Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 61 of 214
Found at i:17253712 original size:21 final size:21
Alignment explanation
Indices: 17253682--17253734 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
17253672 AAAATATTAT
17253682 AAAA-TATAAAAATATAGAAA
1 AAAATTATAAAAATATAGAAA
* *
17253702 AAAATTATAAAGATATATAAA
1 AAAATTATAAAAATATAGAAA
*
17253723 AAAATCATAAAA
1 AAAATTATAAAA
17253735 TGTGTTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.23
Consensus pattern (21 bp):
AAAATTATAAAAATATAGAAA
Found at i:17253962 original size:59 final size:57
Alignment explanation
Indices: 17253854--17253963 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 57
17253844 TAGAATCAAT
* *
17253854 AAAAATATAAAAAATAAAACAATTGAAAAGTCTAGAAAATTTATTAAAAATTTTAGA
1 AAAAATATAAAAAATAAAACAATTGAAAAGTATAGAAAATTTATGAAAAATTTTAGA
17253911 AAAAATATAAAAATATAAAA-AATT-ATTATAAGTATAGAAAA-TTATAGAAAAAT
1 AAAAATATAAAAA-ATAAAACAATTGA--A-AAGTATAGAAAATTTAT-GAAAAAT
17253964 ATTAATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
56 1 0.02
57 17 0.37
58 11 0.24
59 17 0.37
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (57 bp):
AAAAATATAAAAAATAAAACAATTGAAAAGTATAGAAAATTTATGAAAAATTTTAGA
Found at i:17254003 original size:45 final size:47
Alignment explanation
Indices: 17253900--17254007 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 47
17253890 AAATTTATTA
* *
17253900 AAAATTTTAGAAAAAATATAAAAATATAAAAAATTATTATAAGTATAG
1 AAAATTATAG-AAAAATATAAAAATATAAAAAATTATTATAAATATAG
* *
17253948 AAAATTATAGAAAAATATTAATATAT-AAAAATTATTATAGAATATA-
1 AAAATTATAGAAAAATATAAAAATATAAAAAATTATTATA-AATATAG
17253994 AAAA-TATAGAAAAA
1 AAAATTATAGAAAAA
17254008 AAATTTCAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 10 0.18
46 17 0.31
47 19 0.35
48 9 0.16
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (47 bp):
AAAATTATAGAAAAATATAAAAATATAAAAAATTATTATAAATATAG
Found at i:17261007 original size:50 final size:51
Alignment explanation
Indices: 17260946--17261127 Score: 208
Period size: 51 Copynumber: 3.6 Consensus size: 51
17260936 TGAAAGTGAT
*
17260946 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-ATA
* * * ** * *
17260996 GGTCGCATGTGTAGTATTATGTGCAGGCTACTATGCATACCGGATAGTTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATA
* * * *
17261047 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-ATA
*
17261099 -GTCACATGTATAGTACTATGTGCAGGCTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTA
17261128 TTATGTGAAC
Statistics
Matches: 107, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
50 38 0.36
51 67 0.63
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATA
Found at i:17261190 original size:45 final size:45
Alignment explanation
Indices: 17261136--17261230 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
17261126 TATTATGTGA
* *
17261136 ACCGAACATCATTAATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
17261181 ACCGGACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
17261226 ACCGA
1 ACCGA
17261231 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:17262779 original size:21 final size:20
Alignment explanation
Indices: 17262729--17262784 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 20
17262719 ATTAAATGGA
17262729 AATTGCAAATGATATGATTTG
1 AATTG-AAATGATATGATTTG
*
17262750 AATT-AAATGA-ATTATTGTG
1 AATTGAAATGATATGATT-TG
17262769 ATATTGAAATGTATAT
1 A-ATTGAAATG-ATAT
17262785 TGGATTGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 5 0.17
19 9 0.31
20 3 0.10
21 9 0.31
22 1 0.03
23 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (20 bp):
AATTGAAATGATATGATTTG
Found at i:17264515 original size:40 final size:40
Alignment explanation
Indices: 17264463--17264701 Score: 379
Period size: 40 Copynumber: 5.9 Consensus size: 40
17264453 ATTACCACAA
* * * *
17264463 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
17264503 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
17264543 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
17264583 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
17264625 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
17264665 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
17264702 ATGCTCATGC
Statistics
Matches: 184, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 145 0.79
42 39 0.21
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:17264652 original size:122 final size:120
Alignment explanation
Indices: 17264463--17264701 Score: 388
Period size: 122 Copynumber: 2.0 Consensus size: 120
17264453 ATTACCACAA
* * * *
17264463 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* * *
17264528 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
*
17264583 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTGCGGGTCTTAACCCGGATATA-G-CAACTCGCACAAATGCCTTCGGGTCTTAG
17264648 CCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAA
64 CCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAA
17264702 ATGCTCATGC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
120 29 0.27
121 1 0.01
122 79 0.72
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (120 bp):
GCACAAATGCCTGCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
Found at i:17264657 original size:82 final size:81
Alignment explanation
Indices: 17264463--17264698 Score: 393
Period size: 82 Copynumber: 2.9 Consensus size: 81
17264453 ATTACCACAA
* * * * *
17264463 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
*
17264528 CGGATATA-TCAACTT
66 CGGATATATTCAACTC
17264543 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
17264608 CGGATATATGTCAACTC
66 CGGATATAT-TCAACTC
*
17264625 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
17264690 CGGATATAT
66 CGGATATAT
17264699 CAAATGCTCA
Statistics
Matches: 147, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
80 68 0.46
82 79 0.54
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (81 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
CGGATATATTCAACTC
Found at i:17273133 original size:40 final size:39
Alignment explanation
Indices: 17273067--17273222 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 39
17273057 ATTACCACAA
* * *
17273067 GCACAATTGCCTTC-GGTCTTAACCCGGGTATAGCAACTC
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
17273106 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
17273146 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
17273186 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATCAA
17273223 ATGCTCATGC
Statistics
Matches: 107, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
39 13 0.12
40 92 0.86
41 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:17273150 original size:79 final size:80
Alignment explanation
Indices: 17273067--17273222 Score: 260
Period size: 80 Copynumber: 2.0 Consensus size: 80
17273057 ATTACCACAA
* * *
17273067 GCACAATTGCCTTC-GGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
17273131 CGGATATATCAACTT
66 CGGATATATCAACTT
* *
17273146 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
17273211 CGGATATATCAA
66 CGGATATATCAA
17273223 ATGCTCATGC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
79 14 0.20
80 57 0.80
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (80 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTGCGGGTCTTAGCC
CGGATATATCAACTT
Found at i:17280384 original size:46 final size:46
Alignment explanation
Indices: 17280310--17280692 Score: 574
Period size: 46 Copynumber: 8.6 Consensus size: 46
17280300 TACGTATGAT
* *
17280310 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17280354 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17280400 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
17280446 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCTAAAGTTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17280492 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
17280538 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17280584 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
17280620 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
17280666 CACTTATCACTTTATCTCTTAATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17280693 AGTACTCAAA
Statistics
Matches: 314, Mismatches: 13, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
36 29 0.09
38 2 0.01
39 1 0.00
40 3 0.01
42 3 0.01
43 1 0.00
44 12 0.04
45 5 0.02
46 258 0.82
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:17280625 original size:36 final size:36
Alignment explanation
Indices: 17280584--17280656 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
17280574 CTAAAGCTAC
*
17280584 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
17280620 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
17280656 C
1 C
17280657 TAAAGCTACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:17280632 original size:82 final size:82
Alignment explanation
Indices: 17280538--17280692 Score: 292
Period size: 82 Copynumber: 1.9 Consensus size: 82
17280528 CTAAAGCTAA
*
17280538 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
*
17280603 TGATCAGATAAGTGTAG
66 TAATCAGATAAGTGTAG
17280620 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
17280685 TAATCAGA
66 TAATCAGA
17280693 AGTACTCAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
TAATCAGATAAGTGTAG
Found at i:17283920 original size:18 final size:19
Alignment explanation
Indices: 17283894--17283929 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17283884 TTGTGTTTGG
*
17283894 TTGTTTTTGTTTT-TGTGT
1 TTGTGTTTGTTTTATGTGT
17283912 TTGTGTTTGTTTTATGTG
1 TTGTGTTTGTTTTATGTG
17283930 CAGCGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.03, C:0.00, G:0.25, T:0.72
Consensus pattern (19 bp):
TTGTGTTTGTTTTATGTGT
Found at i:17292707 original size:24 final size:24
Alignment explanation
Indices: 17292680--17292728 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
17292670 CAATTTTATT
*
17292680 TTATATAATATACATAATTCATAC
1 TTATATAATATACATAATCCATAC
*
17292704 TTATATAATATACATGATCCATAC
1 TTATATAATATACATAATCCATAC
17292728 T
1 T
17292729 AAAAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (24 bp):
TTATATAATATACATAATCCATAC
Found at i:17298303 original size:41 final size:41
Alignment explanation
Indices: 17298225--17298322 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
17298215 ATAAAGCCTA
*
17298225 CTAGGCATAAAGCCTGATAATATACACCGACACGAAGCCCG
1 CTAGGCACAAAGCCTGATAATATACACCGACACGAAGCCCG
* ** * * **
17298266 CTAGGCACAAAGCCTGATAATCTACATTGGCATGAAGCTTG
1 CTAGGCACAAAGCCTGATAATATACACCGACACGAAGCCCG
17298307 CTAGGCACAAAGCCTG
1 CTAGGCACAAAGCCTG
17298323 CTAGGTACAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.18
