Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 219 of 345
Found at i:74242917 original size:28 final size:28
Alignment explanation
Indices: 74242879--74242985 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
74242869 GAATCATTCG
* * *
74242879 ATATTTTGCACACGAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
74242907 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
74242935 ATATTTTGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
74242963 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
74242986 ATTTGATTGC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:74242940 original size:56 final size:56
Alignment explanation
Indices: 74242879--74242985 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 56
74242869 GAATCATTCG
* *
74242879 ATATTTTGCACACGAAGTGTCATTCTCAATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTTGCACACGAAGTGCCATTCTCAATATCTCGCACACTAAGTACCATTCTCA
* * * * *
74242935 ATATTTTGTACACTAAGTGCCATTCTCAATATTTCGTACACTGAGTACCAT
1 ATATTTTGCACACGAAGTGCCATTCTCAATATCTCGCACACTAAGTACCAT
74242986 ATTTGATTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (56 bp):
ATATTTTGCACACGAAGTGCCATTCTCAATATCTCGCACACTAAGTACCATTCTCA
Found at i:74245106 original size:25 final size:25
Alignment explanation
Indices: 74245078--74245143 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
74245068 TCGATTTGTC
74245078 ATCGAACATAACTGCAGTCCCGTAT
1 ATCGAACATAACTGCAGTCCCGTAT
74245103 ATCGAACATAACTGCAGTCCCGTAT
1 ATCGAACATAACTGCAGTCCCGTAT
74245128 ATCGAACATAACTGCA
1 ATCGAACATAACTGCA
74245144 CTAAAAGCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (25 bp):
ATCGAACATAACTGCAGTCCCGTAT
Found at i:74247605 original size:46 final size:46
Alignment explanation
Indices: 74247507--74247625 Score: 141
Period size: 46 Copynumber: 2.5 Consensus size: 46
74247497 TGAGCTAGTG
** * *
74247507 TAAGATCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCATCAAGACGAGTGCCAGTA
* *
74247555 TAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAG-GCCAGTA
1 TAAGACATGTCTGGGACATGCATCGGCATCAAGACG-AGTGCCAGTA
*
74247601 TAAGACATGTCTGGGACTTGCATCG
1 TAAGACATGTCTGGGACATGCATCG
74247626 ACTACGAGAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
46 42 0.67
47 16 0.25
48 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCATCAAGACGAGTGCCAGTA
Found at i:74247636 original size:46 final size:43
Alignment explanation
Indices: 74247546--74247674 Score: 123
Period size: 46 Copynumber: 2.9 Consensus size: 43
74247536 ATTGAGACGA
* * * *
74247546 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGAT
1 GTGCCAGTATAAGACATGTCTGGGACTTGCATC-GACTCAAGAT
*
74247590 GTAGGCCAGTATAAGACATGTCTGGGACTTGCATCGACTACGAGAT
1 GT--GCCAGTATAAGACATGTCTGGGACTTGCATCGACT-CAAGAT
* * * *
74247636 GTGTCTGTGTAAGACCATGTCTGGGACATGGCATCGACT
1 GTGCCAGTATAAGA-CATGTCTGGGAC-TTGCATCGACT
74247675 TGAGATATGA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
44 11 0.15
45 15 0.21
46 45 0.63
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (43 bp):
GTGCCAGTATAAGACATGTCTGGGACTTGCATCGACTCAAGAT
Found at i:74262330 original size:46 final size:46
Alignment explanation
Indices: 74262146--74262419 Score: 182
Period size: 46 Copynumber: 5.8 Consensus size: 46
74262136 TGGGTAAGGT
* * * * *
74262146 GCCGATGCCATGTCGCAGACACGGTCTTACAATAGCTCATATCTC-AT
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCACATCTCGAG
** *
74262193 GTTGATGCCATGTCCCAAACATGGTCTTACACT-GACT-ATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCA-CATCTCG-AG
* * * * *
74262241 GTCGATGCAAGTCCCAGACATGTCTTACAC-AGGCTTACGTCTCGGG
1 GCCGATGCATGTCCCAGACATGTCTTACACTA-GCTCACATCTCGAG
* * * *
74262287 GCCGATGCATGTCCCAGACTTGTCTTACACTAGCACCCATCTCGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATCTCGAG
* * * * * *
74262333 GCCGATGTCTTGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACAT-CTCGAG
* *
74262381 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACA
74262420 ATAACCCATG
Statistics
Matches: 178, Mismatches: 36, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
46 76 0.43
47 71 0.40
48 29 0.16
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATCTCGAG
Found at i:74267434 original size:28 final size:28
Alignment explanation
Indices: 74267403--74267503 Score: 148
Period size: 28 Copynumber: 3.6 Consensus size: 28
74267393 TACTCAATGC
* *
74267403 CTCGCACACTAAGTTCCATACTCGATAT
1 CTCGCACACTAAGTGCCACACTCGATAT
*
74267431 CTCGCACAGTAAGTGCCACACTCGATAT
1 CTCGCACACTAAGTGCCACACTCGATAT
74267459 CTCGCACACTAAGTGCCACACTCGATAT
1 CTCGCACACTAAGTGCCACACTCGATAT
* * *
74267487 CTTGCACATTAACTGCC
1 CTCGCACACTAAGTGCC
74267504 GTACATAGCT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.25
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCACACTCGATAT
Found at i:74271065 original size:27 final size:27
Alignment explanation
Indices: 74271017--74271096 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
74271007 GCGAGGCTGC
* *
74271017 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGATA
*
74271044 CAGATATTGTGCCAGAGCCACCAGA-A
1 CAGATATTGTGACAGAGCCACCAGATA
*
74271070 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGACAGAGCCACCAGAT
74271097 TATATAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 8 0.17
27 39 0.83
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGACAGAGCCACCAGATA
Found at i:74271289 original size:28 final size:26
Alignment explanation
Indices: 74271228--74271301 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
74271218 AAATTAACCC
* * *
74271228 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
*
74271254 TAGGGGTATAGCAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
* *
74271282 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
74271302 AGCTGCTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 20 0.51
28 19 0.49
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:74276119 original size:46 final size:46
Alignment explanation
Indices: 74276028--74276122 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 46
74276018 AGTTCAACCC
* * * *
74276028 AAATGATGATGCTCCTAAGCACAAGTTTAAATTGTTCATCCAAAAT
1 AAATGATGATGCTCCTAAGCACAAGCTTAAACTATTCATCAAAAAT
74276074 AAATGATGATGCTCCTAAGCACAAGCTTAAACTATTCA-CAAAAAAT
1 AAATGATGATGCTCCTAAGCACAAGCTTAAACTATTCATC-AAAAAT
74276120 AAA
1 AAA
74276123 ACTCGATGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 1 0.02
46 43 0.98
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (46 bp):
AAATGATGATGCTCCTAAGCACAAGCTTAAACTATTCATCAAAAAT
Found at i:74277121 original size:29 final size:30
Alignment explanation
Indices: 74277082--74277140 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
74277072 AGAGTATCAT
74277082 AATTTTAACTCATTGAGTTA-CGGGTGATA
1 AATTTTAACTCATTGAGTTATCGGGTGATA
*
74277111 AATTTTAACTCATTGAGTTATGGGGTGATA
1 AATTTTAACTCATTGAGTTATCGGGTGATA
74277141 CTAAGTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (30 bp):
AATTTTAACTCATTGAGTTATCGGGTGATA
Found at i:74279777 original size:8 final size:8
Alignment explanation
Indices: 74279764--74279789 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
74279754 TATATATCTT
74279764 TTTATATA
1 TTTATATA
74279772 TTTATATA
1 TTTATATA
74279780 TTTATATA
1 TTTATATA
74279788 TT
1 TT
74279790 ACACAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTATATA
Found at i:74286230 original size:46 final size:46
Alignment explanation
Indices: 74286111--74286238 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 46
74286101 TAACCCGCCC
*
74286111 CTAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * * *
74286159 CTCA-CGAACTCAGACTCAACTCAACGAGTTCGGA-C-ATTTGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
74286202 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
74286239 TGCTCAACCA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 28 0.41
47 27 0.40
48 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:74286257 original size:46 final size:45
Alignment explanation
Indices: 74286114--74286257 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 45
74286104 CCCGCCCCTA
*
74286114 AGTGAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
74286161 CA-CGAACTCAGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
74286207 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
74286253 AGTGA
1 AGTGA
74286258 CATGTCACTT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.42
47 29 0.38
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:74297647 original size:42 final size:42
Alignment explanation
Indices: 74297595--74297691 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
74297585 ATAGCCCAGC
74297595 TATGGTCTTACACGAAAACTCATA-TCCATGCCATATC-CTAGA
1 TATGGTCTTACACGAAAACTCATACT-CATGCCATATCAC-AGA
* * *
74297637 TATGGTCTTACACGAAATCTCATACTGATTCCATATCACAGA
1 TATGGTCTTACACGAAAACTCATACTCATGCCATATCACAGA
74297679 TATGGTCTTACAC
1 TATGGTCTTACAC
74297692 ATATCTTAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (42 bp):
TATGGTCTTACACGAAAACTCATACTCATGCCATATCACAGA
Found at i:74298514 original size:12 final size:12
Alignment explanation
Indices: 74298497--74298521 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74298487 TGGACAAAAA
74298497 TTGGCTTTTAAT
1 TTGGCTTTTAAT
74298509 TTGGCTTTTAAT
1 TTGGCTTTTAAT
74298521 T
1 T
74298522 CATTTAATAA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGCTTTTAAT
Found at i:74305471 original size:42 final size:42
Alignment explanation
Indices: 74305365--74305508 Score: 155
Period size: 42 Copynumber: 3.4 Consensus size: 42
74305355 TACCGTACCA
* * * * ** * *
74305365 ATGCCTTATCCTCGATATGGTTTTACATGGGATCTCATTTTG
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
* *
74305407 ATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGAAATCTCATATCG
*
74305450 ATTCCATATCCTAGATATGGTCTTACACGAAATCTCATA-CTG
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATC-G
*
74305492 ATGCCATATCCCAGATA
1 ATGCCATATCCTAGATA
74305509 ATGTCATACA
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 53 0.62
43 31 0.36
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
Found at i:74320201 original size:49 final size:49
Alignment explanation
Indices: 74319947--74320204 Score: 158
Period size: 48 Copynumber: 5.4 Consensus size: 49
74319937 CTAGACACAG
* * * *
74319947 TATGAGAGCCAGTGTAAGACATGTCTGGGACA-GGCATCGGCCTCGAGA
1 TATGAAAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATA
** * * *
74319995 TATTTAAGCCAGTGTAAGACATGTCTAGGGCAT-GCATCGGTCTCG-TGA
1 TATGAAAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGAT-A
