Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 114 of 310
Found at i:36596303 original size:3 final size:3
Alignment explanation
Indices: 36596271--36596321 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
36596261 CTCGAGGCAA
** * *
36596271 TCT TCT TCAT TCT TAA TCT CCT TTT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
36596317 TCT TC
1 TCT TC
36596322 AGTGCTGCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:36600162 original size:12 final size:12
Alignment explanation
Indices: 36600141--36600177 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
36600131 TGTTAGTATC
*
36600141 TAGTTGTTCTAT
1 TAGTTATTCTAT
36600153 TAGTTATTCTAT
1 TAGTTATTCTAT
36600165 TAGTTATTCTAT
1 TAGTTATTCTAT
36600177 T
1 T
36600178 TTTTAACAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.22, C:0.08, G:0.11, T:0.59
Consensus pattern (12 bp):
TAGTTATTCTAT
Found at i:36600987 original size:18 final size:16
Alignment explanation
Indices: 36600963--36601007 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
36600953 GTATTACTTT
36600963 GAAAAAATAATTTTAGA
1 GAAAAAATAATTTT-GA
36600980 GAAAAAA-ATATTTTGA
1 GAAAAAATA-ATTTTGA
*
36600996 GATAAAATAATT
1 GAAAAAATAATT
36601008 GTTAAATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (16 bp):
GAAAAAATAATTTTGA
Found at i:36601121 original size:17 final size:19
Alignment explanation
Indices: 36601099--36601137 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
36601089 AATTTTTTAA
36601099 CTTTTACTC-AAAAATA-T
1 CTTTTACTCTAAAAATACT
*
36601116 CTTTTAGTCTAAAAATACT
1 CTTTTACTCTAAAAATACT
36601135 CTT
1 CTT
36601138 AAAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.44
Consensus pattern (19 bp):
CTTTTACTCTAAAAATACT
Found at i:36602712 original size:28 final size:26
Alignment explanation
Indices: 36602654--36602712 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
36602644 ATTTTTTAGG
*
36602654 TTAATTAAATAATTTTTTATAAAAAA
1 TTAATTAAATAATTTATTATAAAAAA
* * *
36602680 GTAATTAAAATAAATTTATTATAATACA
1 TTAATT-AAAT-AATTTATTATAAAAAA
36602708 TTAAT
1 TTAAT
36602713 ATAATATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 4 0.15
28 17 0.65
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
TTAATTAAATAATTTATTATAAAAAA
Found at i:36603139 original size:7 final size:7
Alignment explanation
Indices: 36603127--36603151 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36603117 AATTTGTTTT
36603127 AATATAA
1 AATATAA
36603134 AATATAA
1 AATATAA
36603141 AATATAA
1 AATATAA
36603148 AATA
1 AATA
36603152 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATATAA
Found at i:36606105 original size:43 final size:42
Alignment explanation
Indices: 36606040--36606125 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 42
36606030 TAGGCACATG
* *
36606040 GAAAAGAGGAATCAACTACTCCTTTAATACCGTCCTATGCAT
1 GAAAAGAGAAATCAACTACTCCTTTAATACCGTCCCATGCAT
36606082 GAAAAGGAGAAATCAAC-AGCTCCTTTAATACCGTCCCATGCAT
1 GAAAA-GAGAAATCAACTA-CTCCTTTAATACCGTCCCATGCAT
36606125 G
1 G
36606126 CTTTCTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
42 6 0.15
43 34 0.85
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (42 bp):
GAAAAGAGAAATCAACTACTCCTTTAATACCGTCCCATGCAT
Found at i:36612774 original size:26 final size:24
Alignment explanation
Indices: 36612745--36612792 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
36612735 TCTCAATCTC
*
36612745 ATTTTGCTATTTCTTACTTTCTTTTT
1 ATTTTGCGATTTCTT--TTTCTTTTT
*
36612771 ATTTTTCGATTTCTTTTTCTTT
1 ATTTTGCGATTTCTTTTTCTTT
36612793 CATTTCTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
26 13 0.65
ACGTcount: A:0.10, C:0.15, G:0.04, T:0.71
Consensus pattern (24 bp):
ATTTTGCGATTTCTTTTTCTTTTT
Found at i:36617256 original size:25 final size:25
Alignment explanation
Indices: 36617228--36617275 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
36617218 TTATTATCTA
36617228 AATTAAAAAATTGAAT-AAAATTATC
1 AATT-AAAAATTGAATGAAAATTATC
* *
36617253 AATTTAAGATTGAATGAAAATTA
1 AATTAAAAATTGAATGAAAATTA
36617276 AAAAATGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.33
Consensus pattern (25 bp):
AATTAAAAATTGAATGAAAATTATC
Found at i:36617874 original size:46 final size:46
Alignment explanation
Indices: 36617789--36617876 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
36617779 AGTGTGCTAT
* *
36617789 CTGAAATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGAGACCATGGCAAC
*
36617835 CTGATATGAAATGTGTAAGACCATGGTTGAATA-AGACCATGG
1 CTGAAATGAAATGTGTAAGACCATGGTTGAA-AGAGACCATGG
36617877 TTGAAAGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
46 37 0.97
47 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (46 bp):
CTGAAATGAAATGTGTAAGACCATGGTTGAAAGAGACCATGGCAAC
Found at i:36617891 original size:16 final size:16
Alignment explanation
Indices: 36617850--36617881 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36617840 ATGAAATGTG
36617850 TAAGACCATGGTTGAA
1 TAAGACCATGGTTGAA
36617866 TAAGACCATGGTTGAA
1 TAAGACCATGGTTGAA
36617882 AGATACCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
TAAGACCATGGTTGAA
Found at i:36617917 original size:46 final size:47
Alignment explanation
Indices: 36617863--36618084 Score: 252
Period size: 46 Copynumber: 4.8 Consensus size: 47
36617853 GACCATGGTT
* * * *
36617863 GAATAAGACCATGGTTGAAAGATACCATGACAACCTGATATG-AAAT
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAC
** * ** * *
36617909 GTGTAAGACTATGGTTGAAAGATACCATGGCAATGTAACATG-AAAT
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAC
**
36617955 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAAC
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAC
*
36618002 GAATAAGACCATGGCTGAAAGATACCATGGCAACATGACA-GAAAAC
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAC
* * * * *
36618048 GAGTAAAACCATAGTTGAAAGATACTATGGCATCATG
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATG
36618085 TCAAAGATAA
Statistics
Matches: 150, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
46 109 0.73
47 41 0.27
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (47 bp):
GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAC
Found at i:36617938 original size:62 final size:62
Alignment explanation
Indices: 36617804--36617927 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
36617794 ATGAAATGTG
* *
36617804 TAAGACTATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCATGGTTGAA
*
36617866 TAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACTATGGTTGAA
1 TAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCATGGTTGAA
36617928 AGATACCATG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (62 bp):
TAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCATGGTTGAA
Found at i:36618065 original size:93 final size:93
Alignment explanation
Indices: 36617863--36618084 Score: 232
Period size: 93 Copynumber: 2.4 Consensus size: 93
36617853 GACCATGGTT
* * * * *** * ** * *
36617863 GAATAAGACCATGGTTGAAAGATACCATGACAACCTGATATG-AAATGTGTAAGACTATGGTTGA
1 GAATAAAACCATAGTTGAAAGATACCATGGCAACATGACGGGAAAACGAATAAGACCATGGCTGA
** *
36617927 AAGATACCATGGCAATGTAACATGAAAT
66 AAGATACCATGGCAACATAACATGAAAC
* *
36617955 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAACGAATAAGACCATGGCTGA
1 GAATAAAACCATAGTTGAAAGATACCATGGCAACATGACGGGAAAACGAATAAGACCATGGCTGA
*
36618020 AAGATACCATGGCAACATGACA-GAAAAC
66 AAGATACCATGGCAACATAACATG-AAAC
* * *
36618048 GAGTAAAACCATAGTTGAAAGATACTATGGCATCATG
1 GAATAAAACCATAGTTGAAAGATACCATGGCAACATG
36618085 TCAAAGATAA
Statistics
Matches: 109, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
92 38 0.35
93 71 0.65
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (93 bp):
GAATAAAACCATAGTTGAAAGATACCATGGCAACATGACGGGAAAACGAATAAGACCATGGCTGA
AAGATACCATGGCAACATAACATGAAAC
Found at i:36619715 original size:37 final size:37
Alignment explanation
Indices: 36619654--36619732 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
36619644 TTATTACGAA
* * *
36619654 GTCTTACCCGAACATAATCTCCACACAAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACAAAGTCATCGG
* **
36619691 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACAAAGTCATCGG
36619728 GTCTT
1 GTCTT
36619733 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACAAAGTCATCGG
Found at i:36619929 original size:47 final size:47
Alignment explanation
Indices: 36619851--36620825 Score: 1835
Period size: 47 Copynumber: 20.7 Consensus size: 47
36619841 CCCTTCGGGA
* * * * * *
36619851 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36619898 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36619945 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36619992 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620039 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620086 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620133 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620180 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620227 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620274 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620321 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620368 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620415 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620462 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620509 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620556 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620603 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620650 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620697 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36620744 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36620791 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
36620826 AGAATCCTAA
Statistics
Matches: 914, Mismatches: 13, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
46 1 0.00
47 913 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36636281 original size:48 final size:48
Alignment explanation
Indices: 36636186--36636325 Score: 147
Period size: 48 Copynumber: 2.9 Consensus size: 48
36636176 CCCACGATTA
*
36636186 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACATTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAT
* * ****
36636234 GTGAGAGCCAGTGTAAGACCATGTCTGGGACTTGGCATCGGGGTTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAT
** * * * *
36636282 ATGTA-TTCCAGTGTAAGACCATATCTGGGATATTGCATCGACAT
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACAT
36636326 CAGTATGTGA
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 73 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAT
Found at i:36636407 original size:42 final size:42
Alignment explanation
Indices: 36636329--36636499 Score: 126
Period size: 42 Copynumber: 3.9 Consensus size: 42
36636319 TCGACATCAG
* * * ** * * *
36636329 TATGTGATTTCATTTAAGACCATACCTGGAATATGGCGTTGA
1 TATGAGATTTCGTATAAGACCATGTCTGGGATATGGCATTAA
* *
36636371 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATTAA
1 TATGAGATTTCGTATAAGACCATGTCTGGGATATGGCATTAA
* ****
36636413 TGTGAGGCCCCGTATAAGACCATGTCTGGGATATGGCATTAGCA
1 TATGAGATTTCGTATAAGACCATGTCTGGGATATGGCATTA--A
* * *
36636457 CTGACATGAGACTTCGTATAAGACCATATTTGGGATATGGCAT
1 -T---ATGAGATTTCGTATAAGACCATGTCTGGGATATGGCAT
36636500 CGATATGTGG
Statistics
Matches: 101, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 67 0.66
44 1 0.01
45 1 0.01
48 32 0.32
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TATGAGATTTCGTATAAGACCATGTCTGGGATATGGCATTAA
Found at i:36639716 original size:12 final size:12
Alignment explanation
Indices: 36639699--36639723 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36639689 CTTTTTCCTC
36639699 ATTCTTGAAATA
1 ATTCTTGAAATA
36639711 ATTCTTGAAATA
1 ATTCTTGAAATA
36639723 A
1 A
36639724 ATTTGCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTCTTGAAATA
Found at i:36643885 original size:15 final size:15
Alignment explanation
Indices: 36643843--36643904 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
36643833 GAAAACCAGA
36643843 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
36643858 ACAGAG-GATCCAAG
1 ATAAAGAAATCCAAG
*
36643872 ATAAAGATATCCAAG
1 ATAAAGAAATCCAAG
* *
36643887 GTACAGAAATCCAAG
1 ATAAAGAAATCCAAG
36643902 ATA
1 ATA
36643905 CCATATCATA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
14 11 0.31
15 25 0.69
ACGTcount: A:0.52, C:0.16, G:0.18, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:36643885 original size:29 final size:30
Alignment explanation
Indices: 36643843--36643904 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
36643833 GAAAACCAGA
*
36643843 ATAAAGAAATCCAA-G-ACAGAGGATCCAAG
1 ATAAAGAAATCCAAGGTACAGA-AATCCAAG
*
36643872 ATAAAGATATCCAAGGTACAGAAATCCAAG
1 ATAAAGAAATCCAAGGTACAGAAATCCAAG
36643902 ATA
1 ATA
36643905 CCATATCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.45
30 11 0.38
31 5 0.17
ACGTcount: A:0.52, C:0.16, G:0.18, T:0.15
Consensus pattern (30 bp):
ATAAAGAAATCCAAGGTACAGAAATCCAAG
Found at i:36645135 original size:29 final size:28
Alignment explanation
Indices: 36645079--36645163 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
36645069 ACCTGTATTA
* *
36645079 GGCCCATTAAGCCCAATCATATTCATAT
1 GGCCCATTAGGCCCAATCACATTCATAT
*
36645107 GGCCCATTAGGCCCAAATCACATTTATAT
1 GGCCCATTAGGCCC-AATCACATTCATAT
* * *
36645136 GGCCCGTTAGGCCTAGTCACATTCATAT
1 GGCCCATTAGGCCCAATCACATTCATAT
36645164 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
28 25 0.51
29 24 0.49
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (28 bp):
GGCCCATTAGGCCCAATCACATTCATAT
Found at i:36646959 original size:39 final size:39
Alignment explanation
Indices: 36646795--36647096 Score: 218
Period size: 40 Copynumber: 7.6 Consensus size: 39
36646785 TTGAATGCTG
* * * * * * *
36646795 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
36646835 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
36646875 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
36646915 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * * *
36646954 ACCGGGCTATGTCCCGAAGGCATT-TGAACGAG-GAGCTATA
1 TCCGGGTTATGTCCCGAAGGCATTGTG--CGAGTTA-CTAAA
** * * ** * *
36646994 TCC-GGTTAAATCCCGAAGGTACGTGATTTG-GTAAGTTAAA
1 TCCGGGTTATGTCCCGAAGGCA-TTG-TGCGAGTTA-CTAAA
*
36647034 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
36647073 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
36647097 TGAACGAGGA
Statistics
Matches: 210, Mismatches: 39, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
38 2 0.01
39 84 0.40
40 99 0.47
41 24 0.11
42 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:36647036 original size:119 final size:119
Alignment explanation
Indices: 36646910--36647146 Score: 474
Period size: 119 Copynumber: 2.0 Consensus size: 119
36646900 GTGCGAGTTA
36646910 TTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
36646975 ATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGTAAG
66 ATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGTAAG
36647029 TTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
36647094 ATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGTAA
66 ATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGTAA
36647147 TGAATGAGCT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (119 bp):
TTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
ATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTACGTGATTTGGTAAG
Found at i:36653698 original size:51 final size:49
Alignment explanation
Indices: 36653632--36653765 Score: 187
Period size: 49 Copynumber: 2.7 Consensus size: 49
36653622 TGAGGTCGCA
36653632 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA-T-TGATCACG
* * * * * *
36653683 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGATCACG
*
36653732 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
36653766 AGATAGCTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 37 0.51
50 1 0.01
51 35 0.48
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGATCACG
Found at i:36659672 original size:29 final size:28
Alignment explanation
Indices: 36659636--36659713 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
36659626 TCATGAGATT
36659636 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
36659666 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
36659693 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
36659714 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:36659931 original size:174 final size:174
Alignment explanation
Indices: 36659666--36659993 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
36659656 AAATTGTACA
*
36659666 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
36659731 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
36659796 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
36659840 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
36659905 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
36659970 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
36659994 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:36666351 original size:22 final size:25
Alignment explanation
Indices: 36666325--36666378 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
36666315 TTTATAAATT
36666325 TAATTTAAAAG-ATA-TAAT-ACAA
1 TAATTTAAAAGCATATTAATAACAA
*
36666347 TAATTT-CAAGCATATTTAATAACAA
1 TAATTTAAAAGCATA-TTAATAACAA
36666372 TAATTTA
1 TAATTTA
36666379 GTCATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.12
22 9 0.35
24 4 0.15
25 10 0.38
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (25 bp):
TAATTTAAAAGCATATTAATAACAA
Found at i:36670980 original size:26 final size:26
Alignment explanation
Indices: 36670951--36671004 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
36670941 ATTCAATTAT
*
36670951 AAAATATT-AATAATTCAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
*
36670976 AAAAATTAAATGATTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
36671002 AAA
1 AAA
36671005 TTTAGGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:36673505 original size:14 final size:14
Alignment explanation
Indices: 36673486--36673531 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
36673476 ATTTAAGTTG
*
36673486 TTTATTATTTTATC
1 TTTATTAATTTATC
36673500 TTTATTTAATTTATC
1 TTTA-TTAATTTATC
*
36673515 -TTATTAATCTAT-
1 TTTATTAATTTATC
36673527 TTTAT
1 TTTAT
36673532 GATTTGTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 12 0.43
14 7 0.25
15 9 0.32
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTAATTTATC
Found at i:36682562 original size:5 final size:5
Alignment explanation
Indices: 36682552--36683465 Score: 1747
Period size: 5 Copynumber: 182.8 Consensus size: 5
36682542 ACATTCTAAC
* *
36682552 CATAT CATAT CATAT AATAT CATAT AATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36682602 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36682652 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36682702 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36682752 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36682802 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36682852 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36682902 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36682952 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36683002 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36683052 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36683102 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36683152 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36683202 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36683252 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36683302 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
36683352 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
* * * * **
36683402 CATAT CATAT CATAT CATAT CATAT CGTAT CGTAC CGTAT CATAT TGTAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
*
36683452 CATAT CGTAT CATA
1 CATAT CATAT CATA
36683466 CCAAATTGCA
Statistics
Matches: 895, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 895 1.00
ACGTcount: A:0.40, C:0.20, G:0.01, T:0.40
Consensus pattern (5 bp):
CATAT
Found at i:36690465 original size:21 final size:21
Alignment explanation
Indices: 36690427--36690466 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36690417 TAGTCTTCTG
* *
36690427 TAGTCTTTTTCATGAAAATTT
1 TAGTCTTTTCCATCAAAATTT
*
36690448 TAGTCTTTTCCTTCAAAAT
1 TAGTCTTTTCCATCAAAAT
36690467 AGACATGCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (21 bp):
TAGTCTTTTCCATCAAAATTT
Found at i:36690804 original size:2 final size:2
Alignment explanation
Indices: 36690797--36690843 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
36690787 TTCATGAAAC
*
36690797 AG AG AG AG AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
36690839 AG AG A
1 AG AG A
36690844 AGAAGAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (2 bp):
AG
Found at i:36695099 original size:27 final size:27
Alignment explanation
Indices: 36695069--36695246 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
36695059 ATATTGAGTC
* * * *