Consensus pattern (41 bp):
CTAGGCACAAAGCCTGATAATATACACCGACACGAAGCCCG
Found at i:17298319 original size:16 final size:16
Alignment explanation
Indices: 17298300--17298338 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
17298290 CATTGGCATG
*
17298300 AAGCTTGCTAGGCACA
1 AAGCCTGCTAGGCACA
*
17298316 AAGCCTGCTAGGTACA
1 AAGCCTGCTAGGCACA
17298332 AAGCCTG
1 AAGCCTG
17298339 GTAATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.18
Consensus pattern (16 bp):
AAGCCTGCTAGGCACA
Found at i:17303029 original size:41 final size:41
Alignment explanation
Indices: 17302972--17303128 Score: 188
Period size: 41 Copynumber: 3.8 Consensus size: 41
17302962 TTTTGTAAGT
* *
17302972 TCAGGCTTTGTGCCTAGCAGGCTTTATGCCAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
**
17303013 TCAGGCTTTATGCCTAGCAGGCTTTATATCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* * * * * * *
17303054 TCAGACTTTATGTCTAGCAGGCTTTGTTCTGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* * *
17303095 TCGGGCTTTGTGCCTAGTAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTG
17303129 TTTTATACAA
Statistics
Matches: 96, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:17303932 original size:18 final size:17
Alignment explanation
Indices: 17303904--17303940 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
17303894 TTCGAAAGTA
17303904 ATATGTGTATTATATAT
1 ATATGTGTATTATATAT
*
17303921 ATATGATGTATTATGTAT
1 ATATG-TGTATTATATAT
17303939 AT
1 AT
17303941 GCTGCCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (17 bp):
ATATGTGTATTATATAT
Found at i:17304008 original size:69 final size:69
Alignment explanation
Indices: 17303932--17304337 Score: 605
Period size: 69 Copynumber: 5.9 Consensus size: 69
17303922 TATGATGTAT
* * *
17303932 TATGTATATGCTGCCTATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
17303997 TTGG
66 TTGG
* * * * *
17304001 TATGTATATGTTGCCTATTTGTTGTATATATGCTATTAAATTTTGGTGTAAAAATGCTGCTCAAT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
17304066 TTGG
66 TTGG
* * *
17304070 TATGTATATGCTGCCTATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCAGTTAAAT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
17304135 TTGG
66 TTGG
* * *
17304139 TATGTATATGTTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGTTGTTAAAT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
17304204 TTGG
66 TTGG
* * *
17304208 TATGTATATACTGCCTATTTGCTGTATATATGCTATTAAATTTTGGTGTAAAAGTGCTGTTAAAT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
17304273 TTGG
66 TTGG
* * * * *
17304277 TATGTATATGCTGCCTATTTGCTGTATATAAGCTGTCCAAATTTTGTTCTATAAATGCTGT
1 TATGTATATGCTGCCTATTTGCTGTATATATGCTGT-TAAATTTTGGTGTAAAAATGCTGT
17304338 CCACATTGAT
Statistics
Matches: 312, Mismatches: 24, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
69 293 0.94
70 19 0.06
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.46
Consensus pattern (69 bp):
TATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGTTAAAT
TTGG
Found at i:17306089 original size:20 final size:20
Alignment explanation
Indices: 17306064--17306103 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17306054 AATATTTTCC
*
17306064 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
17306084 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
17306104 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:17306109 original size:34 final size:35
Alignment explanation
Indices: 17306052--17306118 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
17306042 CAAACACCAC
*
17306052 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
17306087 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
17306119 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:17306110 original size:14 final size:14
Alignment explanation
Indices: 17306087--17306126 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
17306077 ACAGAAAAGT
*
17306087 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
17306101 AAATCATTTTACGG
1 AAAACATTTTACAG
17306115 AAAACATTTTAC
1 AAAACATTTTAC
17306127 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:17314832 original size:123 final size:123
Alignment explanation
Indices: 17314679--17314923 Score: 393
Period size: 123 Copynumber: 2.0 Consensus size: 123
17314669 TACAAGTTAC
* * *
17314679 CTAATATAATACACTGGCACAAAGCCTGCTAGACTCAATGCCTAATAATATACACCGACTCGAAG
1 CTAATATAATACACTGGCACAAAGCCTGCTAGACACAAAGCCTAATAATATACACCGACACGAAG
*
17314744 CCTGCTAGGCACAAAGCCTGATAATCTACACCAGCACGAAGCCTGCAAGGCACAAAGG
66 CCTGCTAGGCACAAAGCCTGATAATATACACCAGCACGAAGCCTGCAAGGCACAAAGG
* * *
17314802 CTAATA-ATATACACTGGCACGAAGCCTGCTAGGCACAAAGCCTAATAATATACACCGGCACGAA
1 CTAATATA-ATACACTGGCACAAAGCCTGCTAGACACAAAGCCTAATAATATACACCGACACGAA
* *
17314866 GCCTGCTAGGCACAAAGCCTGATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
65 GCCTGCTAGGCACAAAGCCTGATAATATACACCAGCACGAAGCCTGCAAGGCACAAAG
17314924 CCTGTGAGGA
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
122 1 0.01
123 111 0.99
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.16
Consensus pattern (123 bp):
CTAATATAATACACTGGCACAAAGCCTGCTAGACACAAAGCCTAATAATATACACCGACACGAAG
CCTGCTAGGCACAAAGCCTGATAATATACACCAGCACGAAGCCTGCAAGGCACAAAGG
Found at i:17314927 original size:41 final size:41
Alignment explanation
Indices: 17314678--17314926 Score: 356
Period size: 41 Copynumber: 6.1 Consensus size: 41
17314668 ATACAAGTTA
* * * * *
17314678 CCTAAT-ATAATACACTGGCACAAAGCCTGCTAGACTCAATG
1 CCTAATAAT-ATACACCGGCACGAAGCCTGCTAGGCACAAAG
* *
17314719 CCTAATAATATACACCGACTCGAAGCCTGCTAGGCACAAAG
1 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
* * * *
17314760 CCTGATAATCTACACCAGCACGAAGCCTGCAAGGCACAAAG
1 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
* *
17314801 GCTAATAATATACACTGGCACGAAGCCTGCTAGGCACAAAG
1 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
17314842 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
1 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
*
17314883 CCTGATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
1 CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
17314924 CCT
1 CCT
17314927 GTGAGGATAC
Statistics
Matches: 185, Mismatches: 22, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
41 183 0.99
42 2 0.01
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (41 bp):
CCTAATAATATACACCGGCACGAAGCCTGCTAGGCACAAAG
Found at i:17347863 original size:18 final size:17
Alignment explanation
Indices: 17347836--17347871 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
17347826 AATAAGTAGC
*
17347836 AAAAATTTTAAAATGAAA
1 AAAAAATTTAAAAT-AAA
17347854 AAAAAATTTAAAATAAA
1 AAAAAATTTAAAATAAA
17347871 A
1 A
17347872 TGCAAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAAATTTAAAATAAA
Found at i:17349029 original size:13 final size:13
Alignment explanation
Indices: 17349011--17349051 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
17349001 CAAAGCACGG
17349011 TTAAAAGATATTA
1 TTAAAAGATATTA
17349024 TTAAAAGATATTA
1 TTAAAAGATATTA
*
17349037 TT-AAAGATATGA
1 TTAAAAGATATTA
17349049 TTA
1 TTA
17349052 TGGGTTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (13 bp):
TTAAAAGATATTA
Found at i:17349044 original size:12 final size:12
Alignment explanation
Indices: 17349014--17349051 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
17349004 AGCACGGTTA
17349014 AAAGATATTATT
1 AAAGATATTATT
17349026 AAAAGATATTATT
1 -AAAGATATTATT
*
17349039 AAAGATATGATT
1 AAAGATATTATT
17349051 A
1 A
17349052 TGGGTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (12 bp):
AAAGATATTATT
Found at i:17349562 original size:5 final size:4
Alignment explanation
Indices: 17349532--17349571 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
17349522 AAGTCAAACA
17349532 AAAT AAAT AAAT AAGAT AAAT AAAT AGAAT -AAT AAAT AAA
1 AAAT AAAT AAAT AA-AT AAAT AAAT A-AAT AAAT AAAT AAA
17349572 AGATTAGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.09
4 23 0.70
5 7 0.21
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:17349567 original size:12 final size:13
Alignment explanation
Indices: 17349534--17349570 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
17349524 GTCAAACAAA
17349534 ATAAATAAATAAG
1 ATAAATAAATAAG
17349547 ATAAATAAAT-AG
1 ATAAATAAATAAG
17349559 A-ATAATAAATAA
1 ATA-AATAAATAA
17349571 AAGATTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.05
12 10 0.45
13 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (13 bp):
ATAAATAAATAAG
Found at i:17353277 original size:48 final size:48
Alignment explanation
Indices: 17353210--17353380 Score: 164
Period size: 48 Copynumber: 3.4 Consensus size: 48
17353200 TATTAAATAT
**
17353210 TTTAAAATTTTTAAAATAATATTATTTCAAACATAGATTATTTATAAA
1 TTTAAAATAATTAAAATAATATTATTTCAAACATAGATTATTTATAAA
* *** * **
17353258 TTTAAAATAATTAAAATAATTAATTTTATTATTATTTATTAAAATTATATTATTTA
1 TTTAAAATAATTAAAATAA-T-A--TTATT-TCAAACA-T-AGATTAT-TTATAAA
**
17353314 -TTAAAATTTTTAAAATAATATTATTTCAAACATAGATTATTTATAAA
1 TTTAAAATAATTAAAATAATATTATTTCAAACATAGATTATTTATAAA
17353361 TTTAAAATAATTAAAATAAT
1 TTTAAAATAATTAAAATAAT
17353381 TAATTTTATT
Statistics
Matches: 94, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
47 5 0.05
48 40 0.43
49 2 0.02
50 4 0.04
51 5 0.05
52 5 0.05
53 4 0.04
54 2 0.02
55 22 0.23
56 5 0.05
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (48 bp):
TTTAAAATAATTAAAATAATATTATTTCAAACATAGATTATTTATAAA
Found at i:17353303 original size:21 final size:20
Alignment explanation
Indices: 17353279--17353323 Score: 67
Period size: 18 Copynumber: 2.3 Consensus size: 20
17353269 TAAAATAATT
17353279 AATTTTATTATTATTTATTAA
1 AATTTTA-TATTATTTATTAA
17353300 AA--TTATATTATTTATTAA
1 AATTTTATATTATTTATTAA
17353318 AATTTT
1 AATTTT
17353324 TAAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 15 0.68
19 3 0.14
20 2 0.09
21 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTATATTATTTATTAA
Found at i:17353310 original size:18 final size:18
Alignment explanation
Indices: 17353287--17353321 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17353277 TTAATTTTAT
17353287 TATTATTTATTAAAATTA
1 TATTATTTATTAAAATTA
17353305 TATTATTTATTAAAATT
1 TATTATTTATTAAAATT
17353322 TTTAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTATTTATTAAAATTA
Found at i:17353404 original size:48 final size:49
Alignment explanation
Indices: 17353249--17353406 Score: 135
Period size: 48 Copynumber: 3.1 Consensus size: 49
17353239 AACATAGATT
17353249 ATTTATAAATTTAAAATAATTAAAATAATTAATTTTATTATTATTTATTAAA
1 ATTTATAAATTTAAAATAATTAAAATAATTAATTTTATTATTA--TATT-AA
** ** * * * * *
17353301 ATTATATTATTTATTAAAATTTTTAAAATAATATTATTTCA-AACATAGATT--