* * * * ** * * *
74320043 TA-CACAAGCTAGTGTAAAACCTATCCGGGACATGGCGTCAG-CTTG-TA
1 TATGA-AAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATA
* * * * * *
74320090 -ATG--TGTCAATGTAAGACCTGTCTAGGACATGACGTCAGCAC-CGATA
1 TATGAAAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGC-CTCGATA
* * * * *
74320136 GATGAGAGCTATTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGTTA
1 TATGAAAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATA
74320185 TATGAAAGCCAGTGTAAGAC
1 TATGAAAGCCAGTGTAAGAC
74320205 TATGTTTGGG
Statistics
Matches: 156, Mismatches: 42, Indels: 23
0.71 0.19 0.10
Matches are distributed among these distances:
44 26 0.17
45 1 0.01
46 4 0.03
47 4 0.03
48 67 0.43
49 54 0.35
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
TATGAAAGCCAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATA
Found at i:74321793 original size:37 final size:37
Alignment explanation
Indices: 74321732--74321810 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
74321722 TTATTACGAA
* * * *
74321732 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
*
74321769 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
74321806 GTCTT
1 GTCTT
74321811 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:74322007 original size:47 final size:47
Alignment explanation
Indices: 74321929--74322293 Score: 586
Period size: 47 Copynumber: 7.8 Consensus size: 47
74321919 CCCTTCGGGA
* * * * * *
74321929 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
74321976 CCTGTCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74322023 CTTATCACATATATACACTTTCACATTCGTCACATCGGCCATAAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74322070 CTTATCACATATATACACTTTCACTTTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
74322117 CTTATCACATATATACACTTTCACAATCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
74322164 CTTATCACATAGATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
74322211 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74322258 CTTATCACATATATACACTTTCACATTCATCACATC
1 CTTATCACATATATACACTTTCACATTCATCACATC
74322294 ACATAGAATC
Statistics
Matches: 293, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 293 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:74322173 original size:22 final size:22
Alignment explanation
Indices: 74322145--74322220 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
74322135 TTTCACAATC
74322145 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
* ** *** *
74322167 ATCACATAGATACACTTTCACATT
1 ATCACATCG-GCCA-TTAGGCCTT
74322191 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
74322214 ATCACAT
1 ATCACAT
74322221 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:74325222 original size:40 final size:40
Alignment explanation
Indices: 74325190--74325571 Score: 366
Period size: 40 Copynumber: 9.6 Consensus size: 40
74325180 CCAGCATGAT
* * * *
74325190 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
74325230 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
74325270 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
74325310 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
74325350 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
74325390 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* ** * * *
74325431 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* * * *
74325471 TGC-CTTCGGG-CTTAGCCCGGAATTA-GTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGG-A-TACATCACTAGCACGAA
* **
74325510 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAA
*
74325550 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
74325572 CATCATTCGA
Statistics
Matches: 297, Mismatches: 36, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
38 4 0.01
39 29 0.10
40 243 0.82
41 21 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:74327475 original size:37 final size:37
Alignment explanation
Indices: 74327425--74327503 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
74327415 TTATTACGAA
* * *
74327425 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
74327462 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
74327499 GTCTT
1 GTCTT
74327504 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:74327700 original size:47 final size:47
Alignment explanation
Indices: 74327622--74327844 Score: 331
Period size: 47 Copynumber: 4.7 Consensus size: 47
74327612 CCCTTCGGGA
* * * * * *
74327622 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74327669 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74327716 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74327763 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
74327810 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
74327845 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.01
47 161 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:74332243 original size:21 final size:21
Alignment explanation
Indices: 74332219--74332290 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
74332209 CCATGGTATC
74332219 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* * **
74332240 TTTCATATCATGTTGCTATGGTATC-
1 TTTCA-ACCATGGT-CT-T-ACA-CA
74332265 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
74332286 TTTCA
1 TTTCA
74332291 TTTCAGAAAG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 7 0.19
23 4 0.11
24 7 0.19
25 6 0.16
26 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:74332288 original size:138 final size:138
Alignment explanation
Indices: 74332033--74332289 Score: 381
Period size: 138 Copynumber: 1.9 Consensus size: 138
74332023 TGCCATATTG
* * * *
74332033 TCTTTCAGCTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * * **
74332098 TTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTATTATTCATTTCCCGTTATGTTA
66 CACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTATTACACATTTCCCGTTATGTTA
74332163 CCATAGTA
131 CCATAGTA
74332171 TCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTACACATTTTC-TATCATGTTGCCATGGTATCTTTCAACCATGGTCTT
* * *
74332235 ACACATTTCATATCATGTTGCTATGGTATCTTTCAACCATGGTCTTACACATTTC
65 ACACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTATTACACATTTC
74332290 ATTTCAGAAA
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
137 4 0.04
138 101 0.96
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTATTACACATTTCCCGTTATGTTA
CCATAGTA
Found at i:74332289 original size:46 final size:46
Alignment explanation
Indices: 74332033--74332291 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
74332023 TGCCATATTG
* * *
74332033 TCTTTCAGCTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATGTCATGTTGCCATGGTA
** **
74332079 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
* ** ** * * *
74332125 TCTTTCAACCATGGTATTATTCATTTCCCGTTATGTTACCATAGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
*
74332171 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
* *
74332217 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCTATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
74332263 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACACATTTCAT
74332292 TTCAGAAAGC
Statistics
Matches: 194, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 190 0.98
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
Found at i:74335205 original size:12 final size:12
Alignment explanation
Indices: 74335183--74335223 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
74335173 TTTTTCTCCC
*
74335183 TTTCTTCTTCTT
1 TTTCTTATTCTT
*
74335195 CTTCTTATTCTT
1 TTTCTTATTCTT
74335207 TTTCTTATTCTT
1 TTTCTTATTCTT
74335219 TTTCT
1 TTTCT
74335224 CTTCTCAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTCTTATTCTT
Found at i:74338121 original size:25 final size:23
Alignment explanation
Indices: 74338038--74338145 Score: 103
Period size: 22 Copynumber: 4.6 Consensus size: 23
74338028 TGCACAATTA
* *
74338038 AACATAGACCACTAATGTGCTAT
1 AACAGAGAGCACTAATGTGCTAT
*
74338061 -ACAGAGAGCACAAATGTGCTA-
1 AACAGAGAGCACTAATGTGCTAT
* *
74338082 AACAAAGAGAACTAATGTGCTAAT
1 AACAGAGAGCACTAATGTGCT-AT
* *
74338106 AATCGGAGAGCACTAACGTGCTAAT
1 AA-CAGAGAGCACTAATGTGCT-AT
74338131 AATCAGAGAGCACTA
1 AA-CAGAGAGCACTA
74338146 CCGTATTAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
22 35 0.50
23 1 0.01
24 2 0.03
25 32 0.46
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (23 bp):
AACAGAGAGCACTAATGTGCTAT
Found at i:74338155 original size:25 final size:25
Alignment explanation
Indices: 74338087--74338166 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
74338077 TGCTAAACAA
* * * *
74338087 AGAGAACTAATGTGCTAATAATCGG
1 AGAGCACTAACGTACTAATAATCAG
*
74338112 AGAGCACTAACGTGCTAATAATCAG
1 AGAGCACTAACGTACTAATAATCAG
* * *
74338137 AGAGCACTACCGTATTAATAATTAG
1 AGAGCACTAACGTACTAATAATCAG
74338162 AGAGC
1 AGAGC
74338167 GCGCTAAGGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (25 bp):
AGAGCACTAACGTACTAATAATCAG
Found at i:74341187 original size:15 final size:15
Alignment explanation
Indices: 74341167--74341197 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
74341157 ACGGACTTAG
74341167 ATCGGGGAAAAGATA
1 ATCGGGGAAAAGATA
74341182 ATCGGGGAAAAGATA
1 ATCGGGGAAAAGATA
74341197 A
1 A
74341198 AGTTATCGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.32, T:0.13
Consensus pattern (15 bp):
ATCGGGGAAAAGATA
Found at i:74341441 original size:41 final size:42
Alignment explanation
Indices: 74341396--74341487 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 42
74341386 GGCCATATTT
*
74341396 GGCACTTAGAGTGTGAGACCA-AGATAGCTTCGGCTATGTA-A
1 GGCACTTAGAGTGTGAAACCATA-ATAGCTTCGGCTATGTATA
* ** *
74341437 GGCACTTAGTGTGTGAAATTATAATAGCTTCGGCTATGTATT
1 GGCACTTAGAGTGTGAAACCATAATAGCTTCGGCTATGTATA
74341479 GGCACTTAG
1 GGCACTTAG
74341488 TGTACGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
41 34 0.77
42 10 0.23
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (42 bp):
GGCACTTAGAGTGTGAAACCATAATAGCTTCGGCTATGTATA
Found at i:74346184 original size:39 final size:39
Alignment explanation
Indices: 74346132--74346259 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
74346122 TATGAGATTG
*
74346132 AAAATATTCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
*
74346171 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
* * * ** *
74346210 AATATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
74346249 AAAATATCCGG
1 AAAATATCCGG
74346260 GTTAAAGACC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
Found at i:74346273 original size:78 final size:76
