
Indices: 15861130--15861159 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15861120 CAGAGGTACT
15861130 CGTGGAAGAGGC
1 CGTGGAAGAGGC
*
15861142 CGTGGCAGAGGC
1 CGTGGAAGAGGC
15861154 CGTGGA
1 CGTGGA
15861160 GGTGCTCGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.50, T:0.10
Consensus pattern (12 bp):
CGTGGAAGAGGC
Found at i:15869606 original size:20 final size:21
Alignment explanation
Indices: 15869557--15869617 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
15869547 GTTAATTTTA
*
15869557 AGGACAAATTAAATTCAGCAGCT
1 AGGACAAATTTAATTC-G-AGCT
15869580 AGGACAAATTTAATTCG-GCT
1 AGGACAAATTTAATTCGAGCT
*
15869600 GGGACAAATTTAATTCGA
1 AGGACAAATTTAATTCGA
15869618 CATATAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 19 0.54
22 1 0.03
23 15 0.43
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (21 bp):
AGGACAAATTTAATTCGAGCT
Found at i:15883952 original size:40 final size:40
Alignment explanation
Indices: 15883869--15884211 Score: 467
Period size: 40 Copynumber: 8.6 Consensus size: 40
15883859 TTGAATGCTG
* * * * * *
15883869 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
15883909 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
15883949 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
15883989 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
15884029 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
15884069 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
15884109 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
15884149 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
15884188 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15884212 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:15887710 original size:24 final size:27
Alignment explanation
Indices: 15887676--15887730 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 27
15887666 TGATCACTTG
15887676 TTTTCCTTTCT-TTTTCTCACT-TT-TC
1 TTTTCCTTTCTCTTTT-TCACTCTTCTC
15887701 TTTT-CTTTCTCTTTTTCACTCTTCTC
1 TTTTCCTTTCTCTTTTTCACTCTTCTC
15887727 TTTT
1 TTTT
15887731 TACTCACTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.41
25 10 0.37
26 6 0.22
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTCCTTTCTCTTTTTCACTCTTCTC
Found at i:15887727 original size:15 final size:14
Alignment explanation
Indices: 15887707--15887745 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
15887697 TTTCTTTTCT
15887707 TTCTCTTTTTCACTC
1 TTCTCTTTTT-ACTC
15887722 TTCTCTTTTTACTC
1 TTCTCTTTTTACTC
*
15887736 -ACTCTTTTTA
1 TTCTCTTTTTA
15887746 AAATTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 10 0.43
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (14 bp):
TTCTCTTTTTACTC
Found at i:15894204 original size:6 final size:6
Alignment explanation
Indices: 15894193--15894367 Score: 182
Period size: 6 Copynumber: 28.8 Consensus size: 6
15894183 AACCAAAATG
*
15894193 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
15894241 AGTAA-C AGAATC AGAATC AGAATC AGAATT AGGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
*
15894290 AGAATC AAAATC AGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC
* * *
15894338 AAAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
15894368 GTGAATGCAA
Statistics
Matches: 143, Mismatches: 12, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
5 10 0.07
6 121 0.85
7 8 0.06
8 4 0.03
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:15894208 original size:30 final size:29
Alignment explanation
Indices: 15894172--15894330 Score: 194
Period size: 30 Copynumber: 5.3 Consensus size: 29
15894162 AAGAAACATT
* * *
15894172 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
15894202 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
15894232 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
15894262 ATCAGAATTAGGTAACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
* *
15894293 ATCAAAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
15894323 ATCAGAAT
1 ATCAGAAT
15894331 CAGAATCAAA
Statistics
Matches: 114, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
29 1 0.01
30 82 0.72
31 31 0.27
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.19
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:15894332 original size:30 final size:30
Alignment explanation
Indices: 15894193--15894333 Score: 230
Period size: 30 Copynumber: 4.7 Consensus size: 30
15894183 AACCAAAATG
15894193 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
*
