Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 61 of 276
Found at i:18962295 original size:17 final size:18
Alignment explanation
Indices: 18962273--18962306 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18962263 TAAATGAGTT
18962273 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
18962290 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
18962307 AAAAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:18964009 original size:13 final size:13
Alignment explanation
Indices: 18963991--18964015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18963981 AAATTATCCA
18963991 ACCCAACCCAATT
1 ACCCAACCCAATT
18964004 ACCCAACCCAAT
1 ACCCAACCCAAT
18964016 AAAACTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:18964054 original size:38 final size:39
Alignment explanation
Indices: 18963996--18964073 Score: 131
Period size: 38 Copynumber: 2.0 Consensus size: 39
18963986 ATCCAACCCA
*
18963996 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
*
18964035 ACCCAATTA-CCAACCCAATAAAAATAAAAGTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
18964073 A
1 A
18964074 ACTCTTAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 28 0.76
39 9 0.24
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
Found at i:18964227 original size:17 final size:17
Alignment explanation
Indices: 18964207--18964269 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
18964197 TAATTTCAAG
18964207 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
18964224 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
18964242 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
18964261 AATTATGTA
1 AATTATGTA
18964270 GTGATTCAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:18964231 original size:37 final size:37
Alignment explanation
Indices: 18964204--18964278 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
18964194 TGTTAATTTC
* *
18964204 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
* *
18964241 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
18964278 A
1 A
18964279 TTCGGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
Found at i:18964655 original size:37 final size:37
Alignment explanation
Indices: 18964554--18964642 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 37
18964544 CATTTACAGT
* * *
18964554 TTGGGCTTAAGCCCAATT-TAATAACAGTTCAGTTCAG
1 TTGGGCCTAAGCCC-ATTAAAATAACAGTCCAGTTCAG
*
18964591 TTGGGCCTTAGCCCATTAAAATAACAGTCCAGTTCAG
1 TTGGGCCTAAGCCCATTAAAATAACAGTCCAGTTCAG
18964628 TGTGGGCCTAAGCCC
1 T-TGGGCCTAAGCCC
18964643 TTCCCGTAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 3 0.07
37 30 0.67
38 12 0.27
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (37 bp):
TTGGGCCTAAGCCCATTAAAATAACAGTCCAGTTCAG
Found at i:18965246 original size:27 final size:27
Alignment explanation
Indices: 18965214--18965321 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 27
18965204 TTTCATCACC
*
18965214 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATATCAGTCATTTTACCCTA
* * *
18965241 TGGGGGTAT-TCGGTCATTTTATCCTA
1 TAGGGGTATATCAGTCATTTTACCCTA
* *
18965267 TAGGGGTATTTCGGTCATTTTACCCTA
1 TAGGGGTATATCAGTCATTTTACCCTA
* *
18965294 TAGGGGTATTTCAGTTATTTTACCCTA
1 TAGGGGTATATCAGTCATTTTACCCTA
18965321 T
1 T
18965322 TTTAGGGTCT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 22 0.31
27 50 0.69
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (27 bp):
TAGGGGTATATCAGTCATTTTACCCTA
Found at i:18965256 original size:26 final size:27
Alignment explanation
Indices: 18965227--18965321 Score: 147
Period size: 27 Copynumber: 3.6 Consensus size: 27
18965217 GGGTATAACA
*
18965227 GTCATTTTACCCTATGGGGGTA-TTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
18965253 GTCATTTTATCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
18965280 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
*
18965307 GTTATTTTACCCTAT
1 GTCATTTTACCCTAT
18965322 TTTAGGGTCT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
26 20 0.32
27 43 0.68
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:18965271 original size:53 final size:54
Alignment explanation
Indices: 18965214--18965321 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 54
18965204 TTTCATCACC
* * *
18965214 TAGGGGTATAACAGTCATTTTACCCTATGGGGGTA-TTCGGTCATTTTATCCTA
1 TAGGGGTATAACAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTA
** * *
18965267 TAGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCAGTTATTTTACCCTA
1 TAGGGGTATAACAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTA
18965321 T
1 T
18965322 TTTAGGGTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 31 0.66
54 16 0.34
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (54 bp):
TAGGGGTATAACAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTA
Found at i:18967129 original size:43 final size:44
Alignment explanation
Indices: 18967067--18967153 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 44
18967057 AAAGGTCCCG
*
18967067 GTTCAGGATCTAGATCAATCCCGACTTCAGAGACAATTTGGTGA
1 GTTCAGCATCTAGATCAATCCCGACTTCAGAGACAATTTGGTGA
*
18967111 GTTCAGCATC-AGATCAATCCCTACTTCAGAGACAATTTGGTGA
1 GTTCAGCATCTAGATCAATCCCGACTTCAGAGACAATTTGGTGA
18967154 TGTAAACTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 32 0.78
44 9 0.22
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
GTTCAGCATCTAGATCAATCCCGACTTCAGAGACAATTTGGTGA
Found at i:18971568 original size:89 final size:88
Alignment explanation
Indices: 18971401--18971568 Score: 212
Period size: 89 Copynumber: 1.9 Consensus size: 88
18971391 TGTGTGTGTT
* * * *
18971401 CTTGCAATTTTGTCACTTTGGGGCAATGTTGAATTGTTTTCTTACTGGTTATGAGCTTATACTTC
1 CTTGCAATTTTGTCACTTTGGGGCAAGGTTGAATTGTTTTCTTACTGGTTATGAACTCATACCTC
** * *
18971466 TTGTTTATGTATGTGTTATTTTC
66 CGGTTCATATATGTGTTATTTTC
* * *
18971489 CTTGCAATTTTGTTACTTTGGGGGCAGGGTTGAA-TGTTTTTCTTACTGGTTATGAACTCATGCC
1 CTTGCAATTTTGTCACTTT-GGGGCAAGGTTGAATTG-TTTTCTTACTGGTTATGAACTCATACC
18971553 TCCGGTTCATATATGT
64 TCCGGTTCATATATGT
18971569 CTGTGGGTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
88 20 0.30
89 47 0.70
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.47
Consensus pattern (88 bp):
CTTGCAATTTTGTCACTTTGGGGCAAGGTTGAATTGTTTTCTTACTGGTTATGAACTCATACCTC
CGGTTCATATATGTGTTATTTTC
Found at i:18974235 original size:242 final size:243
Alignment explanation
Indices: 18973793--18974281 Score: 908
Period size: 242 Copynumber: 2.0 Consensus size: 243
18973783 TAGCTTCATT
*
18973793 AGTTGGCCAATGTGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
1 AGTTGGCCAATGCGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
*
18973858 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCATAAAAAAGTCCAACCTAGAAGG
66 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCATAAAAAAGTCCAACCTAGAAAG
*
18973923 GCCAGCAAGGTGGGACTAACCCTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
131 GCCAACAAGGTGGGACTAACCCTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
18973988 AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
196 AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
* * *
18974036 AGTTGTCCAATGCGTA-TTTTTTTGAAAACCCATAACCCAAAATTTCCTATATCAAGTTTTGGTT
1 AGTTGGCCAATGCGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
*
18974100 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCTTAAAAAAGTCCAACCTAGAAAG
66 AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCATAAAAAAGTCCAACCTAGAAAG
18974165 GCCAACAAGGTGGGACTAACCCTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
131 GCCAACAAGGTGGGACTAACCCTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
18974230 AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
196 AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
18974278 AGTT
1 AGTT
18974282 ATCATGTGAT
Statistics
Matches: 239, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
242 225 0.94
243 14 0.06
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (243 bp):
AGTTGGCCAATGCGTATTTTTTTTGAAAACCCAAAACCCAAAATTTCCTATATCAAGTTCTGGTT
AGGTTTTTTAAATTTCGCATCAGTTAACAGATTTTTTTTTTCATAAAAAAGTCCAACCTAGAAAG
GCCAACAAGGTGGGACTAACCCTAAGAAAAAGCAGCACCGTGAAAGGGAGGAAAGATCTTATTAA
AGACATGCTATCAACCCAATGCCCCTTAAAAACTATTAGAGCTGCCAC
Found at i:18975334 original size:30 final size:32
Alignment explanation
Indices: 18975298--18975366 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
18975288 GGTTTCATTT
* *
18975298 CAGTCACTCAAC-TT-TCAAAAAGTTACAAAA
1 CAGTCACTCAACGTTATAAAAAAGTGACAAAA
18975328 CAGTCAC-CAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTCAACGTTATAAAAAAGTGACAAAA
*
18975359 TAGTCACT
1 CAGTCACT
18975367 GATTAACGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.12
30 9 0.27
31 20 0.61
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (32 bp):
CAGTCACTCAACGTTATAAAAAAGTGACAAAA
Found at i:18975910 original size:18 final size:18
Alignment explanation
Indices: 18975887--18975957 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
18975877 AATTAGGGTT
*
18975887 ATTTCGGTTTCAATTTTA
1 ATTTCGATTTCAATTTTA
** *
18975905 ATTTCGATTTTGATTTTG
1 ATTTCGATTTCAATTTTA
* **
18975923 ATTTCGATTTCTATTTCG
1 ATTTCGATTTCAATTTTA
* *
18975941 ATTTTGATTACAATTTT
1 ATTTCGATTTCAATTTT
18975958 GAAACACTCA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (18 bp):
ATTTCGATTTCAATTTTA
Found at i:18975914 original size:6 final size:6
Alignment explanation
Indices: 18975905--18975949 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
18975895 TTCAATTTTA
* * * *
18975905 ATTTCG ATTTTG ATTTTG ATTTCG ATTTCT ATTTCG ATTTTG ATT
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATT
18975950 ACAATTTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.18, C:0.09, G:0.13, T:0.60
Consensus pattern (6 bp):
ATTTCG
Found at i:18975925 original size:12 final size:12
Alignment explanation
Indices: 18975905--18975959 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
18975895 TTCAATTTTA
* *
18975905 ATTTCGATTTTG
1 ATTTTGATTTCG
18975917 ATTTTGATTTCG
1 ATTTTGATTTCG
18975929 ATTTCT-ATTTCG
1 ATTT-TGATTTCG
* *
18975941 ATTTTGATTACA
1 ATTTTGATTTCG
18975953 ATTTTGA
1 ATTTTGA
18975960 AACACTCACT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 1 0.03
12 35 0.95
13 1 0.03
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (12 bp):
ATTTTGATTTCG
Found at i:18976254 original size:64 final size:64
Alignment explanation
Indices: 18976153--18976292 Score: 271
Period size: 64 Copynumber: 2.2 Consensus size: 64
18976143 CATGATGTTT
18976153 ATTGTTTGTATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
1 ATTGTTTGTATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
*
18976217 ATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
1 ATTGTTTGTATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
18976281 ATTGTTTGTATC
1 ATTGTTTGTATC