36695069 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36695096 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36695123 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* ** * *
36695151 CGCGCACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36695178 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36695205 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36695232 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36695247 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36695215 original size:82 final size:81
Alignment explanation
Indices: 36695090--36695245 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36695080 TGCTATATAA
* * *
36695090 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCG
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36695155 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36695172 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36695236 CACTTAGTGC
65 CACTTAGTGC
36695246 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36704993 original size:17 final size:17
Alignment explanation
Indices: 36704951--36704997 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
36704941 AATTCAATTT
36704951 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
36704967 -AATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
36704985 TAATATAAATAAT
1 TAATATAAATAAT
36704998 ATAATATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.11
16 1 0.04
17 13 0.48
18 7 0.26
19 3 0.11
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:36705003 original size:17 final size:16
Alignment explanation
Indices: 36704951--36705031 Score: 51
Period size: 17 Copynumber: 4.7 Consensus size: 16
36704941 AATTCAATTT
36704951 TAATATAAAT-ATTCAA
1 TAATATAAATAATT-AA
36704967 -AATGACTAAATAATTCAA
1 TAAT-A-TAAATAATT-AA
36704985 TAATATAAATAATATAA
1 TAATATAAATAAT-TAA
*
36705002 T-ATGTGAAATTTAATTTAA
1 TAATAT-AAA--TAA-TTAA
36705021 TAATATAAATA
1 TAATATAAATA
36705032 GTAGATATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
15 3 0.06
16 4 0.08
17 21 0.40
18 8 0.15
19 13 0.25
20 4 0.08
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (16 bp):
TAATATAAATAATTAA
Found at i:36708202 original size:23 final size:24
Alignment explanation
Indices: 36708176--36708232 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
36708166 ACTAGTGTTC
36708176 AACAAGGAGGCA-A-AAGTGGTGGT
1 AACAAGGAGGCAGATAA-TGGTGGT
36708199 AACAAGGAGG-AGATAATGGTGGT
1 AACAAGGAGGCAGATAATGGTGGT
36708222 AACAAGGAGGC
1 AACAAGGAGGC
36708233 TGATTCATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 1 0.03
23 28 0.90
24 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.39, T:0.12
Consensus pattern (24 bp):
AACAAGGAGGCAGATAATGGTGGT
Found at i:36710064 original size:23 final size:23
Alignment explanation
Indices: 36710021--36710064 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
36710011 TGATTATGCC
*
36710021 AATGCAATGTTTTTGAAAAAAAT
1 AATGCAATGTTTTTCAAAAAAAT
*
36710044 AATGCAA-GATTTTTCAGAAAA
1 AATGCAATG-TTTTTCAAAAAA
36710065 GTTCCTACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.32
Consensus pattern (23 bp):
AATGCAATGTTTTTCAAAAAAAT
Found at i:36714856 original size:39 final size:40
Alignment explanation
Indices: 36714652--36714874 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
36714642 TTGAATGCTG
* * * * * *
36714652 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
36714692 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
36714732 TCCGGGTTAAGTCTCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
36714772 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
36714812 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
36714851 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36714875 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:36714894 original size:79 final size:80
Alignment explanation
Indices: 36714727--36714909 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
36714717 GTGCGAGATA
* * * *
36714727 CTAAATCCGGGTTAAGTCTCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
36714792 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
36714807 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
36714871 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
36714886 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
36714910 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 26 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:36716457 original size:18 final size:18
Alignment explanation
Indices: 36716434--36716470 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36716424 ACTTAAAATA
36716434 TGATATTATCAAATTTTC
1 TGATATTATCAAATTTTC
36716452 TGATATTATCAAATTTTC
1 TGATATTATCAAATTTTC
36716470 T
1 T
36716471 TTCTTCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.51
Consensus pattern (18 bp):
TGATATTATCAAATTTTC
Found at i:36718295 original size:31 final size:32
Alignment explanation
Indices: 36718259--36718323 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
36718249 CTTAGATAAT
36718259 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
36718290 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
36718322 TT
1 TT
36718324 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:36718883 original size:13 final size:12
Alignment explanation
Indices: 36718861--36718912 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
36718851 AAAAAACAGC
36718861 AAAAAGAGCAAA
1 AAAAAGAGCAAA
36718873 AAAAAGAAGC---
1 AAAAAG-AGCAAA
36718883 AAAAAGAGCAAAA
1 AAAAAGAGC-AAA
*
36718896 AAAAAGCGCAAA
1 AAAAAGAGCAAA
36718908 AAAAA
1 AAAAA
36718913 AGTTGCCTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
9 3 0.09
10 6 0.18
12 14 0.41
13 11 0.32
ACGTcount: A:0.75, C:0.10, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAGAGCAAA
Found at i:36718883 original size:22 final size:21
Alignment explanation
Indices: 36718850--36718909 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
36718840 CTTATTCTTT
*
36718850 AAAAAAACAGCAAAAAGAGCA
1 AAAAAAAAAGCAAAAAGAGCA
36718871 AAAAAAAGAAGCAAAAAGAGCA
1 AAAAAAA-AAGCAAAAAGAGCA
*
36718893 AAAAAAAAGCGCAAAAA
1 AAAAAAAA-AGCAAAAA
36718910 AAAAGTTGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 8 0.23
22 27 0.77
ACGTcount: A:0.73, C:0.12, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAGCAAAAAGAGCA
Found at i:36718913 original size:13 final size:13
Alignment explanation
Indices: 36718883--36718914 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36718873 AAAAAGAAGC
36718883 AAAAAGAGCAAAA
1 AAAAAGAGCAAAA
*
36718896 AAAAAGCGCAAAA
1 AAAAAGAGCAAAA
36718909 AAAAAG
1 AAAAAG
36718915 TTGCCTACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.09, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAGCAAAA
Found at i:36720169 original size:34 final size:34
Alignment explanation
Indices: 36720131--36720198 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
36720121 GTATATTTGG
36720131 ATGTTGTCTAGGTCCCTTTTTAAATGTGCACAAA
1 ATGTTGTCTAGGTCCCTTTTTAAATGTGCACAAA
* *
36720165 ATGTTGTCTAGGTCCCTTTTTAAGTGTGTACAAA
1 ATGTTGTCTAGGTCCCTTTTTAAATGTGCACAAA
36720199 TGAATTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (34 bp):
ATGTTGTCTAGGTCCCTTTTTAAATGTGCACAAA
Found at i:36732457 original size:28 final size:28
Alignment explanation
Indices: 36732411--36732467 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
36732401 GGATTGATAG
* * *
36732411 TTCAGCTCATCAAAGGAGACTGAAACCT
1 TTCAGCTCATAAAAAGAGACTAAAACCT
36732439 TTCAGCTCATAAAAAGAGACTAAAACCT
1 TTCAGCTCATAAAAAGAGACTAAAACCT
36732467 T
1 T
36732468 AGGACTCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (28 bp):
TTCAGCTCATAAAAAGAGACTAAAACCT
Found at i:36739457 original size:112 final size:112
Alignment explanation
Indices: 36739273--36739474 Score: 314
Period size: 112 Copynumber: 1.8 Consensus size: 112
36739263 TAGTACTGAG
36739273 AAACTTACTCGTGTTGCCATTAAACATGGTCCTTTTCAATTTGTAAGACACAATGGTATCGATCT
1 AAACTTACTCGTGTTGCCATTAAACATGGTCCTTTTCAATTTGTAAGACACAATGGTATCGATCT
36739338 GGAACAAAATCAAATTCATCATTTAATTTTGTTCTATTAGTATTTAA
66 GGAACAAAATCAAATTCATCATTTAATTTTGTTCTATTAGTATTTAA
* * * * * * *
36739385 AAACTTGCTCGTGTTGCCGTTAAACATGGTCTTTTTCAATTTGTAAGACACGATGTTGTCGGTCT
1 AAACTTACTCGTGTTGCCATTAAACATGGTCCTTTTCAATTTGTAAGACACAATGGTATCGATCT
* **
36739450 TGAACAAAATGTAATTCATCATTTA
66 GGAACAAAATCAAATTCATCATTTA
36739475 TGTTCTGTTG
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 80 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (112 bp):
AAACTTACTCGTGTTGCCATTAAACATGGTCCTTTTCAATTTGTAAGACACAATGGTATCGATCT
GGAACAAAATCAAATTCATCATTTAATTTTGTTCTATTAGTATTTAA
Found at i:36740874 original size:43 final size:43
Alignment explanation
Indices: 36740826--36741034 Score: 244
Period size: 43 Copynumber: 4.9 Consensus size: 43
36740816 TTTCTGATAA
*
36740826 GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCACCGACTT
1 GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGACTT
** * *
36740869 GTGTTTTCATGTAAGACCATATTTGGGACGTTGGCATCGACTT
1 GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGACTT
* * * *
36740912 GTGTTTTCGTGTAAGACCACGTTTGGGACGTTGGCATCAACTT
1 GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGACTT
* * *
36740955 GTGTTTTCGTGTAAGACC-CTGTCTGGGATAG-CGGCATCGA-TCC
1 GTGTTTTCATGTAAGACCAC-GTCTGGGAT-GTTGGCATCGACT-T
* *
36740998 GTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCAT
36741035 TGTACGAATC
Statistics
Matches: 143, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
42 3 0.02
43 138 0.97
44 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (43 bp):
GTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGACTT
Found at i:36743262 original size:29 final size:29
Alignment explanation
Indices: 36743199--36743266 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
36743189 TAATCAACCG
*
36743199 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
36743228 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
36743257 CGCACACTTA
1 CGCACACTTA
36743267 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:36743436 original size:29 final size:29
Alignment explanation
Indices: 36743373--36743440 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
36743363 TAATCAACCG
36743373 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
36743402 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
36743431 CGCACACTTA
1 CGCACACTTA
36743441 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:36743585 original size:29 final size:30
Alignment explanation
Indices: 36743548--36743620 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
36743538 AATCAACCGT
* *