15894223 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATCAGTAACAGAATC
*
15894253 AGAATCAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATCA-GTAACAGAATC
*
15894284 AGAATCAGAATCAAAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATC
15894314 AGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
15894334 AATCAAAATT
Statistics
Matches: 104, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
29 1 0.01
30 74 0.71
31 29 0.28
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.18
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGTAACAGAATC
Found at i:15894521 original size:27 final size:26
Alignment explanation
Indices: 15894485--15894550 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
15894475 AGCATGGCTG
*
15894485 CCAGAACAGATATCATGACAGAGTCA
1 CCAGAACAGATATCATGACAGAGCCA
** *
15894511 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCATGACAGAGCCA
15894538 CCAGAATCAGATA
1 CCAGAA-CAGATA
15894551 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCATGACAGAGCCA
Found at i:15894555 original size:27 final size:27
Alignment explanation
Indices: 15894503--15894558 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
15894493 GATATCATGA
* *
15894503 CAGAGTCACCAGATACAGATATTGTGG
1 CAGAGCCACCAGATACAGATAATGTGG
15894530 CAGAGCCACCAGA-ATCAGATAATGTGG
1 CAGAGCCACCAGATA-CAGATAATGTGG
15894557 CA
1 CA
15894559 AACCCACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGAGCCACCAGATACAGATAATGTGG
Found at i:15894565 original size:27 final size:27
Alignment explanation
Indices: 15894509--15894566 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
15894499 ATGACAGAGT
* * *
15894509 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
15894536 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
15894563 CACC
1 CACC
15894567 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:15894756 original size:22 final size:22
Alignment explanation
Indices: 15894724--15894781 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
15894714 TAAATACGTT
*
15894724 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * * *
15894746 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
15894768 TGGCACAAAGCCAT
1 TGGCACAAAGCCAT
15894782 TAATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:15894949 original size:27 final size:26
Alignment explanation
Indices: 15894869--15894951 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
15894859 TCGATCGGTC
* * *
15894869 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
15894895 ATACAGATATTGTGGCAGAGCCAGCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
15894922 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
15894949 AAC
1 AAC
15894952 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.84
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:15895212 original size:27 final size:27
Alignment explanation
Indices: 15895178--15895345 Score: 214
Period size: 27 Copynumber: 6.2 Consensus size: 27
15895168 GGGTTTCTTG
15895178 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
15895205 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
15895231 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
15895259 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
15895286 GTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
15895312 GAAAATTCTACCCTACAGAGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
15895340 GTAATT
1 GTAATT
15895346 TCACAATCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.02
27 117 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:15895216 original size:54 final size:54
Alignment explanation
Indices: 15895154--15895345 Score: 212
Period size: 54 Copynumber: 3.6 Consensus size: 54
15895144 CAAAATGGTA
* *
15895154 ATTT-TACCCCACAAGGGT-TTCTTGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATT-TCGGTAATTCTACCCTACAGGGGTATTTCAGT
* **
15895207 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* * * * * *
15895261 AATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTC-GAA
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG-T
* *
15895315 AATTCTACCCTAC-AGAGGTATTTCAGTAATT
1 ATTTCTACCCTACAAG-GGTATTTCGGTAATT
15895346 TCACAATCAA
Statistics
Matches: 120, Mismatches: 15, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
53 7 0.06
54 111 0.93
55 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:15895287 original size:81 final size:81
Alignment explanation
Indices: 15895152--15895337 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 81