1 ATT-TA-TAAAT-TTAAAATAATTAAAATAAT-TAATTTTATTA-TTATATTAA
17353352 ATTTATAAATTTAAAATAATTAAAATAATTAATTTTATTATTA-ATTAA
1 ATTTATAAATTTAAAATAATTAAAATAATTAATTTTATTATTATATTAA
17353400 ATTTATA
1 ATTTATA
17353407 TAGGTGAAGA
Statistics
Matches: 81, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
46 3 0.04
47 8 0.10
48 25 0.31
49 3 0.04
50 2 0.02
51 3 0.04
52 3 0.04
53 2 0.02
54 6 0.07
55 18 0.22
56 8 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (49 bp):
ATTTATAAATTTAAAATAATTAAAATAATTAATTTTATTATTATATTAA
Found at i:17353432 original size:103 final size:101
Alignment explanation
Indices: 17353222--17353407 Score: 284
Period size: 103 Copynumber: 1.8 Consensus size: 101
17353212 TAAAATTTTT
17353222 AAAATAATATTATTTCAAACATAGATTATTTATAAATTTAAAATAATTAAAATAATTAATTTTAT
1 AAAATAATATTATTTCAAACATAGATTATTTATAAATTTAAAATAATTAAAATAATTAATTTTAT
** ****
17353287 TATTATTTATTAAAATTATATTATTTATTAAAATTTTT
66 TATTA--TATTAAAATTATATTATAGATTAAAATAAGA
17353325 AAAATAATATTATTTCAAACATAGATTATTTATAAATTTAAAATAATTAAAATAATTAATTTTAT
1 AAAATAATATTATTTCAAACATAGATTATTTATAAATTTAAAATAATTAAAATAATTAATTTTAT
*
17353390 TATTA-ATTAAATTTATAT
66 TATTATATTAAAATTATAT
17353408 AGGTGAAGAT
Statistics
Matches: 82, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
100 12 0.15
103 70 0.85
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (101 bp):
AAAATAATATTATTTCAAACATAGATTATTTATAAATTTAAAATAATTAAAATAATTAATTTTAT
TATTATATTAAAATTATATTATAGATTAAAATAAGA
Found at i:17355248 original size:28 final size:27
Alignment explanation
Indices: 17355161--17355260 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 27
17355151 GAAAACTAGT
* * *
17355161 GTGCTTATCGTATTATTTCGCACTTCA
1 GTGCTTATCTTATTATTTTGCACTTCG
** * *
17355188 GTGCTTATCGTTGTAAAAATTTGCACTTTG
1 GTGCTTATC--T-TATTATTTTGCACTTCG
17355218 GTGCTTATCATTATTATTTTGCACTTCG
1 GTGCTTATC-TTATTATTTTGCACTTCG
17355246 GTGCTTATCGTTATT
1 GTGCTTATC-TTATT
17355261 TGCACTTTGT
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
27 9 0.16
28 27 0.47
29 1 0.02
30 20 0.35
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (27 bp):
GTGCTTATCTTATTATTTTGCACTTCG
Found at i:17355266 original size:52 final size:53
Alignment explanation
Indices: 17355160--17355274 Score: 137
Period size: 58 Copynumber: 2.1 Consensus size: 53
17355150 AGAAAACTAG
17355160 TGTGCTTATCGTATTATTTCGCACTTCAGTGCTTATCGTTGTAAAAATTTGCACTT
1 TGTGCTTATCGTATTATTTCGCACTTCAGTGCTTATCGTTGT---AATTTGCACTT
* * *
17355216 TGGTGCTTATCATTATTATTTTGCACTTCGGTGCTTATCG-T-T-ATTTGCACTT
1 T-GTGCTTATC-GTATTATTTCGCACTTCAGTGCTTATCGTTGTAATTTGCACTT
17355268 TGTGCTT
1 TGTGCTT
17355275 GGTGATATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
51 6 0.11
52 11 0.20
56 2 0.04
57 10 0.19
58 25 0.46
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (53 bp):
TGTGCTTATCGTATTATTTCGCACTTCAGTGCTTATCGTTGTAATTTGCACTT
Found at i:17381481 original size:26 final size:26
Alignment explanation
Indices: 17381446--17381505 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
17381436 ACACGTCAGA
* * *
17381446 AAATAGAAGCCTTTGTGGCGTATCTG
1 AAATGGAAGCCTTAGTGGCGTAACTG
17381472 AAATGGAAGCCTTAGTGGCGTAACTG
1 AAATGGAAGCCTTAGTGGCGTAACTG
17381498 AAATGGAA
1 AAATGGAA
17381506 ACCATTGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.25
Consensus pattern (26 bp):
AAATGGAAGCCTTAGTGGCGTAACTG
Found at i:17383046 original size:88 final size:91
Alignment explanation
Indices: 17382939--17383105 Score: 218
Period size: 93 Copynumber: 1.8 Consensus size: 91
17382929 ATATCTAACC
*
17382939 TATAAATAAATGACAATTTCTTCA-C-TAT-TTAAAAAGTTAA-TTTAATCCTACACTGACTAGA
1 TATAAACAAATGACAATTTCTTCACCGTATCTTAAAAAGTTAATTTTAATCC-ACACTGACTAGA
17383000 -AAGCACTCTCATATATCACATTTGCCT
65 GAA-CACTCTCATATATCACATTTGCCT
* * * *
17383027 TATAAACAAGTGACAATTTCTTCACCGTTTCCATTAAAAAGTTAATTTTAATCCATATTGACTAG
1 TATAAACAAATGACAATTTCTTCACCGTAT-C-TTAAAAAGTTAATTTTAATCCACACTGACTAG
17383092 AGAACACTCTCATA
64 AGAACACTCTCATA
17383106 GTTCACTTCT
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
88 22 0.33
89 1 0.01
90 2 0.03
93 32 0.48
94 10 0.15
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (91 bp):
TATAAACAAATGACAATTTCTTCACCGTATCTTAAAAAGTTAATTTTAATCCACACTGACTAGAG
AACACTCTCATATATCACATTTGCCT
Found at i:17383147 original size:70 final size:72
Alignment explanation
Indices: 17383062--17383207 Score: 197
Period size: 71 Copynumber: 2.1 Consensus size: 72
17383052 CGTTTCCATT
* * **
17383062 AAAAAGTTAATTTTAATC-CATATTGACTAGAGAACACTCTCATAGTTCAC-TTCTTCACTATTT
1 AAAAAGTTAATTTTAATCTCAAATTGACTAGAGAACACTCCCATAACTCACTTTCTTCACTATTT
*
17383125 TTATTAA
66 TCATTAA
* * * *
17383132 AAAAAGTTAATTTTAATCTTAAATTGACTAGAGAATACTCCCATAACTCACTTTTTTTACTATTT
1 AAAAAGTTAATTTTAATCTCAAATTGACTAGAGAACACTCCCATAACTCACTTTCTTCACTATTT
17383197 TCATTAA
66 TCATTAA
17383204 AAAA
1 AAAA
17383208 TAATTTTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
70 18 0.28
71 26 0.40
72 21 0.32
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (72 bp):
AAAAAGTTAATTTTAATCTCAAATTGACTAGAGAACACTCCCATAACTCACTTTCTTCACTATTT
TCATTAA
Found at i:17383224 original size:71 final size:69
Alignment explanation
Indices: 17383044--17383225 Score: 181
Period size: 71 Copynumber: 2.6 Consensus size: 69
17383034 AAGTGACAAT
** * * * * *
17383044 TTCTTCACCGTTTCCATTAAAAAGTTAATTTTAATCC--ATATTGACTAGAGAACACTCTCATAG
1 TTCTTCACTATTTTCATTAAAAA-ATAATTTTAATCCTTAAATTGACTAGAGAACACTCCCATAA
*
17383107 TTCAC
65 CTCAC
* *
17383112 TTCTTCACTATTTTTATTAAAAAAAGTTAATTTTAAT-CTTAAATTGACTAGAGAATACTCCCAT
1 TTCTTCACTATTTTCATT-AAAAAA--TAATTTTAATCCTTAAATTGACTAGAGAACACTCCCAT
17383176 AACTCAC
63 AACTCAC
* *
17383183 TTTTTTTACTATTTTCATTAAAAAATAATTTTAATTCCTTAAA
1 -TTCTTCACTATTTTCATTAAAAAATAATTTTAA-TCCTTAAA
17383226 ACGTTAATTT
Statistics
Matches: 93, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
68 14 0.15
69 15 0.16
70 11 0.12
71 38 0.41
72 15 0.16
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.42
Consensus pattern (69 bp):
TTCTTCACTATTTTCATTAAAAAATAATTTTAATCCTTAAATTGACTAGAGAACACTCCCATAAC
TCAC
Found at i:17386522 original size:21 final size:21
Alignment explanation
Indices: 17386496--17386550 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
17386486 AACAGCGGTG
*
17386496 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
17386517 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
17386538 GCGGTGAGATTAG
1 GCGGTGAGATTAG
17386551 AAACAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:17386862 original size:22 final size:22
Alignment explanation
Indices: 17386812--17386886 Score: 98
Period size: 22 Copynumber: 3.3 Consensus size: 22
17386802 TTTTATAGTT
*
17386812 ATAATTAAATATT-TTTTTATAACA
1 ATAA-TAAATATTATTTTCAT--CA
17386836 ATAATAAATATTATTTTCATCA
1 ATAATAAATATTATTTTCATCA
*
17386858 ATAATAAATATTATTTTCATAA
1 ATAATAAATATTATTTTCATCA
17386880 ATAATAA
1 ATAATAA
17386887 CATTATACTT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
22 30 0.62
23 8 0.17
24 10 0.21
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATTATTTTCATCA
Found at i:17403757 original size:40 final size:40
Alignment explanation
Indices: 17403713--17403790 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
17403703 TGAAGTGTTT
* *
17403713 ATATGAATTAGTTATATAAAAATAGATAGATGGAATGGTA
1 ATATGAATCAGTTATATAAAAATAGATAGATGAAATGGTA
* ** *
17403753 ATATGAATCGGTTATATGGAAATAGATATATGAAATGG
1 ATATGAATCAGTTATATAAAAATAGATAGATGAAATGG
17403791 AACATTTGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (40 bp):
ATATGAATCAGTTATATAAAAATAGATAGATGAAATGGTA
Found at i:17406713 original size:5 final size:5
Alignment explanation
Indices: 17406703--17406737 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
17406693 AAGTTATGAT
17406703 AAATA AAATA AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA
17406738 TTATCATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:17407682 original size:25 final size:25
Alignment explanation
Indices: 17407582--17407701 Score: 84
Period size: 25 Copynumber: 4.8 Consensus size: 25
17407572 ACGGACACAC
* *
17407582 CACAGCTTGTATGAGC-TAACTGATT
1 CACAGCTCGTATGAGCAT-ACCGATT
* * *
17407607 TACAGCTCGTGA-GAGCTTATCGATT
1 CACAGCTCGT-ATGAGCATACCGATT
* * * *
17407632 CTCAGTTCATATGAGCTTACCGATT
1 CACAGCTCGTATGAGCATACCGATT
*
17407657 CACAGCTCGTGA-GAGCATACCAATT
1 CACAGCTCGT-ATGAGCATACCGATT
* *
17407682 CATAGCTTGTATGAGCATAC
1 CACAGCTCGTATGAGCATAC
17407702 ATGTATATGA
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
24 2 0.03
25 69 0.93
26 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCGATT
Found at i:17407695 original size:50 final size:50
Alignment explanation
Indices: 17407584--17407697 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 50
17407574 GGACACACCA
* * * * *
17407584 CAGCTTGTATGAGCTAACTGATTTACAGCTCGTGAGAGCTTATCGATTCT
1 CAGCTTGTATGAGCTAACCGATTCACAGCTCGTGAGAGCATACCAATTCT
* *
17407634 CAG-TTCATATGAGCTTACCGATTCACAGCTCGTGAGAGCATACCAATTCAT
1 CAGCTT-GTATGAGCTAACCGATTCACAGCTCGTGAGAGCATACCAATTC-T
17407685 -AGCTTGTATGAGC
1 CAGCTTGTATGAGC
17407698 ATACATGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
49 2 0.04
50 48 0.91
51 3 0.06
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
CAGCTTGTATGAGCTAACCGATTCACAGCTCGTGAGAGCATACCAATTCT
Found at i:17418237 original size:12 final size:12
Alignment explanation
Indices: 17418222--17418255 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
17418212 TTCTTTTACC
17418222 ATATTTATTATT
1 ATATTTATTATT
17418234 ATATTTATTATT
1 ATATTTATTATT
17418246 ACTATTTATT
1 A-TATTTATT
17418256 TATGTATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTTATTATT
Found at i:17419789 original size:24 final size:24
Alignment explanation
Indices: 17419714--17419794 Score: 68
Period size: 24 Copynumber: 3.6 Consensus size: 24
17419704 TGTTCAACCA
*
17419714 TTCACCTTTCATTTTCCTTAACAT-
1 TTCACCTTTCATCTTCCTTAAC-TC
*
17419738 TCCACCTTTCA---T-CTT-AC-C
1 TTCACCTTTCATCTTCCTTAACTC
*
17419756 TTCTATCTTTCATCTTCCTTAACTC
1 TTC-ACCTTTCATCTTCCTTAACTC
17419781 TTCACCTTTCATCT
1 TTCACCTTTCATCT
17419795 CTTGGTAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
18 2 0.04
19 9 0.20
20 3 0.07
21 1 0.02
22 1 0.02
23 3 0.07
24 22 0.49
25 4 0.09
ACGTcount: A:0.17, C:0.35, G:0.00, T:0.48
Consensus pattern (24 bp):
TTCACCTTTCATCTTCCTTAACTC
Found at i:17420370 original size:25 final size:26
Alignment explanation
Indices: 17420318--17420364 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
17420308 CTTTTTGTAC
17420318 TTTAAAAGAAGTTATTTACAGTTTAA
1 TTTAAAAGAAGTTATTTACAGTTTAA
17420344 TTTAAAA-AA-TTATTTA-AGTTT
1 TTTAAAAGAAGTTATTTACAGTTT
17420365 TTAATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