36743548 GCACGCTTAGTGCCATGTAC-TTTAAACTC
1 GCACACTTAGTGCCATGTACATTTAAACCC
36743577 GCACACTTAGTG-C-TGTACAATTTAAACCC
1 GCACACTTAGTGCCATGTAC-ATTTAAACCC
36743606 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
36743621 ATCTCATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.13
28 1 0.03
29 31 0.82
30 1 0.03
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (30 bp):
GCACACTTAGTGCCATGTACATTTAAACCC
Found at i:36743614 original size:174 final size:174
Alignment explanation
Indices: 36743088--36743589 Score: 914
Period size: 174 Copynumber: 2.9 Consensus size: 174
36743078 AACTCAAGGT
* * * *
36743088 ACTTACCTTTTCAGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGCCTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
36743153 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
36743218 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
36743262 ACTTACCTTTTCCGCTGTCCAAAATCGCCTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGCCTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
36743327 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
36743392 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
36743436 ACTTACCTTTTCCGCTGTCCAAAATCGCCTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGCCTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
36743501 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGTGCACGCTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
36743566 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
36743590 TGTACAATTT
Statistics
Matches: 316, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 316 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGCCTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:36745543 original size:39 final size:40
Alignment explanation
Indices: 36745499--36745722 Score: 240
Period size: 40 Copynumber: 5.6 Consensus size: 40
36745489 CTCCTCGTTT
* * * *
36745499 AAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
36745539 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
36745578 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
36745618 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 AAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
36745658 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
*
36745699 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAACCCGGA
36745723 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 104 0.66
41 15 0.09
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:36745731 original size:41 final size:41
Alignment explanation
Indices: 36745654--36745731 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
36745644 TTTGTATCTC
* * *
36745654 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
36745695 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
36745732 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:36752801 original size:40 final size:40
Alignment explanation
Indices: 36752701--36752925 Score: 197
Period size: 40 Copynumber: 5.7 Consensus size: 40
36752691 GCTCCTCGTT
* * * * *
36752701 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
* *
36752741 C-AATGCCTTCAGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
* *
36752780 CGAATGCCTTCAGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
36752820 CAAAGGCCTTCGGGGCTTAACCCAGAATTT-GTATCTCGCA
1 CAAATGCCTTCAGGACTTAACCC-GGATTTAGTAACTCGCA
** * * * *
36752860 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCAGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
36752901 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCAGGACTTAACCCGGA
36752926 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 40 0.26
40 99 0.64
41 16 0.10
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36752934 original size:41 final size:41
Alignment explanation
Indices: 36752857--36752934 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
36752847 TTTGTATCTC
* * *
36752857 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
36752898 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
36752935 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:36753572 original size:50 final size:53
Alignment explanation
Indices: 36753514--36753621 Score: 168
Period size: 56 Copynumber: 2.0 Consensus size: 53
36753504 ATTTAGCAAC
36753514 CAATGCACATATGTGCT-CAC-AC-AAAAATGCTAAAAAGGAGGTTCAAGAAT
1 CAATGCACATATGTGCTACACAACAAAAAATGCTAAAAAGGAGGTTCAAGAAT
36753564 CAATGCACATATGTGCTCACACAACAAAAAAAATGCTAAAAAGGAGGTTCAAGAAT
1 CAATGCACATATGTGCT-ACACAAC--AAAAAATGCTAAAAAGGAGGTTCAAGAAT
36753620 CA
1 CA
36753622 TCAAGCCATC
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
50 17 0.33
52 3 0.06
53 2 0.04
56 30 0.58
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.19
Consensus pattern (53 bp):
CAATGCACATATGTGCTACACAACAAAAAATGCTAAAAAGGAGGTTCAAGAAT
Found at i:36754530 original size:57 final size:57
Alignment explanation
Indices: 36754469--36754583 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
36754459 TTTCTCACAT
* *
36754469 AAGTCCTATTGACTAAATTCACATGAAATCAACCCAATTGAAGCTTGAAATTTTCAC
1 AAGTCCTATTAACTAAATTCACATGAAATCAACCAAATTGAAGCTTGAAATTTTCAC
36754526 AAGTCCTATTAACTAAATTCACATGAAATCAACCAAATTGAAGCTTGAAATTTTCAC
1 AAGTCCTATTAACTAAATTCACATGAAATCAACCAAATTGAAGCTTGAAATTTTCAC
36754583 A
1 A
36754584 CATTCATAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (57 bp):
AAGTCCTATTAACTAAATTCACATGAAATCAACCAAATTGAAGCTTGAAATTTTCAC
Found at i:36760926 original size:39 final size:40
Alignment explanation
Indices: 36760881--36761065 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
36760871 GCTCCTCGTT
* * *
36760881 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
36760921 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
36760960 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
36761000 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
36761041 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
36761066 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:36760981 original size:40 final size:39
Alignment explanation
Indices: 36760848--36761065 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
36760838 AAATCACGTA
* * **
36760848 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
36760887 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
36760926 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
36760966 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
36761006 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
36761046 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
36761066 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:36764907 original size:45 final size:45
Alignment explanation
Indices: 36764808--36764979 Score: 190
Period size: 45 Copynumber: 3.9 Consensus size: 45
36764798 CTGAATTCAT
* * * *
36764808 TCACTGACATT-TCGCCTACTAGGCTC-AAAGCCCG-ATA-TAATT
1 TCACCGACATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGT-ATC
* * *
36764850 TCACCGGCATTATAGCTTGCTAGGCTCAAAAGCCTGAATAGTATC
1 TCACCGACATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
* * *
36764895 TCACCGATATTATAGCCTGTTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGACATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
* * *
36764940 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATA
1 TCACCGACATTATAGCCTGCTAGGCTCAAAAGCCCGAATA
36764980 ATACTGTGCG
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 9 0.08
43 12 0.11
44 7 0.06
45 80 0.73
46 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (45 bp):
TCACCGACATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
Found at i:36765871 original size:47 final size:47
Alignment explanation
Indices: 36765819--36765910 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
36765809 AAAATTTTCT
* * *
36765819 TTAACTGAGTAACTTGT-TCGGAAATATTAAGGGCAAATTTAACAAAC
1 TTAACTAAGTAACTTATCT-GGAAATATTAAGAGCAAATTTAACAAAC
36765866 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAA
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAA
36765911 GCTTTAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 40 0.98
48 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAAC
Found at i:36766175 original size:47 final size:47
Alignment explanation
Indices: 36766123--36766214 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
36766113 AAAATTTTCT
* * *
36766123 TTAACTGAGTAACTTGT-TCGGAAATATTAAGGGCAAATTTAACAAAC
1 TTAACTAAGTAACTTATCT-GGAAATATTAAGAGCAAATTTAACAAAC
36766170 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAA
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAA
36766215 GCTTTAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 40 0.98
48 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAAC
Found at i:36766358 original size:304 final size:304
Alignment explanation
Indices: 36765809--36766417 Score: 1191
Period size: 304 Copynumber: 2.0 Consensus size: 304
36765799 TAAGTACTTT
36765809 AAAATTTTCTTTAACTGAGTAACTTGTTCGGAAATATTAAGGGCAAATTTAACAAACTTAACTAA
1 AAAATTTTCTTTAACTGAGTAACTTGTTCGGAAATATTAAGGGCAAATTTAACAAACTTAACTAA
36765874 GTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGCTTTAAATTCAACTTATAATTTGAGCA
66 GTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGCTTTAAATTCAACTTATAATTTGAGCA
*
36765939 TAACTCATCAAGGCATCCACACTAATTTATTATCCAAACAACCATAGCCGAATACATATATTCTT
131 TAACTCATCAAGGCATCCACACTAATTTATTATCCAAACAACCATAGCCGAATACACATATTCTT
36766004 TCATTCATTCTTAACAAAATTCTATCAAGCTTAAATCTCTATTTCATCATTTTAAAACGTAACAT
196 TCATTCATTCTTAACAAAATTCTATCAAGCTTAAATCTCTATTTCATCATTTTAAAACGTAACAT
36766069 TACTCAATGTTATCTAAATTCACATTCGGCAACTACACATACAC
261 TACTCAATGTTATCTAAATTCACATTCGGCAACTACACATACAC
36766113 AAAATTTTCTTTAACTGAGTAACTTGTTCGGAAATATTAAGGGCAAATTTAACAAACTTAACTAA
1 AAAATTTTCTTTAACTGAGTAACTTGTTCGGAAATATTAAGGGCAAATTTAACAAACTTAACTAA
36766178 GTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGCTTTAAATTCAACTTATAATTTGAGCA
66 GTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGCTTTAAATTCAACTTATAATTTGAGCA
* *
36766243 TAACTCATCAAGGCATCCACACTAATTTATTATCCAAACAACCGTAGTCGAATACACATATTCTT
131 TAACTCATCAAGGCATCCACACTAATTTATTATCCAAACAACCATAGCCGAATACACATATTCTT
36766308 TCATTCATTCTTAACAAAATTCTATCAAGCTTAAATCTCTATTTCATCATTTTAAAACGTAACAT
196 TCATTCATTCTTAACAAAATTCTATCAAGCTTAAATCTCTATTTCATCATTTTAAAACGTAACAT
36766373 TACTCAATGTTATCTAAATTCACATTCGGCAACTACACATACAC
261 TACTCAATGTTATCTAAATTCACATTCGGCAACTACACATACAC
36766417 A
1 A
36766418 CAAGCCGATT
Statistics
Matches: 302, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
304 302 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (304 bp):