15895142 GGCAAAATGG
* * * * *
15895152 TAATTTTACCCCACAAGGGT-TTCTTGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACC
1 TAATTCTACCCTACAGGGGTATT-TTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
15895216 CTACAAGGGTATTTCGA
65 CTACAAGGGTATTTCGA
* *
15895233 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
* *
15895298 TATAGGGGTATTTCGA
66 TACAAGGGTATTTCGA
* *
15895314 AAATTCTACCCTACAGAGGTATTT
1 TAATTCTACCCTACAGGGGTATTT
15895338 CAGTAATTTC
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 91 0.98
82 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCGA
Found at i:15895386 original size:27 final size:27
Alignment explanation
Indices: 15895350--15895888 Score: 571
Period size: 27 Copynumber: 20.2 Consensus size: 27
15895340 GTAATTTCAC
*
15895350 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
15895377 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15895404 AA-CTGAGGGT-AAACTAGTAATTCTATA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * * **
15895431 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15895458 AATCGAGGGTAAAATGGTAATTC--T-
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15895482 -AT--AAGGTAAAACAGTAATT-TAGTA
1 AATCGAGGGTAAAACGGTAATTCT-GTA
15895506 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * **
15895533 AATCGAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15895560 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15895587 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15895614 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* ** * **
15895641 AATCAAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15895668 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15895695 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
15895722 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
15895749 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15895776 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
15895803 ACTCGAGGGTAAAACAGTAATT-TAAAA
1 AATCGAGGGTAAAACGGTAATTCT-GTA
* *
15895830 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
15895857 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
15895884 AATCG
1 AATCG
15895889 GGAGTACTTT
Statistics
Matches: 428, Mismatches: 66, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
21 14 0.03
23 3 0.01
25 1 0.00
26 7 0.02
27 394 0.92
28 9 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:15895919 original size:108 final size:108
Alignment explanation
Indices: 15895338--15895878 Score: 744
Period size: 108 Copynumber: 5.1 Consensus size: 108
15895328 AGAGGTATTT
* * * * *
15895338 CAGTAATTTCAC-AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTG
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
* * *
15895402 TAAACTGAGGGT-AAACTAGTAATTCTATAAATCAAGGGTAAAA
66 TAAACTGAGGGTAAAAC-GGTAATTCTGTAAATCGAGGGTAAAA
*
15895445 CAGTAATTTTACAAATCGAGGGTAAAATGGTAATTC--T--AT-AA-GGTAAAACAGTAATT-TA
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCT-
15895503 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
65 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
*
15895547 TAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
* *
15895612 TAAACTGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAA
66 TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * *
15895655 TAGTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTG
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
15895720 TAAA-TCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
66 TAAACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * * * *
15895763 CGGTAATTTTACAAATCAAGGGTAAAACGGTAATTCTGTAACTCGAGGGTAAAACAGTAATT-TA
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCT-
** * *
15895827 AAAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
65 GTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
*
15895871 CGGTAATT
1 CAGTAATT
15895879 CTGTAAATCG
Statistics
Matches: 394, Mismatches: 27, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
101 1 0.00
102 84 0.21
103 5 0.01
104 3 0.01
106 3 0.01
107 15 0.04
108 281 0.71
109 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (108 bp):
CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:15904917 original size:13 final size:13
Alignment explanation
Indices: 15904899--15904923 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15904889 ATACCACTAA
15904899 ATGTAACACCCCT
1 ATGTAACACCCCT