Alignment explanation
Indices: 74346131--74346285 Score: 177
Period size: 78 Copynumber: 2.0 Consensus size: 76
74346121 GTATGAGATT
* * * * *
74346131 GAAAATATTCGGACATGAGGTCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATAAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACATAAGACCCGCA
*
74346196 GGCTATATGCTA
66 GGCT-TACGCTA
* * * **
74346208 GAAATATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATAAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACAT-AAGACCCG
74346272 CAGGCTTACGCTA
64 CAGGCTTACGCTA
74346285 G
1 G
74346286 TAATGTATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
77 12 0.18
78 53 0.82
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATAAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:74354394 original size:7 final size:7
Alignment explanation
Indices: 74354382--74354415 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
74354372 CATCCTTCTC
74354382 TTCTTTT
1 TTCTTTT
74354389 TTCTTTT
1 TTCTTTT
74354396 TTC-TTT
1 TTCTTTT
74354402 TTCTTTCT
1 TTCTTT-T
74354410 TTCTTT
1 TTCTTT
74354416 CTTAATTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTCTTTT
Found at i:74354401 original size:14 final size:15
Alignment explanation
Indices: 74354377--74354415 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
74354367 GCGTTCATCC
74354377 TTCTCTTCTTTTTTCT
1 TTCT-TTCTTTTTTCT
74354393 TT-TTTC-TTTTTCT
1 TTCTTTCTTTTTTCT
74354406 TTCTTTCTTT
1 TTCTTTCTTT
74354416 CTTAATTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.43
14 7 0.33
15 3 0.14
16 2 0.10
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTCTTTCTTTTTTCT
Found at i:74355305 original size:19 final size:19
Alignment explanation
Indices: 74355255--74355306 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
74355245 TAAATTTATT
* *
74355255 TAAT-ATTTTTATAAATTT
1 TAATAATTTTTAAAAATTA
74355273 TAATAATGTTTTAAAAACTTA
1 TAATAAT-TTTTAAAAA-TTA
74355294 TAA-AATTTTTAAA
1 TAATAATTTTTAAA
74355307 TTATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 11 0.38
21 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATAATTTTTAAAAATTA
Found at i:74357061 original size:21 final size:21
Alignment explanation
Indices: 74357032--74357074 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
74357022 AAATTTGTGG
* *
74357032 CATTTGAAAAATAAAGATGGA
1 CATTCGAAAAATAAAAATGGA
74357053 CATTCGAAAAATAAAAATGGA
1 CATTCGAAAAATAAAAATGGA
74357074 C
1 C
74357075 TCTTAGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.21
Consensus pattern (21 bp):
CATTCGAAAAATAAAAATGGA
Found at i:74358746 original size:46 final size:46
Alignment explanation
Indices: 74358696--74358791 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
74358686 AATAAGCAAA
74358696 ACATTAACTAATAAAATAACCTAAGTTATCTAAATATTGTAAATTT
1 ACATTAACTAATAAAATAACCTAAGTTATCTAAATATTGTAAATTT
74358742 ACATTAACTAATAAAATAACCTAAGTTATCTAAATATTGTAAATTT
1 ACATTAACTAATAAAATAACCTAAGTTATCTAAATATTGTAAATTT
74358788 ACAT
1 ACAT
74358792 AAAAATTACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.36
Consensus pattern (46 bp):
ACATTAACTAATAAAATAACCTAAGTTATCTAAATATTGTAAATTT
Found at i:74363033 original size:25 final size:24
Alignment explanation
Indices: 74362984--74363034 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
74362974 AAAACTTAAA
*
74362984 AATAGATAATATATAAAATAATTT
1 AATAGATAATATATAAAACAATTT
*
74363008 AATATGAT-ATATAATAAAACAGTTT
1 AATA-GATAATAT-ATAAAACAATTT
74363033 AA
1 AA
74363035 AGTAAAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (24 bp):
AATAGATAATATATAAAACAATTT
Found at i:74363484 original size:12 final size:12
Alignment explanation
Indices: 74363467--74363496 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
74363457 ACCACTCTGT
74363467 AAAAAAAAAAAG
1 AAAAAAAAAAAG
74363479 AAAAAAAAAAAG
1 AAAAAAAAAAAG
74363491 AGAAAA
1 A-AAAA
74363497 GCCTCCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:74363486 original size:14 final size:14
Alignment explanation
Indices: 74363467--74363496 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
74363457 ACCACTCTGT
74363467 AAAAAAAAAAAGAA
1 AAAAAAAAAAAGAA
*
74363481 AAAAAAAAAGAGAA
1 AAAAAAAAAAAGAA
74363495 AA
1 AA
74363497 GCCTCCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:74365018 original size:46 final size:46
Alignment explanation
Indices: 74364967--74365160 Score: 223
Period size: 46 Copynumber: 4.2 Consensus size: 46
74364957 AAAATTTGGT
* * * *
74364967 TTCTTCCATCCATTCCACTGCAACTCAGGGGTATAGGATTTGTACC
1 TTCTTCAATCCATCCCACTGCAACTCAGAGGTATAGGATTTGTATC
* * *
74365013 ATCTTCAATCCATCCCACTGCAGCTCAGAGGTATAAGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAGAGGTATAGGATTTGTATC
* * *
74365059 TTCTTCAATCCATCCTATTGCAATTC-GAAGGTAT-GTGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAG-AGGTATAG-GATTTGTATC
* **
74365105 TTCTTTAATCCATCCCACTGCAACTCAG-GAGTATAGGATTTGTGGC
1 TTCTTCAATCCATCCCACTGCAACTCAGAG-GTATAGGATTTGTATC
74365151 TTCTTCAATC
1 TTCTTCAATC
74365161 AATTGATCTG
Statistics
Matches: 123, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 119 0.97
47 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTGCAACTCAGAGGTATAGGATTTGTATC
Found at i:74371750 original size:27 final size:26
Alignment explanation
Indices: 74371714--74371770 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
74371704 AAGAGTTTAA
74371714 AATATATGAAAAATATTTAAAATAAAT
1 AATATATGAAAAATATTT-AAATAAAT
* ** *
74371741 AATATGTGAAGCATCTTTAAATAAAT
1 AATATATGAAAAATATTTAAATAAAT
74371767 AATA
1 AATA
74371771 CATATAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (26 bp):
AATATATGAAAAATATTTAAATAAAT
Found at i:74371837 original size:25 final size:24
Alignment explanation
Indices: 74371788--74371838 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
74371778 AAAACTTAAA
*
74371788 AATAGATAATATATAAAATAATTT
1 AATAGATAATATATAAAACAATTT
*
74371812 AATATGAT-ATATAATAAAACAGTTT
1 AATA-GATAATAT-ATAAAACAATTT
74371837 AA
1 AA
74371839 AGTAAAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (24 bp):
AATAGATAATATATAAAACAATTT
Found at i:74373214 original size:23 final size:24
Alignment explanation
Indices: 74373172--74373216 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
74373162 ATTCTCATAA
*
74373172 TAAATATTAATATTTTAATAATTT
1 TAAATATTAATATTTAAATAATTT
*
74373196 TAAATTTTAA-ATTTAAATAAT
1 TAAATATTAATATTTAAATAAT
74373217 CTTTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAAATATTAATATTTAAATAATTT
Found at i:74374784 original size:5 final size:5
Alignment explanation
Indices: 74374774--74374800 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
74374764 AATCTGTGTG
74374774 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
74374801 CACAATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:74377532 original size:18 final size:19
Alignment explanation
Indices: 74377511--74377551 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
74377501 TTTCATAAAT
74377511 AAAAA-AATTTTATT-ACTC
1 AAAAATAATTTT-TTAACTC
*
74377529 AAAAATACTTTTTTAACTC
1 AAAAATAATTTTTTAACTC
74377548 AAAA
1 AAAA
74377552 TTATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATAATTTTTTAACTC
Found at i:74381072 original size:18 final size:17
Alignment explanation
Indices: 74381050--74381097 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
74381040 AATGTTTATT
74381050 TTTTTAATAATTTTTACAA
1 TTTTTAAT-ATTTTTAC-A
*
74381069 TTTTTAATTTTTTTACA
1 TTTTTAATATTTTTACA
74381086 -TTTTAA-ATTTTT
1 TTTTTAATATTTTT
74381098 TGACCAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 6 0.22
17 1 0.04
18 7 0.26
19 8 0.30
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTAATATTTTTACA
Found at i:74381088 original size:17 final size:18
Alignment explanation
Indices: 74381050--74381098 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
74381040 AATGTTTATT
*
74381050 TTTTTAATAATTTTTACAA
1 TTTTTAAT-TTTTTTACAA
74381069 TTTTTAATTTTTTTAC-A
1 TTTTTAATTTTTTTACAA
*
74381086 TTTTAAATTTTTT
1 TTTTTAATTTTTT
74381099 GACCAACCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 13 0.46
18 7 0.25
19 8 0.29
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTAATTTTTTTACAA
Found at i:74389289 original size:30 final size:30
Alignment explanation
Indices: 74389241--74389341 Score: 123
Period size: 30 Copynumber: 3.4 Consensus size: 30
74389231 GAGCCCAAAC
* * *
74389241 ACAAGCCC-AAATATCTCAGACCTGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
74389270 ACAAACCCAAAATAGCTCAGACCCGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
* * *
74389300 GCAAACCCAAAATAGCCCAGACCCGTTATA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
*
74389330 CACACACCCAAA
1 -ACAAACCCAAA
74389342 CAGATCGGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 7 0.11
30 46 0.74
31 9 0.15
ACGTcount: A:0.42, C:0.35, G:0.10, T:0.14
Consensus pattern (30 bp):
ACAAACCCAAAATAGCTCAGACCCGTTACA
Found at i:74393007 original size:27 final size:27
Alignment explanation
Indices: 74392977--74393151 Score: 196
Period size: 27 Copynumber: 6.4 Consensus size: 27
74392967 AATCACTCGC
* *
74392977 CACACTTAGTGCTACGTAATCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
74393004 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAGTCAAA-TCG
** * *
74393032 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAGTCAAATCG
**
74393059 CACACTT-G-GCATCACAT--TCAGTTCG
1 CACACTTAGTGC-T-ACATAGTCAAATCG
*
74393084 CACACTTAGTGCAAACATAGTCAAATCAG
1 CACACTTAGTGC-TACATAGTCAAATC-G
74393113 CACACTTAGTGCTACATAGTCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
74393140 CACACTTAGTGC
1 CACACTTAGTGC
74393152 CTGCTACAAT
Statistics
Matches: 127, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
25 16 0.13
26 6 0.05
27 51 0.40
28 41 0.32
29 13 0.10
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (27 bp):
CACACTTAGTGCTACATAGTCAAATCG
Found at i:74399855 original size:27 final size:27
Alignment explanation
Indices: 74399818--74400024 Score: 238
Period size: 27 Copynumber: 7.6 Consensus size: 27
74399808 TAAATTGTAC
74399818 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
74399845 AGCACTAAGTGTACGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
74399872 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
74399897 GATGCACTAAGTGTGCGAATTTGACCATGCC
1 -A-GCACTAAGTGTGCG-ATTTGACTATG-T
*
74399928 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
74399956 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
74399983 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