18976293 CAAGCTCCTA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 75 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (64 bp):
ATTGTTTGTATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTGTC
Found at i:18976620 original size:15 final size:15
Alignment explanation
Indices: 18976600--18976628 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18976590 GAAGAAAACA
18976600 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
18976615 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
18976629 AGTGATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.38, T:0.41
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:18978387 original size:40 final size:40
Alignment explanation
Indices: 18978282--18978389 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
18978272 GCTATTTTAG
* * *
18978282 TGAATGTTTTTTAATATGTATGCACTGATTGTTGGTGTGT
1 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
18978322 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
1 TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
* *
18978362 T-ACCTATTTTTTAATATGCAAGCAGTGA
1 TGA-ATATTTTTTAATATGCATGCAGTGA
18978390 GTATTTTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.02
40 61 0.98
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.46
Consensus pattern (40 bp):
TGAATATTTTTTAATATGCATGCAGTGATTGTTGGTGTGT
Found at i:18978461 original size:38 final size:38
Alignment explanation
Indices: 18978410--18978486 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
18978400 ATAATATGCA
18978410 TGTTGGTGGGGCTATTTTTTTAGGGGTGTGTGTATCAT
1 TGTTGGTGGGGCTATTTTTTTAGGGGTGTGTGTATCAT
18978448 TGTTGGTGGGGCTATTTTTTTAGGGGTGTGTGTATCAT
1 TGTTGGTGGGGCTATTTTTTTAGGGGTGTGTGTATCAT
18978486 T
1 T
18978487 TTTTTTAGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.10, C:0.05, G:0.36, T:0.48
Consensus pattern (38 bp):
TGTTGGTGGGGCTATTTTTTTAGGGGTGTGTGTATCAT
Found at i:18979205 original size:21 final size:22
Alignment explanation
Indices: 18979152--18979210 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
18979142 ATACCCTAAC
18979152 TCAACAAGCTGCCCTAACTCAG
1 TCAACAAGCTGCCCTAACTCAG
* * *
18979174 TTACCTA-CTGCCCTAACTCA-
1 TCAACAAGCTGCCCTAACTCAG
18979194 TCAACAAGCTGCCCTAA
1 TCAACAAGCTGCCCTAA
18979211 GACAAAAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 4 0.13
21 22 0.73
22 4 0.13
ACGTcount: A:0.31, C:0.37, G:0.10, T:0.22
Consensus pattern (22 bp):
TCAACAAGCTGCCCTAACTCAG
Found at i:18983131 original size:200 final size:200
Alignment explanation
Indices: 18982788--18983187 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
18982778 ATGTAATAGC
18982788 TTATACATGCCAAAATGTTCTTCTAAGCCAACTAAGAAGAAAGTACCAAAACTTGCTATCCGGTG
1 TTATACATGCCAAAATGTTCTTCTAAGCCAACTAAGAAGAAAGTACCAAAACTTGCTATCCGGTG
18982853 TGATGACTTCGATGACGGCCTGACCCCGCAAAAATAGATGAGTCCAAGCAACCTATAATGGGTGA
66 TGATGACTTCGATGACGGCCTGACCCCGCAAAAATAGATGAGTCCAAGCAACCTATAATGGGTGA
18982918 CAAGGAAACACCGAGTGAGTTTATAACTCAGTAAGTCATAAGCAATGCACTACCATCCATCAATA
131 CAAGGAAACACCGAGTGAGTTTATAACTCAGTAAGTCATAAGCAATGCACTACCATCCATCAATA
18982983 ACATT
196 ACATT
*
18982988 TTATACATGCCAAAATGTTCTTCTAGGCCAACTAAGAAGAAAGTACCAAAACTTGCTATCCGGTG
1 TTATACATGCCAAAATGTTCTTCTAAGCCAACTAAGAAGAAAGTACCAAAACTTGCTATCCGGTG
18983053 TGATGACTTCGATGACGGCCTGACCCCGCAAAAATAGATGAGTCCAAGCAACCTATAATGGGTGA
66 TGATGACTTCGATGACGGCCTGACCCCGCAAAAATAGATGAGTCCAAGCAACCTATAATGGGTGA
18983118 CAAGGAAACACCGAGTGAGTTTATAACTCAGTAAGTCATAAGCAATGCACTACCATCCATCAATA
131 CAAGGAAACACCGAGTGAGTTTATAACTCAGTAAGTCATAAGCAATGCACTACCATCCATCAATA
18983183 ACATT
196 ACATT
18983188 ATCACAAGAG
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (200 bp):
TTATACATGCCAAAATGTTCTTCTAAGCCAACTAAGAAGAAAGTACCAAAACTTGCTATCCGGTG
TGATGACTTCGATGACGGCCTGACCCCGCAAAAATAGATGAGTCCAAGCAACCTATAATGGGTGA
CAAGGAAACACCGAGTGAGTTTATAACTCAGTAAGTCATAAGCAATGCACTACCATCCATCAATA
ACATT
Found at i:18983613 original size:27 final size:27
Alignment explanation
Indices: 18983583--18983760 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
18983573 ATATTGAGTC
* * * *
18983583 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
18983610 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18983637 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18983665 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18983692 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18983719 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18983746 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18983761 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18983722 original size:82 final size:81
Alignment explanation
Indices: 18983604--18983759 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
18983594 TGCTATATAA
* *
18983604 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18983669 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18983686 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18983750 CACTTAGTGC
65 CACTTAGTGC
18983760 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18984718 original size:19 final size:19
Alignment explanation
Indices: 18984694--18984732 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18984684 GCTAAGACTC
18984694 CTCATTTCTACTTCTCACA
1 CTCATTTCTACTTCTCACA
18984713 CTCATTTCTACTTCTCACA
1 CTCATTTCTACTTCTCACA
18984732 C
1 C
18984733 ACTCTCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (19 bp):
CTCATTTCTACTTCTCACA
Found at i:18985206 original size:101 final size:101
Alignment explanation
Indices: 18985005--18985205 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
18984995 TTTCGGTCAA
18985005 AAGAGGTTGAAAAAGGATGAACAAAACCTTTCTTTTTCCTTCCTTTAGCTCACGGCAATGGGGTG
1 AAGAGGTTGAAAAAGGATGAACAAAACCTTTCTTTTTCCTTCCTTTAGCTCACGGCAATGGGGTG
18985070 TATGCATGAGACCATTATTATTTTTTTTTCTTTTTT
66 TATGCATGAGACCATTATTATTTTTTTTTCTTTTTT
18985106 AAGAGGTTGAAAAAGGATGAACAAAACCTTTCTTTTTCCTTCCTTTAGCTCACGGCAATGGGGTG
1 AAGAGGTTGAAAAAGGATGAACAAAACCTTTCTTTTTCCTTCCTTTAGCTCACGGCAATGGGGTG
18985171 TATGCATGAGACCATTATTA-TTTTTTTTCTTTTTT
66 TATGCATGAGACCATTATTATTTTTTTTTCTTTTTT
18985206 TTTTCATCAC
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 15 0.15
101 85 0.85
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (101 bp):
AAGAGGTTGAAAAAGGATGAACAAAACCTTTCTTTTTCCTTCCTTTAGCTCACGGCAATGGGGTG
TATGCATGAGACCATTATTATTTTTTTTTCTTTTTT
Found at i:18988215 original size:70 final size:70
Alignment explanation
Indices: 18988124--18988254 Score: 172
Period size: 70 Copynumber: 1.9 Consensus size: 70
18988114 AAATCTATCA
* * * *
18988124 TTGAAAACACCGATGCTCCCTTTAATTGATCGAACAGATCATCAATACGCAGTAACGGATACATC
1 TTGAAAACACCGAGGCTCCCTTCAATTGATCGAACAAATAATCAATACGCAGTAACGGATACATC
18988189 TATTT
66 TATTT
* * * * * *
18988194 TTGAGAACACTGAGGCTCCCTTCAGTTGGTCGAACAAATAATCGATACGCGGTAACGGATA
1 TTGAAAACACCGAGGCTCCCTTCAATTGATCGAACAAATAATCAATACGCAGTAACGGATA
18988255 TTTGTTCTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 51 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (70 bp):
TTGAAAACACCGAGGCTCCCTTCAATTGATCGAACAAATAATCAATACGCAGTAACGGATACATC
TATTT
Found at i:18991125 original size:131 final size:130
Alignment explanation
Indices: 18990887--18991148 Score: 377
Period size: 131 Copynumber: 2.0 Consensus size: 130
18990877 CACGAGGTGT
* *
18990887 TAACAGACTTTAAACCCTTTATAAAAATATTTCTTAGACACTGCCAATCTGCATACTAGTCGCTT
1 TAACAGACTTTAAACCCCTTATAAAAATATTTCTCAGACACTGCCAATCTGCATACTAGTCGCTT
*
18990952 TAAAAATCATATCTTGAGTTTCACAACTCAAAAATCAGTTTCGTGATTTTTCCCTA-AAACTAGA
66 TAAAAATCATATCTTGAGTTTCACAACTCAAAAATCAGTTTCGTAATTTTTCCC-AGAAACTAGA
18991016 C
130 C
* * **
18991017 TAACTGACTTT-AACCCCTTATAAAATTTATTT-TCCAGACACTGCCCAATCTGTGTACTAGTCG
1 TAACAGACTTTAAACCCCTTATAAAA-ATATTTCT-CAGACACTG-CCAATCTGCATACTAGTCG
* **
18991080 TTTTAAAAATCATATCTTGAGTTTCGTAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTA
63 CTTTAAAAATCATATCTTGAGTTTCACAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTA
18991145 GAC
128 GAC
18991148 T
1 T
18991149 CATGTGCCCC
Statistics
Matches: 118, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
129 14 0.12
130 24 0.20
131 80 0.68
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (130 bp):
TAACAGACTTTAAACCCCTTATAAAAATATTTCTCAGACACTGCCAATCTGCATACTAGTCGCTT
TAAAAATCATATCTTGAGTTTCACAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGAC
Found at i:18992560 original size:28 final size:28
Alignment explanation
Indices: 18992497--18992619 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
18992487 ATATTAAGTC
*
18992497 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
18992524 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
18992552 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
18992580 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
18992609 CGCACACTTAG
1 CGCACACTTAG
18992620 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:19007622 original size:47 final size:47
Alignment explanation
Indices: 19007559--19008135 Score: 947
Period size: 47 Copynumber: 12.3 Consensus size: 47
19007549 CCCTTCGGGA
* * *
19007559 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19007606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
19007653 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19007700 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
19007747 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19007794 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
19007841 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19007888 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19007935 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
19007982 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
19008029 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
19008076 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
19008123 CTTATCACATATA
1 CTTATCACATATA
19008136 CACAACTTGT
Statistics
Matches: 497, Mismatches: 33, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 497 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:19007720 original size:94 final size:94
Alignment explanation
Indices: 19007559--19008139 Score: 1045
Period size: 94 Copynumber: 6.2 Consensus size: 94
19007549 CCCTTCGGGA
* * *
19007559 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
19007624 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
19007653 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
19007718 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
19007747 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
19007812 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
19007841 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
19007906 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
19007935 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * * * *
19008000 TTTCACATTCATCACGTTGGCCACTCGGT
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
19008029 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACATATATACAC
1 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
19008094 TTTCACATTCATCACGTCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
19008123 CTTATCACATATACACA
1 CTTATCACATATACACA
19008140 ACTTGTACAT
Statistics
Matches: 469, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 469 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:19012595 original size:40 final size:40
Alignment explanation
Indices: 19012535--19012718 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
19012525 TATTCGAATG
* *
19012535 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * *
19012575 ATATCCGGACTGAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * *
19012615 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * *
19012655 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
19012695 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
19012719 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 118 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:19018070 original size:18 final size:18
Alignment explanation
Indices: 19018033--19018070 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19018023 AAAAAATCAC
*
19018033 ATTTTTTATATTTAATAT
1 ATTTTTTATATTTAAAAT
19018051 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTATATTT-AAAAT
19018069 AT
1 AT
19018071 ATTGTGGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTATATTTAAAAT
Found at i:19020481 original size:46 final size:45
Alignment explanation
Indices: 19020385--19020481 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 45
19020375 CATTTTCATT
*
19020385 TCCATTT-A-AGAAAACCACATTCATTTCCAAATGATTCCATTTC
1 TCCATTTCAGAGAAAACCACAATCATTTCCAAATGATTCCATTTC
* ** *
19020428 TCCATTTCAGAGAAAACCATAATCATTTCTGAATGTTTTCCATTTC
1 TCCATTTCAGAGAAAACCACAATCATTTCCAAATG-ATTCCATTTC
*
19020474 TCTATTTC
1 TCCATTTC
19020482 TATTCATTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 7 0.16
44 1 0.02
45 21 0.47
46 16 0.36
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (45 bp):
TCCATTTCAGAGAAAACCACAATCATTTCCAAATGATTCCATTTC
Found at i:19024233 original size:1 final size:1
Alignment explanation
Indices: 19024229--19024257 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
19024219 GAAAAATTCG
19024229 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19024258 TGGGAGCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19025879 original size:24 final size:24
Alignment explanation
Indices: 19025829--19025900 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 24
19025819 TAATACAATA
* * * *
19025829 AATTATAATTTTTTGAGATAA-TA
1 AATTATAATTTTTTTAAAAAATTT
19025852 AATTATAATTTTTTTAAAAAATTT
1 AATTATAATTTTTTTAAAAAATTT
* *
19025876 AATTAAAATTATTTTAAAACAATTT
1 AATTATAATTTTTTTAAAA-AATTT
19025901 TAAAATTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 18 0.44
24 18 0.44
25 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (24 bp):
AATTATAATTTTTTTAAAAAATTT
Found at i:19025952 original size:17 final size:18
Alignment explanation
Indices: 19025919--19025955 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
19025909 ATGACCTTAA
*
19025919 AATTATAAAGGATAAAAT
1 AATTATAAAGAATAAAAT
19025937 AATTAT-AAGAATAAAAT
1 AATTATAAAGAATAAAAT
19025954 AA
1 AA
19025956 CTGTTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTATAAAGAATAAAAT
Found at i:19050843 original size:17 final size:17
Alignment explanation
Indices: 19050823--19050874 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
19050813 GTTAAGAAAA
19050823 TAATTTAATTAATAAAT
1 TAATTTAATTAATAAAT
*
19050840 TAATTTAGTTAATTAAAT
1 TAATTTAATTAA-TAAAT
*
19050858 TGA-TTAATTAAATAAAT
1 TAATTTAATT-AATAAAT
19050875 AATATTTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 21 0.70
18 9 0.30
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (17 bp):
TAATTTAATTAATAAAT
Found at i:19052603 original size:6 final size:6
Alignment explanation
Indices: 19052594--19052631 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
19052584 TCAAAATCAC
19052594 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
19052632 GTATTTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:19055508 original size:7 final size:7
Alignment explanation
Indices: 19055496--19055530 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
19055486 AGAGATATAG
19055496 GTGGCAA
1 GTGGCAA
19055503 GTGGCAA
1 GTGGCAA
19055510 GTGGCAA
1 GTGGCAA
19055517 GTGGCAA
1 GTGGCAA
19055524 GTGGCAA
1 GTGGCAA
19055531 TGAAAAGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.43, T:0.14
Consensus pattern (7 bp):
GTGGCAA
Found at i:19055896 original size:3 final size:3
Alignment explanation
Indices: 19055888--19055922 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
19055878 ATAGATTAAG
*
19055888 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
19055923 AGTATAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:19067561 original size:40 final size:40
Alignment explanation
Indices: 19066670--19067547 Score: 1706
Period size: 40 Copynumber: 22.0 Consensus size: 40
19066660 AAACCAAGTA
* * *
19066670 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
19066709 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19066749 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19066789 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19066829 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19066869 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19066909 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19066949 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19066989 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067029 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067069 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067109 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067149 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067189 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067229 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067269 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067309 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067349 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067389 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067429 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067469 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19067509 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAAT
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAAT
19067548 TTAGCCGAAA
Statistics
Matches: 834, Mismatches: 3, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
39 14 0.02
40 820 0.98
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:19073631 original size:41 final size:41
Alignment explanation
Indices: 19073574--19073651 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
19073564 ATCAAGGTTT
19073574 GATTACATAATTTATTCACTATTTAATTCCATTCCTAATTC
1 GATTACATAATTTATTCACTATTTAATTCCATTCCTAATTC
* *
19073615 GATTACATAATTTATTCGCTATTTAATTTCATTCCTA
1 GATTACATAATTTATTCACTATTTAATTCCATTCCTA
19073652 CTATTTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (41 bp):
GATTACATAATTTATTCACTATTTAATTCCATTCCTAATTC
Found at i:19075658 original size:27 final size:27
Alignment explanation
Indices: 19075628--19075805 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
19075618 ATATTGAGCC
* *
19075628 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** * *
19075655 CGCACACTTAGTGCTATGTAACCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
19075682 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
19075710 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
19075737 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
19075764 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
19075791 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19075806 GTACAATTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:19077665 original size:40 final size:40
Alignment explanation
Indices: 19077588--19078565 Score: 1818
Period size: 40 Copynumber: 24.5 Consensus size: 40
19077578 AAACCAAGTA
** *
19077588 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACCTAGCCCGGATATAG-TAACTCGCACAAATG
* *
19077627 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19077667 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19077707 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19077747 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19077787 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19077827 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19077867 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19077907 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19077947 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19077987 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078027 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078067 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078107 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078147 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078187 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078227 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078267 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078307 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078347 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078387 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
19078427 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
*
19078467 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
19078507 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCATAAATG
1 CCTTCGGGACCTAGCCCGGATA-TAGTAACTCGCACAAATG
*
19078547 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACCTAGCCCGG
19078566 TTATCATCCG
Statistics
Matches: 927, Mismatches: 9, Indels: 5
0.99 0.01 0.01
Matches are distributed among these distances:
39 15 0.02
40 912 0.98
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19080830 original size:30 final size:31
Alignment explanation
Indices: 19080804--19080862 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
19080794 GTAAATACTC
* * *
19080804 AAAATTTGAGGGATTAA-AGTGCAAATATAA
1 AAAATTTGAAGGACTAATAGTACAAATATAA
19080834 AAAATTTGAAGGACTAATAGTACAAATAT
1 AAAATTTGAAGGACTAATAGTACAAATAT
19080863 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTACAAATATAA
Found at i:19090879 original size:40 final size:40
Alignment explanation
Indices: 19090829--19090913 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
19090819 TAATTTTTTT
* * *
19090829 GCGGTATTTTTTAAAAAACGCCGCTAATGCTAGATCTATA