25 2 0.10
26 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (26 bp):
TTTAAAAGAAGTTATTTACAGTTTAA
Found at i:17421630 original size:20 final size:20
Alignment explanation
Indices: 17421607--17421652 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
17421597 CAAAAAAAAA
*
17421607 TCAAATAATTT-TCAAAATTT
1 TCAAAT-ATTTATAAAAATTT
17421627 TCAAATATTTATAAAAATTT
1 TCAAATATTTATAAAAATTT
*
17421647 TAAAAT
1 TCAAAT
17421653 TGATATCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
TCAAATATTTATAAAAATTT
Found at i:17425287 original size:45 final size:45
Alignment explanation
Indices: 17425118--17425363 Score: 185
Period size: 45 Copynumber: 5.5 Consensus size: 45
17425108 CCTGCATTAG
* * * * *
17425118 GGAAACATCTTGTTTCCTCTGTCCATATCCTGTTGCTA--GCATCAA
1 GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTT--TACGGCACCAA
* ** * * *
17425163 GGAAACTTCTTATTTCCCATATCTATATCCTGTTGCTA--GCATCAA
1 GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTT--TACGGCACCAA
* * * * *
17425208 CGAAACTTCTTGTTTCCTATATCTATATCCTGTTTATGGCACCAA
1 GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTACGGCACCAA
* * * * * *
17425253 GGAAACTCCTTGATTCCTGTATCCATAGCATGTTTCCGGCTCCAT
1 GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTACGGCACCAA
* * ** *
17425298 GGAGACTTCTTGTTTCCTGTATCCATAGCCTGTTTCCGGCTTCAT
1 GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTACGGCACCAA
17425343 GGAAACTTCTTGTTTCCTGTA
1 GGAAACTTCTTGTTTCCTGTA
17425364 CCTGTAGTTT
Statistics
Matches: 172, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
43 2 0.01
45 170 0.99
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (45 bp):
GGAAACTTCTTGTTTCCTGTATCCATAGCCTGTTTACGGCACCAA
Found at i:17427763 original size:6 final size:6
Alignment explanation
Indices: 17427752--17427788 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
17427742 TTTCATGATT
*
17427752 CTCAAA CTCAAA CTCAAA CTCAAA CTTAAA CTCAAA C
1 CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA C
17427789 ATCAGCTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (6 bp):
CTCAAA
Found at i:17428145 original size:9 final size:9
Alignment explanation
Indices: 17428089--17428152 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
17428079 CTCCCATCCT
17428089 ATTCTCTCA
1 ATTCTCTCA
* *
17428098 AATCTCTCT
1 ATTCTCTCA
17428107 ATTCTCTCA
1 ATTCTCTCA
* *
17428116 ACTCTCTTA
1 ATTCTCTCA
* *
17428125 ACTCTCTAA
1 ATTCTCTCA
17428134 ATTCTCTCA
1 ATTCTCTCA
*
17428143 ATTTTCTCA
1 ATTCTCTCA
17428152 A
1 A
17428153 GCTCTTGTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTCTCTCA
Found at i:17434240 original size:20 final size:20
Alignment explanation
Indices: 17434211--17434250 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17434201 CCAATTCAAC
*
17434211 AAATACAAATAAAATAAAAG
1 AAATAAAAATAAAATAAAAG
*
17434231 AAATAAAAATAAATTAAAAG
1 AAATAAAAATAAAATAAAAG
17434251 TTCAATAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAATAAAAG
Found at i:17436235 original size:51 final size:49
Alignment explanation
Indices: 17436102--17436289 Score: 200
Period size: 51 Copynumber: 3.7 Consensus size: 49
17436092 AGTGAAAGTG
* * * * * * *
17436102 ATGGTCACGTGTGTAATACTATATGCAGGCTACTACGTGTACCGGAATG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAGTA
17436151 ATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGA-TA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAGTA
* * * *
17436200 AT-TTCGATCATGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 ATGGTC-A-CATGTG--TAGTACTATGTGCAGGCTACTATGCGTACCGGA--GTA
17436254 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTAT
17436290 ATGAACCGAA
Statistics
Matches: 118, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 11 0.09
50 39 0.33
51 52 0.44
53 6 0.05
54 5 0.04
55 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAGTA
Found at i:17436350 original size:45 final size:45
Alignment explanation
Indices: 17436294--17436386 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
17436284 TACTATATGA
* *
17436294 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
17436339 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
17436384 ACC
1 ACC
17436387 AAGTATCTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:17436458 original size:23 final size:22
Alignment explanation
Indices: 17436432--17436475 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
17436422 AATTGACTAA
17436432 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
17436455 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
17436476 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:17438846 original size:15 final size:15
Alignment explanation
Indices: 17438801--17438847 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
17438791 TTTTTATATA
17438801 TTATTTTAAAATTTGT
1 TTATTTTAAAATTT-T
*
17438817 TTATCTTT-AATTTTT
1 TTAT-TTTAAAATTTT
17438832 TTATTTTAAAATTTT
1 TTATTTTAAAATTTT
17438847 T
1 T
17438848 CTTATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 3 0.11
15 12 0.44
16 9 0.33
17 3 0.11
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (15 bp):
TTATTTTAAAATTTT
Found at i:17438908 original size:26 final size:27
Alignment explanation
Indices: 17438879--17438940 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
17438869 TTTTATATGA
17438879 TTATTTTAACTTGCTTTGTAAATTA-T
1 TTATTTTAACTTGCTTTGTAAATTATT
* * **
17438905 TTATGTTAAGTTGCTTTGTGTATTATT
1 TTATTTTAACTTGCTTTGTAAATTATT
17438932 TTATTTTAA
1 TTATTTTAA
17438941 ATTATTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.60
Consensus pattern (27 bp):
TTATTTTAACTTGCTTTGTAAATTATT
Found at i:17438961 original size:16 final size:15
Alignment explanation
Indices: 17438926--17438965 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17438916 TGCTTTGTGT
* *
17438926 ATTATTTTATTTTAA
1 ATTATTTTATATAAA
17438941 ATTATTTTATATAATA
1 ATTATTTTATATAA-A
17438957 ATTATTTTA
1 ATTATTTTA
17438966 AAATTATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTTTATATAAA
Found at i:17439499 original size:18 final size:17
Alignment explanation
Indices: 17439472--17439516 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
17439462 GATTATTGCT
* *
17439472 CTTATGTGTATTGTATTG
1 CTTATTTGTATT-TATTA
17439490 CTTATTTGTATTTATTA
1 CTTATTTGTATTTATTA
*
17439507 ATTATTTGTA
1 CTTATTTGTA
17439517 GTTCATTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.22, C:0.04, G:0.13, T:0.60
Consensus pattern (17 bp):
CTTATTTGTATTTATTA
Found at i:17446379 original size:51 final size:51
Alignment explanation
Indices: 17446318--17447073 Score: 657
Period size: 51 Copynumber: 15.6 Consensus size: 51
17446308 CATTATGGTA
**
17446318 AATCTTTTTTCCCTGGTATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * *
17446369 AATCTTTTTTCCCTGGCATTACAGT-----AGATTAAAGCTGAAGGCAACA
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * * * * *
17446415 AATCTTATTTCCCTAGCGTTGTAGAGGAATAGGTTAAAGCTGAAGGCAGCA
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * ** *
17446466 AATCCTTTTTCCCTGGCATTATAGTGGAAC-------A---GAAGGCAGTG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * *
17446507 AATCTTATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGGCAGTG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * *
17446558 AATCTTATTTCCCTGGCGTTGTAGT-----AGATTAAAGCTGAAGGGAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* *
17446604 GATCTTTTTTCCCTGGCGTTGGAGTGGAACAGATTAAAGCTGAAGGCAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * *
17446655 AATCTTATTTCCCTAGCATT--AGTGGAACAGATTAAAGCTGAAGGCAGTG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* *
17446704 AATCTTATTTCCCTGGCGTTGCAGTGGGACAGATTAAAGCTGAAGGCAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * *
17446755 AATCTTTTTTTTCCTTGGCGTTGCAGT-----AGATTAAAACTAAAGGCAGCG
1 AATC--TTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
*
17446803 AATCTTTTTTCCCTGGCGTTGCAGTAGAACAGATTAAAGCTGAAGGCAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * *
17446854 AATC-TTTTTCTCTTGGCATTGTAGTGGAACAG----AAG--GTA-G-A--G
1 AATCTTTTTTC-CCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * *
17446895 AAT-TTTTTTCCCTGGCGTTGTAGTGGAACAAATTAAAGCTGAAGGCAACG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* *
17446945 AATC-TTTTTCCCTAGCGTTGCAGT-----AGATTAAAGCTGAAGGTAGCG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* *** ** ** * * *
17446990 AATCTTATTTCCCTAATGTTATAAAGGAACATATTAAAGCTGAATGCAGGG
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
17447041 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGA
1 AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGA
17447074 AGGCCACAAA
Statistics
Matches: 571, Mismatches: 86, Indels: 96
0.76 0.11 0.13
Matches are distributed among these distances:
40 18 0.03
41 41 0.07
43 1 0.00
44 5 0.01
45 24 0.04
46 114 0.20
47 4 0.01
48 25 0.04
49 46 0.08
50 28 0.05
51 246 0.43
53 19 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (51 bp):
AATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
Found at i:17446483 original size:97 final size:96
Alignment explanation
Indices: 17446318--17447065 Score: 762
Period size: 97 Copynumber: 7.8 Consensus size: 96
17446308 CATTATGGTA
* **
17446318 AATCTTTTTTCCCTGGTATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC-TTTTTCCCT
* * *
17446383 GGCATTACAGTAGATTAAAGCTGAAGGCAACA
65 GGCATTGCAGTAGATTAAAGCTGAAGGCAGCG
* * * * * *
17446415 AATCTTATTTCCCTAGCGTTGTAGAGGAATAGGTTAAAGCTGAAGGCAGCAAATCCTTTTTCCCT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAAT-CTTTTTCCCT
** * *
17446480 GGCATT--A-TAG-TGGAA-CAGAAGGCAGTG
65 GGCATTGCAGTAGATTAAAGCTGAAGGCAGCG
* * *
17446507 AATCTTATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCCT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTT-TTTCCCT
* * *
17446572 GGCGTTGTAGTAGATTAAAGCTGAAGGGAGCG
65 GGCATTGCAGTAGATTAAAGCTGAAGGCAGCG
* * *
17446604 GATCTTTTTTCCCTGGCGTTGGAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTT-TTTCCCT
* * ** *
17446669 AGCATTAGTGGAACAGATTAAAGCTGAAGGCAGTG
65 GGCA-T--TGCAGTAGATTAAAGCTGAAGGCAGCG
*
17446704 AATCTTATTTCCCTGGCGTTGCAGTGGGACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTTTCC
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC---TTTTTCC
* * * *
17446769 TTGGCGTTGCAGTAGATTAAAACTAAAGGCAGCG
63 CTGGCATTGCAGTAGATTAAAGCTGAAGGCAGCG
* * *
17446803 AATCTTTTTTCCCTGGCGTTGCAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTCTCTT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTC-CCT
** * * *
17446868 GGCATT---GTAG-TGGAA-CAGAAGGTAGAG
65 GGCATTGCAGTAGATTAAAGCTGAAGGCAGCG
* * * * *
17446895 AAT-TTTTTTCCCTGGCGTTGTAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTTTTTCCCTA
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTCCCTG
* *
17446959 GCGTTGCAGTAGATTAAAGCTGAAGGTAGCG
66 GCATTGCAGTAGATTAAAGCTGAAGGCAGCG
*** ** ** * * *
17446990 AATCTTATTTCCCTAATGTTATAAAGGAACATATTAAAGCTGAATGCAGGGAATCTTTTTTCCCT
1 AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC-TTTTTCCCT
*
17447055 GGCGTTGCAGT
65 GGCATTGCAGT
17447066 GGAACAGAAG
Statistics
Matches: 543, Mismatches: 87, Indels: 42
0.81 0.13 0.06
Matches are distributed among these distances:
90 6 0.01
91 56 0.10
92 78 0.14
93 10 0.02
94 11 0.02
95 17 0.03
96 49 0.09
97 157 0.29
98 2 0.00
99 73 0.13
100 73 0.13
101 1 0.00
102 8 0.01
103 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (96 bp):
AATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTCCCTG
GCATTGCAGTAGATTAAAGCTGAAGGCAGCG
Found at i:17446903 original size:41 final size:40
Alignment explanation
Indices: 17446844--17446924 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
17446834 GATTAAAGCT
* *
17446844 GAAGGCAGCGAATCTTTTTCTCTTGGCATTGTAGTGGAACA
1 GAAGGCAGAGAATCTTTTTC-CCTGGCATTGTAGTGGAACA
* * *
17446885 GAAGGTAGAGAATTTTTTTCCCTGGCGTTGTAGTGGAACA
1 GAAGGCAGAGAATCTTTTTCCCTGGCATTGTAGTGGAACA
17446925 AATTAAAGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 18 0.51
41 17 0.49
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (40 bp):
GAAGGCAGAGAATCTTTTTCCCTGGCATTGTAGTGGAACA
Found at i:17447046 original size:386 final size:387
Alignment explanation
Indices: 17446318--17447073 Score: 1018
Period size: 386 Copynumber: 2.0 Consensus size: 387
17446308 CATTATGGTA
* *
17446318 AATCTTTTTTCCCTGGTATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCT
1 AATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCT
* * * * *
17446383 GGCATTACAGTAGATTAAAGCTGAAGGCAACAAATCTTATTTCCCTAGCGTTGTAGAGGAATAGG
66 GGCATTACAGTAGATTAAAACTAAAGGCAACAAATCTTATTTCCCTAGCGTTGCAGAGGAACAGA
*
17446448 TTAAAGCTGAAGGCAGCAAATCCTTTTTCCCTGGCATTATAGTGGAACAGAAGGCAGTGAATCTT
131 TTAAAGCTGAAGGCAGCAAATCCTTTTTCCCTGGCATTATAGTGGAACAGAAGGCAGAGAATCTT
* * * ** *
17446513 ATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGGCGTT
196 ATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTTATTTCCCTAGCGTT
* * * ** * **
17446578 GTAGTAGATTAAAGCTGAAGGGAGCGGATCTTTTTTCCCTGGCGTTGGAGTGGAACAGATTAAAG
261 GCAGTAGATTAAAGCTGAAGGGAGCGAATCTTATTTCCCTAACGTTAGAAAGGAACAGATTAAAG
17446643 CTGAAGGCAGCGAATCTTATTTCCCTAGCATT-AGTGGAACAGATTAAAGCTGAAGGCAGTG
326 CTGAAGGCAGCGAATCTTATTTCCCTAGCATTCAGTGGAACAGATTAAAGCTGAAGGCAGTG
* *
17446704 AATCTTATTTCCCTGGCGTTGCAGTGGGACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTTTCC
1 AATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC--TTTTTTCC
* * * * * * *
17446769 TTGGCGTTGCAGTAGATTAAAACTAAAGGCAGCGAATCTTTTTTCCCTGGCGTTGCAGTA-GAAC
64 CTGGCATTACAGTAGATTAAAACTAAAGGCAACAAATCTTATTTCCCTAGCGTTGCAG-AGGAAC
* * * *
17446833 AGATTAAAGCTGAAGGCAGCGAAT-CTTTTTCTCTTGGCATTGTAGTGGAACAGAAGGTAGAGAA
128 AGATTAAAGCTGAAGGCAGCAAATCCTTTTTC-CCTGGCATTATAGTGGAACAGAAGGCAGAGAA
* *
17446897 T-TTTTTTCCCTGGCGTTGTAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTT-TTTCCCTAG
192 TCTTATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTTATTTCCCTAG
* * * *
17446960 CGTTGCAGTAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCCTAATGTTATAAAGGAACATATT
257 CGTTGCAGTAGATTAAAGCTGAAGGGAGCGAATCTTATTTCCCTAACGTTAGAAAGGAACAGATT
* * * * *
17447025 AAAGCTGAATGCAGGGAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGA
322 AAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCATT-CAGTGGAACAGA
17447074 AGGCCACAAA
Statistics
Matches: 318, Mismatches: 46, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
386 143 0.45
387 53 0.17
388 121 0.38
389 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (387 bp):
AATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCT
GGCATTACAGTAGATTAAAACTAAAGGCAACAAATCTTATTTCCCTAGCGTTGCAGAGGAACAGA
TTAAAGCTGAAGGCAGCAAATCCTTTTTCCCTGGCATTATAGTGGAACAGAAGGCAGAGAATCTT
ATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGCAACGAATCTTATTTCCCTAGCGTT
GCAGTAGATTAAAGCTGAAGGGAGCGAATCTTATTTCCCTAACGTTAGAAAGGAACAGATTAAAG
CTGAAGGCAGCGAATCTTATTTCCCTAGCATTCAGTGGAACAGATTAAAGCTGAAGGCAGTG
Found at i:17447311 original size:142 final size:142
Alignment explanation
Indices: 17447116--17447438 Score: 439
Period size: 142 Copynumber: 2.3 Consensus size: 142
17447106 TGGAGTGGAC
* * ** * *
17447116 TGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGAAATAGATTAAAGCTACAAATTATGACG
1 TGAAGATAGCAAATCTTA-TTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTATGACG
* * *
17447181 GATCTTATTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTTCTTAAAGTTG
65 GATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACCAGCCTTATCTCCTTAAAGTTG
*
17447246 CAGCGGAGCAGAG
130 CAGCGGAGCAGAA
* * * *
17447259 TGAATATAGCAAATCTTATTCCCTGATGTTGCAGTGGAACAGATTAAAGCTACAAGTTATGGCGG
1 TGAAGATAGCAAATCTTATTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTATGACGG
* **
17447324 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACTAGCCTTATCTCCTTGGAGTTGC
66 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACCAGCCTTATCTCCTTAAAGTTGC
*
17447389 AGTGGAGCAGAA
131 AGCGGAGCAGAA
* * *
17447401 TGAAGATAGCGAATCCTATTCCTCTGAAGATGCAGTGG
1 TGAAGATAGCAAATCTTATTCC-CTGAAGTTGCAGTGG
17447439 GTTAGAACGA
Statistics
Matches: 157, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
142 129 0.82
143 28 0.18
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (142 bp):
TGAAGATAGCAAATCTTATTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTATGACGG
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACCAGCCTTATCTCCTTAAAGTTGC
AGCGGAGCAGAA
Found at i:17447618 original size:15 final size:16
Alignment explanation
Indices: 17447598--17447634 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
17447588 GGCCCAATTC
17447598 AATAAATACAAAT-AA
1 AATAAATACAAATAAA
*
17447613 AATAAA-AGAAATAAA
1 AATAAATACAAATAAA
17447628 AATAAAT
1 AATAAAT
17447635 TAAAAGTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
AATAAATACAAATAAA
Found at i:17447630 original size:20 final size:20
Alignment explanation
Indices: 17447601--17447640 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17447591 CCAATTCAAT
*
17447601 AAATACAAATAAAATAAAAG
1 AAATAAAAATAAAATAAAAG
*
17447621 AAATAAAAATAAATTAAAAG
1 AAATAAAAATAAAATAAAAG
17447641 TCCAAGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAATAAAAG
Found at i:17449002 original size:26 final size:28
Alignment explanation
Indices: 17448973--17449034 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
17448963 TTTTATATGA
17448973 TTATTTTAAC-TTGCTTTGTAAATTA-T
1 TTATTTTAACGTTGCTTTGTAAATTATT
* * *
17448999 TTATGTT-ACGTTTCTTTGTATATTATT
1 TTATTTTAACGTTGCTTTGTAAATTATT
17449026 TTATTTTAA
1 TTATTTTAA
17449035 ATTATTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 19 0.66
27 7 0.24
28 1 0.03
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.61
Consensus pattern (28 bp):
TTATTTTAACGTTGCTTTGTAAATTATT
Found at i:17449055 original size:16 final size:15
Alignment explanation
Indices: 17449020--17449059 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
17449010 TTCTTTGTAT
17449020 ATTATTTTATTTTAA
1 ATTATTTTATTTTAA
17449035 ATTATTTTATATATT-A
1 ATTATTTTAT-T-TTAA
17449051 ATTATTTTA
1 ATTATTTTA
17449060 AAATGATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.43
16 11 0.48
17 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTATTTTATTTTAA
Found at i:17452408 original size:36 final size:36
Alignment explanation
Indices: 17452352--17452435 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
17452342 TATTCTAACT
*
17452352 AAAACACACCAAATGCTCATAAGAGCTAATCCATCC
1 AAAACACACTAAATGCTCATAAGAGCTAATCCATCC
* * *
17452388 GAAACACACTAGATGTTCATAAGAGCTAATCCATCC
1 AAAACACACTAAATGCTCATAAGAGCTAATCCATCC
17452424 AAAACACACTAA
1 AAAACACACTAA
17452436 TGGCTTCGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.45, C:0.27, G:0.10, T:0.18
Consensus pattern (36 bp):
AAAACACACTAAATGCTCATAAGAGCTAATCCATCC
Found at i:17463252 original size:14 final size:16
Alignment explanation
Indices: 17463233--17463265 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
17463223 ATAATATGCA
17463233 TGATATGT-GATAT-G
1 TGATATGTGGATATAG
17463247 TGATATGTGGATATAG
1 TGATATGTGGATATAG
17463263 TGA
1 TGA
17463266 CTATTGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 5 0.29
16 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.39
Consensus pattern (16 bp):
TGATATGTGGATATAG
Found at i:17467294 original size:22 final size:21
Alignment explanation
Indices: 17467269--17467309 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17467259 TGTATGGTAT
* *
17467269 GATTTGGTTTTGGTATTATATA
1 GATTCGGTTATGGT-TTATATA
17467291 GATTCGGTTATGGTTTATA
1 GATTCGGTTATGGTTTATA
17467310 AGTATAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.51
Consensus pattern (21 bp):
GATTCGGTTATGGTTTATATA
Found at i:17469938 original size:18 final size:18
Alignment explanation
Indices: 17469915--17469949 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17469905 TACTTTCATA
17469915 AATTTATAAAATTTTTAG
1 AATTTATAAAATTTTTAG
* *
17469933 AATTTATTATATTTTTA
1 AATTTATAAAATTTTTA
17469950 ATATTTACTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
AATTTATAAAATTTTTAG
Found at i:17483058 original size:131 final size:131
Alignment explanation
Indices: 17482899--17483148 Score: 342
Period size: 131 Copynumber: 1.9 Consensus size: 131
17482889 ATAAACTTAA
* * * * *
17482899 GTTGTGATCATAAATCAATGAGCCTTAATAATATCAGCTATTATCTTAAATCAA-CGAGCTATTT
1 GTTGTAATCATAAATCAACGAGCCTTAATAATATCAGCTATGATATTAAAT-AAGCGACCTATTT
* *
17482963 GGAGTAG-CAATAGTAAATCAACTAACTTAAAGAACATTGTTCATGATAGTAAATCAAATGAATT
65 GGAGT-GCCAATAGTAAATCAACTAACTTAAAGAAAATGGTTCATGATAGTAAATCAAATGAATT
17483027 TAG
129 TAG
* * * * *
17483030 GTTGTAATCGTAAATCAGCGAGCCTTAATAATATTAGTTGTGATATTAAATAAGCGACCTATTTG
1 GTTGTAATCATAAATCAACGAGCCTTAATAATATCAGCTATGATATTAAATAAGCGACCTATTTG
* *
17483095 GAGTGCCGATAGTAAATCAACTAACTTAGAGAAAATGGTTCATGATAGTAAATC
66 GAGTGCCAATAGTAAATCAACTAACTTAAAGAAAATGGTTCATGATAGTAAATC
17483149 GAAAATCATT
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
130 3 0.03
131 100 0.97
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (131 bp):
GTTGTAATCATAAATCAACGAGCCTTAATAATATCAGCTATGATATTAAATAAGCGACCTATTTG
GAGTGCCAATAGTAAATCAACTAACTTAAAGAAAATGGTTCATGATAGTAAATCAAATGAATTTA
G
Found at i:17485781 original size:39 final size:40
Alignment explanation
Indices: 17485677--17485861 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
17485667 TTGAATGATG
* * * *
17485677 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