74400010 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
74400025 GACTCAATAT
Statistics
Matches: 154, Mismatches: 19, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
25 4 0.03
27 104 0.68
28 20 0.13
29 23 0.15
30 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:74399988 original size:84 final size:81
Alignment explanation
Indices: 74399818--74399998 Score: 231
Period size: 84 Copynumber: 2.2 Consensus size: 81
74399808 TAAATTGTAC
* * *
74399818 AGCACTAAGTGTGCG-ATTTGACTATGTAGCACTAAGTGTACGATTTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAATTTGACCATGCAGCACTAAGTGTACGATTTGACTATGTAGCACTAAGT
*
74399882 GTGCGAAATGAATGTG
66 GTGCGAAATGAACGTG
* *
74399898 ATGCACTAAGTGTGCGAATTTGACCATGCCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTA
1 A-GCACTAAGTGTGCGAATTTGACCATG-CAGCACTAAGTGTACGA-TTTGACTATGTAGCACTA
**
74399963 AGTGTGCGATTTGATTACGT-
63 AGTGTGCGAAATGA--ACGTG
74399983 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
74399999 GTTGATTATA
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
80 1 0.01
81 14 0.16
82 10 0.11
83 14 0.16
84 44 0.51
85 1 0.01
86 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGAATTTGACCATGCAGCACTAAGTGTACGATTTGACTATGTAGCACTAAGT
GTGCGAAATGAACGTG
Found at i:74400015 original size:111 final size:110
Alignment explanation
Indices: 74399819--74400024 Score: 306
Period size: 111 Copynumber: 1.9 Consensus size: 110
74399809 AAATTGTACA
* *
74399819 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGATTTGACTACGTAGCACTAAGTGT
*
74399884 GCGAAATGAATGTGATGCACTAAGTGTGCGAATTTGACCATGCCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTTGACCATGCCG
* *
74399929 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGATTTGACTACGTAGCACTAAGTG
** * *
74399994 TGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
65 TGCGAAATGAATATGAT-GCACTAAGTGTGCG
74400025 GACTCAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
110 17 0.20
111 68 0.80
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (110 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTTGACCATGCCG
Found at i:74404095 original size:7 final size:7
Alignment explanation
Indices: 74404083--74404115 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
74404073 TTCAAACTAC
74404083 TTTTTAT
1 TTTTTAT
74404090 TTTTTAT
1 TTTTTAT
74404097 TTTTTAT
1 TTTTTAT
*
74404104 TTTAT-T
1 TTTTTAT
74404110 TTTTTA
1 TTTTTA
74404116 GAAGATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:74408385 original size:16 final size:15
Alignment explanation
Indices: 74408361--74408390 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
74408351 AACTATTTTA
74408361 TTACAAATTTCACTC
1 TTACAAATTTCACTC
74408376 TTACATAATTTCACT
1 TTACA-AATTTCACT
74408391 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:74408726 original size:50 final size:50
Alignment explanation
Indices: 74408600--74408883 Score: 279
Period size: 50 Copynumber: 5.6 Consensus size: 50
74408590 ATCGGGTACC
* *
74408600 CATAGTATCCTGCACTTAGTACTACACATGTGACC-AACAATCT-AGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGA-TACA
* * *
74408649 CGTAGTAGCGTGCACTTAGTACTACACATGTGACCTAACCATCTGATTCA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
* * * * * *
74408699 CATAGTAGCTTGCACTTAGTACTACACACGTGA-TTGAAGTTC-TCGGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA--CCATCTGATACA
* * * * *
74408750 TATAGTAGCCTGCACTTAGTAATACACATGCGACCTAACTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
* * * * * *
74408800 CGTAGTAGCCTACACTTCGTACTACACACGTGACCTAAAACCATCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGATACA
*
74408852 CATAGTAGCCTGCACATAGTACTACACATGTG
1 CATAGTAGCCTGCACTTAGTACTACACATGTG
74408884 TTCTTACAGT
Statistics
Matches: 188, Mismatches: 38, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
49 33 0.18
50 79 0.42
51 37 0.20
52 39 0.21
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
Found at i:74408776 original size:101 final size:101
Alignment explanation
Indices: 74408651--74408832 Score: 274
Period size: 101 Copynumber: 1.8 Consensus size: 101
74408641 CTAGTACACG
* * * * * *
74408651 TAGTAGCGTGCACTTAGTACTACACATGTGACCTAACCATCTGATTCACATAGTAGCTTGCACTT
1 TAGTAGCCTGCACTTAGTAATACACATGCGACCTAACCATCTGATACACATAGTAGCCTACACTT
74408716 AGTACTACACACGTGATTGAAGTTCTCGGGTACATA
66 AGTACTACACACGTGATTGAAGTTCTCGGGTACATA
* * *
74408752 TAGTAGCCTGCACTTAGTAATACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTAATACACATGCGACCTAACCATCTGATACACATAGTAGCCTACACTT
*
74408817 CGTACTACACACGTGA
66 AGTACTACACACGTGA
74408833 CCTAAAACCA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTAATACACATGCGACCTAACCATCTGATACACATAGTAGCCTACACTT
AGTACTACACACGTGATTGAAGTTCTCGGGTACATA
Found at i:74412144 original size:39 final size:39
Alignment explanation
Indices: 74412070--74412144 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
74412060 TCTTATTCAA
* *
74412070 TATAATCAGTGGATAATGCTCGTTTAAGCAAACATTTAG
1 TATAATCAGTGGATAATACTCATTTAAGCAAACATTTAG
* * *
74412109 TATAATTAGTGGAT-ATCACTCATTTGAGCATACATT
1 TATAATCAGTGGATAAT-ACTCATTTAAGCAAACATT
74412145 CAATAGAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.07
39 28 0.93
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (39 bp):
TATAATCAGTGGATAATACTCATTTAAGCAAACATTTAG
Found at i:74412177 original size:39 final size:39
Alignment explanation
Indices: 74412132--74413120 Score: 670
Period size: 39 Copynumber: 24.6 Consensus size: 39
74412122 TATCACTCAT
* *
74412132 TTGAGCATACATTCAATAGAATCAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
** * * *
74412171 GCGAGCATACATTCAGTAGAATCAGTAGGTATGACTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * *
74412210 TTGAGCATACATTCAATAAAATCAGTAGGTGTGGCGT-GA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGC-TCGA
* * *
74412249 TAGAGCATACTTTCAGTAGAATTAGTAGGTATGGCTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
*
74412288 TTGAGCAGA-TTTCAGTAGAA-CAAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATC-AGTAGGTATGGCTCGA
* *
74412326 TTGAGCATACTTTAACTAGAATCAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* *
74412365 TTGAGCATACTTTAAGTAGAATCAGTAGGTATGGCTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* *
74412404 TAGAGCATACTTTTAGTAGAATCAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * *
74412443 TAGAGCATACTTTTAGTAGAGTCAATAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
74412482 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * *
74412521 TAGAGCATACTTTTAGTATAATTAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * *
74412560 TTAAGCATACTTTTAGTAGAATCAGTAGGTATGGCTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * * * ** * *
74412599 TTAAGCATGGC--TCAGTTGAGCATACTTTCAATAGAAACAATAAGTATGGC
1 TTGAGCAT-ACTTTCAG-T-AG-A-A---TCAGTAG-----GTATGGCTCGA
* * * ** * *
74412649 TCGAG--TGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCAA
1 TTGAGCAT-A-CTTTCAGT-AGAA---TCAGTAGGTATGGCTCGA
* * * * * ** * *
74412692 TTAAGCATGGC--TCAGTTGAGCATACTTTCAATAGAAACAATAAGTATGGC
1 TTGAGCAT-ACTTTCAG-T-AG-A-A---TCAGTAG-----GTATGGCTCGA
* * * ** * *
74412742 TCGAG--TGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTTGA
1 TTGAGCAT-A-CTTTCAGT-AGAA---TCAGTAGGTATGGCTCGA
** * *
74412785 GAGAGCATACTTTCAGTAGAATTATTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * *
74412824 TAGAGAATACTTTCAGTAGAATCAGTAGATATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * *
74412863 GTGAGCTTACTTTCAGTAGAATCAGTAGGTATGACTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * *
74412902 TTGAGCATACTTTCAGTAGAATCAATAAGTATCGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * *
74412941 TTGAGCATACTTTCAGTTGAATTAGTAGGCATGGCTCAA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* * * * * *
74412980 TTCAGCATACCTTT-AATAGATTCAATAGGTATAGCTCAA
1 TTGAGCATA-CTTTCAGTAGAATCAGTAGGTATGGCTCGA
** * * *
74413019 TAAAGAATACTTTCGGTAGAATTAGTAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
* *
74413058 TTGAGCATATTTTCAGTAGAATCAATAGGTATGGCTCGA
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
*
74413097 TAGAGCATACTTTCAGTAGAATCA
1 TTGAGCATACTTTCAGTAGAATCA
74413121 ACATCCCATT
Statistics
Matches: 739, Mismatches: 173, Indels: 76
0.75 0.18 0.08
Matches are distributed among these distances:
38 42 0.06
39 600 0.81
40 9 0.01
41 1 0.00
42 5 0.01
43 22 0.03
44 2 0.00
45 16 0.02
48 18 0.02
49 2 0.00
50 20 0.03
51 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (39 bp):
TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGA
Found at i:74412702 original size:54 final size:54
Alignment explanation
Indices: 74412639--74412743 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
74412629 ATAGAAACAA
* * * * *
74412639 TAAGTATGGCTCGAG-TGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCAAT
1 TAAGCATGGCTC-AGTTGAGCATACTTTCAATAGAAACAATAAGTATGGCTCAAT
74412693 TAAGCATGGCTCAGTTGAGCATACTTTCAATAGAAACAATAAGTATGGCTC
1 TAAGCATGGCTCAGTTGAGCATACTTTCAATAGAAACAATAAGTATGGCTC
74412744 GAGTGAGCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
53 2 0.04
54 43 0.96
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (54 bp):
TAAGCATGGCTCAGTTGAGCATACTTTCAATAGAAACAATAAGTATGGCTCAAT
Found at i:74412741 original size:132 final size:129
Alignment explanation
Indices: 74412443--74412951 Score: 446
Period size: 132 Copynumber: 4.0 Consensus size: 129
74412433 TATGGCTCGA
* *
74412443 TAGAGCATACTTTTAGTAGAGTCAATAGGTATGGCTC-GATTGAGCATACTTTCAGTAGAATCAG
1 TAGAGCATAC-TTTAGTAGAATCAATAAGTATGGCTCAG-TTGAGCATACTTTCAGTAGAATCAG
* * *
74412507 TAGGTATGGCTCGA-TAGAGCATACTTTTAGTATAATTAGTAGGTATGGCTCGATTAAGCATACT
64 TAGGTATGGCTCGAGT-GAGCATACTTTCAGTAGAATTAGTAGGTATGGCTCAATTAAGCATACT
*
74412571 TT
128 GT
* ** ** * * *
74412573 TAGTAGAAT-CAGTAGGTATGGCTCAATTAAGCATGGCTCAGTTGAGCATACTTTCAATAGAAAC
1 TAG-AGCATACTTTA-GTA-GAATCAA-TAAGTATGGCTCAGTTGAGCATACTTTCAGTAGAATC
* * * *
74412637 AATAAGTATGGCTCGAGTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCAATTAAGCATGG
62 AGTAGGTATGGCTCGAGTGAGCATACTTTCAGTAGAATTAGTAGGTATGGCTCAATTAAGCAT-A
74412702 CTCAGT
126 CT--GT
* *
74412708 T-GAGCATACTTTCAATAGAAACAATAAGTATGGCTCGAG-TGAGCATACTTTCAGTAGAATCAG
1 TAGAGCATACTTT-AGTAGAATCAATAAGTATGGCTC-AGTTGAGCATACTTTCAGTAGAATCAG
* * *
74412771 TAGGTATGGCTTGAGAGAGCATACTTTCAGTAGAATTATTAGGTATGGCTC------G-ATA--G
64 TAGGTATGGCTCGAGTGAGCATACTTTCAGTAGAATTAGTAGGTATGGCTCAATTAAGCATACTG
74412827 -
129 T
* *
74412827 -AGA--ATACTTTCAGTAGAATCAGT-AGATATGGCTCGAG-TGAGCTTACTTTCAGTAGAATCA
1 TAGAGCATACTTT-AGTAGAATCAATAAG-TATGGCTC-AGTTGAGCATACTTTCAGTAGAATCA