AAAATTTTCTTTAACTGAGTAACTTGTTCGGAAATATTAAGGGCAAATTTAACAAACTTAACTAA
GTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGCTTTAAATTCAACTTATAATTTGAGCA
TAACTCATCAAGGCATCCACACTAATTTATTATCCAAACAACCATAGCCGAATACACATATTCTT
TCATTCATTCTTAACAAAATTCTATCAAGCTTAAATCTCTATTTCATCATTTTAAAACGTAACAT
TACTCAATGTTATCTAAATTCACATTCGGCAACTACACATACAC
Found at i:36775666 original size:30 final size:30
Alignment explanation
Indices: 36775632--36775692 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36775622 TCCTTAACTC
36775632 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
36775662 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
36775692 A
1 A
36775693 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:36775779 original size:72 final size:72
Alignment explanation
Indices: 36775687--36775830 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 72
36775677 TACACTTTTG
* *
36775687 CCCCTAGGCTCAGGAATTAAACTTCATCCCTTATTCTTATGTTTTATGACGTGCTGATCACTTTT
1 CCCCTAGGCTCAGGAATTAAACGTCATCCCTTAGTCTTATGTTTTATGACGTGCTGATCACTTTT
36775752 CCCTTCT
66 CCCTTCT
* * *
36775759 CCCCTGGGCTCGGGAATTAAACGTCATCCCTTAGTCTTATGTTTTATGATGTGCTGATCACTTTT
1 CCCCTAGGCTCAGGAATTAAACGTCATCCCTTAGTCTTATGTTTTATGACGTGCTGATCACTTTT
*
36775824 TCCTTCT
66 CCCTTCT
36775831 ATGACAACAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.40
Consensus pattern (72 bp):
CCCCTAGGCTCAGGAATTAAACGTCATCCCTTAGTCTTATGTTTTATGACGTGCTGATCACTTTT
CCCTTCT
Found at i:36776643 original size:278 final size:278
Alignment explanation
Indices: 36776146--36776700 Score: 1074
Period size: 278 Copynumber: 2.0 Consensus size: 278
36776136 AACCCTATCC
*
36776146 ATGGCTTCCCCCATGCTAATTCCAGCCTCCATGAAAAAGATGAGTCAATTTTGGCTTTATATTCC
1 ATGGCTTCCCCCATGCTAATTCCAGACTCCATGAAAAAGATGAGTCAATTTTGGCTTTATATTCC
36776211 CTTTTTATTTCTTTTAATTACCAAATGACCAAAATGCCCTTCCTTACTAAACTTTCAAAAATTCC
66 CTTTTTATTTCTTTTAATTACCAAATGACCAAAATGCCCTTCCTTACTAAACTTTCAAAAATTCC
36776276 ATCCATGTCCAATTTTTGTCCATCACTTAGAAATTGGTCAAATTGCTATTTAATACCTCCTAATT
131 ATCCATGTCCAATTTTTGTCCATCACTTAGAAATTGGTCAAATTGCTATTTAATACCTCCTAATT
36776341 AATATTTCAAAGAAATTTCATACTAGAAACTTCTAGAATGCAAGTTTTACAACTTATTCAATTTA
196 AATATTTCAAAGAAATTTCATACTAGAAACTTCTAGAATGCAAGTTTTACAACTTATTCAATTTA
36776406 GTCCCTAAATTTAAATTA
261 GTCCCTAAATTTAAATTA
***
36776424 ATGGCTTCCCCCATGCTAATTTTGGACTCCATGAAAAAGATGAGTCAATTTTGGCTTTATATTCC
1 ATGGCTTCCCCCATGCTAATTCCAGACTCCATGAAAAAGATGAGTCAATTTTGGCTTTATATTCC
36776489 CTTTTTATTTCTTTTAATTACCAAATGACCAAAATGCCCTTCCTTACTAAACTTTCAAAAATTCC
66 CTTTTTATTTCTTTTAATTACCAAATGACCAAAATGCCCTTCCTTACTAAACTTTCAAAAATTCC
36776554 ATCCATGTCCAATTTTTGTCCATCACTTAGAAATTGGTCAAATTGCTATTTAATACCTCCTAATT
131 ATCCATGTCCAATTTTTGTCCATCACTTAGAAATTGGTCAAATTGCTATTTAATACCTCCTAATT
36776619 AATATTTCAAAGAAATTTCATACTAGAAACTTCTAGAATGCAAGTTTTACAACTTATTCAATTTA
196 AATATTTCAAAGAAATTTCATACTAGAAACTTCTAGAATGCAAGTTTTACAACTTATTCAATTTA
36776684 GTCCCTAAATTTAAATT
261 GTCCCTAAATTTAAATT
36776701 GAGCACTTTA
Statistics
Matches: 273, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
278 273 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.38
Consensus pattern (278 bp):
ATGGCTTCCCCCATGCTAATTCCAGACTCCATGAAAAAGATGAGTCAATTTTGGCTTTATATTCC
CTTTTTATTTCTTTTAATTACCAAATGACCAAAATGCCCTTCCTTACTAAACTTTCAAAAATTCC
ATCCATGTCCAATTTTTGTCCATCACTTAGAAATTGGTCAAATTGCTATTTAATACCTCCTAATT
AATATTTCAAAGAAATTTCATACTAGAAACTTCTAGAATGCAAGTTTTACAACTTATTCAATTTA
GTCCCTAAATTTAAATTA
Found at i:36784208 original size:28 final size:28
Alignment explanation
Indices: 36784168--36784226 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
36784158 TTGCTGTGAA
36784168 AATGAACCACTCATCGGTCTTTTCTTCC
1 AATGAACCACTCATCGGTCTTTTCTTCC
*
36784196 AATGAACCGCTCATCGGTCTTTTCTTCC
1 AATGAACCACTCATCGGTCTTTTCTTCC
36784224 AAT
1 AAT
36784227 TTCTAGTCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.36
Consensus pattern (28 bp):
AATGAACCACTCATCGGTCTTTTCTTCC
Found at i:36786731 original size:40 final size:40
Alignment explanation
Indices: 36786673--36787019 Score: 577
Period size: 40 Copynumber: 8.7 Consensus size: 40
36786663 AGCATTGGAT
36786673 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
36786713 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
36786753 TATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
36786793 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
36786833 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
36786873 TATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
36786913 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
36786953 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
36786993 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
36787020 ATGTGTTTGC
Statistics
Matches: 283, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 283 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:36790368 original size:93 final size:93
Alignment explanation
Indices: 36790252--36790422 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
36790242 CCGCCCATAA
* *
36790252 ACGAACTCAGACTCAACTCAACGAGCTT--GAGCGTTCGCATCCATAAGTGAACTCGGACTCAAC
1 ACGAACTCAGACTCAAATCAACGAG-TTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAAC
*
36790315 TCAACGAGTTTGGATACCTAGTTACATCTC
64 TCAACGAGTTCGGATACCTAGTTACATCTC
* *
36790345 ACGAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCATCAGTGAACTCGGACTCAACTC
1 ACGAACTCAGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
36790410 AACGAGTTCGGAT
66 AACGAGTTCGGAT
36790423 GCTCAACCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 2 0.03
93 67 0.94
94 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
ACGAACTCAGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
AACGAGTTCGGATACCTAGTTACATCTC
Found at i:36790420 original size:46 final size:47
Alignment explanation
Indices: 36790254--36790421 Score: 170
Period size: 46 Copynumber: 3.6 Consensus size: 47
36790244 GCCCATAAAC
* * * *
36790254 GAACTCAGACTCAACTCAACGAGCTT--GAGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAG-TTCGGACCATTCGCATCCATCAGT
* * *
36790300 GAACTCGGACTCAACTCAACGAGTTTGGATACCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGG--ACC-A-TTCGCATCCATCAGT
*
36790347 GAACTCGGACTCAAATCAACGAGTTCGGA-CATTCGCATCCATCAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACCATTCGCATCCATCAGT
36790393 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
36790422 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 6 0.06
46 50 0.50
47 27 0.27
48 2 0.02
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACCATTCGCATCCATCAGT
Found at i:36790440 original size:46 final size:44
Alignment explanation
Indices: 36790297--36790440 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
36790287 CGCATCCATA
*
36790297 AGTGAACTCGGACTCAACTCAACGAGTTTGGATACCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATACC-A---ACCATCT
* * * *
36790344 CA-CGAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCATC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATAC-CAACCATCT
*
36790390 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATAC-CAACCAT-CT
36790436 AGTGA
1 AGTGA
36790441 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 2 0.03
46 32 0.41
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATACCAACCATCT
Found at i:36792896 original size:56 final size:56
Alignment explanation
Indices: 36792810--36792929 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
36792800 GCAAGGGATG
*
36792810 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAAGGAAAAATAAAATAAGAAGC
*
36792866 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAAGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAAGGAAAAATAAAATAAGAAGC
36792922 ATGGGCAA
1 ATGGGCAA
36792930 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAAGGAAAAATAAAATAAGAAGC
Found at i:36794450 original size:49 final size:49
Alignment explanation
Indices: 36794371--36794685 Score: 468
Period size: 49 Copynumber: 6.6 Consensus size: 49
36794361 TATTTGAATA
36794371 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
36794418 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
36794467 AATGTGGACA-TG--TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGT-GAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
36794514 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
36794563 AATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
36794612 AATGTGAAAGTG--TATATATGTGATAAGGCCAAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
36794659 GATGTGGAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
36794686 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 14, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
46 3 0.01
47 104 0.42
48 1 0.00
49 135 0.55
50 3 0.01
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:36794465 original size:22 final size:22
Alignment explanation
Indices: 36794437--36794512 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
36794427 GTGTATATAT
36794437 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* ** *
36794459 ATGTGATGAATGTGGACATGTG-TA
1 ATGTGAT-AAGGCCGA-ATG-GCCA
*
36794483 TGTGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
36794506 ATGTGAT
1 ATGTGAT
36794513 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 14 0.36
23 9 0.23
24 9 0.23
25 7 0.18
ACGTcount: A:0.29, C:0.12, G:0.33, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:36794489 original size:96 final size:95
Alignment explanation
Indices: 36794371--36794685 Score: 456
Period size: 96 Copynumber: 3.3 Consensus size: 95
36794361 TATTTGAATA
* *
36794371 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGGAA-TGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
36794436 TATGTGATAAGGCCGAATGGCCAATGTGATG
65 TATGTGATAAGGCCAAATGGCCAATGTGATG
*
36794467 AATGTGGACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGGA-ATGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
36794532 TATGTGATAAGGCCTAATGGCCAATGTGATG
65 TATGTGATAAGGCCAAATGGCCAATGTGATG
* * * *
36794563 AATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGGAA-TGTGT--ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
36794626 TATATGTGATAAGGCCAAATGGCCAATGTGATG
63 TATATGTGATAAGGCCAAATGGCCAATGTGATG
*
36794659 GATGTGGAA-GTGTATAAATGTGATAAG
1 AATGTGGAATGTGTAT--ATGTGATAAG
36794686 TCCCGAAGGG
Statistics
Matches: 200, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
92 2 0.01
94 13 0.06
95 1 0.00
96 142 0.71
97 1 0.00
98 41 0.20
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (95 bp):
AATGTGGAATGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCAAATGGCCAATGTGATG
Found at i:36794634 original size:145 final size:145
Alignment explanation
Indices: 36794371--36794685 Score: 496
Period size: 145 Copynumber: 2.2 Consensus size: 145
36794361 TATTTGAATA
36794371 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * * *
36794434 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGACATGTGTATGTGTGATAAGGCCGA
66 CATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGAAATGTATATATGTGATAAGGCCAA
36794499 ATGGCCAATGTGATG
131 ATGGCCAATGTGATG
*
36794514 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
36794579 CATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-GAAAGTGTATATATGTGATAAGGCCA
66 CATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGAAA-TGTATATATGTGATAAGGCCA
36794643 AATGGCCAATGTGATG
130 AATGGCCAATGTGATG
* *
36794659 GATGTGGAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
36794686 TCCCGAAGGG
Statistics
Matches: 159, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
143 22 0.14
144 4 0.03
145 133 0.84
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (145 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
CATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGAAATGTATATATGTGATAAGGCCAA
ATGGCCAATGTGATG
Found at i:36805939 original size:38 final size:38
Alignment explanation
Indices: 36805896--36805968 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
36805886 TTCATCCTTT
*
36805896 TTCATTTCTTTTGGCCGAAAATTCTAAGAAAGGAGCAA
1 TTCATTTCTGTTGGCCGAAAATTCTAAGAAAGGAGCAA
*
36805934 TTCATTTCTGTTGGCCGAAAATTCTAAGGAAGGAG
1 TTCATTTCTGTTGGCCGAAAATTCTAAGAAAGGAG
36805969 GAAGGAGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTGTTGGCCGAAAATTCTAAGAAAGGAGCAA
Found at i:36807066 original size:38 final size:38
Alignment explanation
Indices: 36807023--36807098 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
36807013 TTCATCCTTT
36807023 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
36807061 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
36807099 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:36808379 original size:40 final size:40
Alignment explanation
Indices: 36808285--36808429 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
36808275 TACTCGAATG
* *
36808285 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
36808326 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
36808366 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
36808406 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
36808430 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:36816406 original size:40 final size:40
Alignment explanation
Indices: 36816312--36816456 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
36816302 TACTCGAATG
*
36816312 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
36816353 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
36816393 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
36816433 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
36816457 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:36821428 original size:30 final size:30
Alignment explanation
Indices: 36821394--36821454 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36821384 TCCTTAACTC
36821394 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
36821424 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
36821454 A
1 A
36821455 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:36827194 original size:39 final size:39
Alignment explanation
Indices: 36827140--36827228 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
36827130 TGCATGGTAT
* * *
36827140 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
1 TGGAAAAATATCCGGACTTAAAGTCAGCAGGC-TAAGTGC
*
36827179 TGGAAATATATCCGGACTTAAAGTCAGCAGGCTAAGTGC
1 TGGAAAAATATCCGGACTTAAAGTCAGCAGGCTAAGTGC
36827218 TGGAAAAATAT
1 TGGAAAAATAT
36827229 TCGGGCTAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 2 0.05
39 42 0.95
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTAAAGTCAGCAGGCTAAGTGC
Found at i:36827257 original size:39 final size:39
Alignment explanation
Indices: 36827225--36827391 Score: 253
Period size: 39 Copynumber: 4.3 Consensus size: 39
36827215 TGCTGGAAAA
*
36827225 ATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* **
36827264 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* * * **
36827303 ACATCCAGGCTAAGTCTCGAAGGCATTCGTGCTGGCGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
36827342 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
36827381 ATATCCGGGCT
1 ATATCCGGGCT
36827392 TAAAGTCCTG
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:36833160 original size:22 final size:24
Alignment explanation
Indices: 36833120--36833165 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
36833110 TAAGTAGATT
36833120 AGAAAATAAAAGAAGTGAATTAAAA
1 AGAAAATAAAAGAAGTGAA-TAAAA
36833145 AGAAAA-AAAAG-A-TGAATAAAA
1 AGAAAATAAAAGAAGTGAATAAAA
36833166 TAAGGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 1 0.05
24 5 0.24
25 6 0.29
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (24 bp):
AGAAAATAAAAGAAGTGAATAAAA
Found at i:36833926 original size:13 final size:13
Alignment explanation
Indices: 36833908--36833932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36833898 TAATGGTATA
36833908 TTGAATCCATGAC
1 TTGAATCCATGAC
36833921 TTGAATCCATGA
1 TTGAATCCATGA
36833933 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:36834515 original size:27 final size:27
Alignment explanation
Indices: 36834480--36834658 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
36834470 TTAAATTGTA
36834480 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
36834507 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
36834534 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
36834561 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
36834589 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
36834616 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
36834643 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
36834659 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:36834596 original size:82 final size:81
Alignment explanation
Indices: 36834482--36834637 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36834472 AAATTGTATA
* *
36834482 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
36834546 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
36834563 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
36834628 TGCGAGTTGA
65 TGCGAATTGA
36834638 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36834649 original size:82 final size:81
Alignment explanation
Indices: 36834478--36834658 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
36834468 GATTAAATTG
* *
36834478 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36834543 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
36834559 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36834623 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
36834641 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
36834659 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36837553 original size:42 final size:43
Alignment explanation
Indices: 36837442--36837599 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 43
36837432 TAAACAAGTA
* * *
36837442 CAATGTCGACGTCCCAGACCTGGTCTTACATGTAATCTAATAT
1 CAATGTCGATGTCCCAGACATGGTCTTACATGAAATCTAATAT
* ** ** *
36837485 CAATGCCTCTGTCCTTGACAGGGTCTTACATGAAATC-AGATA-
1 CAATGTCGATGTCCCAGACATGGTCTTACATGAAATCTA-ATAT
* ** *
36837527 CGATGTCGATGTCCCAGACATGGTCTTATTTGTAAATCTCA-AT
1 CAATGTCGATGTCCCAGACATGGTCTTACATG-AAATCTAATAT
* * *
36837570 CAAGGCCTG-TGTCCCAGACACGGTCTTACA
1 CAATGTC-GATGTCCCAGACATGGTCTTACA
36837600 CGATGTCTCA
Statistics
Matches: 85, Mismatches: 25, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
42 25 0.29
43 59 0.69
44 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
CAATGTCGATGTCCCAGACATGGTCTTACATGAAATCTAATAT
Found at i:36837595 original size:85 final size:85
Alignment explanation
Indices: 36837444--36837599 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 85
36837434 AACAAGTACA
* * ** *
36837444 ATGTCGACGTCCCAGACCTGGTCTTACATGTAATCTAATATCAATGCCTCTGTCCTTGACAGGGT
1 ATGTCGACGTCCCAGACATGGTCTTACATGTAATCTAATATCAAGGCCTCTGTCCCAGACACGGT
36837509 CTTACATGAAATCAGATACG
66 CTTACATGAAATCAGATACG
* ** * *
36837529 ATGTCGATGTCCCAGACATGGTCTTATTTGTAAATCTCA-ATCAAGGCCTGTGTCCCAGACACGG
1 ATGTCGACGTCCCAGACATGGTCTTACATGT-AATCTAATATCAAGGCCTCTGTCCCAGACACGG
36837593 TCTTACA
65 TCTTACA
36837600 CGATGTCTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
85 54 0.90
86 6 0.10
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (85 bp):
ATGTCGACGTCCCAGACATGGTCTTACATGTAATCTAATATCAAGGCCTCTGTCCCAGACACGGT
CTTACATGAAATCAGATACG
Found at i:36842624 original size:180 final size:182
Alignment explanation
Indices: 36842319--36842677 Score: 524
Period size: 180 Copynumber: 2.0 Consensus size: 182
36842309 TATTAAGGGT
** * *
36842319 CCTGAGAAGTGTGAGAAGTCCTGAGATCAAACCTGGGCTTTGGCAATTTTTTTTGGTTTTTATTA
1 CCTGAGAAGTGTGAGAAGTCCTGAGATCAAACCTGGGCTTTGGCAATAATTTTTGATTTTTACTA
* *
36842384 AACAAAACCTTGGCTGCTAGGCACTGGGTTCTTAATTAATTAGAGGGAAATTAAGTCATGAAGGG
66 AACAAAACATTGGCTGCTAGGCACTGGGTTCTTAATTAATTAGAGGGAAAGTAAGTCATGAAGGG
* * * *
36842449 TTTGTCGGTTCAAGGGATTGTGGCGTGTTACTAATGGTAAGGTACTTGGCAA
131 TCTGTAGGTTCAAGGGATTGTGGCATGTTACTAATGGTAAGGGACTTGGCAA
* * *
36842501 CCTGAGAAGTGTGAGAAGTCCTGGGTTCAAACTTGGGCTTTGGCAA-AATTTTT-ATTTTTACTA
1 CCTGAGAAGTGTGAGAAGTCCTGAGATCAAACCTGGGCTTTGGCAATAATTTTTGATTTTTACTA
* *** * *
36842564 AATAAAACATTGGCTGCTAGGTTTTGGGTTCTTAATTAATTGGAGGGAAAGTATGTCATGAAGGG
66 AACAAAACATTGGCTGCTAGGCACTGGGTTCTTAATTAATTAGAGGGAAAGTAAGTCATGAAGGG
*
36842629 TCTGTAGGTTCAAGGGATTGTGGTATGTTACTAATGGTAAGGGACTTGG
131 TCTGTAGGTTCAAGGGATTGTGGCATGTTACTAATGGTAAGGGACTTGG
36842678 GTTCGAGTTT
Statistics
Matches: 157, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
180 109 0.69
181 5 0.03
182 43 0.27
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (182 bp):
CCTGAGAAGTGTGAGAAGTCCTGAGATCAAACCTGGGCTTTGGCAATAATTTTTGATTTTTACTA
AACAAAACATTGGCTGCTAGGCACTGGGTTCTTAATTAATTAGAGGGAAAGTAAGTCATGAAGGG
TCTGTAGGTTCAAGGGATTGTGGCATGTTACTAATGGTAAGGGACTTGGCAA
Found at i:36844322 original size:27 final size:27
Alignment explanation
Indices: 36844292--36844405 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
36844282 TGTAGGGTAG
*
36844292 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTATAA
*
36844319 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTATAA
* *
36844346 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTATAA
* * *
36844373 AATTACCAAAGTA-CCCTCGATTTATAG
1 AATTACCAAAATACCCCT-GGTTTATAA
36844400 AATTAC
1 AATTAC
36844406 TATTTTACCC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.05
27 74 0.95
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTATAA
Found at i:36844414 original size:27 final size:27
Alignment explanation
Indices: 36844384--36844658 Score: 331
Period size: 27 Copynumber: 10.2 Consensus size: 27
36844374 ATTACCAAAG
* *
36844384 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
36844411 TACCCTCGATTTACAAAATTACTGCTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
36844438 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
36844465 TACCCTCGATTTATAAAATTA-TCGTTT
1 TACCCTCGATTTATAAAATTACT-GTTT
*
36844492 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTATAAAATTACT-GTTT
* *
36844519 TACCCTCGATTTACAAAATTA-TCATTT
1 TACCCTCGATTTATAAAATTACT-GTTT
* * *
36844546 TATCCTAGATTTATAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
36844573 TACCCTCAATTTATAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
36844600 TACCCTCTATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
**
36844627 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACTGTTT
36844654 TACCC
1 TACCC
36844659 CTAGGGTGTT
Statistics
Matches: 219, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
27 218 1.00
28 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTGTTT
Found at i:36844429 original size:81 final size:81
Alignment explanation
Indices: 36844344--36844658 Score: 213
Period size: 81 Copynumber: 3.9 Consensus size: 81
36844334 CCTGGTTTGT
* * *
36844344 AAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTA-CT
1 AAAATTACCAAAATACCCTC-AATTTATAAAATTACCAAAGTACCCTCGATTTATAAAATTATC-
36844407 ATTTTACCCTCGATTTAC
64 ATTTTACCCTCGATTTAC
***** * **** *
36844425 AAAATTACTGCTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTATCGT
1 AAAATTACCAAAATACCCTCAATTTATAAAATTACCAAAGTACCCTCGATTTATAAAATTATCAT
36844490 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* **** * * * *** * *
36844506 AAAATTATCGTTTTACCCTCGATTTACAAAATTATCATTTTATCCTAGATTTATAAAATTA-CTA
1 AAAATTACCAAAATACCCTCAATTTATAAAATTACCAAAGTACCCTCGATTTATAAAATTATC-A
* *
36844570 TTTTACCCTCAATTTAT
65 TTTTACCCTCGATTTAC
***** * * **** *
36844587 AAAATTACTGTTTTACCCTCTATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCAT
1 AAAATTACCAAAATACCCTCAATTTATAAAATTACCAAAGTACCCTCGATTTATAAAATTATCAT
36844652 TTTACCC
66 TTTACCC
36844659 CTAGGGTGTT
Statistics
Matches: 194, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.01
81 190 0.98
82 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTATAAAATTACCAAAGTACCCTCGATTTATAAAATTATCAT
TTTACCCTCGATTTAC
Found at i:36844986 original size:26 final size:27
Alignment explanation
Indices: 36844957--36845016 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
36844947 CCACATATAT
* *
36844957 ATATCTGT-TCTGGTGGCCTAGTCGCA
1 ATATCTGTATCTGGTGACCTAGTCACA
* *
36844983 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGTCACA
36845010 ATATCTG
1 ATATCTG
36845017 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGTCACA
Found at i:36845034 original size:98 final size:98
Alignment explanation
Indices: 36844927--36845326 Score: 757
Period size: 98 Copynumber: 4.1 Consensus size: 98
36844917 CTGTTCTAGT
* * *
36844927 GCTGTAATCTGGTGGCTTCGCCACATATATATATCTGTTCTGGTGGCCTAG-TCGCAATATCTGT
1 GCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCT-GCAATATCTGT
36844991 ATCTGGTGACTTCGTCACAATATCTGGCAGCCTC
65 ATCTGGTGACTTCGTCACAATATCTGGCAGCCTC
36845025 GCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCTGCAATATCTGTA
1 GCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCTGCAATATCTGTA
36845090 TCTGGTGACTTCGTCACAATATCTGGCAGCCTC
66 TCTGGTGACTTCGTCACAATATCTGGCAGCCTC
36845123 GCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCTGCAATATCTGTA
1 GCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCTGCAATATCTGTA
36845188 TCTGGTGACTTCGTCACAATATCTGGCAGCCTC
66 TCTGGTGACTTCGTCACAATATCTGGCAGCCTC
36845221 GCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCTGCAATATCTGTA
1 GCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCTGCAATATCTGTA
36845286 TCTGGTGACTTCGTCACAATATCTGGCAGCCTC
66 TCTGGTGACTTCGTCACAATATCTGGCAGCCTC
36845319 GCTGCAAT
1 GCTGCAAT
36845327 TTCTGTGGTA
Statistics
Matches: 298, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
98 297 1.00
99 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (98 bp):
GCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCTGCAATATCTGTA
TCTGGTGACTTCGTCACAATATCTGGCAGCCTC
Found at i:36845079 original size:50 final size:50
Alignment explanation
Indices: 36845020--36845278 Score: 155
Period size: 50 Copynumber: 5.3 Consensus size: 50
36845010 ATATCTGGCA
*
36845020 GCCTCGCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTG
1 GCCTAGCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTG
** * ** * * * **
36845070 GCCTAGCTGCAATATCT-GTATC-TGGTGAC-T-TCGT-CA-CAATATCTGGCA
1 GCCTAGCTGC-A-ATCTGGTCGCTTCGCCACATAT-ATATATCTAT-TCTGGTG
*
36845118 GCCTCGCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTG
1 GCCTAGCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTG
** * ** * * * **
36845168 GCCTAGCTGCAATATCT-GTATC-TGGTGAC-T-TCGT-CA-CAATATCTGGCA
1 GCCTAGCTGC-A-ATCTGGTCGCTTCGCCACATAT-ATATATCTAT-TCTGGTG
*
36845216 GCCTCGCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTG
1 GCCTAGCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTG
36845266 GCCTAGCTGCAAT
1 GCCTAGCTGCAAT
36845279 ATCTGTATCT
Statistics
Matches: 144, Mismatches: 45, Indels: 40
0.63 0.20 0.17
Matches are distributed among these distances:
46 8 0.06
47 14 0.10
48 40 0.28
49 8 0.06
50 52 0.36
51 14 0.10
52 8 0.06
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (50 bp):
GCCTAGCTGCAATCTGGTCGCTTCGCCACATATATATATCTATTCTGGTG
Found at i:36845468 original size:6 final size:6
Alignment explanation
Indices: 36845429--36845513 Score: 75
Period size: 6 Copynumber: 13.8 Consensus size: 6
36845419 TTGCATTCAC
* * *
36845429 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
36845478 ATTCTG ATTCTG -TCACCTG ATTCTG ATTTTG ATTCT
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCT
36845514 CATTTTTATT
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 3 0.05
6 52 0.83
7 6 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:36845525 original size:43 final size:43
Alignment explanation
Indices: 36845429--36845513 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
36845419 TTGCATTCAC
* *
36845429 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTA
* *
36845472 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTTTGATTCT
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCT
36845514 CATTTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (43 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTA
Found at i:36848313 original size:45 final size:45
Alignment explanation
Indices: 36848249--36848410 Score: 247
Period size: 45 Copynumber: 3.6 Consensus size: 45
36848239 TATCGCACAG
*
36848249 TACTATTCGGGACTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
*
36848294 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
* * *
36848339 TACCACTT-GGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTA-TTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
*
36848384 TACTATTCGGG-CTTCGAGCCTAGTAGG
1 TACTATTCGGGCCTTTGAGCCTAGTAGG
36848411 TGAAATACCG
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
44 16 0.15
45 88 0.83
46 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGAGA
Found at i:36856139 original size:45 final size:44
Alignment explanation
Indices: 36856075--36856235 Score: 196
Period size: 45 Copynumber: 3.6 Consensus size: 44
36856065 TATCGCATAG
* *
36856075 TACTATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTC-GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
36856120 TACTATTCGGACCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGG-CCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * * * *
36856165 TACCACTCAGGCCTTTAAGCCTAGTAGGCTCTAATGCCGGTGTGA
1 TACTATTC-GGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
36856210 TACTATTCGGGCTTTTAGCCTAGCAG
1 TACTATTCGGCCTTTGAGCCTAGCAG
36856236 ACAAAATGTC
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
44 17 0.17
45 80 0.81
46 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (44 bp):
TACTATTCGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:36856261 original size:41 final size:42
Alignment explanation
Indices: 36856214--36856292 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
36856204 GTGTGATACT
* *
36856214 ATTCGGGCTTTT-AGCCTAGCAGACAAAATGTCGGTGAATGA
1 ATTCGGGCTTTTAAACCTAGCAGACAAAATGCCGGTGAATGA
* * *
36856255 ATTCGGGTTTTTAAACCTAGCAGGCTAAATGCCGGTGA
1 ATTCGGGCTTTTAAACCTAGCAGACAAAATGCCGGTGA
36856293 TTTGATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 11 0.34
42 21 0.66
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (42 bp):
ATTCGGGCTTTTAAACCTAGCAGACAAAATGCCGGTGAATGA
Found at i:36858058 original size:20 final size:20
Alignment explanation
Indices: 36858017--36858058 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
36858007 GGGAGTTAAT
*
36858017 TTTAATGTTTGTGAGCTAGA
1 TTTAATGTTTGTGAGCCAGA
*
36858037 TTTAATGTTTGTGAGCCCGA
1 TTTAATGTTTGTGAGCCAGA
36858057 TT
1 TT
36858059 GAAAAAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.45
Consensus pattern (20 bp):
TTTAATGTTTGTGAGCCAGA
Found at i:36859331 original size:91 final size:95
Alignment explanation
Indices: 36859121--36859336 Score: 262
Period size: 95 Copynumber: 2.3 Consensus size: 95
36859111 TACTTGCGTA
* * *
36859121 CTAGTGTAAGACATGTCTGGGACATGCATCGACCACAATATGATAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTTTGGGACATGCATCGACCACAATATGATAGCCAATGTAAGACCATCTCT
36859186 GGGACATGGCATCGGCGTAGAGAATGAGCG
66 GGGACATGGCATCGGCGTAGAGAATGAGCG
* * * * * * *
36859216 CTAGTGTACGACATGTTTGGGACATGCGTCGGCCTCGATGATGATAGCCAATGTAAGA-CGTCTT
1 CTAGTGTAAGACATGTTTGGGACATGCATCGACCACAAT-ATGATAGCCAATGTAAGACCATCTC
* * *
36859280 TGGGACAT-GCATCGGC-TA-AGAGT-TGTG
65 TGGGACATGGCATCGGCGTAGAGAATGAGCG
*
36859307 CTAGTGTAAGACATGTTTGAGACATGCATC
1 CTAGTGTAAGACATGTTTGGGACATGCATC
36859337 AGCACACGTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
91 29 0.28
92 4 0.04
93 2 0.02
94 8 0.08
95 44 0.42
96 17 0.16
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (95 bp):
CTAGTGTAAGACATGTTTGGGACATGCATCGACCACAATATGATAGCCAATGTAAGACCATCTCT
GGGACATGGCATCGGCGTAGAGAATGAGCG
Found at i:36870120 original size:21 final size:21