1 GCGGCATTTTTCAAAAAACACCGCTAATGCTAGATCTATA
** *
19090869 GCGGCATTTTTCAAAAGGCACCGCTAATGCTCGATCTATA
1 GCGGCATTTTTCAAAAAACACCGCTAATGCTAGATCTATA
19090909 GCGGC
1 GCGGC
19090914 GATAGCAGCG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (40 bp):
GCGGCATTTTTCAAAAAACACCGCTAATGCTAGATCTATA
Found at i:19091081 original size:22 final size:22
Alignment explanation
Indices: 19091049--19091093 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19091039 GTTTTTCATG
*
19091049 AAACGCTGCTAATGCTCGATCT
1 AAACGCCGCTAATGCTCGATCT
19091071 AAACGCCGCTAATGCTCGATCT
1 AAACGCCGCTAATGCTCGATCT
19091093 A
1 A
19091094 TAGTGGCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (22 bp):
AAACGCCGCTAATGCTCGATCT
Found at i:19097960 original size:111 final size:111
Alignment explanation
Indices: 19097766--19098329 Score: 1101
Period size: 111 Copynumber: 5.1 Consensus size: 111
19097756 AGCCTTTAAC
* *
19097766 TTTTGTTTCTTTTAATAATTTGTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGTATCACA
1 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGTATCACA
19097831 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
66 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
19097877 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGTATCACA
1 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGTATCACA
19097942 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
66 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
19097988 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGTATCACA
1 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGTATCACA
19098053 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
66 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
*
19098099 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCATCACA
1 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGTATCACA
19098164 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
66 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
19098210 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGTATCACA
1 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGTATCACA
19098275 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
66 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
19098321 TTTTGTTGC
1 TTTTGTTGC
19098330 ATCCCATTGG
Statistics
Matches: 449, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 449 1.00
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.48
Consensus pattern (111 bp):
TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGTATCACA
TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
Found at i:19099654 original size:16 final size:16
Alignment explanation
Indices: 19099629--19099666 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19099619 TTTTATTGGA
19099629 ATAATATTTTAGTTAAT
1 ATAAT-TTTTAGTTAAT
*
19099646 ATAATTTTTATTTAAT
1 ATAATTTTTAGTTAAT
19099662 A-AATT
1 ATAATT
19099667 CTAATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 11 0.55
17 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATAATTTTTAGTTAAT
Found at i:19104101 original size:248 final size:248
Alignment explanation
Indices: 19103663--19104160 Score: 987
Period size: 248 Copynumber: 2.0 Consensus size: 248
19103653 ATGCGTGTTT
19103663 AAAAATAATATCTAATAAATAATGAAACAAAAAAATTGTTACTAATTAATAATAATAACAAATGA
1 AAAAATAATATCTAATAAATAATGAAACAAAAAAATTGTTACTAATTAATAATAATAACAAATGA
19103728 AATATGCATTATATTAAAATTAAAAAAAATTAGATTAAATTGGTCAAATCTCATTGTGTTCAATT
66 AATATGCATTATATTAAAATTAAAAAAAATTAGATTAAATTGGTCAAATCTCATTGTGTTCAATT
19103793 CTCAATCAACAACATTATTAATACATATATACAATTGATGGAGGTAATAAGTATCCATAATAAAA
131 CTCAATCAACAACATTATTAATACATATATACAATTGATGGAGGTAATAAGTATCCATAATAAAA
*
19103858 ATAAAAAGGGTTTAAGGATGTAAAAGGCTCTCAAACTTAAAAAAAAAAAAAAC
196 ATAAAAAGGGTTTAAGGATGTAAAAGGCTCTAAAACTTAAAAAAAAAAAAAAC
19103911 AAAAATAATATCTAATAAATAATGAAACAAAAAAATTGTTACTAATTAATAATAATAACAAATGA
1 AAAAATAATATCTAATAAATAATGAAACAAAAAAATTGTTACTAATTAATAATAATAACAAATGA
19103976 AATATGCATTATATTAAAATTAAAAAAAATTAGATTAAATTGGTCAAATCTCATTGTGTTCAATT
66 AATATGCATTATATTAAAATTAAAAAAAATTAGATTAAATTGGTCAAATCTCATTGTGTTCAATT
19104041 CTCAATCAACAACATTATTAATACATATATACAATTGATGGAGGTAATAAGTATCCATAATAAAA
131 CTCAATCAACAACATTATTAATACATATATACAATTGATGGAGGTAATAAGTATCCATAATAAAA
19104106 ATAAAAAGGGTTTAAGGATGTAAAAGGCTCTAAAACTTAAAAAAAAAAAAAAC
196 ATAAAAAGGGTTTAAGGATGTAAAAGGCTCTAAAACTTAAAAAAAAAAAAAAC
19104159 AA
1 AA
19104161 TTAAGCCCTT
Statistics
Matches: 249, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
248 249 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (248 bp):
AAAAATAATATCTAATAAATAATGAAACAAAAAAATTGTTACTAATTAATAATAATAACAAATGA
AATATGCATTATATTAAAATTAAAAAAAATTAGATTAAATTGGTCAAATCTCATTGTGTTCAATT
CTCAATCAACAACATTATTAATACATATATACAATTGATGGAGGTAATAAGTATCCATAATAAAA
ATAAAAAGGGTTTAAGGATGTAAAAGGCTCTAAAACTTAAAAAAAAAAAAAAC
Found at i:19104387 original size:20 final size:20
Alignment explanation
Indices: 19104325--19104388 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
19104315 ATTATAAAAA
*
19104325 ATAAAAATCAATAAAA--GTT
1 ATAAAAATC-ATAAAATTTTT
* *
19104344 ATAAAAATCATTAAATTTTA
1 ATAAAAATCATAAAATTTTT
*
19104364 ATAAAAAT-GTAAAATTATTT
1 ATAAAAATCATAAAATT-TTT
19104384 ATAAA
1 ATAAA
19104389 TTATTAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
18 5 0.14
19 15 0.42
20 16 0.44
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
ATAAAAATCATAAAATTTTT
Found at i:19111593 original size:49 final size:52
Alignment explanation
Indices: 19111512--19111619 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 52
19111502 TATAGTGTTT
* *
19111512 CAGGTGTGTTTTGAGGGAGGATGTAAAGCCTACGGGCTTGACACTTGGTGCC
1 CAGGTGTGTTTTGAGAGAGGATGTAAAGCCTACGGGCTTGACACTTAGTGCC
* * * *
19111564 GAGGTGTGTTTTG-GAG-GGATGT-TAGCCTACGGGTTTGGCACTTAGTGCC
1 CAGGTGTGTTTTGAGAGAGGATGTAAAGCCTACGGGCTTGACACTTAGTGCC
19111613 CAGGTGT
1 CAGGTGT
19111620 ATTCTCAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 29 0.59
50 6 0.12
51 2 0.04
52 12 0.24
ACGTcount: A:0.17, C:0.16, G:0.38, T:0.30
Consensus pattern (52 bp):
CAGGTGTGTTTTGAGAGAGGATGTAAAGCCTACGGGCTTGACACTTAGTGCC
Found at i:19112482 original size:21 final size:21
Alignment explanation
Indices: 19112443--19112484 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19112433 TTTAAAGCAA
*
19112443 GTATCGATACTTTGGCATTTG
1 GTATCGATACTTTGCCATTTG
19112464 GTATCGATAC-TTGACCATTTG
1 GTATCGATACTTTG-CCATTTG
19112485 AATAGTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (21 bp):
GTATCGATACTTTGCCATTTG
Found at i:19112541 original size:18 final size:18
Alignment explanation
Indices: 19112513--19112548 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
19112503 CAAAATGCTA
19112513 ATTTGGTATCGAT-TTTT
1 ATTTGGTATCGATATTTT
19112530 ATTTGAGTATCGATATTTT
1 ATTTG-GTATCGATATTTT
19112549 TTCATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 8 0.47
19 4 0.24
ACGTcount: A:0.22, C:0.06, G:0.17, T:0.56
Consensus pattern (18 bp):
ATTTGGTATCGATATTTT
Found at i:19116732 original size:48 final size:48
Alignment explanation
Indices: 19116657--19116894 Score: 262
Period size: 48 Copynumber: 5.0 Consensus size: 48
19116647 AGGGTAAATA
* * * * *
19116657 GCCGATGCCATGTTCTAGACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
* * * * * *
19116705 GCCAATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCTTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
* ** * *
19116753 GCCGATGCCATTTCTTAGACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
* * **
19116801 GCCGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAG
* *
19116849 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
19116895 CCCAAATGTT
Statistics
Matches: 154, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
47 2 0.01
48 150 0.97
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAG
Found at i:19116825 original size:96 final size:94
Alignment explanation
Indices: 19116657--19116894 Score: 291
Period size: 96 Copynumber: 2.5 Consensus size: 94
19116647 AGGGTAAATA
* * * * *
19116657 GCCGATGCCATGTTCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCCAATGCCATGTCCCA
1 GCCGATGCCAT-TTCTAGACATGGTCTTACACTAGCACACATATCAACGCCAATGCCATGTCCCA
* *
19116722 GACATGGTCTTATACTAGCTCTCTTCTCAA-T-
65 GACATGGTCTTACACTAGCTCTC--AT-AAGTG
*
19116753 GCCGATGCCATTTCTTAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCA
1 GCCGATGCCATTTC-TAGACATGGTCTTACACTAGCACACATATCAACGCCAATGCCATGTCCCA
*
19116818 GATATGGTCTTACACTAGCTCTCATAATGTG
65 GACATGGTCTTACACTAGCTCTCATAA-GTG
* * *
19116849 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 GCCGATGCCAT-TTCTAGACATGGTCTTACACTAGCACACATATCA
19116895 CCCAAATGTT
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
93 2 0.02
94 1 0.01
95 4 0.03
96 116 0.93
97 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (94 bp):
GCCGATGCCATTTCTAGACATGGTCTTACACTAGCACACATATCAACGCCAATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCTCATAAGTG
Found at i:19123302 original size:26 final size:26
Alignment explanation
Indices: 19123266--19123321 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
19123256 CATAAAAGAG
19123266 TTAATTTTATTGTTGGATTCTATTAA
1 TTAATTTTATTGTTGGATTCTATTAA
*
19123292 TTAATTTTATTGTTGGATTCTGTTAA
1 TTAATTTTATTGTTGGATTCTATTAA
19123318 TTAA
1 TTAA
19123322 ATGAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.04, G:0.12, T:0.57
Consensus pattern (26 bp):
TTAATTTTATTGTTGGATTCTATTAA
Found at i:19128194 original size:36 final size:36
Alignment explanation
Indices: 19128147--19128218 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
19128137 TCCATATTCG
19128147 GATGAACTAGTAATAATTTCAATTCATGAGACAAAC
1 GATGAACTAGTAATAATTTCAATTCATGAGACAAAC
19128183 GATGAACTAGTAATAATTTCAATTCATGAGACAAAC
1 GATGAACTAGTAATAATTTCAATTCATGAGACAAAC
19128219 TTTAGAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (36 bp):
GATGAACTAGTAATAATTTCAATTCATGAGACAAAC
Found at i:19129539 original size:19 final size:20
Alignment explanation
Indices: 19129515--19129552 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
19129505 GGTACCACCA
19129515 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
19129534 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
19129553 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:19129892 original size:93 final size:93
Alignment explanation
Indices: 19129782--19129952 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
19129772 GCCCCTAAGT
* *
19129782 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
19129847 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * * *
19129875 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
19129940 CGAGCTCGGATGC
66 CGAGCTCGGATGC
19129953 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:19129949 original size:46 final size:46
Alignment explanation