* * * * * * * *
74412887 GTAGGTATGACTCGATTGAGCATACTTTCAGTAGAATCAATAAGTATCGCTCGATTGAGCATACT
63 GTAGGTATGGCTCGAGTGAGCATACTTTCAGTAGAATTAGTAGGTATGGCTCAATTAAGCATACT
74412952 TTCAGTTGAA
Statistics
Matches: 310, Mismatches: 46, Indels: 50
0.76 0.11 0.12
Matches are distributed among these distances:
116 2 0.01
117 94 0.30
119 2 0.01
120 1 0.00
123 1 0.00
124 3 0.01
125 2 0.01
126 1 0.00
129 2 0.01
130 7 0.02
131 9 0.03
132 164 0.53
133 14 0.05
134 5 0.02
135 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (129 bp):
TAGAGCATACTTTAGTAGAATCAATAAGTATGGCTCAGTTGAGCATACTTTCAGTAGAATCAGTA
GGTATGGCTCGAGTGAGCATACTTTCAGTAGAATTAGTAGGTATGGCTCAATTAAGCATACTGT
Found at i:74412792 original size:93 final size:93
Alignment explanation
Indices: 74412549--74412781 Score: 439
Period size: 93 Copynumber: 2.5 Consensus size: 93
74412539 TAATTAGTAG
* * *
74412549 GTATGGCTCGATTAAGCATACTTTTAGTAGAATCAGTAGGTATGGCTCAATTAAGCATGGCTCAG
1 GTATGGCTCGAGTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCAATTAAGCATGGCTCAG
74412614 TTGAGCATACTTTCAATAGAAACAATAA
66 TTGAGCATACTTTCAATAGAAACAATAA
74412642 GTATGGCTCGAGTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCAATTAAGCATGGCTCAG
1 GTATGGCTCGAGTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCAATTAAGCATGGCTCAG
74412707 TTGAGCATACTTTCAATAGAAACAATAA
66 TTGAGCATACTTTCAATAGAAACAATAA
74412735 GTATGGCTCGAGTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCT
1 GTATGGCTCGAGTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCT
74412782 TGAGAGAGCA
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 137 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (93 bp):
GTATGGCTCGAGTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCAATTAAGCATGGCTCAG
TTGAGCATACTTTCAATAGAAACAATAA
Found at i:74415999 original size:21 final size:20
Alignment explanation
Indices: 74415975--74416014 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
74415965 CCGTGTTGAT
74415975 TTTGTACTTTGGCCCATTTTC
1 TTTGT-CTTTGGCCCATTTTC
* *
74415996 TTTGTTTTTGGCCCGTTTT
1 TTTGTCTTTGGCCCATTTT
74416015 TTGTTCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.05, C:0.20, G:0.17, T:0.57
Consensus pattern (20 bp):
TTTGTCTTTGGCCCATTTTC
Found at i:74416019 original size:18 final size:20
Alignment explanation
Indices: 74415982--74416019 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
74415972 GATTTTGTAC
*
74415982 TTTGGCCCATTTTCTTTGTT
1 TTTGGCCCAGTTTCTTTGTT
74416002 TTTGGCCC-GTTT-TTTGTT
1 TTTGGCCCAGTTTCTTTGTT
74416020 CCTTTCGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.18, T:0.61
Consensus pattern (20 bp):
TTTGGCCCAGTTTCTTTGTT
Found at i:74418338 original size:46 final size:46
Alignment explanation
Indices: 74418288--74418463 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
74418278 TGGTTGAGCA
74418288 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
74418334 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
74418379 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
74418427 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
74418464 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:74418444 original size:93 final size:93
Alignment explanation
Indices: 74418285--74418456 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
74418275 GGATGGTTGA
* * *
74418285 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
74418350 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
74418378 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
74418443 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
74418457 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:74422177 original size:49 final size:49
Alignment explanation
Indices: 74422120--74422213 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
74422110 CAACTATCTT
*
74422120 AACCATGAATATTCACTTCTAACTAATCAAATGGAGTAGGGAAATCATG
1 AACCATGAATATTCACTTCTAACTAATCAAATGGAATAGGGAAATCATG
74422169 AACCATGAATATTCACTTCTAACTAATCAAATGGAATAGGGAAAT
1 AACCATGAATATTCACTTCTAACTAATCAAATGGAATAGGGAAAT
74422214 AATGTAATGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.27
Consensus pattern (49 bp):
AACCATGAATATTCACTTCTAACTAATCAAATGGAATAGGGAAATCATG
Found at i:74425368 original size:101 final size:101
Alignment explanation
Indices: 74425193--74425397 Score: 401
Period size: 101 Copynumber: 2.0 Consensus size: 101
74425183 GAGGGAGTAA
74425193 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
74425258 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
66 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
74425294 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
1 GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
*
74425359 TTATCATAATTACACTTTTGCTGATTTTCTGGTCAT
66 TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
74425395 GCT
1 GCT
74425398 GTTTTCTTGA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 103 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (101 bp):
GCTTAAAGCTTAGTAAGTCCATATGAAAATAATAAGCAAATTATCAACATGATTCCATGAAAATG
TTATCATAATTACACTTTTCCTGATTTTCTGGTCAT
Found at i:74425967 original size:16 final size:16
Alignment explanation
Indices: 74425948--74425979 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
74425938 AATTGTTTCA
74425948 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
74425964 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
74425980 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:74426257 original size:50 final size:50
Alignment explanation
Indices: 74426179--74426470 Score: 318
Period size: 50 Copynumber: 5.8 Consensus size: 50
74426169 ACTAAAGCTC
* * * *
74426179 TCTGGTACGCATAGTAGCC-GAACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
** * * * * *
74426228 TCTGGTACATGTAATCGCCTGCACTTAGTACTACACACATGACTTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * * *
74426278 TCTGATACACATAGGAGCCTGCACTTACTACTAAACACGTGACTTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* ** *
74426328 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * *
74426380 -CGGGTACACATAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
*
74426429 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
74426471 TCGAAATGGA
Statistics
Matches: 199, Mismatches: 40, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
49 17 0.09
50 142 0.71
51 38 0.19
52 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:74426430 original size:101 final size:100
Alignment explanation
Indices: 74426182--74426475 Score: 353
Period size: 101 Copynumber: 2.9 Consensus size: 100
74426172 AAAGCTCTCT
* * * * * *
74426182 GGTACGCATAGTAGCC-GAACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAATCGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
74426246 CTGCACTTAGTACTACACACATGA-CTTAACAATCT
66 CTGCACTTAGTACTACACACGTGATC-GAACAATCG
* * * * * * * * *
74426281 GATACACATAGGAGCCTGCACTTACTACTA-AACACGTGACTTAACAATCTGATACACATAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTACTACAA-ATGCGACCTATCAATCTGGTACACGTAGTAG
*
74426345 CCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CG
65 CCTGCACTTAGTACTACACACGTGATCGAA--CAATCG
74426382 GGTACACATAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGGTACACGTAGTAGC
74426447 CTGCACTTAGTACTACACACGTGATCGAA
66 CTGCACTTAGTACTACACACGTGATCGAA
74426476 ATGGATCATT
Statistics
Matches: 161, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
99 14 0.09
100 59 0.37
101 84 0.52
102 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGATCGAACAATCG
Found at i:74426848 original size:18 final size:20
Alignment explanation
Indices: 74426819--74426864 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
74426809 AAGAACATGT
74426819 TATATCATCAAA-TAATCACA
1 TATAT-ATCAAATTAATCACA
*
74426839 TA-ATATCAAATTATTCACA
1 TATATATCAAATTAATCACA
74426858 TATATAT
1 TATATAT
74426865 ACTTACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 6 0.26
19 11 0.48
20 6 0.26
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (20 bp):
TATATATCAAATTAATCACA
Found at i:74428329 original size:16 final size:16
Alignment explanation
Indices: 74428310--74428341 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
74428300 AATTGTTTTA
74428310 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
74428326 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
74428342 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:74428760 original size:101 final size:101
Alignment explanation
Indices: 74428595--74428884 Score: 391
Period size: 101 Copynumber: 2.9 Consensus size: 101
74428585 TATCAATCTA
* * * ** * * * * * * *
74428595 GTACACACAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAATAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATTTGGTACACGTAGTAGCC
74428660 TGCACTTAGTACTACACACGTGATCAAAGTTAACGG
66 TGCACTTAGTACTACACACGTGATCAAAGTTAACGG
* *
74428696 GTACGCATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATGAATTTGGTACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATTTGGTACACGTAGTAGCC
* **
74428761 TGCACTTAGTACTACACATGTGATTGAAGTTAACGG
66 TGCACTTAGTACTACACACGTGATCAAAGTTAACGG
* ** *
74428797 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATTTGGTACACGTAGTAGTC
1 GTACACATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATTTGGTACACGTAGTAGCC
74428862 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
74428885 CTCACAACGG
Statistics
Matches: 165, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 165 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (101 bp):
GTACACATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATTTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCAAAGTTAACGG
Found at i:74428766 original size:50 final size:50
Alignment explanation
Indices: 74428543--74428885 Score: 280
Period size: 50 Copynumber: 6.8 Consensus size: 50
74428533 TGAAGCTCTC
* * * * * * * *
74428543 TGGTACTCATAGTACCCTGCAATTAGTACTACACATGCGTCCTATCAATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATGAATT
* ** * * *** *
74428593 TAGTACACACAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATGAATT
* * * * ** * *
74428643 TGATACATGTAATAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA-C
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TGAATT
* * * * **
74428694 GGGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATGAATT
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATGAATT
74428744 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA--T-TGAAGTT
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATGAA-TT
* * *