15904912 ATGTAACACCCC
1 ATGTAACACCCC
15904924 AAGACCTGCA
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:0.32, C:0.40, G:0.08, T:0.20
Consensus pattern (13 bp):
ATGTAACACCCCT
Found at i:15908244 original size:56 final size:56
Alignment explanation
Indices: 15908182--15908293 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
15908172 AATCAAACAT
15908182 GTTAGTCACCAAAATCTTCATATCAATCAAGTAATATAGATGAGCTCATTAAGGAA
1 GTTAGTCACCAAAATCTTCATATCAATCAAGTAATATAGATGAGCTCATTAAGGAA
15908238 GTTAGTCACCAAAATCTTCATATCAATCAAGTAATATAGATGAGCTCATTAAGGAA
1 GTTAGTCACCAAAATCTTCATATCAATCAAGTAATATAGATGAGCTCATTAAGGAA
15908294 TATTCTTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (56 bp):
GTTAGTCACCAAAATCTTCATATCAATCAAGTAATATAGATGAGCTCATTAAGGAA
Found at i:15911044 original size:33 final size:33
Alignment explanation
Indices: 15911003--15911100 Score: 110
Period size: 34 Copynumber: 3.0 Consensus size: 33
15910993 CTAATTGCAT
*
15911003 ACTG-TACTGATTCTGTAATGGGCTTAGGCCCC
1 ACTGTTACTGATTCTGAAATGGGCTTAGGCCCC
*
15911035 ACTGTTACTG-TTACTGAAATGGGCTTAGGCCTAC
1 ACTGTTACTGATT-CTGAAATGGGCTTAGGCC-CC
* * * *
15911069 ACTGTTTCTCATTCTAAAATGGGCTAAGGCCC
1 ACTGTTACTGATTCTGAAATGGGCTTAGGCCC
15911101 TAACTTAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
32 6 0.11
33 22 0.40
34 25 0.45
35 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (33 bp):
ACTGTTACTGATTCTGAAATGGGCTTAGGCCCC
Found at i:15920797 original size:93 final size:93
Alignment explanation
Indices: 15920690--15920860 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
15920680 GCCCCTAAGT
* *
15920690 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15920755 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
15920783 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15920848 CGAGTTCGGATGC
66 CGAGTTCGGATGC
15920861 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15920857 original size:46 final size:46
Alignment explanation
Indices: 15920685--15920857 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
15920675 AACCCGCCCC
* * *
15920685 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
15920731 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
15920779 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
15920824 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15920858 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 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 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:15927802 original size:22 final size:22
Alignment explanation
Indices: 15927775--15927827 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
15927765 GTGTGACCGT
15927775 GGGACACGCCTATGTGGTCCAA
1 GGGACACGCCTATGTGGTCCAA
* * * *
15927797 GGGACACACCTGTGTTGTCCTA
1 GGGACACGCCTATGTGGTCCAA
15927819 -GGACACGCC
1 GGGACACGCC
15927828 GTGCTAGAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.21, C:0.30, G:0.30, T:0.19
Consensus pattern (22 bp):
GGGACACGCCTATGTGGTCCAA
Found at i:15927823 original size:43 final size:43
Alignment explanation
Indices: 15927743--15927827 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
15927733 TCACACACCC
*
15927743 ATGTGGTCCAACGGACACACCGGTGTGACCGTGGGACACGCCT
1 ATGTGGTCCAACGGACACACCGGTGTGACCGTAGGACACGCCT
* * *
15927786 ATGTGGTCCAAGGGACACACCTGTGTTGTCC-TAGGACACGCC
1 ATGTGGTCCAACGGACACACCGGTG-TGACCGTAGGACACGCC
15927828 GTGCTAGAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 33 0.89
44 4 0.11
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (43 bp):
ATGTGGTCCAACGGACACACCGGTGTGACCGTAGGACACGCCT
Found at i:15933337 original size:19 final size:19
Alignment explanation
Indices: 15933310--15933347 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15933300 TTAATCGACT
15933310 TCCTCGGAGTAATTCCTTA
1 TCCTCGGAGTAATTCCTTA
*
15933329 TCCTTGGAGTAATTCCTTA
1 TCCTCGGAGTAATTCCTTA
15933348 ATCCCTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (19 bp):
TCCTCGGAGTAATTCCTTA
Found at i:15938037 original size:28 final size:28
Alignment explanation
Indices: 15938005--15938109 Score: 165
Period size: 28 Copynumber: 3.8 Consensus size: 28
15937995 CAAATATGGT
*
15938005 ACTTAGTGTACGAAATATTGAGAATGGC
1 ACTTAGTGTACGAAATATTGAGAATGAC
15938033 ACTTAGTGTACGAAATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
15938061 ACTTAGTGTGCGAGATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
15938089 ACTTAGTGTGCAAAATATTGA
1 ACTTAGTGTACGAAATATTGA
15938110 ATGATTCAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (28 bp):