Indices: 19129777--19129949 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
19129767 AACCCGCCCC
* * *
19129777 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * * *
19129823 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* * *
19129871 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
19129916 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
19129950 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:19133136 original size:15 final size:15
Alignment explanation
Indices: 19133113--19133152 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
19133103 TTTACATTTA
19133113 ATATTTATTAATATT-
1 ATATTTATTAA-ATTG
*
19133128 ATTTTTATTAAATTG
1 ATATTTATTAAATTG
19133143 ATATTTATTA
1 ATATTTATTA
19133153 TGAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
ATATTTATTAAATTG
Found at i:19133138 original size:25 final size:25
Alignment explanation
Indices: 19133067--19133138 Score: 60
Period size: 25 Copynumber: 2.9 Consensus size: 25
19133057 CATAAATATG
* *
19133067 TTTATTAA-ATTATTATTATTATTA
1 TTTATTAATATTATTTTTATTAATA
* **
19133091 TTTATT-ATGGTT-TTTACATTTAATA
1 TTTATTAAT-ATTATTTTTA-TTAATA
19133116 TTTATTAATATTATTTTTATTAA
1 TTTATTAATATTATTTTTATTAA
19133139 ATTGATATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 9
0.67 0.15 0.17
Matches are distributed among these distances:
23 1 0.03
24 9 0.26
25 19 0.54
26 6 0.17
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (25 bp):
TTTATTAATATTATTTTTATTAATA
Found at i:19134851 original size:45 final size:45
Alignment explanation
Indices: 19134796--19134900 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
19134786 CTACTGCTAC
* *
19134796 GTTACCGTTACTGTTACCGACTCGGCACTTTGTGTGTCAAATACT
1 GTTACTGTTACTGTTACCGACTCAGCACTTTGTGTGTCAAATACT
* * * **
19134841 GTTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAATACT
1 GTTACTGTTACTGTTACCGACTCAGCACTTTGTGTGTCAAATACT
*
19134886 GTTATTGTTACTGTT
1 GTTACTGTTACTGTT
19134901 CTGAATTTGT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACTGTTACCGACTCAGCACTTTGTGTGTCAAATACT
Found at i:19135095 original size:18 final size:18
Alignment explanation
Indices: 19135076--19135267 Score: 142
Period size: 18 Copynumber: 10.7 Consensus size: 18
19135066 TAACTGATTA
*
19135076 TTACTGAATAATTGACTA
1 TTACTGAATAATTGACTG
* *
19135094 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
19135112 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
19135130 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
* *
19135148 TTACCGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
19135166 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
** *
19135184 TCGCTGAATGAA-CGACTG
1 TTACTGAAT-AATTGACTG
* *
19135202 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
19135221 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
19135238 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
19135256 TTACTGGATAAT
1 TTACTGAATAAT
19135268 CGATTAATTG
Statistics
Matches: 138, Mismatches: 26, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
17 20 0.14
18 101 0.73
19 17 0.12
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:19135309 original size:18 final size:18
Alignment explanation
Indices: 19135286--19135346 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
19135276 TGATCGATAC
*
19135286 TGAATAACTGGTTATTAT
1 TGAATAACTGATTATTAT
* *
19135304 TGAATAATTGATTGTTAT
1 TGAATAACTGATTATTAT
* * *
19135322 CGAATAACTGACTATTAC
1 TGAATAACTGATTATTAT
19135340 TGAATAA
1 TGAATAA
19135347 ATAATTGTTC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (18 bp):
TGAATAACTGATTATTAT
Found at i:19135312 original size:36 final size:36
Alignment explanation
Indices: 19135272--19135346 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
19135262 GATAATCGAT
** *
19135272 TAATTGATCGATA-CTGAATAACTGGTTATTATTGAA
1 TAATTGATCGATATC-GAATAACTGACTATTACTGAA
* *
19135308 TAATTGATTGTTATCGAATAACTGACTATTACTGAA
1 TAATTGATCGATATCGAATAACTGACTATTACTGAA
19135344 TAA
1 TAA
19135347 ATAATTGTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (36 bp):
TAATTGATCGATATCGAATAACTGACTATTACTGAA
Found at i:19135354 original size:36 final size:36
Alignment explanation
Indices: 19135287--19135355 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
19135277 GATCGATACT
** * * *
19135287 GAATAACTGGTTATTATTGAATAATTGATTGTTATC
1 GAATAACTGACTATTACTGAATAAATAATTGTTATC
19135323 GAATAACTGACTATTACTGAATAAATAATTGTT
1 GAATAACTGACTATTACTGAATAAATAATTGTT
19135356 CTGAGTGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (36 bp):
GAATAACTGACTATTACTGAATAAATAATTGTTATC
Found at i:19140943 original size:65 final size:65
Alignment explanation
Indices: 19140862--19140988 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 65
19140852 CGGTCCCTCC
* *
19140862 GCTAGCTCAAGATAACCATAAACGAATTGCATGTAGAATCAATGTTATAAAATAATGAAAACAAT
1 GCTAGCTCAAGATAACCAGAAACGAATTGCATGTAGAACCAATGTTATAAAATAATGAAAACAAT
19140927 GCTAGCTCAAGATAACCAGAAACGAATTGCATGTAGAACCAATGTTATAAAATAATGAAAAC
1 GCTAGCTCAAGATAACCAGAAACGAATTGCATGTAGAACCAATGTTATAAAATAATGAAAAC
19140989 GATGAAGTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (65 bp):
GCTAGCTCAAGATAACCAGAAACGAATTGCATGTAGAACCAATGTTATAAAATAATGAAAACAAT
Found at i:19141265 original size:17 final size:17
Alignment explanation
Indices: 19141239--19141280 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
19141229 ACAAAATTAG
*
19141239 AATTTGATTGAGAAAAT
1 AATTTAATTGAGAAAAT
* *
19141256 AATTTAATTGATAAATT
1 AATTTAATTGAGAAAAT
19141273 AA-TTAATT
1 AATTTAATT
19141281 AATATTTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (17 bp):
AATTTAATTGAGAAAAT
Found at i:19154103 original size:3 final size:3
Alignment explanation
Indices: 19154095--19154121 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19154085 TTTGATATAC
19154095 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
19154122 CAAATATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19154639 original size:101 final size:93
Alignment explanation
Indices: 19154532--19154816 Score: 321
Period size: 91 Copynumber: 3.0 Consensus size: 93
19154522 TTTCTATAAA
* * * *
19154532 ATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT-
*
19154596 AAATAATTATAACTAATAAATTATCTTATATGAATTT
64 ---T--CT-TAA-TAATAAATTATCTTATATGAATTT
* * *
19154633 GTATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTC
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTC
* *
19154696 TTGATAATAAATTTTCTTATATGAATTT
66 TTAATAATAAATTATCTTATATGAATTT
* *
19154724 ATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTC
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTC
19154787 TTAATAATAAAATGT-TCTTATATGAATTT
66 TTAATAAT-AAAT-TATCTTATATGAATTT
19154816 A
1 A
19154817 CTAAAATCAA
Statistics
Matches: 165, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
91 88 0.53
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 49 0.30
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTC
TTAATAATAAATTATCTTATATGAATTT
Found at i:19154663 original size:26 final size:28
Alignment explanation
Indices: 19154634--19154694 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
19154624 TATGAATTTG
*
19154634 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
19154660 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
19154688 TAAAATT
1 TATAATT
19154695 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:19154692 original size:47 final size:46
Alignment explanation
Indices: 19154641--19154784 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
19154631 TTGTATAATT
19154641 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
19154688 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
19154732 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
19154779 TAAAAT
1 TAAAAT
19154785 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:19154704 original size:91 final size:90
Alignment explanation
Indices: 19154609--19154816 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
19154599 TAATTATAAC
* * * *
19154609 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
19154674 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
19154700 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
19154765 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
19154791 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
19154817 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:19154776 original size:44 final size:43
Alignment explanation
Indices: 19154634--19154776 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
19154624 TATGAATTTG
* *
19154634 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
19154678 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
19154725 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
19154769 TATAATTT
1 TATAATTT
19154777 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:19154791 original size:47 final size:47
Alignment explanation
Indices: 19154659--19154797 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
19154649 TTATTATTAC
* *
19154659 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
19154706 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
19154750 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
19154797 A
1 A
19154798 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:19157499 original size:11 final size:10
Alignment explanation
Indices: 19157480--19157553 Score: 62
Period size: 10 Copynumber: 7.4 Consensus size: 10
19157470 TATTTTTTTG
19157480 AATTTTTTAA
1 AATTTTTTAA
19157490 AATTTATTTAA
1 AATTT-TTTAA
19157501 AATTTTTATAA
1 AATTTTT-TAA
* *
19157512 TATTTTGTAA
1 AATTTTTTAA
*
19157522 AA-ATTTT-A
1 AATTTTTTAA
*
19157530 ATTTTTTTAA
1 AATTTTTTAA
* *
19157540 AAATTTTAAA
1 AATTTTTTAA
19157550 AATT
1 AATT
19157554 ACATTCGAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 2 0.04
9 7 0.14
10 22 0.45
11 18 0.37
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:19157533 original size:28 final size:27
Alignment explanation
Indices: 19157501--19157553 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
19157491 ATTTATTTAA
* *
19157501 AATTTTTATAATATTTTGTAAAAATTTT
1 AATTTTTATAAAAATTT-TAAAAATTTT
*
19157529 AATTTTTTTAAAAATTTTAAAAATT
1 AATTTTTATAAAAATTTTAAAAATT
19157554 ACATTCGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
AATTTTTATAAAAATTTTAAAAATTTT
Found at i:19157535 original size:18 final size:19
Alignment explanation
Indices: 19157509--19157548 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
19157499 AAAATTTTTA
19157509 TAATATTTTGTAAAAATTT
1 TAATATTTTGTAAAAATTT
*
19157528 TAAT-TTTTTTAAAAATTT
1 TAATATTTTGTAAAAATTT
19157546 TAA
1 TAA
19157549 AAATTACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TAATATTTTGTAAAAATTT
Found at i:19157681 original size:16 final size:17