74428792 AACGGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATT
1 ---TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATGAATT
* *
74428845 TGGTACACGTAGTAGTCTGCACTTAGTACTACACACGTGAC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGAC
74428886 TCACAACGGA
Statistics
Matches: 234, Mismatches: 49, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
47 4 0.02
48 3 0.01
49 3 0.01
50 146 0.62
51 71 0.30
52 1 0.00
53 3 0.01
54 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (50 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATGAATT
Found at i:74428830 original size:26 final size:26
Alignment explanation
Indices: 74428747--74428830 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
74428737 ATGAATTTGG
*
74428747 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
** * *
74428773 TACACAT-GT-GATTGAAGTTA--AC
1 TACACATAGTAGCCTGCACTTAGTAC
74428795 GGGTACACATAGTAGCCTGCACTTAGTAC
1 ---TACACATAGTAGCCTGCACTTAGTAC
74428824 TACACAT
1 TACACAT
74428831 GTGACCTATC
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
22 2 0.05
24 7 0.17
25 9 0.21
26 15 0.36
27 7 0.17
29 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:74428850 original size:151 final size:151
Alignment explanation
Indices: 74428542--74428875 Score: 359
Period size: 151 Copynumber: 2.2 Consensus size: 151
74428532 ATGAAGCTCT
* * * * **
74428542 CTGGTACTCATAGTACCCTGCAATTAGTACTACACATGCGTCCTATCAATCTAGTACACACAGTA
1 CTGGTACACATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATCTAGTACACACAGTA
* * **
74428607 GCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAATAGCCTGCACTTAGTAC
66 GCCTGCACTTAGTACTACACACGTGACTTAACCAACGGATACACATAATAGCCTGCACTTAGTAC
*
74428672 TACACACGTGATCAAAGTTAA
131 TACACACGTGATCAAAGTCAA
* * * * * **
74428693 CGGGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATGAATTTGGTACACGTAGTA
1 CTGGTACACATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATCTAGTACACACAGTA
* ** * *
74428758 GCCTGCACTTAGTACTACACATGTGA-TTGAAGTTAACGGGTACACATAGTAGCCTGCACTTAGT
66 GCCTGCACTTAGTACTACACACGTGACTT-AA-CCAACGGATACACATAATAGCCTGCACTTAGT
* **
74428822 ACTACACATGTGA-CCTA-TCAA
129 ACTACACACGTGATCAAAGTCAA
* * *
74428843 TTTGGTACACGTAGTAGTCTGCACTTAGTACTA
1 -CTGGTACACATAGTAGCCTGCACTTAGTACTA
74428876 CACACGTGAC
Statistics
Matches: 150, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
150 5 0.03
151 109 0.73
152 36 0.24
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (151 bp):
CTGGTACACATAGTAGCCTGCACTTAGTACTAAACATGCAACCTATCAATCTAGTACACACAGTA
GCCTGCACTTAGTACTACACACGTGACTTAACCAACGGATACACATAATAGCCTGCACTTAGTAC
TACACACGTGATCAAAGTCAA
Found at i:74429261 original size:19 final size:20
Alignment explanation
Indices: 74429233--74429279 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
74429223 AAGAACATGT
74429233 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
74429254 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
74429273 TATATAT
1 TATATAT
74429280 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:74429557 original size:30 final size:30
Alignment explanation
Indices: 74429500--74429558 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
74429490 CAAAAATCAT
* *
74429500 ACTTTTACAAATTTACATTTTGACCCCTAA
1 ACTTTGACAAATTTACACTTTGACCCCTAA
* * *
74429530 ACTTTGACATATTTGCACTTTGCCCCCTA
1 ACTTTGACAAATTTACACTTTGACCCCTA
74429559 GGCTCATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (30 bp):
ACTTTGACAAATTTACACTTTGACCCCTAA
Found at i:74450190 original size:3 final size:3
Alignment explanation
Indices: 74450182--74450207 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
74450172 CTCTGTGGGA
74450182 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
74450208 AGGATCCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:74453840 original size:45 final size:44
Alignment explanation
Indices: 74453722--74453845 Score: 137
Period size: 45 Copynumber: 2.7 Consensus size: 44
74453712 CATTGGTGTG
* *
74453722 AGTC-AGTGTAAGACCATGCCTGGGACATGGCATTGGCATTGAGACA
1 AGTCTAGTGTAAGA-CATGTCT-GGACAT-GCATCGGCATTGAGACA
*
74453768 AGTGCTAGTGTAAGACATGTCTGGACATGCATCGGCCTTGAGACGTA
1 AGT-CTAGTGTAAGACATGTCTGGACATGCATCGGCATTGAGAC--A
74453815 AGT-T-GTGTAAGACATGTCTGTGACATGCATC
1 AGTCTAGTGTAAGACATGTCTG-GACATGCATC
74453846 AGCTACAAGA
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
44 16 0.23
45 25 0.36
46 9 0.13
47 11 0.16
48 9 0.13
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (44 bp):
AGTCTAGTGTAAGACATGTCTGGACATGCATCGGCATTGAGACA
Found at i:74459617 original size:46 final size:46
Alignment explanation
Indices: 74459550--74459721 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
74459540 AACCCGCCCC
*
74459550 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTGACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTGACATCCA
* *
74459596 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTGACATCCA
* * *
74459644 TCA-TGAACTCGGACTCAACTCAACGAGTTCAGACATTCG-CATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATT-GACATCCA
74459689 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
74459722 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.56
47 27 0.25
48 3 0.03
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTGACATCCA
Found at i:74459662 original size:93 final size:93
Alignment explanation
Indices: 74459554--74459725 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
74459544 CGCCCCTAAG
* *
74459554 TGAACTCGGACTCAACTCAACGAGCTCGGGCATT-GACATCCATAAGTGAACTCGGACTCAACTC
1 TGAACTCGGACTCAACTCAACGAGCTCAGACATTCG-CATCCATAAGTGAACTCGGACTCAACTC
*
74459618 AACGAGTTTGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
*
74459647 TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
74459712 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
74459726 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:74460178 original size:30 final size:30
Alignment explanation
Indices: 74460143--74460202 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
74460133 ATTTAATACG
74460143 AACTTTGGAAAAATTACACATTTGCCCCTA
1 AACTTTGGAAAAATTACACATTTGCCCCTA
* * * * *
74460173 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACATTTGCCCCTA
74460203 GGCTCAGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACATTTGCCCCTA
Found at i:74464765 original size:17 final size:17
Alignment explanation
Indices: 74464732--74464765 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
74464722 TTTAGGATAA
* *
74464732 ATTTTGATTTATTTATG
1 ATTTTGATTGATATATG
74464749 ATTTTGATTGATATATG
1 ATTTTGATTGATATATG
74464766 TTGTATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (17 bp):
ATTTTGATTGATATATG
Found at i:74476598 original size:27 final size:27
Alignment explanation
Indices: 74476567--74476621 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
74476557 ATGAGAATTT
74476567 TAGTGTTTTAAGAAAAGGGCATTTTGG
1 TAGTGTTTTAAGAAAAGGGCATTTTGG
74476594 TAGTGTTTTAAGAAAAGGGCATTTTGG
1 TAGTGTTTTAAGAAAAGGGCATTTTGG
74476621 T
1 T
74476622 CATTTAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (27 bp):
TAGTGTTTTAAGAAAAGGGCATTTTGG
Found at i:74477541 original size:42 final size:42
Alignment explanation
Indices: 74477481--74477635 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
74477471 CTAAGACTAT
* *
74477481 GTGTAAGACCGTACCTGGGATATGGCATC-AGTATGAGACTTC
1 GTGTAAGACCATAACTGGGATATGGCATCGA-TATGAGACTTC
*
74477523 GTGTAAGGCCATAACTGGGATATGGCATCGATATGAGACTTC
1 GTGTAAGACCATAACTGGGATATGGCATCGATATGAGACTTC
* * *
74477565 GTGTAAGACCATAGCTAGG-TCATTGGCATCGATACGAGA-TTAC
1 GTGTAAGACCATAACTGGGAT-A-TGGCATCGATATGAGACTT-C
* *
74477608 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATAACTGGGATATGGCAT
74477636 TGGTACGATT
Statistics
Matches: 98, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
41 1 0.01
42 62 0.63
43 34 0.35
44 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (42 bp):
GTGTAAGACCATAACTGGGATATGGCATCGATATGAGACTTC
Found at i:74495927 original size:39 final size:40
Alignment explanation
Indices: 74495880--74496102 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 40
74495870 GCTCCTCGTT
* * * *
74495880 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
74495920 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
74495959 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
74495999 CAAAGGCCTTCGGG-CTTAACCCGGAATT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
74496037 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
74496078 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
74496103 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
37 2 0.01
38 20 0.13
39 57 0.36
40 67 0.43
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:74496001 original size:79 final size:77
Alignment explanation
Indices: 74495880--74496102 Score: 243
Period size: 79 Copynumber: 2.8 Consensus size: 77
74495870 GCTCCTCGTT
* * * *
74495880 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
*
74495945 TTTAATAACTCGCA
65 ATT-ATAACTCGCA
* *
74495959 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
74496023 AATTGTATCTCGCA
64 AATTATAACTCGCA
* * * * *
74496037 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
74496101 GA
63 GA
74496103 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
77 3 0.02
78 42 0.34
79 68 0.56
80 9 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTATAACTCGCA
Found at i:74496111 original size:41 final size:41
Alignment explanation
Indices: 74496034--74496111 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
74496024 ATTGTATCTC
* * *
74496034 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
74496075 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
74496112 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:74499023 original size:48 final size:47
Alignment explanation
Indices: 74498945--74499077 Score: 142
Period size: 48 Copynumber: 2.8 Consensus size: 47
74498935 TGGTGGAATT
* * * *
74498945 GCCGATGCCATGTTCCAAACATGGTTTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATG-TCCAGACATGGTCTTACACTGGCTCACATCTCAAG
* * * * *
74498993 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCC-AGACATGGTCTTACACTGGCTCACATCTCAAG
*
74499041 GCCGATG-TATGTCCCAGACATGGTCTTACACTGGCTC
1 GCCGATGCCATGT-CCAGACATGGTCTTACACTGGCTC
74499078 TCATTGTGCC
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
47 28 0.39
48 43 0.61
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCAGACATGGTCTTACACTGGCTCACATCTCAAG
Found at i:74502253 original size:37 final size:39
Alignment explanation