17485717 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
17485757 TCCGGGCTAAG-CCCGAAGTTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
17485796 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
17485837 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17485862 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17485883 original size:79 final size:79
Alignment explanation
Indices: 17485730--17485894 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
17485720 GGACTAAGAT
* * ** **
17485730 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGTTATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
17485795 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
17485809 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
17485872 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
17485888 CCGAAGG
1 CCGAAGG
17485895 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:17488690 original size:20 final size:22
Alignment explanation
Indices: 17488650--17488705 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 22
17488640 ATATGCATAT
17488650 TTATTTTTTTAAATATAATGTAA
1 TTATTTTTTT-AATATAATGTAA
17488673 TTATTTTTTT-ATAT-ATGTAA
1 TTATTTTTTTAATATAATGTAA
*
17488693 TTATTTTTATAAT
1 TTATTTTTTTAAT
17488706 CTATATATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 15 0.48
21 6 0.19
23 10 0.32
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTATTTTTTTAATATAATGTAA
Found at i:17488710 original size:23 final size:23
Alignment explanation
Indices: 17488625--17488716 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 23
17488615 TTTTTTTACA
* *
17488625 TATTTATATATATATATATGCATATT
1 TATTTTTATA-ATATATATG--TAAT
*
17488651 TATTTTTTTAA-ATATAATGTAAT
1 TATTTTTATAATATAT-ATGTAAT
17488674 TATTTTT-T--TATATATGTAAT
1 TATTTTTATAATATATATGTAAT
17488694 TATTTTTATAATCTATATATGTA
1 TATTTTTATAA--TATATATGTA
17488717 TATATTTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
20 14 0.25
21 5 0.09
22 1 0.02
23 10 0.18
24 4 0.07
25 14 0.25
26 8 0.14
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TATTTTTATAATATATATGTAAT
Found at i:17501203 original size:132 final size:132
Alignment explanation
Indices: 17500966--17501562 Score: 951
Period size: 132 Copynumber: 4.6 Consensus size: 132
17500956 CCGACAGCGA
* * *
17500966 AGCAGATCGAAGACGGCCAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* *
17501031 CTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
17501096 GG
131 GG
* * *
17501098 AGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGTCACCAAGC
1 AGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* * * *
17501163 CTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGC
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
17501228 GG
131 GG
* * *
17501230 AGCAAATCGAAGACGGCCAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* *
17501295 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTTAAAATTGTTGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
17501360 GG
131 GG
*
17501362 AGCAGATCAAAGACGG-----C----CTTTCCAAGATAGTGAGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
*
17501418 CTGGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
66 CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
17501483 GG
131 GG
*
17501485 AGCAGATCAAAGACGGCAAATCTTATCTTTCCAATATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 AGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
17501550 CTTGTCTCCCTGA
66 CTTGTCTCCCTGA
17501563 AGTTGCAGAG
Statistics
Matches: 423, Mismatches: 33, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
123 118 0.28
127 1 0.00
128 1 0.00
132 303 0.72
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (132 bp):
AGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
CTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:17502950 original size:21 final size:21
Alignment explanation
Indices: 17502921--17502969 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
17502911 TTCTGTTTTC
17502921 TTTTTTTTT-ATTAATTAATT-
1 TTTTTTTTTCA-TAATTAATTA
*
17502941 TTTTTATTTTCATATTTAATTA
1 TTTTT-TTTTCATAATTAATTA
17502963 TTTTTTT
1 TTTTTTT
17502970 AAAAATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.20
21 14 0.56
22 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTTTTCATAATTAATTA
Found at i:17503062 original size:22 final size:21
Alignment explanation
Indices: 17503036--17503083 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
17503026 CATATTTATG
*
17503036 TTTTTTAAATATAATGTAATTA
1 TTTTTTAAATAT-ACGTAATTA
**
17503058 TTTTTTTTATATACGTAATTA
1 TTTTTTAAATATACGTAATTA
17503079 TTTTT
1 TTTTT
17503084 ATAATCTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTTAAATATACGTAATTA
Found at i:17503416 original size:14 final size:14
Alignment explanation
Indices: 17503393--17503432 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
17503383 ATGGATTATT
17503393 GTTT-TTTATTTTC
1 GTTTATTTATTTTC
17503406 GTTTATTTA-TTT-
1 GTTTATTTATTTTC
17503418 GTTTATATTATTTTC
1 GTTTAT-TTATTTTC
17503433 ATGCCATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 7 0.30
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.72
Consensus pattern (14 bp):
GTTTATTTATTTTC
Found at i:17503461 original size:15 final size:15
Alignment explanation
Indices: 17503438--17503470 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17503428 TTTTCATGCC
17503438 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
17503453 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
17503468 ATT
1 ATT
17503471 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:17507458 original size:13 final size:13
Alignment explanation
Indices: 17507421--17507480 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
17507411 TTTAATATAA
*
17507421 AAATAAATTTTAT
1 AAATAAATTTTAC
*
17507434 ATATTCAAATTTTAC
1 A-AAT-AAATTTTAC
17507449 AAATAAATTTTGA-
1 AAATAAATTTT-AC
*
17507462 TAATAAATTTTAC
1 AAATAAATTTTAC
17507475 AAATAA
1 AAATAA
17507481 TTAATAGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 1 0.03
13 23 0.61
14 5 0.13
15 9 0.24
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (13 bp):
AAATAAATTTTAC
Found at i:17507476 original size:26 final size:28
Alignment explanation
Indices: 17507421--17507480 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 28
17507411 TTTAATATAA
17507421 AAATAAATTTTATATATTCAAATTTTAC
1 AAATAAATTTTATATATTCAAATTTTAC
17507449 AAATAAATTTTGATA-A-T-AAATTTTAC
1 AAATAAATTTT-ATATATTCAAATTTTAC
17507475 AAATAA
1 AAATAA
17507481 TTAATAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 15 0.48
27 1 0.03
28 12 0.39
29 3 0.10
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (28 bp):
AAATAAATTTTATATATTCAAATTTTAC
Found at i:17509396 original size:21 final size:21
Alignment explanation
Indices: 17509372--17509453 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
17509362 TCCACACGGG
* *
17509372 CGTGTGCCTTTGACACACAAC
1 CGTGTCCCTTAGACACACAAC
* **
17509393 CGTGTCCCTTAGTCACACAGG
1 CGTGTCCCTTAGACACACAAC
* *
17509414 CGTATGCCTT-GAACACACAAC
1 CGTGTCCCTTAG-ACACACAAC
*
17509435 CGTGTCCCTTAGCCACACA
1 CGTGTCCCTTAGACACACA
17509454 GGCATGTGAG
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.96
22 1 0.02
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.22
Consensus pattern (21 bp):
CGTGTCCCTTAGACACACAAC
Found at i:17509423 original size:42 final size:42
Alignment explanation
Indices: 17509363--17509456 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 42
17509353 TTATCGATTT
* *
17509363 CCACACGGGCGTGTGCCTTTG-ACACACAACCGTGTCCCTTAG
1 CCACACAGGCGTATGCC-TTGAACACACAACCGTGTCCCTTAG
*
17509405 TCACACAGGCGTATGCCTTGAACACACAACCGTGTCCCTTAG
1 CCACACAGGCGTATGCCTTGAACACACAACCGTGTCCCTTAG
17509447 CCACACAGGC
1 CCACACAGGC
17509457 ATGTGAGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
41 3 0.06
42 44 0.94
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.19
Consensus pattern (42 bp):
CCACACAGGCGTATGCCTTGAACACACAACCGTGTCCCTTAG
Found at i:17513858 original size:743 final size:743
Alignment explanation
Indices: 17512433--17513924 Score: 2450
Period size: 743 Copynumber: 2.0 Consensus size: 743
17512423 AATGGCTTAA
* * *
17512433 ATGATTATAGATACTAGTGGTTGAATGGAATTATTAGTATCATTTGGTATATTTTGGCAAGTAAA
1 ATGATTATAGATACTAGTGGTTGAATGGAATGATTAGTACCATTTGATATATTTTGGCAAGTAAA
17512498 TGACATGATATGTATTGATGCAAATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATAC
66 TGACATGATATGTATTGATGCAAATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATAC
*
17512563 ATGGTTAGACATATTTATATATTGTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTA
131 ATGGTTAGACATATTTAGATATTGTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTA
* *
17512628 TACCATATGTATAGAACTTTCTTATGCTTGATTTGGATGCCTTGTTATGGCTTATATATATGTGC
196 TACCATATGTATAGAACTTGCTTATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGC
*
17512693 ATTTTTGGTTATAGTTATATGCCTTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCA
261 ATTTTTGGTTATAGGTATATGCCTTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCA
* * * *
17512758 TCCACACAGGCAGAGACACAGACGTGTGTCTCAGCCGTGTATGACACACGGCCAGGCGACACGGC
326 CCCACACAGGCAGAGACACAGACATGTGTCTCAGCCGTGTATGACACACGGCCAGGCGAAACGAC
* *
17512823 CCTGAGTCCCCTTTAGCTTTCAAAGGGTTGCAAATCAGACTATTACACCGCCGAGCACACGGCTT
391 CCTGAGTCCCCTGTAGCTTTCAAAGGGTTGCAAATCAGACTATTACACAGCCGAGCACACGGCTT
* * *
17512888 GGTACACAGGCGTGTGAGGTTACTTCGAAGGGTGCAGATCCTAGCACACGGGCGTGTGGCTTGGC
456 GGTACACAGGCGTGTGAGGTTACTTCGAAGGGTACACAGCCTAGCACACGGGCGTGTGGCTTGGC
* * *
17512953 CGTGGGAGCCAAGTTAGTGAGTTATACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTCCCT
521 CGTGGGACCCAAGTCAGTGAGTTACACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTCCCT
* * *
17513018 GCTTTGAATGCCCACACGGCCTGGTCACATGTCTGTGTGACCCCTGCAGTTGAAAATTTTCAATG
586 ACTTTGAATGCCCACACGGCCTGGTCACACGCCTGTGTGACCCCTGCAGTTGAAAATTTTCAATG
*
17513083 TTTTCTGAAAAATTCTCTGAGTTTCTGATTTGATCTTGACTTGTTTCTATTGCATATTTAGGGCC
651 TTTTCTGAAAAATTCTCTGAGTTTCTGATTTGATCCTGACTTGTTTCTATTGCATATTTAGGGCC
17513148 TTGAGGGCTCGTATAAGAGACATTATGT
716 TTGAGGGCTCGTATAAGAGACATTATGT
* *
17513176 ATGATTATAGATACTAGTGGTTGAATGGTATGATTAGTACCATTTGATATATTTTGGTAAGTAAA
1 ATGATTATAGATACTAGTGGTTGAATGGAATGATTAGTACCATTTGATATATTTTGGCAAGTAAA
*
17513241 TTACATGATATGTATTGATGCAAATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATAC
66 TGACATGATATGTATTGATGCAAATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATAC
* * * *
17513306 ATGGTTAGACATGTTTAGGTATTGTTATTTGAGGTGCCTAAGGGCATGTTGGTTGTATGATGTTA
131 ATGGTTAGACATATTTAGATATTGTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTA
*
17513371 TACCATATGTATAGGACTTGCTTATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGC
196 TACCATATGTATAGAACTTGCTTATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGC
* * *
17513436 ATTTTTGGTTATAGGTATATGCCTTGATGGGTGAGAAAAATGGCTTGTAAAATGGCCTATTTTCG
261 ATTTTTGGTTATAGGTATATGCCTTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCA
* * *
17513501 CCCACACGGGCAGAGACAC-GAGCATGTGTCTTCA-CCGTGTGTGACACACGGCGAGGCGAAACG
326 CCCACACAGGCAGAGACACAGA-CATGTGTC-TCAGCCGTGTATGACACACGGCCAGGCGAAACG
* * * * * * * *
17513564 ACCGTGAGTTCTCTGTAGCTTTCAAAGGGTTGCAAGTTAGGCTGTTACACAGCCTAGCACACGGA
389 ACCCTGAGTCCCCTGTAGCTTTCAAAGGGTTGCAAATCAGACTATTACACAGCCGAGCACACGG-
* * *
17513629 C-TGGTACACGGGCGTGTGAGGTTACTTCGAAGGGTACACAGCCTGGCACACGGGTGTGTGGCTT
453 CTTGGTACACAGGCGTGTGAGGTTACTTCGAAGGGTACACAGCCTAGCACACGGGCGTGTGGCTT
* * * *
17513693 GGTCGTGTGACCCAAGTCAGTGAGTTACATGGGCATGGACACGGGCTGGGACACGGCTCTGTGTC
518 GGCCGTGGGACCCAAGTCAGTGAGTTACACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTC
*
17513758 CCTACTTTGAATGCCCACACGGCCTGGTCACACGCCTGTGTGATCCCTGCAGTTGAAAATTTTCA
583 CCTACTTTGAATGCCCACACGGCCTGGTCACACGCCTGTGTGACCCCTGCAGTTGAAAATTTTCA
17513823 ATGTTTTCTGAAAAATTCTCTGAGTTTCTGATTTGATCCTGACTTGTTTCTATTGCATATTTAGG
648 ATGTTTTCTGAAAAATTCTCTGAGTTTCTGATTTGATCCTGACTTGTTTCTATTGCATATTTAGG
*
17513888 GCCTTGAGGGCTCGTATAAGATACATTATGT
713 GCCTTGAGGGCTCGTATAAGAGACATTATGT
17513919 ATGATT
1 ATGATT
17513925 TTGATTGGTT
Statistics
Matches: 692, Mismatches: 54, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
742 2 0.00
743 686 0.99
744 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (743 bp):
ATGATTATAGATACTAGTGGTTGAATGGAATGATTAGTACCATTTGATATATTTTGGCAAGTAAA
TGACATGATATGTATTGATGCAAATATGCATATAAGTTAGTTGATTATTTGGTCAAATTGAATAC
ATGGTTAGACATATTTAGATATTGTCATTTGAGGTGCCTAAGGGCATATTGGTTGTATGATGTTA
TACCATATGTATAGAACTTGCTTATGCTTGATTTGGATGCCTTGTTATGACTTATATATATGTGC
ATTTTTGGTTATAGGTATATGCCTTGATGGGTGAGAAAAATGACTTGTAAAATGACCTATTTTCA
CCCACACAGGCAGAGACACAGACATGTGTCTCAGCCGTGTATGACACACGGCCAGGCGAAACGAC
CCTGAGTCCCCTGTAGCTTTCAAAGGGTTGCAAATCAGACTATTACACAGCCGAGCACACGGCTT
GGTACACAGGCGTGTGAGGTTACTTCGAAGGGTACACAGCCTAGCACACGGGCGTGTGGCTTGGC
CGTGGGACCCAAGTCAGTGAGTTACACGGGCATGGACACGGGCTGGGACACGGCCCTGTGTCCCT
ACTTTGAATGCCCACACGGCCTGGTCACACGCCTGTGTGACCCCTGCAGTTGAAAATTTTCAATG
TTTTCTGAAAAATTCTCTGAGTTTCTGATTTGATCCTGACTTGTTTCTATTGCATATTTAGGGCC
TTGAGGGCTCGTATAAGAGACATTATGT
Found at i:17516789 original size:37 final size:37
Alignment explanation
Indices: 17516731--17516880 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
17516721 TTACGAAGTT
* * * *
17516731 TTACCCGGACATAATCTCCACACGAAGTTATCGGGTC
1 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
17516768 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
1 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
* *
17516805 TTAACCGGACGAAATCCCCACACGTAGTCATCGGGTC
1 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
17516842 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
1 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
17516879 TT
1 TT
17516881 TAGAGCTCGG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (37 bp):
TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
Found at i:17517100 original size:22 final size:22
Alignment explanation
Indices: 17517073--17517148 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
17517063 TTTCACATTC
17517073 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
17517095 ATCACATACATACACTTTCACATT
1 ATCACAT-CGGCCA-TTAGGCCTT
17517119 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
17517142 ATCACAT
1 ATCACAT
17517149 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:17517220 original size:49 final size:47
Alignment explanation
Indices: 17516999--17517367 Score: 535
Period size: 49 Copynumber: 7.7 Consensus size: 47
17516989 CCCTTCGGGA
* * * * * *
17516999 CTTATCACATTTATACACTTTCACATCCATCA-GTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17517045 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17517092 CTTATCACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17517139 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17517186 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17517235 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
17517284 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17517333 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
17517368 AGAATCCTAA
Statistics
Matches: 300, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
46 29 0.10
47 130 0.43
49 141 0.47
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17521111 original size:12 final size:12
Alignment explanation
Indices: 17521094--17521124 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17521084 AGTTGCCATG
17521094 GAATGTTTTTCC
1 GAATGTTTTTCC
17521106 GAATGTTTTTCC
1 GAATGTTTTTCC
17521118 GAATGTT
1 GAATGTT
17521125 ATTAAGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (12 bp):
GAATGTTTTTCC
Found at i:17522742 original size:25 final size:25
Alignment explanation
Indices: 17522714--17522796 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
17522704 TCTTGAGAGT
17522714 ATACCGATTTACAGCTCAAGTGAGC
1 ATACCGATTTACAGCTCAAGTGAGC
* ** *
17522739 ATACCAATTTACAGCTCGTGAGAGC
1 ATACCGATTTACAGCTCAAGTGAGC
* * * *
17522764 ATACTGATTTACAACTTAAGTAAGC
1 ATACCGATTTACAGCTCAAGTGAGC
17522789 ATACCGAT
1 ATACCGAT
17522797 CACATCTTGT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (25 bp):
ATACCGATTTACAGCTCAAGTGAGC
Found at i:17528696 original size:17 final size:17
Alignment explanation
Indices: 17528674--17528723 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
17528664 ATATCACCCT
17528674 TCTATTCCATTCAATGA
1 TCTATTCCATTCAATGA
* *
17528691 TCTATTCCATTCCCACG-
1 TCTATTCCATT-CAATGA
17528708 T-TATTCCATTCAATGA
1 TCTATTCCATTCAATGA
17528724 GCCAAATGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 3 0.11
16 9 0.33
17 12 0.44
18 3 0.11
ACGTcount: A:0.26, C:0.28, G:0.06, T:0.40
Consensus pattern (17 bp):
TCTATTCCATTCAATGA
Found at i:17533957 original size:55 final size:55
Alignment explanation
Indices: 17533897--17534009 Score: 208
Period size: 55 Copynumber: 2.1 Consensus size: 55
17533887 CCATTACTTA
* *
17533897 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGGTTTAGTTCCATATTTTGTT
1 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
17533952 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
1 CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
17534007 CAT
1 CAT
17534010 CCTCTAATTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (55 bp):
CATAGTTTCTTCTATGAGAAACTAGACTCAATAAGATTTAATTCCATATTTTGTT
Found at i:17535746 original size:23 final size:23
Alignment explanation
Indices: 17535723--17535768 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17535713 TTTTTCTATT
17535723 ATCAAAATATAATTTAATTAATTA
1 ATCAAAATA-AATTTAATTAATTA
* * *
17535747 ATTAATATAAATTTAGTTAATT
1 ATCAAAATAAATTTAATTAATT
17535769 TACTCAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATCAAAATAAATTTAATTAATTA
Found at i:17540640 original size:39 final size:39
Alignment explanation
Indices: 17540586--17540660 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
17540576 CACCAGAAAC
*
17540586 TAAAACTCAAAATGGGTAGTTTTTTTTTAGGTCTTTCTT
1 TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTTCTT
17540625 TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTT
1 TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTT
17540661 TAAAAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.47
Consensus pattern (39 bp):
TAAAACTCAAAATGGGTAGTTGTTTTTTAGGTCTTTCTT
Found at i:17540673 original size:36 final size:38
Alignment explanation
Indices: 17540594--17540673 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
17540584 ACTAAAACTC
* ***
17540594 AAAATGGGTAGTTTTTTTTTAGGTCTTTCTTTAAAACTC
1 AAAATGGGTAGTTGTTTTTTAGGTC-TTCTTTAAAAAGA
17540633 AAAATGGGTAGTTGTTTTTTAGGTC-T-TTTAAAAAGA
1 AAAATGGGTAGTTGTTTTTTAGGTCTTCTTTAAAAAGA
17540669 AAAAT
1 AAAAT
17540674 CATTTTTCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 12 0.32
37 1 0.03
39 24 0.65
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (38 bp):
AAAATGGGTAGTTGTTTTTTAGGTCTTCTTTAAAAAGA
Found at i:17544306 original size:27 final size:27
Alignment explanation
Indices: 17544276--17544327 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
17544266 TCGCTTACCT
** *
17544276 TACTAGAGTACTTCAGCTCGCCAAACC
1 TACTAGAGTACACCAACTCGCCAAACC
*
17544303 TACTAGCGTACACCAACTCGCCAAA
1 TACTAGAGTACACCAACTCGCCAAA
17544328 TCTATTGGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.19
Consensus pattern (27 bp):
TACTAGAGTACACCAACTCGCCAAACC
Found at i:17545793 original size:39 final size:39
Alignment explanation
Indices: 17545745--17545940 Score: 194
Period size: 39 Copynumber: 5.0 Consensus size: 39
17545735 ATTCACTTTT
* * * *
17545745 AAGCGTATATCATATTACACATATAATCACCTAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * * * * *
17545784 AAGTATATATCACAATATACATATAATCTCTTGACATTT
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * *
17545823 AAGCATATATCACAATACTCGTATAATCACATAACATCC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * * *
17545862 AAGCATATAACACAATACTCATATAATCGCATAACATTT
1 AAGCATATATCACAATACACATATAATCACATAACATTC
* * * * *
17545901 GAGCATATGTTACAATACTCGTATAATCACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
17545940 A
1 A
17545941 CAATTTTAAG
Statistics
Matches: 126, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 126 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAACATTC
Found at i:17545833 original size:78 final size:78
Alignment explanation
Indices: 17545742--17545940 Score: 247
Period size: 78 Copynumber: 2.6 Consensus size: 78
17545732 CATATTCACT
* * * * * * * *
17545742 TTTAAGCGTATATCATATTACACATATAATCACCTAACATTCAAGTATATATCACAATA-TACAT
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCAAGCATATAACACAATACT-CAT
* * *
17545806 ATAATCTCTTGACA
65 ATAATCGCATAACA
*
17545820 TTTAAGCATATATCACAATACTCGTATAATCACATAACATCCAAGCATATAACACAATACTCATA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCAAGCATATAACACAATACTCATA
17545885 TAATCGCATAACA
66 TAATCGCATAACA
* * *
17545898 TTTGAGCATATGTTACAATACTCGTATAATCACATAACATTCA
1 TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCA
17545941 CAATTTTAAG
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 103 0.99
79 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.32
Consensus pattern (78 bp):
TTTAAGCATATATCACAATACTCGTATAATCACATAACATTCAAGCATATAACACAATACTCATA
TAATCGCATAACA
Found at i:17547795 original size:2 final size:2
Alignment explanation
Indices: 17547790--17547825 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17547780 CATTTTTTGA