ACTTAGTGTACGAAATATTGAGAATGAC
Found at i:15947773 original size:46 final size:44
Alignment explanation
Indices: 15947672--15947797 Score: 173
Period size: 46 Copynumber: 2.8 Consensus size: 44
15947662 ATGTAACCAT
*
15947672 GCCGATGCATGTCCCAGACATGTCTGTCACTAGCACATCTCGTA
1 GCCGATGCATGTCCCAGACATGTCTGACACTAGCACATCTCGTA
* * *
15947716 GCCGACGCATGTCCTAGACATGTCTGACACTGGCTAACATCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTGACACTAGC--ACATCTCGTA
*
15947761 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCAC
1 -GCCGATGCATGTCCCAGACATGTCTGACACTAGCAC
15947798 TCGTGTCAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
44 32 0.45
45 1 0.01
46 38 0.54
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTGACACTAGCACATCTCGTA
Found at i:15947869 original size:47 final size:47
Alignment explanation
Indices: 15947672--15947889 Score: 166
Period size: 46 Copynumber: 4.7 Consensus size: 47
15947662 ATGTAACCAT
* * * *
15947672 GCCGATGCATGTCCCAGACATGTCTGT-CACTAGCA--CATCTC-GTA
1 GCCGATGCATGTCCCAGACATGTCT-TACACTGGCACTCATGTCAATG
* * * * * *
15947716 GCCGACGCATGTCCTAGACATGTCTGACACTGGCTA-ACATCTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATGTCAATG
* *
15947762 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTGTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATGTCAATG
* * * * *
15947808 GCTGATGCCTTGTCCCTGACATGGTCTTACACTGGCTCTCAT-T-ATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATGTCA-ATG
*
15947856 GCCGATGCATGTCCCAGACATGTCTAACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
15947890 GCACATACCT
Statistics
Matches: 139, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
44 29 0.21
45 2 0.01
46 60 0.43
47 26 0.19
48 22 0.16
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATGTCAATG
Found at i:15955696 original size:51 final size:51
Alignment explanation
Indices: 15955641--15955740 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
15955631 CTACCACATA
* * * *
15955641 ACATGCAA-CACATCCATAATAAACTCAGACCTCTCAACGAGCTTGGATGTT
1 ACATG-AATCACATCCATAATAAACTCAAACCACTCAACAAGCTCGGATGTT
* * *
15955692 ACATGAATCGCATCCATTATGAACTCAAACCACTCAACAAGCTCGGATG
1 ACATGAATCACATCCATAATAAACTCAAACCACTCAACAAGCTCGGATG
15955741 CTCACATCCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.05
51 39 0.95
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (51 bp):
ACATGAATCACATCCATAATAAACTCAAACCACTCAACAAGCTCGGATGTT
Found at i:15955750 original size:43 final size:42
Alignment explanation
Indices: 15955702--15955789 Score: 113
Period size: 43 Copynumber: 2.1 Consensus size: 42
15955692 ACATGAATCG
* *
15955702 CATCCATTATGAACTCAAACCACTCAACAAGCTCGGATGCTCA
1 CATCCATAATGAACTCAAACCACTCAACAAGCTCAGATGC-CA
* * * *
15955745 CATCCATAATGAACTCGAACCTCTTAACCAGCTCAGATGCCA
1 CATCCATAATGAACTCAAACCACTCAACAAGCTCAGATGCCA
15955787 CAT
1 CAT
15955790 ATCTCACGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 5 0.13
43 34 0.87
ACGTcount: A:0.34, C:0.33, G:0.11, T:0.22
Consensus pattern (42 bp):
CATCCATAATGAACTCAAACCACTCAACAAGCTCAGATGCCA
Found at i:15963542 original size:16 final size:15
Alignment explanation
Indices: 15963518--15963547 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15963508 AACTGTTTTA
15963518 TTACAAATTTCACTC
1 TTACAAATTTCACTC
15963533 TTACATAATTTCACT
1 TTACA-AATTTCACT
15963548 TACTCTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:15963823 original size:50 final size:50
Alignment explanation
Indices: 15963747--15963986 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
15963737 AACAGAAGCC
* * * **
15963747 ATCTGGTACGCGTAGTAGCCTGCACTTAGCACTACACGTGTGACCTAACT
1 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACT
* *
15963797 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGAGACCTAACC
1 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACT
* * *
15963847 ATCTGATACACGTAGTAGCCTACACTTAGTACTACACATGCGACCTAACT
1 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACT
* *
15963897 ATCTGGTACATGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACC
1 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCT--AACT
*** * * *
15963949 ATCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACA
15963987 TGTGTTCTTA
Statistics
Matches: 165, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
50 131 0.79
52 34 0.21
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACT
Found at i:15963918 original size:100 final size:101
Alignment explanation