Alignment explanation
Indices: 19157651--19157686 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
19157641 TTTTAAATAA
19157651 TTTAAAATATTTTTATT
1 TTTAAAATATTTTTATT
19157668 TTTAAAAT-TTTTTATT
1 TTTAAAATATTTTTATT
19157684 TTT
1 TTT
19157687 GATAACATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTAAAATATTTTTATT
Found at i:19170521 original size:18 final size:18
Alignment explanation
Indices: 19170481--19170529 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
19170471 GTAATGATCT
* *
19170481 GGGCGTATGGG-CTACAC
1 GGGCATATGGGCCCACAC
19170498 -GGCATATGGGCCCACAC
1 GGGCATATGGGCCCACAC
19170515 GGGCATATGGGCCCA
1 GGGCATATGGGCCCA
19170530 TAATTTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 9 0.32
17 5 0.18
18 14 0.50
ACGTcount: A:0.20, C:0.29, G:0.37, T:0.14
Consensus pattern (18 bp):
GGGCATATGGGCCCACAC
Found at i:19173156 original size:194 final size:194
Alignment explanation
Indices: 19172814--19173199 Score: 560
Period size: 194 Copynumber: 2.0 Consensus size: 194
19172804 AGAGATTTTG
* * **
19172814 GAGACTTTTCCAATGTGTGGAAATTGATATGGAAGGCTAAAGTACCGTAAAGAGTTTGGGTTTTC
1 GAGACTTTTCCAATGTGTGGAAATTGATATGAAAGGCTAAAGTACCGCAAAGAGTTCAGGTTTTC
* * **
19172879 TAATGGCTTTTCTAGTAGGAGAGGCTTCTCATCAATAGAGAGCGTACAATGGGACATATGACTAA
66 TAATGGCTTTTCTAGTAGGAAAGGCTTCTCATCAATAGAGAACGTACAATAAGACATATGACTAA
* * * *
19172944 TGAAAGTCATTTTCCTAGATGTGGTGATGTGTTCGAATCGAATCTTCATACGATACATGATTGT
131 TGAAAGCCATTATCCTAGATGTGGCGATGTGTTCGAATCCAATCTTCATACGATACATGATTGT
* *
19173008 GAGAGTTTTCCAATGTGTGGAAATTGATATGAAAGGCTAAAGTACCGCAAAGGGTTCAGGTTTTC
1 GAGACTTTTCCAATGTGTGGAAATTGATATGAAAGGCTAAAGTACCGCAAAGAGTTCAGGTTTTC
* * *
19173073 TTATGGCTTTTCTAGTAGGAAAGGCTTTTTA-CTAATA-AGGAACGTACAATAAGACATATGACT
66 TAATGGCTTTTCTAGTAGGAAAGGCTTCTCATC-AATAGA-GAACGTACAATAAGACATATGACT
* * *
19173136 AATGAAAGCCATTATCCTAGATGTGGCGATGTGTTTGAATCCAGTCTTCATATGATACATGATT
129 AATGAAAGCCATTATCCTAGATGTGGCGATGTGTTCGAATCCAATCTTCATACGATACATGATT
19173200 ATGATTTTTC
Statistics
Matches: 170, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
193 2 0.01
194 168 0.99
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (194 bp):
GAGACTTTTCCAATGTGTGGAAATTGATATGAAAGGCTAAAGTACCGCAAAGAGTTCAGGTTTTC
TAATGGCTTTTCTAGTAGGAAAGGCTTCTCATCAATAGAGAACGTACAATAAGACATATGACTAA
TGAAAGCCATTATCCTAGATGTGGCGATGTGTTCGAATCCAATCTTCATACGATACATGATTGT
Found at i:19177596 original size:24 final size:23
Alignment explanation
Indices: 19177539--19177600 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
19177529 ATTCAAGCCA
* *
19177539 GCACACATAGTGCCATTAACTTC
1 GCACACATAGTGCCATTAAATCC
*
19177562 ACACACATAGTGCCATTCAAATCC
1 GCACACATAGTGCCATT-AAATCC
*
19177586 GCACACTTAGTGCCA
1 GCACACATAGTGCCA
19177601 ATATCGACTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
23 16 0.48
24 17 0.52
ACGTcount: A:0.32, C:0.32, G:0.13, T:0.23
Consensus pattern (23 bp):
GCACACATAGTGCCATTAAATCC
Found at i:19184054 original size:24 final size:24
Alignment explanation
Indices: 19184027--19184089 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
19184017 ATTCAAGCCA
* *
19184027 GCACACATAGTGCCATTCAACTTC
1 GCACACATAGTGCCATTCAAATCC
19184051 GCACACATAGTGCCATTCAAATCC
1 GCACACATAGTGCCATTCAAATCC
*
19184075 GCACACTTAGTGCCA
1 GCACACATAGTGCCA
19184090 ATATCGACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.22
Consensus pattern (24 bp):
GCACACATAGTGCCATTCAAATCC
Found at i:19187860 original size:66 final size:65
Alignment explanation
Indices: 19187730--19187874 Score: 179
Period size: 66 Copynumber: 2.2 Consensus size: 65
19187720 TAGTACCACC
* * * *
19187730 CATGTGACCTAGC--CATTTTATCTCATAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACA
1 CATGTGACCTAGCTACATTTTATCCCATAGCTCTCTTGTCTACATGGTATACATCACCTAG--CA
19187793 CA
64 CA
* * * *
19187795 CATGTGACCTAGCTACA-TTTATCCCGTAGCTCTCTTGTCTACATGGTATACATCTCGTATCACA
1 CATGTGACCTAGCTACATTTTATCCCATAGCTCTCTTGTCTACATGGTATACATCACCTAGCACA
19187859 CATGTGACCTAGCTAC
1 CATGTGACCTAGCTAC
19187875 CACATAGTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
64 20 0.29
65 13 0.19
66 35 0.50
67 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (65 bp):
CATGTGACCTAGCTACATTTTATCCCATAGCTCTCTTGTCTACATGGTATACATCACCTAGCACA
Found at i:19191486 original size:43 final size:42
Alignment explanation
Indices: 19191390--19191506 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 42
19191380 GATTTGATAT
* * *
19191390 TTACATGTAAGACCATGTCTGAGACATTGACATCATATATGA
1 TTACATGTAAGACCTTGTCTGGGACATTGGCATCATATATGA
* * * *
19191432 TTTCGT-TAAGACCTTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCTTGTCTGGGACATTGGCATC-ATATATGA
* *
19191474 TTACATGTAAGACCTCGTCTGGGATATTGGCAT
1 TTACATGTAAGACCTTGTCTGGGACATTGGCAT
19191507 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 23 0.38
42 15 0.25
43 23 0.38
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCTTGTCTGGGACATTGGCATCATATATGA
Found at i:19192845 original size:23 final size:23
Alignment explanation
Indices: 19192809--19192855 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
19192799 GTGTGACCCT
*
19192809 TATACATTTGAAAATTTTCTATG
1 TATACATTTAAAAATTTTCTATG
*
19192832 TATACCTTTAAAAATTTTCTATG
1 TATACATTTAAAAATTTTCTATG
19192855 T
1 T
19192856 TTCCCAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (23 bp):
TATACATTTAAAAATTTTCTATG
Found at i:19194275 original size:48 final size:48
Alignment explanation
Indices: 19194174--19194582 Score: 271
Period size: 48 Copynumber: 8.7 Consensus size: 48
19194164 TTTGTGCGCC
* * * * *
19194174 AGTGTAAGA-CATGTCTGGGACAT-GCTTCGGC--CACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-CA-GACGAGGGCT
* *
19194220 AGTGTAAGACCATGTCTGGGATATGGCATCGGCATCCAGACGAGGGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCT
*
19194268 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATCCAGACGAGGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCT
* * * * * **
19194316 AGTGTAAG-TCATGTCTGGGACAT-GCATCAGCGATAC-TATGATAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATCCAGACGAGGGCT
* * *
19194362 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CAGAGATGAGTGCCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-CAGACGAG-GGCT
* * *** *
19194411 -GTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGACAGA-GATAACC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATC--CAGACGAGGGCT
* * * * * *
19194457 AGTGTAAGA-CGTGTCTGGGACA-CGCATCGAC-T-AAGA-GTTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACG-AGGGCT
* * * * * *
19194501 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATACGTATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-C-CAGACGAGGGCT
19194549 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
19194583 ATATATCCAA
Statistics
Matches: 289, Mismatches: 51, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
43 4 0.01
44 28 0.10
45 1 0.00
46 40 0.14
47 86 0.30
48 102 0.35
49 19 0.07
50 9 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCT
Found at i:19194370 original size:94 final size:92
Alignment explanation
Indices: 19194171--19194582 Score: 331
Period size: 94 Copynumber: 4.4 Consensus size: 92
19194161 TGATTTGTGC
* ** * *
19194171 GCCAGTGTAAGA-CATGTCTGGGACAT-GCTTCGGCCA-CATTATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCAAGA-GAGGGCTAGTGTAAGA-CAT
* * * * * **
19194233 GTCTGGGATATGGCATCGGCATCCAGACGAGG
63 GTCTGGGACAT-GCATCAGCATAC-TATGATA
** * * *
19194265 GTTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCCAGACGAGGGCTAGTGTAAGTCATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGA-GAGGGCTAGTGTAAGACATGT
19194330 CTGGGACATGCATCAGCGATACTATGATA
65 CTGGGACATGCATCAGC-ATACTATGATA
* *
19194359 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CAGAGATGAGTGCCT-GTGTAAGACAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCA-AGA-GAG-GGCTAGTGTAAGACAT
* * * *
19194422 GTTTGGGACATGCATCGGCCTCGAC-AGAGATA
63 GTCTGGGACATGCATCAGCAT--ACTA-TGATA
* * * * * *
19194454 ACCAGTGTAAGA-CGTGTCTGGGACA-CGCATCGAC-T-AAGAGTTGTGCTAGTGTAAGACATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGAG-AGGGCTAGTGTAAGACATGT
*
19194515 CTGGGACATGCATCAGCATACGTATATGAGA
65 CTGGGACATGCATCAGCATAC---TATGATA
19194546 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
19194583 ATATATCCAA
Statistics
Matches: 254, Mismatches: 45, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
89 2 0.01
90 3 0.01
91 33 0.13
92 15 0.06
93 22 0.09
94 108 0.43
95 50 0.20
96 21 0.08
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (92 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGAGAGGGCTAGTGTAAGACATGTC
TGGGACATGCATCAGCATACTATGATA
Found at i:19206521 original size:11 final size:11
Alignment explanation
Indices: 19206507--19206551 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
19206497 AGATAAATAT
19206507 TATTTTATTAA
1 TATTTTATTAA
*
19206518 TATTTTAATAATA
1 TATTTT-ATTA-A
*
19206531 TATTTTATTAT
1 TATTTTATTAA
19206542 TATTTTATTA
1 TATTTTATTA
19206552 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:19206534 original size:24 final size:24
Alignment explanation
Indices: 19206502--19206557 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
19206492 TAATTAGATA
19206502 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* *
19206527 AATATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
*
19206551 AGTATAT
1 AATATAT
19206558 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:19208688 original size:46 final size:46
Alignment explanation
Indices: 19208641--19208853 Score: 329
Period size: 46 Copynumber: 4.6 Consensus size: 46
19208631 ACTCTCTGAT
* * *
19208641 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
19208687 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
19208733 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
19208779 ATGAAAAGAGTAAAACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
19208825 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGA
19208854 CACTATGACA
Statistics
Matches: 154, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 153 0.99
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:19211481 original size:50 final size:50
Alignment explanation
Indices: 19211182--19211693 Score: 311
Period size: 46 Copynumber: 10.7 Consensus size: 50
19211172 TTATTTGTGT
* * *
19211182 GCTAGTGTAAGA-CATGTCTGGGACAT-GCGTCGACCAC-ATTAT-T-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCACGAATATGTGAGA
* * * * *
19211228 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATTG-AGA-G-GAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAATATGTGAGA
* * *
19211276 GCTAATGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCG-AGATGT-A-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGAATATGTGAGA
*
19211322 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-AAGATGT--G-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGAATATGTGAGA
* * * *
19211367 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATA-GAG-GT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAGA
* * *
19211414 G-TCAGTGTAAGACCATGTCTAGGACATGACATTGGCACGAATATGTGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAGA
*** * *
19211464 GCTAGTGTAAGACCATGTCTGGGACATGGCAATATCCTCG-AT-T-TCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGC-ATCGGCACGAATATGT-GAGA
* * *
19211513 G-TCAGTGTAAGACCATGTTTGGGACATGGCATTGGCATGAATATGTGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAGA
* * * * * *
19211563 GCTAGTGTAAGACCATGTTTGGGACATGGCGTCAGC-CTCAAT-TTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAATATGTGAGA
* * * *
19211612 G-TAAGTGTAATACCATGTTTGGGACATGGCATC--AAC--TTGATG-GATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAAT-ATGTGA-GA
* * *
19211659 GCCAGTGTAAGACCATGTATGGGACCTGGCATCGG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
19211694 TATTATACTC
Statistics
Matches: 371, Mismatches: 57, Indels: 73
0.74 0.11 0.15
Matches are distributed among these distances:
44 9 0.02
45 20 0.05
46 74 0.20
47 61 0.16
48 63 0.17
49 69 0.19
50 67 0.18
51 8 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAGA
Found at i:19211536 original size:49 final size:48
Alignment explanation
Indices: 19211467--19211689 Score: 179
Period size: 49 Copynumber: 4.6 Consensus size: 48
19211457 TGTGAGAGCT
* *
19211467 AGTGTAAGACCATGTCTGGGACATGGCAATATCCTCGATTTCGATAGTC
1 AGTGTAAGACCATGTTTGGGACATGGCAATAGCCTCGATTT-GATAGTC
* * * *
19211516 AGTGTAAGACCATGTTTGGGACATGGCATTGGCAT-GAATATGTGAGAG-C
1 AGTGTAAGACCATGTTTGGGACATGGCAATAGCCTCG-AT-T-TGATAGTC
* * *
19211565 TAGTGTAAGACCATGTTTGGGACATGGC-GTCAGCCTCAATTTTGATAGTA
1 -AGTGTAAGACCATGTTTGGGACATGGCAAT-AGCCTCGA-TTTGATAGTC
* * * * *
19211615 AGTGTAATACCATGTTTGGGACATGGC-ATCA-ACTTGA-TGGATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCAAT-AGCCTCGATTTGAT-AGTC
* *
19211662 AGTGTAAGACCATGTATGGGACCTGGCA
1 AGTGTAAGACCATGTTTGGGACATGGCA
19211690 TCGGTATTAT
Statistics
Matches: 141, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
46 4 0.03
47 26 0.18
48 4 0.03
49 68 0.48
50 37 0.26
51 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCAATAGCCTCGATTTGATAGTC
Found at i:19211546 original size:99 final size:98
Alignment explanation
Indices: 19211182--19211691 Score: 397
Period size: 99 Copynumber: 5.3 Consensus size: 98
19211172 TTATTTGTGT
* * * * *
19211182 GCTAGTGTAAGA-CATGTCTGGGACAT-GCGTC-GACCAC-ATTATTAGAGCCAGTGTAAGACCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CCTCGA-TATGATAGTCAGTGTAAGACCA
* *
19211243 TGTTTGGGACATGGCATCGACATTG-AGA-G-GAGA
64 TGTTTGGGACATGGCATCGGCA-CGAAGATGTGAGA
* * *
19211276 GCTAATGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATG-TAAG-CTAGTGTAAGA-CA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGAT-AGTC-AGTGTAAGACCA
*
19211336 TGTCTGGGACAT-GCATCGGCTAC-AAGATGT--G-
64 TGTTTGGGACATGGCATCGGC-ACGAAGATGTGAGA
* * *
19211367 TC-AGTGTAAGACCATGTCTGGGACATGGCATC-GGCACG-TATAGAGGT-GTCAGTGTAAGACC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATAT-GA--TAGTCAGTGTAAGACC
* * * * *
19211428 ATGTCTAGGACATGACATTGGCACGAATATGTGAGA
63 ATGTTTGGGACATGGCATCGGCACGAAGATGTGAGA
* *
19211464 GCTAGTGTAAGACCATGTCTGGGACATGGCAAT-ATCCTCGATTTCGATAGTCAGTGTAAGACCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGC-ATCAGCCTCGATAT-GATAGTCAGTGTAAGACCA
* * *
19211528 TGTTTGGGACATGGCATTGGCATGAATATGTGAGA
64 TGTTTGGGACATGGCATCGGCACGAAGATGTGAGA
* * * * * *
19211563 GCTAGTGTAAGACCATGTTTGGGACATGGCGTCAGCCTCAATTTTGATAGTAAGTGTAATACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA-TATGATAGTCAGTGTAAGACCAT
* **
19211628 GTTTGGGACATGGCATC--AAC-TTGATG-GATGA
65 GTTTGGGACATGGCATCGGCACGAAGATGTGA-GA
* * *
19211659 GCCAGTGTAAGACCATGTATGGGACCTGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
19211692 GGTATTATAC
Statistics
Matches: 343, Mismatches: 44, Indels: 56
0.77 0.10 0.13
Matches are distributed among these distances:
90 10 0.03
91 20 0.06
92 26 0.08
93 32 0.09
94 58 0.17
95 4 0.01
96 35 0.10
97 2 0.01
98 29 0.08
99 120 0.35
100 7 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (98 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGATAGTCAGTGTAAGACCATG
TTTGGGACATGGCATCGGCACGAAGATGTGAGA
Found at i:19223940 original size:48 final size:48
Alignment explanation
Indices: 19223883--19224309 Score: 431
Period size: 48 Copynumber: 8.9 Consensus size: 48
19223873 GTGAATTGCT
* * * * * ** *
19223883 GATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATGTTGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * * * * **
19223931 AATGCCATGTCCCAGACATGCTCTTACAATAGCTCTCGTCTCAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * ***
19223979 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATGTTGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* ** **
19224027 GATGTCATGTCCCAGACATGGTCTTACACTAGGACACATATCAATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * ** *
19224075 GATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATATCGTGGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* *
19224123 AATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * *
19224171 GATGTCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * * *
19224219 GACGCCATGTCCCAGACATGGTCTTGCACTAGCACACATATCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
* * *
19224267 AATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
19224310 CCCAAATGTC
Statistics
Matches: 303, Mismatches: 76, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 303 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCC
Found at i:19224052 original size:96 final size:96
Alignment explanation
Indices: 19223883--19224308 Score: 528
Period size: 96 Copynumber: 4.4 Consensus size: 96
19223873 GTGAATTGCT
* * * * * * * * *
19223883 GATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATGTTGAGGCTAATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCCAATGCCATGTCCCAGAC
* * * * * *
19223948 ATGCTCTTACAATAGCTCTCGTCTCAATACC
66 ATGGTCTTACACTAGCACACATATCAATACC
* * * * *
19223979 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATGTTGTGGCCGATGTCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCCAATGCCATGTCCCAGAC
*
19224044 ATGGTCTTACACTAGGACACATATCAATACC
66 ATGGTCTTACACTAGCACACATATCAATACC
* * *
19224075 GATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATATCGTGGCAAATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCCAATGCCATGTCCCAGAC
**
19224140 ATGGTCTTACACTAGCACACATATCAAGGCC
66 ATGGTCTTACACTAGCACACATATCAATACC
* * * * *
19224171 GATGTCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCATGGCCGACGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCCAATGCCATGTCCCAGAC
* * *
19224236 ATGGTCTTGCACTAGCACACATATCAATGCT
66 ATGGTCTTACACTAGCACACATATCAATACC
* *
19224267 AATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC
19224309 ACCCAAATGT
Statistics
Matches: 289, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 289 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCCAATGCCATGTCCCAGAC
ATGGTCTTACACTAGCACACATATCAATACC
Found at i:19226363 original size:29 final size:29
Alignment explanation
Indices: 19226328--19226401 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
19226318 GTTGTGAGAT
* *
19226328 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
19226357 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
19226386 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19226402 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:19235112 original size:96 final size:96
Alignment explanation
Indices: 19234951--19235325 Score: 480
Period size: 96 Copynumber: 3.9 Consensus size: 96
19234941 AATTGTCGAT
* * * * ** **** *
19234951 GCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGTTGATGCCATATCCCAGACATG
1 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATG
* * * ** *
19235016 GTCTTACACTAGCTCTCATGTTGTGGTTGAT
66 GTCTTACACTGGCTCTCATATCGTGGCCGAC
* * ** *
19235047 GCCATGTCCCAAACATGGTCTTAAACTAGCACGCATATCAATGTCGATGCCATGTCCCAAACATG
1 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATG
19235112 GTCTTACACTGGCTCTCATATCGTGGCCGAC
66 GTCTTACACTGGCTCTCATATCGTGGCCGAC
* * * *
19235143 GGCATGTCCCAGACATAGTCTTACACTAGCACAGATATCAATACCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATG
* *
19235208 GTCTTACACTGGGTCTCATATCGTGGCCAAC
66 GTCTTACACTGGCTCTCATATCGTGGCCGAC
* *
19235239 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATTAATACCGATGCCATGTCCCAGACATA
1 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATG
19235304 GTCTTACACTGGCTCTCATATC
66 GTCTTACACTGGCTCTCATATC
19235326 ACCCAAATGT
Statistics
Matches: 243, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 243 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (96 bp):
GCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATACCGATGCCATGTCCCAGACATG
GTCTTACACTGGCTCTCATATCGTGGCCGAC
Found at i:19235324 original size:48 final size:48
Alignment explanation
Indices: 19234947--19235324 Score: 312
Period size: 48 Copynumber: 7.9 Consensus size: 48
19234937 GGTGAATTGT
* * * * * * *
19234947 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAATGC
* * * * * *
19234995 TGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATGTT-GTGGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAAT-GC
* * * * * *
19235043 TGATGCCATGTCCCAAACATGGTCTTAAACTAGCACGCATATCAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAATGC
* **
19235091 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-TCGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAAT-GC
* * * * * ** * *
19235139 CGACGGCATGTCCCAGACATAGTCTTACACTAGCACAGATATCAATAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAATGC
* * * **
19235187 CGATGCCATGTCCCAGACATGGTCTTACACTGGGTCTCATA-TCGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAAT-GC
* * * * *
19235235 CAACGCCATGTCCCAAACATGGTCTTACACTAGCACACATATTAATAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAATGC
* * *
19235283 CGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
19235325 CACCCAAATG
Statistics
Matches: 258, Mismatches: 66, Indels: 12
0.77 0.20 0.04
Matches are distributed among these distances:
47 2 0.01
48 252 0.98
49 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATTAATGC
Found at i:19235325 original size:144 final size:145
Alignment explanation
Indices: 19234951--19235326 Score: 382
Period size: 144 Copynumber: 2.6 Consensus size: 145
19234941 AATTGTCGAT
* * * * ** * *
19234951 GCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGTTGATGCCATATCCCAGACATG
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTAATGCCGATGCCATGTCCCAGACATA
* ** ***
19235016 GTCTTACACTAGCTCTCATGT-TGTGGTTGATGCCATGTCCCAAACATGGTCTTAAACTAGCACG