Indices: 74502165--74502290 Score: 125
Period size: 37 Copynumber: 3.2 Consensus size: 39
74502155 CTCATTCAAT
* *
74502165 GCCTTC-GGACTTAAACCTCGGATTTTAA-AACTCGCACGAAT
1 GCCTTCGGGACTTAAA-C-CGGA-ATTAATAACTCGCAC-AAA
* * *
74502206 GCCTTCGGGACTTAACCCGG-ATTAGT-TCTCGCACAAA
1 GCCTTCGGGACTTAAACCGGAATTAATAACTCGCACAAA
74502243 GCCTTCGGGACTTAAACCGGAATTAATAACTCGCACAAA
1 GCCTTCGGGACTTAAACCGGAATTAATAACTCGCACAAA
*
74502282 TACCTTCGG
1 -GCCTTCGG
74502291 ATCTTAGTCG
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
37 21 0.30
38 15 0.21
39 10 0.14
40 10 0.14
41 7 0.10
42 8 0.11
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGACTTAAACCGGAATTAATAACTCGCACAAA
Found at i:74503584 original size:12 final size:12
Alignment explanation
Indices: 74503567--74503591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74503557 TACCTACAGG
74503567 CCAACATGTTTC
1 CCAACATGTTTC
74503579 CCAACATGTTTC
1 CCAACATGTTTC
74503591 C
1 C
74503592 ACTCAATACC
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:0.24, C:0.36, G:0.08, T:0.32
Consensus pattern (12 bp):
CCAACATGTTTC
Found at i:74512134 original size:18 final size:18
Alignment explanation
Indices: 74512111--74512147 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
74512101 TTTGCATCTG
74512111 TTTTTTC-TTCTTTCTCTT
1 TTTTTTCTTTCTTTC-CTT
74512129 TTTTTTCTTTCTTTCCTT
1 TTTTTTCTTTCTTTCCTT
74512147 T
1 T
74512148 CTGTTCGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTTCTTTCCTT
Found at i:74512136 original size:15 final size:16
Alignment explanation
Indices: 74512111--74512140 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
74512101 TTTGCATCTG
74512111 TTTTTTCTTCTTTCTC
1 TTTTTTCTTCTTTCTC
74512127 TTTTTT-TTCTTTCT
1 TTTTTTCTTCTTTCT
74512141 TTCCTTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTCTTTCTC
Found at i:74514929 original size:37 final size:39
Alignment explanation
Indices: 74514886--74515002 Score: 141
Period size: 41 Copynumber: 3.0 Consensus size: 39
74514876 TCCGAAGGTA
74514886 TTTGTGCGAGTTATTAATCCGGGTTAAGT-CCGAAGC-C
1 TTTGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGCAC
* *
74514923 TTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCAC
1 TTTGTGCGAGTTATTAA-TCCGGGTTAAGTCCCGAA-GCAC
* *
74514964 ATCGTGCGAGTT-TTAAAATCCGGGTTAAGTCCCGAAGCA
1 TTTGTGCGAGTTATT--AATCCGGGTTAAGTCCCGAAGCA
74515003 TTGAATGAGT
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
37 15 0.22
38 12 0.18
39 5 0.07
40 6 0.09
41 28 0.41
42 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (39 bp):
TTTGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGCAC
Found at i:74517148 original size:36 final size:37
Alignment explanation
Indices: 74517076--74517153 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
74517066 TTATTACGAA
* * *
74517076 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
74517113 GTCTTACCC-GACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
74517149 GTCTT
1 GTCTT
74517154 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 28 0.76
37 9 0.24
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:74517349 original size:47 final size:47
Alignment explanation
Indices: 74517271--74517634 Score: 649
Period size: 47 Copynumber: 7.8 Consensus size: 47
74517261 GCCCTTCGGA
* * * * * *
74517271 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74517318 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74517365 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74517412 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74517459 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74517506 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74517553 CTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74517599 CTTATCACATATATACACTTTCACATTCATCACATC
1 CTTATCACATATATACACTTTCACATTCATCACATC
74517635 ACATAGATCC
Statistics
Matches: 306, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
46 46 0.15
47 260 0.85
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:74520552 original size:40 final size:40
Alignment explanation
Indices: 74520520--74520817 Score: 331
Period size: 39 Copynumber: 7.6 Consensus size: 40
74520510 CCAGCATGAT
* * * *
74520520 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
74520560 TGCTCTTCGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
74520599 TGCTCTTC-GAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
74520638 TGCTCTTCGGGACTTAGCCC-GATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
74520677 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
74520717 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* ** * * *
74520758 TGC-CTTC-GGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
74520797 TGC-CTTCGGG-CTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
74520818 ATTAGTAACT
Statistics
Matches: 227, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.00
39 145 0.64
40 69 0.30
41 12 0.05
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:74520771 original size:79 final size:78
Alignment explanation
Indices: 74520520--74520896 Score: 354
Period size: 79 Copynumber: 4.8 Consensus size: 78
74520510 CCAGCATGAT
* * * * * *
74520520 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGTTTAGCACGGATAT
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGCTTAGCCCGGATAT
* *
74520585 ATCACTAGCACGAA
65 ATAACTAGCACAAA
* * *
74520599 TGCTCTTCGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC-GATAC
1 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG-CTTAGCCCGGATAT
* *
74520663 ATCACTAGCACGAA
65 ATAACTAGCACAAA
* *
74520677 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG-CTTAGCCCGGATA
*
74520742 TAGTAACTCGCACAAA
64 TA-TAACTAGCACAAA
* ** * * *
74520758 TGC-CTTCGGACTTAACCCGGATTTAGTAACTCGCACCAATGC-CTTCGGGCTTAGCCCGGA-AT
1 TGCTCTTCGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGGCTTAGCCCGGATA-
*
74520820 TAGTAACTCGCACAAA
64 TA-TAACTAGCACAAA
* ** * *
74520836 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGACTTAGCCCGGA
1 TGCTCTTCGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCTTCGGGCTTAGCCCGGA
74520897 CATCATTCGA
Statistics
Matches: 257, Mismatches: 32, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
77 1 0.00
78 99 0.39
79 117 0.46
80 27 0.11
81 13 0.05
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGCTTAGCCCGGATATA
TAACTAGCACAAA
Found at i:74520823 original size:39 final size:40
Alignment explanation
Indices: 74520553--74520896 Score: 221
Period size: 39 Copynumber: 8.7 Consensus size: 40
74520543 TATAACACCA
* ** * * *
74520553 GCACGAATGCTCTTCGGGTTTAGCACGG-ATATA-TCACTA
1 GCACAAATGC-CTTCGGACTTAGCCCGGAATATAGTAACTC
* * * * *
74520592 GCACGAATGCTCTTCGAACTTAGCCCGG-ATACA-TCACTA
1 GCACAAATGC-CTTCGGACTTAGCCCGGAATATAGTAACTC
** * * *
74520631 GCATGAATGCTCTTCGGGACTTAGCCC-G-ATACA-TCACTA
1 GCACAAATGC-CTTC-GGACTTAGCCCGGAATATAGTAACTC
* * * *
74520670 GCACGAATGCTCTTCGGAACTTAGCCCGG-ATACA-TCACTA
1 GCACAAATGC-CTTCGG-ACTTAGCCCGGAATATAGTAACTC
** *
74520710 GCATGAATGCTCTTCGGGACTTAGCCCGG-TTATAGTAACTC
1 GCACAAATGC-CTTC-GGACTTAGCCCGGAATATAGTAACTC
* *
74520751 GCACAAATGCCTTCGGACTTAACCCGG-ATTTAGTAACTC
1 GCACAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTC
* *
74520790 GCACCAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTC
1 GCACAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTC
* * * *
74520829 GCACAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTA
1 GCACAAATGCCTTCGGA-CTTAGCCCGGAATATAGTAAC-TC
74520870 GCACAAA-GCCTTCGGACTTAGCCCGGA
1 GCACAAATGCCTTCGGACTTAGCCCGGA
74520897 CATCATTCGA
Statistics
Matches: 267, Mismatches: 28, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 164 0.61
40 79 0.30
41 22 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTC
Found at i:74522797 original size:37 final size:37
Alignment explanation
Indices: 74522747--74522825 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
74522737 TTATTACGAA
* * *
74522747 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
74522784 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
74522821 GTCTT
1 GTCTT
74522826 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:74523022 original size:47 final size:47
Alignment explanation
Indices: 74522944--74523445 Score: 814
Period size: 47 Copynumber: 10.7 Consensus size: 47
74522934 CCCTTCGGGA
* * * * * *
74522944 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74522991 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
74523038 CTTATCACATATATACACTTTCACATTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74523085 CTTATCACATATATACACTTTCACATTCGTCACATCGGCCCTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74523132 CTTATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74523178 CTTATCACATATATACACTTTCACATTCATCA-ATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
74523223 CTTATTACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
74523270 CTTATCACATAGATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74523317 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
74523364 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
74523411 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
74523446 AGAATCCTAA
Statistics
Matches: 429, Mismatches: 23, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
45 43 0.10
46 45 0.10
47 341 0.79
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:74523276 original size:22 final size:22
Alignment explanation
Indices: 74523251--74523326 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
74523241 TTTCACATTC
74523251 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
* ** *** *
74523273 ATCACATAGATACACTTTCACATT
1 ATCACATCG-GCCA-TTAGGCCTT
74523297 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
74523320 ATCACAT
1 ATCACAT
74523327 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:74523512 original size:232 final size:230
Alignment explanation
Indices: 74523009--74523493 Score: 682
Period size: 232 Copynumber: 2.1 Consensus size: 230
74522999 ATATATACAC
* * * *
74523009 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCGTCACATC
1 TTTCACATTCATCACATCGACAATTAGGCCTTATCACATAGATACACTTTCACATTCATCACATC
* *
74523074 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCGTCACATCGGCCCTTAGGCCTTATCA
66 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
74523139 CATATATACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACACTTTCACAT
131 CATATATACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACACTTTCACAT
* * * * * *
74523204 TCATCAATCGCCATTAGGCCTTATTACATATATATAC
196 CCATCAATAG-CA-TAGGCCTAAATACATAAATATAA
* *
74523241 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAGATACACTTTCACATTCATCACATC
1 TTTCACATTCATCACATCGACAATTAGGCCTTATCACATAGATACACTTTCACATTCATCACATC
74523306 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
66 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
* *
74523371 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCAC
131 CATATATACACTTTCACATTCATCACATC-GCCATTAGGCCTTATCACATATATACACT-TTCAC
*
74523435 ATCCATCACATAG-A-A-TCCTAAAT-CA-AAATATAGA
194 ATCCATCA-ATAGCATAGGCCTAAATACATAAATATA-A
74523469 TTTC-CATGT-ATTCACATC-ACAATTA
1 TTTCACAT-TCA-TCACATCGACAATTA
74523494 TCCAAATATA
Statistics
Matches: 232, Mismatches: 15, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
227 15 0.06
228 14 0.06
229 5 0.02
230 1 0.00
232 157 0.68
233 37 0.16
234 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (230 bp):
TTTCACATTCATCACATCGACAATTAGGCCTTATCACATAGATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACACTTTCACAT
CCATCAATAGCATAGGCCTAAATACATAAATATAA
Found at i:74531854 original size:60 final size:60
Alignment explanation
Indices: 74531713--74531856 Score: 161
Period size: 59 Copynumber: 2.4 Consensus size: 60
74531703 TTAAAAACCG
* * *
74531713 GAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAATATCA
1 GAGTATAA-TGGGCCTT-GCCCATGTCAATATCAATCTGGGCCATAGCCCATTACAATATCA
* * *
74531774 GAGTATAAT-GGCCTAGCCCATGTCAGTATCAATCTGGGCCATAGCCCTATTACAA-GTCA
1 GAGTATAATGGGCCTTGCCCATGTCAATATCAATCTGGGCCATAGCCC-ATTACAATATCA
*
74531833 -AGATATATTGGGCCTTGCCCATGT
1 GAG-TATAATGGGCCTTGCCCATGT
74531857 TAACACAGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
58 2 0.03
59 37 0.52
60 24 0.34
61 5 0.07
62 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (60 bp):
GAGTATAATGGGCCTTGCCCATGTCAATATCAATCTGGGCCATAGCCCATTACAATATCA
Found at i:74531874 original size:20 final size:19
Alignment explanation
Indices: 74531849--74531893 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
74531839 ATTGGGCCTT
74531849 GCCCATGTT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTT-G
*
74531869 GCCCATTTCAATACAGTTG
1 GCCCATTTCAACACAGTTG
74531888 GCCCAT
1 GCCCAT
74531894 AACAAAACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
GCCCATTTCAACACAGTTG
Found at i:74531903 original size:19 final size:20
Alignment explanation
Indices: 74531861--74531904 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
74531851 CCATGTTAAC
** *
74531861 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
74531881 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
74531900 ACAGT
1 ACAGT
74531905 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:74542397 original size:17 final size:15
Alignment explanation
Indices: 74542373--74542420 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
74542363 TCTTTATAAA
74542373 CATATATCATTCATTT
1 CATATATCA-TCATTT
74542389 CATTATATCAAT-ATTT
1 CA-TATATC-ATCATTT
*
74542405 CATATACCATCATTT
1 CATATATCATCATTT
74542420 C
1 C
74542421 CATGTATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 2 0.07
15 10 0.36
16 8 0.29
17 7 0.25
18 1 0.04
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (15 bp):
CATATATCATCATTT
Found at i:74542754 original size:25 final size:25
Alignment explanation
Indices: 74542723--74542793 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
74542713 AGCACTTTCT
*
74542723 CGAGCCATATAACGGGAAGCTCATG
1 CGAGCCATATAACGGGAAGCTCATA
* *
74542748 CGAGCCATGTAATGGGAAGCTCATA
1 CGAGCCATATAACGGGAAGCTCATA
* *
74542773 AGAGCCA-ATAACGGGTAGCTC
1 CGAGCCATATAACGGGAAGCTC
74542794 CGTAGAGCCA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 11 0.28
25 28 0.72
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (25 bp):
CGAGCCATATAACGGGAAGCTCATA
Found at i:74542902 original size:26 final size:25
Alignment explanation
Indices: 74542870--74542929 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
74542860 GAAGCTCCAG
*
74542870 AGAGCCATTAATCAAGAAGCTCAAAA
1 AGAGCCATCAAT-AAGAAGCTCAAAA
* **
74542896 AGAGCCAATCAATAGGAAGCTCACGA
1 AGAGCC-ATCAATAAGAAGCTCAAAA
74542922 AGAGCCAT
1 AGAGCCAT
74542930 ATATCGGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.07
26 22 0.76
27 5 0.17
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.13
Consensus pattern (25 bp):
AGAGCCATCAATAAGAAGCTCAAAA
Found at i:74543930 original size:25 final size:25
Alignment explanation
Indices: 74543902--74543958 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
74543892 CCTCCTCTCC
*
74543902 ATTCCACATCGTTAATGTATATATA
1 ATTCCACATCCTTAATGTATATATA
* **
74543927 ATTCAATTTCCTTAATGTATATATA
1 ATTCCACATCCTTAATGTATATATA
74543952 ATTCCAC
1 ATTCCAC
74543959 TATTTACTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (25 bp):
ATTCCACATCCTTAATGTATATATA
Found at i:74547137 original size:47 final size:47
Alignment explanation
Indices: 74547074--74547697 Score: 996
Period size: 47 Copynumber: 13.3 Consensus size: 47
74547064 CCCTTCGGGA
* *
74547074 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
74547121 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
74547168 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
74547215 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
74547262 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
74547309 CTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
74547356 CTTATCTCATATATACACGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
74547403 CTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
74547450 CTTATCTCATATATACACGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
74547497 CTTATCACATATATACACTTTCACATTCATCACATAGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
74547544 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
74547591 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
74547638 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
74547685 CTTATCACATATA
1 CTTATCACATATA
74547698 CATATCTTGT
Statistics
Matches: 525, Mismatches: 52, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 525 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:74547238 original size:94 final size:94
Alignment explanation
Indices: 74547074--74547697 Score: 1104
Period size: 94 Copynumber: 6.6 Consensus size: 94
74547064 CCCTTCGGGA
* * *
74547074 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * *
74547139 CTTCACATCCATCACATCGGCCATTAGGT
66 TTTCACATTCATCACATAGGCCATTAGGT
74547168 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
74547233 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATAGGCCATTAGGT
* *
74547262 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
74547327 TTTCACATTCATCACATAGGCCATTAGGT
66 TTTCACATTCATCACATAGGCCATTAGGT
*
74547356 CTTATCTCATATATACACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
74547421 TTTCACATTCATCACATAGGCCATTAGGT
66 TTTCACATTCATCACATAGGCCATTAGGT
*
74547450 CTTATCTCATATATACACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
74547515 TTTCACATTCATCACATAGGCCATTAGGT
66 TTTCACATTCATCACATAGGCCATTAGGT
74547544 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
74547609 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATAGGCCATTAGGT
* *
74547638 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
74547698 CATATCTTGT
Statistics
Matches: 512, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 512 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (94 bp):
CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATAGGCCATTAGGT
Found at i:74549724 original size:27 final size:27
Alignment explanation
Indices: 74549687--74549891 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
74549677 TAAATTGTAC
74549687 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
74549714 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
74549741 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
74549766 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
74549795 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
74549823 AGCACTAAGTGTGCGTTTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
74549850 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
74549877 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
74549892 GACTCAATAT
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
25 4 0.03
27 125 0.81
28 22 0.14
29 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:74549882 original size:109 final size:108
Alignment explanation
Indices: 74549688--74549891 Score: 302
Period size: 109 Copynumber: 1.9 Consensus size: 108
74549678 AAATTGTACA
* *
74549688 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
*
74549753 GCGAAATGAATGTGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
* *
74549796 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGTTTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
74549861 TGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
65 TGCGAAATGAATATGAT-GCACTAAGTGTGCG
74549892 GACTCAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
108 17 0.20
109 68 0.80
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:74559566 original size:40 final size:40
Alignment explanation
Indices: 74559519--74559722 Score: 288
Period size: 40 Copynumber: 5.1 Consensus size: 40
74559509 CGGGCTTCAA
* *
74559519 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
74559559 CCGGATATAGT-AGTTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTCA-CTCGCACAAATGCCTTCGGGACTTAGC
*
74559599 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
74559639 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
74559679 CCAGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
74559719 CCGG
1 CCGG
74559723 TTATCATCCG
Statistics
Matches: 151, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 148 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:74576128 original size:29 final size:29
Alignment explanation
Indices: 74576095--74576201 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
74576085 ATAATATTCT
*
74576095 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
** *
74576124 TTGGGCCTGGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * *
74576153 TTGGGCC-AGATGGACCATTTGAATAAG-A
1 TTGGGCCTA-ATGGGCCATATGAATATGAA
*
74576181 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
74576202 CATGTATGTA
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
28 17 0.27
29 46 0.73
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Done.