Indices: 15963745--15963988 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 101
15963735 GTAACAGAAG
* * * * *
15963745 CCATCTGGTACGCGTAGTAGCCTGCACTTAGCACTACACGTGTGACCTAACTATCTGGTACACGT
1 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGT
15963810 AGTAGCCTACACTTAGTACTACACACGAGACCT-AA
66 AGTAGCCTACACTTAGTACTACACACGAGACCTAAA
* *
15963845 CCATCTGATACACGTAGTAGCCTACACTTAGTACTACACATGCGACCTAACTATCTGGTACATGT
1 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGT
*
15963910 AGTAGCCTACACTTAGTACTACACACGTGACCTAAAA
66 AGTAGCCTACACTTAGTACTACACACGAGACCT-AAA
* * * *
15963947 CCATCTTAAACACATAGTAGCCTGCACATAGTACTACACATG
1 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATG
15963989 TGTTCTTACA
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
100 90 0.70
102 39 0.30
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (101 bp):
CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGT
AGTAGCCTACACTTAGTACTACACACGAGACCTAAA
Found at i:15973012 original size:51 final size:50
Alignment explanation
Indices: 15972882--15973126 Score: 278
Period size: 49 Copynumber: 4.9 Consensus size: 50
15972872 TCTATTGTGA
* * *
15972882 GGTCACGTGTATTGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTT
* * * * *
15972931 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTT
* * ** *
15972982 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTT
* **
15973032 GGTCACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTACTGGATAA-TT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTT
* * * * *
15973081 GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
15973127 GCTTTGGCTA
Statistics
Matches: 161, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
49 79 0.49
50 42 0.26
51 40 0.25
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTT
Found at i:15973018 original size:28 final size:28
Alignment explanation
Indices: 15972986--15973069 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
15972976 AACTTTGATC
15972986 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
15973014 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
15973036 ACGTGTGTAGTACTAAGTGCAGGCTAAT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
15973064 ACGTGT
1 ACGTGT
15973070 ACTGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.07
25 6 0.15
26 3 0.07
27 1 0.02
28 14 0.34
29 2 0.05
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:15973156 original size:150 final size:150
Alignment explanation
Indices: 15972881--15973159 Score: 418
Period size: 150 Copynumber: 1.9 Consensus size: 150
15972871 ATCTATTGTG
* *
15972881 AGGTCACGTGTATTGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTATAGTACTAAGTGCAGGCTAATACGTGTACCGGATAATTGGTCGCATGTGTAGT
* * * * *
15972946 ACTAAGTGCAGGCTACTATGCGTACCTGATAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTACAGGCTACTATGCGTACCAGATAACTTTGATCAAGTGTGTAGAAATAAGTGCAGGCT
15973011 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
* *
15973031 AGGTCACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTACTGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTATAGTACTAAGTGCAGGCTAATACGTGTACCGGATAATTGGTCGCATGTGTAGT
* * *
15973096 ACTAAGTACAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTG-A-AAATATGTGCAGG
66 ACTAAGTACAGGCTACTATGCGTACCAGATAACTTT-GAT-CAAGTGTGTAGAAATAAGTGCAGG
15973159 C
129 C
15973160 AACTGAGTAT
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
150 105 0.91
151 3 0.03
152 7 0.06
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (150 bp):
AGGTCACGTGTATAGTACTAAGTGCAGGCTAATACGTGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTACAGGCTACTATGCGTACCAGATAACTTTGATCAAGTGTGTAGAAATAAGTGCAGGCT
ACTACGTGTATCAGATGGTT
Found at i:15977770 original size:99 final size:100
Alignment explanation
Indices: 15977581--15977770 Score: 233
Period size: 99 Copynumber: 1.9 Consensus size: 100
15977571 TGATTGATCG
* *
15977581 CATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGAGCAGGCTACTATG-ATACCCGATAACTTCGATCACATGTGTAGTACTA
* ** *
15977646 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
65 AGTACAGGCTACTACGCATACCAGATGGTTAGGTCA
* * * *
15977682 CATGTGTAGTACTAAGAGCAGGCTACTACATG-TACCGGAT-AGTT-GGTCGCATGTGTAGTACT
1 CATGTGTAGTACTAAGAGCAGGCTACT--ATGATACCCGATAACTTCGATCACATGTGTAGTACT
*
15977744 AAGTACAGGCTACTATGCATACCAGAT
64 AAGTACAGGCTACTACGCATACCAGAT
15977771 AGCTTTGGCT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
99 37 0.49
100 3 0.04
101 33 0.43
103 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (100 bp):