17547790 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
17547826 CGTTATACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17552055 original size:23 final size:24
Alignment explanation
Indices: 17552013--17552057 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
17552003 GTTACGATTT
17552013 TATTTTCTTCTTTGCTTTTACTAA
1 TATTTTCTTCTTTGCTTTTACTAA
17552037 TATTTTC-TCTTTG-TGTTTACT
1 TATTTTCTTCTTTGCT-TTTACT
17552058 GTATGACTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 12 0.60
24 7 0.35
ACGTcount: A:0.13, C:0.16, G:0.07, T:0.64
Consensus pattern (24 bp):
TATTTTCTTCTTTGCTTTTACTAA
Found at i:17556311 original size:30 final size:30
Alignment explanation
Indices: 17556275--17556493 Score: 241
Period size: 30 Copynumber: 7.4 Consensus size: 30
17556265 TGGTTGACAC
* *
17556275 ATCCCTTTTCATAATTCGATAACCGAAGTT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
* * * *
17556305 ATCCCTTTTCATAGTTCGACAACCAAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
*
17556335 ATCCCTTTTCATAATTTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
* *
17556365 ATCCTTTTTCATAGA-TCGATAGCCGAAGCC
1 ATCCCTTTTCATA-ATTCGATAGCCGAAGCT
* * * *
17556395 ATCCCTTTTCATATTTCGAT-GTCGTCA-CC
1 ATCCCTTTTCATAATTCGATAGCCG-AAGCT
*
17556424 ATCCCTTTTCATAA-TCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
*
17556453 ATCCCTTTTCGT-ATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGCT
*
17556482 ATCCATTTTCAT
1 ATCCCTTTTCAT
17556494 TCATCGATGA
Statistics
Matches: 160, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
28 7 0.04
29 58 0.36
30 94 0.59
31 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGCCGAAGCT
Found at i:17561570 original size:10 final size:10
Alignment explanation
Indices: 17561555--17561582 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17561545 AGCACTTACC
17561555 ATTTCAATGT
1 ATTTCAATGT
17561565 ATTTCAATGT
1 ATTTCAATGT
17561575 ATTTCAAT
1 ATTTCAAT
17561583 CATAAACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (10 bp):
ATTTCAATGT
Found at i:17562107 original size:29 final size:29
Alignment explanation
Indices: 17562016--17562124 Score: 101
Period size: 29 Copynumber: 3.7 Consensus size: 29
17562006 CTTATCAGGT
* * * *
17562016 CATCCCTTTTCATATTCAATTGTCATCAC
1 CATCCCTTTTCATAATCGATGGTCGTCAC
* * * **
17562045 CATGCCTTTTCATAATCTATGATCGAAAC
1 CATCCCTTTTCATAATCGATGGTCGTCAC
* * *
17562074 AATCCCCTTTCATATTCGATGGTCGTCAC
1 CATCCCTTTTCATAATCGATGGTCGTCAC
17562103 CATCCCTTTTCATTAATCGATG
1 CATCCCTTTTCA-TAATCGATG
17562125 CCCGTCGATA
Statistics
Matches: 60, Mismatches: 19, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
29 52 0.87
30 8 0.13
ACGTcount: A:0.25, C:0.28, G:0.09, T:0.38
Consensus pattern (29 bp):
CATCCCTTTTCATAATCGATGGTCGTCAC
Found at i:17571515 original size:18 final size:16
Alignment explanation
Indices: 17571482--17571520 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
17571472 AATAACTAAG
*
17571482 ATAAATAAATTGAACA
1 ATAAATAAAATGAACA
17571498 ATAAATAAAAATGAAACA
1 ATAAAT-AAAATG-AACA
17571516 ATAAA
1 ATAAA
17571521 GAAGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 5 0.25
18 9 0.45
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (16 bp):
ATAAATAAAATGAACA
Found at i:17571541 original size:20 final size:21
Alignment explanation
Indices: 17571504--17571543 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
17571494 AACAATAAAT
*
17571504 AAAAATGAAACAATAAAGAAG
1 AAAAATGAAACAAGAAAGAAG
*
17571525 AAAAAT-AAATAAGAAAGAA
1 AAAAATGAAACAAGAAAGAA
17571544 CGTGATATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAATGAAACAAGAAAGAAG
Found at i:17577120 original size:25 final size:25
Alignment explanation
Indices: 17577081--17577145 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
17577071 TGACCCGTAG
* * *
17577081 CTCGTGAGAGCATACCGATTTACAT
1 CTCGTGTGAGCATACCAATTTACAA
*
17577106 CTTGTGTGAGCATACCAATTTACAA
1 CTCGTGTGAGCATACCAATTTACAA
*
17577131 CTCGTGTTAGCATAC
1 CTCGTGTGAGCATAC
17577146 ATTACAAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (25 bp):
CTCGTGTGAGCATACCAATTTACAA
Found at i:17588949 original size:39 final size:40
Alignment explanation
Indices: 17588800--17588965 Score: 253
Period size: 40 Copynumber: 4.2 Consensus size: 40
17588790 NNNNNNNNNN
*
17588800 GAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
17588840 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
* *
17588880 GAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCC
1 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
* * * * *
17588920 GAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCC
1 GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
17588959 GAAGGCA
1 GAAGGCA
17588966 CTTGAACGAG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 32 0.27
40 86 0.73
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
GAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCC
Found at i:17588987 original size:79 final size:80
Alignment explanation
Indices: 17588821--17589002 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
17588811 TGCGAGTTGT
* * *
17588821 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
** ** *
17588886 ATTCGTGCGAGTTGT
66 ATTCGAACGAGGAGC
* * *
17588901 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
17588965 ACTT-GAACGAGGAGC
66 A-TTCGAACGAGGAGC
* * *
17588980 TATATCC-GGTTAAATTCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
17589003 TACGTGAATT
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 13 0.15
79 44 0.51
80 29 0.34
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:17590616 original size:30 final size:29
Alignment explanation
Indices: 17590580--17590653 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
17590570 TGATAATTAT
* *
17590580 TTTAAAATTCGTTATCTCCTAATCTAGCAG
1 TTTAAAATTCATCATCTCCTAAT-TAGCAG
17590610 TTTAAAATATTCATCATCTCCTAATTAGCAG
1 TTT-AAA-ATTCATCATCTCCTAATTAGCAG
17590641 TTTTAAATATTCA
1 -TTTAAA-ATTCA
17590654 AGGAAAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 3 0.08
31 18 0.46
32 18 0.46
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.42
Consensus pattern (29 bp):
TTTAAAATTCATCATCTCCTAATTAGCAG
Found at i:17590642 original size:31 final size:32
Alignment explanation
Indices: 17590593--17590653 Score: 106
Period size: 31 Copynumber: 1.9 Consensus size: 32
17590583 AAAATTCGTT
17590593 ATCTCCTAATCTAGCAGTTTAAAATATTCATC
1 ATCTCCTAATCTAGCAGTTTAAAATATTCATC
*
17590625 ATCTCCTAAT-TAGCAGTTTTAAATATTCA
1 ATCTCCTAATCTAGCAGTTTAAAATATTCA
17590654 AGGAAAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (32 bp):
ATCTCCTAATCTAGCAGTTTAAAATATTCATC
Found at i:17592132 original size:50 final size:51
Alignment explanation
Indices: 17592008--17592199 Score: 185
Period size: 50 Copynumber: 3.8 Consensus size: 51
17591998 GGTAAAAACA
* * * ** ** **
17592008 TGCCAAAGCCATGTCTCAGACATGGTCTTACATG-GGATGTTCTCATGTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGAGGA-CCTCTCAACTCAG
* * *
17592059 TGCCCATGCCATGTCCCAAACATGGTCTTAC-GGAGGACCTCTCAACTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGAGGACCTCTCAACTCAG
* * * *
17592109 TGCCAACGCCATGTTCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGAGGACCTCTCAACTCAG
* *
17592159 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGA-GACCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGAGGACCTC
17592200 CTTACCCAAA
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
50 85 0.73
51 31 0.27
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (51 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGAGGACCTCTCAACTCAG
Found at i:17592185 original size:100 final size:101
Alignment explanation
Indices: 17592008--17592199 Score: 291
Period size: 100 Copynumber: 1.9 Consensus size: 101
17591998 GGTAAAAACA
** * *
17592008 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATGT
17592073 CCCAAACATGGTCTTAC-GGAGGACCTCTCAACTCAG
66 CCCAAACATGGTCTTACAGGA-GACCTCTCAACTCAG
*
17592109 TGCCAACGCCATGT-TCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
1 TGCCAAAGCCATGTCT-CAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATG
*
17592172 TCCCAGACATGGTCTTACAGGAGACCTC
65 TCCCAAACATGGTCTTACAGGAGACCTC
17592200 CTTACCCAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
100 46 0.55
101 37 0.45
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (101 bp):
TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATGT
CCCAAACATGGTCTTACAGGAGACCTCTCAACTCAG
Found at i:17593464 original size:28 final size:28
Alignment explanation
Indices: 17593419--17593486 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
17593409 TGACAATTAC
17593419 AGTAACACTGTGTAGGCCTTAGCCCAATAT
1 AGTAACA--GTGTAGGCCTTAGCCCAATAT
*
17593449 AGTAACAGTGTGGGCCTTAGCCCAATAT
1 AGTAACAGTGTAGGCCTTAGCCCAATAT
17593477 AGTAACAGTG
1 AGTAACAGTG
17593487 CAATGCAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 30 0.81
30 7 0.19
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (28 bp):
AGTAACAGTGTAGGCCTTAGCCCAATAT
Found at i:17593882 original size:27 final size:27
Alignment explanation
Indices: 17593852--17594275 Score: 300
Period size: 27 Copynumber: 15.8 Consensus size: 27
17593842 GATATAAAAT
*
17593852 TCATTTTACACTAT-GAGGGTATTTTAG
1 TCATTTTACCCT-TCGAGGGTATTTTAG
17593879 TCATTTTACCCTTCGAGGGTATTTT-G
1 TCATTTTACCCTTCGAGGGTATTTTAG
** * *
17593905 ATCATTTTACCCTTTAAGCGTA-TTTCG
1 -TCATTTTACCCTTCGAGGGTATTTTAG
* *
17593932 ATCATTTTACCTTTCGAGGGTA-TTTCG
1 -TCATTTTACCCTTCGAGGGTATTTTAG
*
17593959 ATCATTTTACCCTTCGAGGGTA-TTTCG
1 -TCATTTTACCCTTCGAGGGTATTTTAG
*
17593986 ATCATTTTACCCTTC-AGGGGTATTTCAG
1 -TCATTTTACCCTTCGA-GGGTATTTTAG
* * *
17594014 TCCTTTTACCCTATGGA-GGTA-TTTCG
1 TCATTTTACCCT-TCGAGGGTATTTTAG
* *
17594040 ATCATTTTACCCTTTGAGGGTA-TTTCG
1 -TCATTTTACCCTTCGAGGGTATTTTAG
* * * *
17594067 ATCATTTTACCCTT-TAGGAGTAATTCAA
1 -TCATTTTACCCTTCGAGG-GTATTTTAG
* * **
17594095 TCATTTTACCCATCAAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTTAG
* * * *
17594122 TTATTTTACACTTCAAGGGTATTTTAA
1 TCATTTTACCCTTCGAGGGTATTTTAG
* **
17594149 TCATTTTACCTTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTTAG
* * *
17594176 TCATTTTACCCTTCAAGGGTATTTCAT
1 TCATTTTACCCTTCGAGGGTATTTTAG
* **
17594203 TCA-TTTACCCTAT-GAAGGTATTTCGG
1 TCATTTTACCCT-TCGAGGGTATTTTAG
* * *
17594229 TCATTTTACCCATCAAGGGTGA-TTCAG
1 TCATTTTACCCTTCGAGGGT-ATTTTAG
17594256 TCATTTTACCCTTCG-GGGTA
1 TCATTTTACCCTTCGAGGGTA
17594276 AGACGGTTTT
Statistics
Matches: 328, Mismatches: 53, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.00
26 40 0.12
27 276 0.84
28 10 0.03
29 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTTAG
Done.