Alignment explanation
Indices: 36870094--36870134 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
36870084 TGCATATTCT
36870094 AATTTCATAAACTAATTTACG
1 AATTTCATAAACTAATTTACG
36870115 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
36870135 TAAATCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:36876196 original size:27 final size:27
Alignment explanation
Indices: 36876164--36876690 Score: 619
Period size: 27 Copynumber: 19.5 Consensus size: 27
36876154 AAGTACTCCT
* *
36876164 GATTTACAGAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
*
36876191 -AGTTTACAGAATTACTATTTTACCCTC
1 GA-TTTACAGAATTACCATTTTACCCTC
* *
36876218 GATTTACAAAATTACTATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
*
36876245 GATTTACAGAATTACCTTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* ** *
36876272 AATTTTTAAAATTACCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
36876299 GATTTACAGAATTACCGTTTTAGCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
36876326 -AGTTTACAGAATTACCGTTTTTCCCTC
1 GA-TTTACAGAATTACCATTTTACCCTC
*
36876353 GATTTATAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
*
36876380 -AGTTTACAGAATTACTATTTTACCCTC
1 GA-TTTACAGAATTACCATTTTACCCTC
* **
36876407 AATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
36876434 GATTTACAAAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* * * **
36876461 AATTTATAGAATTTCTGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
36876488 GATTTATAGAATTACTATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
36876515 GATTTACAGAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCATTTTACCCTC
* * *
36876542 GATTTATAGAATTACTATTTTACGCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
36876569 GATTTATAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
36876596 GATTTATAGAATTATCATTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
36876623 GATTTATAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
36876650 GATTTACAGAATTACTATTTTATCCTC
1 GATTTACAGAATTACCATTTTACCCTC
* *
36876677 AATTTACAAAATTA
1 GATTTACAGAATTA
36876691 TTGAAATACC
Statistics
Matches: 435, Mismatches: 59, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.01
27 429 0.99
28 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
GATTTACAGAATTACCATTTTACCCTC
Found at i:36876861 original size:27 final size:27
Alignment explanation
Indices: 36876728--36876884 Score: 185
Period size: 27 Copynumber: 5.9 Consensus size: 27
36876718 CCCTCGATCA
36876728 GTAAAATTACCAAAATACCCCT-AGTTT
1 GTAAAATTACCAAAATACCCCTGA-TTT
**
36876755 GTAAAATTACCAAAATACCCCTGGCTT
1 GTAAAATTACCAAAATACCCCTGATTT
* *
36876782 GTAAAATTACTAAAATACCCCTGACTT
1 GTAAAATTACCAAAATACCCCTGATTT
36876809 GTAAAATTACCAAAATACCCCTGATTT
1 GTAAAATTACCAAAATACCCCTGATTT
* * *
36876836 GTGAAATTATCAAAATA-CTCTCGATTT
1 GTAAAATTACCAAAATACCCCT-GATTT
* * *
36876863 GTATAA-TATCGAAATACCCCTG
1 GTAAAATTACCAAAATACCCCTG
36876885 TAGGGTAGAA
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
26 13 0.11
27 101 0.89
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGATTT
Found at i:36876907 original size:27 final size:27
Alignment explanation
Indices: 36876872--36877096 Score: 351
Period size: 27 Copynumber: 8.3 Consensus size: 27
36876862 TGTATAATAT
*
36876872 CGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
36876899 CGGAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
36876926 CGGAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
36876953 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
36876980 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
36877007 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
36877034 CGAAATACCCCTGTAGGATAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
36877061 TGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
36877088 CGAGATACC
1 CGAAATACC
36877097 TTGTGAGGTA
Statistics
Matches: 183, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:36879977 original size:40 final size:40
Alignment explanation
Indices: 36879940--36880125 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
36879930 GCTACTCGTT
* *
36879940 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
36879980 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
36880020 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
36880060 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
36880101 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
36880126 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36887986 original size:79 final size:82
Alignment explanation
Indices: 36887875--36888059 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
36887865 GCTACTCGTT
* * *
36887875 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
36887938 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
36887955 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
36888018 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
36888035 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36888060 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:36888059 original size:40 final size:40
Alignment explanation
Indices: 36887856--36888059 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
36887846 CGGAATTTAA
** *
36887856 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
36887896 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
36887936 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36887975 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
36888015 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36888055 CCGGA
1 CCGGA
36888060 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36898035 original size:33 final size:33
Alignment explanation
Indices: 36897993--36898059 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
36897983 CTGGTTAATT
36897993 TATAAAGGCTGATGTTGGATATACCACAATCTA
1 TATAAAGGCTGATGTTGGATATACCACAATCTA
36898026 TATAAAGGCTGATGTTGGATATACCACAATCTA
1 TATAAAGGCTGATGTTGGATATACCACAATCTA
36898059 T
1 T
36898060 GTATAGGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (33 bp):
TATAAAGGCTGATGTTGGATATACCACAATCTA
Found at i:36908808 original size:46 final size:46
Alignment explanation
Indices: 36908758--36908975 Score: 366
Period size: 46 Copynumber: 4.7 Consensus size: 46
36908748 TGGTTGAGCA
36908758 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
36908804 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
36908850 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
36908896 TCCGAACTCGTTGCGTTGAGTCCGAGTTCACTTATGGATGCGAACGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TG
* * *
36908943 T-TGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36908976 GGGGCGGGTT
Statistics
Matches: 163, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 162 0.99
47 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:36919481 original size:43 final size:43
Alignment explanation
Indices: 36919434--36919518 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
36919424 TAGCCCAATT
*
36919434 ATGGTCTTACACGAAATTAAATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
* * * *
36919477 ATGGTCTTACATGTAATCACATAATGATGCCAATGTCCCAGA
1 ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGA
36919519 TGTAATAGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACGATGCCAATGTCCCAGAC
Found at i:36921401 original size:27 final size:26
Alignment explanation
Indices: 36921353--36921412 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
36921343 GCGAGGCTGC
*
36921353 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
36921380 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
36921406 CAAATAT
1 CAGATAT
36921413 ATATNNNNNN
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:36922079 original size:37 final size:37
Alignment explanation
Indices: 36922029--36922104 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
36922019 TCACGCCACC
36922029 ACCACTAGGCCATCAACTCATTTGTGTCATAAATCCA
1 ACCACTAGGCCATCAACTCATTTGTGTCATAAATCCA
36922066 ACCACTAGGCCATCAACTCATTTGTGTCATAAATCCA
1 ACCACTAGGCCATCAACTCATTTGTGTCATAAATCCA
36922103 AC
1 AC
36922105 ACATTAAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (37 bp):
ACCACTAGGCCATCAACTCATTTGTGTCATAAATCCA
Found at i:36925468 original size:351 final size:351
Alignment explanation
Indices: 36924825--36925528 Score: 1408
Period size: 351 Copynumber: 2.0 Consensus size: 351
36924815 GATAAAGAGG
36924825 ACTATGAATCGATCTAAGTATGGCTGGAACACTCGATTCATCAGATCCATAAATGCCACAGGTGC
1 ACTATGAATCGATCTAAGTATGGCTGGAACACTCGATTCATCAGATCCATAAATGCCACAGGTGC
36924890 GTTCGTCAACCCAAATGGCATAACCAAGAACTCATAGTGACCATAATGAGTTCTGAATGCCGTCT
66 GTTCGTCAACCCAAATGGCATAACCAAGAACTCATAGTGACCATAATGAGTTCTGAATGCCGTCT
36924955 TGTGAATATCCACCTCCTTAACCCTCAACTGATGATACCTAGATCGAAGGTCAATCTTGGAAAAT
131 TGTGAATATCCACCTCCTTAACCCTCAACTGATGATACCTAGATCGAAGGTCAATCTTGGAAAAT
36925020 ACTGAAGCTCCTCTAAGTTGGTCGAATGAATCATCGATTCTCGGCAGTGGATACTTGTTCTTAAT
196 ACTGAAGCTCCTCTAAGTTGGTCGAATGAATCATCGATTCTCGGCAGTGGATACTTGTTCTTAAT
36925085 CGTTAGTTTGTTCAACTGCCGATAATCGATGCACATCGGCATTGACCCATCTTTCTTCTTTACGA
261 CGTTAGTTTGTTCAACTGCCGATAATCGATGCACATCGGCATTGACCCATCTTTCTTCTTTACGA
36925150 ACAACACTGGTGCTCCCCACGGAGAC
326 ACAACACTGGTGCTCCCCACGGAGAC
36925176 ACTATGAATCGATCTAAGTATGGCTGGAACACTCGATTCATCAGATCCATAAATGCCACAGGTGC
1 ACTATGAATCGATCTAAGTATGGCTGGAACACTCGATTCATCAGATCCATAAATGCCACAGGTGC
36925241 GTTCGTCAACCCAAATGGCATAACCAAGAACTCATAGTGACCATAATGAGTTCTGAATGCCGTCT
66 GTTCGTCAACCCAAATGGCATAACCAAGAACTCATAGTGACCATAATGAGTTCTGAATGCCGTCT
36925306 TGTGAATATCCACCTCCTTAACCCTCAACTGATGATACCTAGATCGAAGGTCAATCTTGGAAAAT
131 TGTGAATATCCACCTCCTTAACCCTCAACTGATGATACCTAGATCGAAGGTCAATCTTGGAAAAT
36925371 ACTGAAGCTCCTCTAAGTTGGTCGAATGAATCATCGATTCTCGGCAGTGGATACTTGTTCTTAAT
196 ACTGAAGCTCCTCTAAGTTGGTCGAATGAATCATCGATTCTCGGCAGTGGATACTTGTTCTTAAT
36925436 CGTTAGTTTGTTCAACTGCCGATAATCGATGCACATCGGCATTGACCCATCTTTCTTCTTTACGA
261 CGTTAGTTTGTTCAACTGCCGATAATCGATGCACATCGGCATTGACCCATCTTTCTTCTTTACGA
36925501 ACAACACTGGTGCTCCCCACGGAGAC
326 ACAACACTGGTGCTCCCCACGGAGAC
36925527 AC
1 AC
36925529 ACTTGGTCTA
Statistics
Matches: 353, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
351 353 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (351 bp):
ACTATGAATCGATCTAAGTATGGCTGGAACACTCGATTCATCAGATCCATAAATGCCACAGGTGC
GTTCGTCAACCCAAATGGCATAACCAAGAACTCATAGTGACCATAATGAGTTCTGAATGCCGTCT
TGTGAATATCCACCTCCTTAACCCTCAACTGATGATACCTAGATCGAAGGTCAATCTTGGAAAAT
ACTGAAGCTCCTCTAAGTTGGTCGAATGAATCATCGATTCTCGGCAGTGGATACTTGTTCTTAAT
CGTTAGTTTGTTCAACTGCCGATAATCGATGCACATCGGCATTGACCCATCTTTCTTCTTTACGA
ACAACACTGGTGCTCCCCACGGAGAC
Done.