CATGTGTAGTACTAAGAGCAGGCTACTATGATACCCGATAACTTCGATCACATGTGTAGTACTAA
GTACAGGCTACTACGCATACCAGATGGTTAGGTCA
Found at i:15977772 original size:49 final size:50
Alignment explanation
Indices: 15977581--15977772 Score: 194
Period size: 50 Copynumber: 3.8 Consensus size: 50
15977571 TGATTGATCG
* * * * *
15977581 CATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCA
1 CATGTGTAGTACTAAGTACAGGCTACTATGCATACCAGAT-AGTTAGGTCA
* * * ** * *
15977632 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTACAGGCTACTATGCATACCAGATAGTTAGGTCA
* *
15977682 CATGTGTAGTACTAAG-AGCAGGCTACTA--CATGTACCGGATAGTT-GGTCG
1 CATGTGTAGTACTAAGTA-CAGGCTACTATGCA--TACCAGATAGTTAGGTCA
15977731 CATGTGTAGTACTAAGTACAGGCTACTATGCATACCAGATAG
1 CATGTGTAGTACTAAGTACAGGCTACTATGCATACCAGATAG
15977773 CTTTGGCTAC
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
49 39 0.34
50 41 0.35
51 36 0.31
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTACAGGCTACTATGCATACCAGATAGTTAGGTCA
Found at i:16005648 original size:5 final size:5
Alignment explanation
Indices: 16005638--16005735 Score: 65
Period size: 5 Copynumber: 18.2 Consensus size: 5
16005628 TGAATCCTCC
*
16005638 TATTT TATTT TA-TT TATTCT TATTTT TATTT TA-TT TATTT TCTTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT T-ATTT
* * *
16005684 TCTTTT TCTTT TGATTTT TATTT TCATTT CAATTT TATTTT TATTT TATTT
1 T-ATTT TATTT T-A-TTT TATTT T-ATTT -TATTT TA-TTT TATTT TATTT
16005735 T
1 T
16005736 GAAAGACATA
Statistics
Matches: 78, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
4 8 0.10
5 34 0.44
6 30 0.38
7 6 0.08
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:16005667 original size:12 final size:11
Alignment explanation
Indices: 16005638--16005735 Score: 80
Period size: 11 Copynumber: 9.0 Consensus size: 11
16005628 TGAATCCTCC
16005638 TATTTTA-TTT
1 TATTTTATTTT
*
16005648 TA-TTTATTCT
1 TATTTTATTTT
16005658 TATTTT-TATTT
1 TATTTTAT-TTT
16005669 TA-TTTATTTT
1 TATTTTATTTT
*
16005679 CT-TTTTCTTTT
1 -TATTTTATTTT
*
16005690 TCTTTTGATTTT
1 TATTTT-ATTTT
*
16005702 TATTTTCATTTC
1 TATTTT-ATTTT
*
16005714 AATTTTATTTT
1 TATTTTATTTT
16005725 TATTTTATTTT
1 TATTTTATTTT
16005736 GAAAGACATA
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
9 4 0.06
10 14 0.20
11 34 0.49
12 18 0.26
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:16005672 original size:17 final size:16
Alignment explanation
Indices: 16005640--16005735 Score: 72
Period size: 17 Copynumber: 5.9 Consensus size: 16
16005630 AATCCTCCTA
16005640 TTTTATTTTA-TTTAT
1 TTTTATTTTATTTTAT
*
16005655 TCTTATTTTTATTTTA-
1 TTTTA-TTTTATTTTAT
* *
16005671 -TTTATTTTCTTTTTCT
1 TTTTATTTT-ATTTTAT
*
16005687 TTTTCTTTTGATTTTTAT
1 TTTTATTTT-A-TTTTAT
* *
16005705 TTTCATTTCAATTTTAT
1 TTTTATTT-TATTTTAT
16005722 TTTTATTTTATTTT
1 TTTTATTTTATTTT
16005736 GAAAGACATA
Statistics
Matches: 61, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
14 4 0.07
15 11 0.18
16 10 0.16
17 24 0.39
18 12 0.20
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:16005702 original size:7 final size:6
Alignment explanation
Indices: 16005650--16005735 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
16005640 TTTTATTTTA
* * * * * *
16005650 TTTATT CTTATT TTTATT TTATTTAT TTTCTT TTTCTT TTTCTT TTGATT
1 TTTATT TTTATT TTTATT TT-TAT-T TTTATT TTTATT TTTATT TTTATT
* * *
16005700 TTTATT TTCA-T TTCAAT TTTATT TTTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
16005736 GAAAGACATA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
5 10 0.15
6 49 0.74
7 4 0.06
8 3 0.05
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:16013095 original size:47 final size:47
Alignment explanation
Indices: 16013032--16013201 Score: 161
Period size: 47 Copynumber: 3.6 Consensus size: 47
16013022 TATCCATAAG
* *
16013032 TGAACTCGAACTCAACTCAATGAGCTTGGATGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCA
* * *
16013079 TGAACTCGGACTCAACTCAACGTG-TTCGGATG--T--TTGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGTTACAT-C-TCA
* *
16013124 GTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCA
1 -TGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCA
* * * * *
16013172 CGAACTTGGACTCAATTCAATGAGTTTGGA
1 TGAACTCGGACTCAACTCAACGAGCTTGGA
16013202 CGTTCGCATC
Statistics
Matches: 97, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 29 0.30
47 50 0.52
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (47 bp):
TGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCA
Done.