66 GTCTTACACTAGCTCTCATATCAATGACCGATGCCATGTCCCAAACATGGTCTTAAACTAGCACG
* * *
19235080 CATATCAATGTCGAT
131 CATATCAATGCCAAC
* ** * *
19235095 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-TCGTGGCCGACGGCATGTCCCAGACAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTAAT-GCCGATGCCATGTCCCAGACAT
* ** * * * **
19235159 AGTCTTACACTAGCACAGATATCAAT-ACCGATGCCATGTCCCAGACATGGTCTTACACTGGGTC
65 AGTCTTACACTAGCTCTCATATCAATGACCGATGCCATGTCCCAAACATGGTCTTAAACTAGCAC
* *
19235223 TCATATC-GTGGCCAAC
130 GCATATCAAT-GCCAAC
* * *
19235239 GCCATGTCCCAAACATGGTCTTACACTAGCACACATATTAATACCGATGCCATGTCCCAGACATA
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTAATGCCGATGCCATGTCCCAGACATA
*
19235304 GTCTTACACTGGCTCTCATATCA
66 GTCTTACACTAGCTCTCATATCA
19235327 CCCAAATGTC
Statistics
Matches: 185, Mismatches: 43, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
143 2 0.01
144 180 0.97
145 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (145 bp):
GCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTAATGCCGATGCCATGTCCCAGACATA
GTCTTACACTAGCTCTCATATCAATGACCGATGCCATGTCCCAAACATGGTCTTAAACTAGCACG
CATATCAATGCCAAC
Found at i:19236608 original size:27 final size:27
Alignment explanation
Indices: 19236519--19236598 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
19236509 CACGACAGTT
*
19236519 AAAGAGCTACCTTTGTGGCATACTCTG
1 AAAGAACTACCTTTGTGGCATACTCTG
* * *
19236546 AAAGAACTGCTTTTGTGGCGTACTCTG
1 AAAGAACTACCTTTGTGGCATACTCTG
19236573 AAAGAACTACCTTTGTGGCATACTCT
1 AAAGAACTACCTTTGTGGCATACTCT
19236599 ATATGAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (27 bp):
AAAGAACTACCTTTGTGGCATACTCTG
Found at i:19239440 original size:40 final size:40
Alignment explanation
Indices: 19239357--19239539 Score: 131
Period size: 40 Copynumber: 4.6 Consensus size: 40
19239347 TTGAATGCTG
* * * * *
19239357 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ATTAAA
* *
19239397 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATATTAAA
** * *
19239437 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
** * * * *
19239477 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
* * *
19239516 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
19239540 TGAACGAGGA
Statistics
Matches: 123, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 35 0.28
40 77 0.63
41 10 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATATTAAA
Found at i:19239521 original size:39 final size:39
Alignment explanation
Indices: 19239410--19239539 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
19239400 GGACTAAGAT
* * *
19239410 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTATTAAATCCGGGTTATGTC
*
19239450 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTATTAAATCCGGGTTATGTC
* * * *
19239490 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTATTAAATCCGGGTTATGTC
19239529 CCGAAGGCATT
1 CCGAAGGCATT
19239540 TGAACGAGGA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.46
40 43 0.54
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTATTAAATCCGGGTTATGTC
Found at i:19247242 original size:40 final size:40
Alignment explanation
Indices: 19247212--19247421 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
19247202 GGACTAAGAT
* * * *
19247212 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
19247252 CCAAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
19247292 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
19247332 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
19247372 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
19247411 CCGAAGGCATT
1 CCGAAGGCATT
19247422 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 34 0.22
40 123 0.78
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:19247296 original size:80 final size:80
Alignment explanation
Indices: 19247159--19247421 Score: 307
Period size: 80 Copynumber: 3.3 Consensus size: 80
19247149 TTGAATGCTG
* * * * * * **
19247159 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
19247222 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
19247239 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
19247304 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * *
19247319 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
19247383 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
19247398 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19247422 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 36 0.23
80 115 0.73
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:19247339 original size:120 final size:120
Alignment explanation
Indices: 19247159--19247421 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 120
19247149 TTGAATGCTG
* * *
19247159 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
19247223 TGTGCGAGATACTAAATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCAAAGGCATT-GTGCGAGTTACTAAA
* * * * **
19247279 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * *
19247342 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCAAAGGCATTGTGCGAGTTACTAAA
* *
19247398 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19247422 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
119 35 0.29
120 80 0.66
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCAAAGGCATTGTGCGAGTTACTAAA
Found at i:19247441 original size:79 final size:80
Alignment explanation
Indices: 19247212--19247456 Score: 244
Period size: 80 Copynumber: 3.1 Consensus size: 80
19247202 GGACTAAGAT
* * * * * * ** * *
19247212 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
19247276 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
19247292 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
19247357 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
19247372 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
19247436 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
19247450 CCGAAGG
1 CCGAAGG
19247457 TACGTGATTT
Statistics
Matches: 143, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 82 0.57
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:19266286 original size:24 final size:24
Alignment explanation
Indices: 19266254--19266302 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
19266244 TGAGTGTATG
19266254 TCATGTATGATAAATTATGCATGA
1 TCATGTATGATAAATTATGCATGA
19266278 TCATGTATGATAAATTATGCATGA
1 TCATGTATGATAAATTATGCATGA
19266302 T
1 T
19266303 TACTGATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (24 bp):
TCATGTATGATAAATTATGCATGA
Found at i:19266907 original size:25 final size:25
Alignment explanation
Indices: 19266879--19266949 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
19266869 AAAAATATTG
*
19266879 TAGAAAGTATATTCTAAAACTACTA
1 TAGATAGTATATTCTAAAACTACTA
* * *
19266904 TAGATAGTATACTGTGAAAAC-ACTC
1 TAGATAGTATATTCT-AAAACTACTA
* *
19266929 TAGATAGTGTATACTAAAACT
1 TAGATAGTATATTCTAAAACT
19266950 GTAGTAGACT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 5 0.14
25 26 0.72
26 5 0.14
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (25 bp):
TAGATAGTATATTCTAAAACTACTA
Found at i:19281672 original size:16 final size:16
Alignment explanation
Indices: 19281627--19281680 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
19281617 TTTGGTTGGT
* *
19281627 TGTAATGGAATAGGGT
1 TGTAATGGAATAGAGC
**
19281643 TGTAATTAAATAGAGC
1 TGTAATGGAATAGAGC
19281659 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGC
19281675 TGTAAT
1 TGTAAT
19281681 AAGTAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:19281879 original size:26 final size:26
Alignment explanation
Indices: 19281850--19281941 Score: 94
Period size: 26 Copynumber: 3.5 Consensus size: 26
19281840 TTGTTATTAA
19281850 ATTTTAATAAAATTATTATTAAATAT
1 ATTTTAATAAAATTATTATTAAATAT
* ** * **
19281876 ATTTTATTAAAAAAATAATTTAACCAT
1 ATTTTAATAAAATTATTA-TTAAATAT
* *
19281903 ATTTTAACATAATTATTATTAAATAT
1 ATTTTAATAAAATTATTATTAAATAT
*
19281929 AATTTAATAAAAT
1 ATTTTAATAAAAT
19281942 AATATGTAAT
Statistics
Matches: 48, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
26 30 0.62
27 18 0.38
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTTAATAAAATTATTATTAAATAT
Found at i:19281917 original size:53 final size:56
Alignment explanation
Indices: 19281850--19281981 Score: 162
Period size: 53 Copynumber: 2.4 Consensus size: 56
19281840 TTGTTATTAA
* * * * *
19281850 ATTTTAATAAAATTATTATTAAATATATTTTATTAAAA-AA-A-TAATTTAACCAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAATAATAGTAATTTAACAAC
* *
19281903 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATGTAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAATAATA-GTAATTTAACAAC
19281960 ATTATTAATATAATTATTATTA
1 ATT-TTAATATAATTATTATTA
19281982 TATGAATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
53 34 0.52
54 2 0.03
55 1 0.02
57 12 0.18
58 17 0.26
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (56 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAATAATAGTAATTTAACAAC
Found at i:19281980 original size:15 final size:14
Alignment explanation
Indices: 19281901--19281981 Score: 51
Period size: 15 Copynumber: 5.6 Consensus size: 14
19281891 TAATTTAACC
*
19281901 ATATT-TTAACATA
1 ATATTATTAATATA
19281914 ATTATTATTAAATATA
1 A-TATTATT-AATATA
* *
19281930 AT-TTAATAAAATA
1 ATATTATTAATATA
*
19281943 ATATGTAATTTA-ATA
1 ATAT-T-ATTAATATA
*
19281958 ACATTATTAATATA
1 ATATTATTAATATA
19281972 ATTATTATTA
1 A-TATTATTA
19281982 TATGAATTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
13 12 0.23
14 14 0.27
15 17 0.33
16 9 0.17
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (14 bp):
ATATTATTAATATA
Found at i:19282035 original size:23 final size:22
Alignment explanation
Indices: 19281989--19282030 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
19281979 TTATATGAAT
19281989 TAAAAAATCATAATATATAATAC
1 TAAAAAA-CATAATATATAATAC
19282012 TAAAAAA-ATAATATATAAT
1 TAAAAAACATAATATATAAT
19282031 CTACTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAAAACATAATATATAATAC
Found at i:19289503 original size:15 final size:15
Alignment explanation
Indices: 19289485--19289527 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
19289475 ATTTTAATTT
*
19289485 TTTATATTTTATATA
1 TTTATAATTTATATA
19289500 TTTATAATTTATATA
1 TTTATAATTTATATA
19289515 TTTATAATTTATA
1 TTTATAATTTATA
19289528 AATGATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTATAATTTATATA
Found at i:19289512 original size:22 final size:22
Alignment explanation
Indices: 19289485--19289528 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
19289475 ATTTTAATTT
19289485 TTTATAT-TTTATATATTTATAA
1 TTTATATATTTATA-ATTTATAA
19289507 TTTATATATTTATAATTTATAA
1 TTTATATATTTATAATTTATAA
19289529 ATGATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTATATATTTATAATTTATAA
Found at i:19289528 original size:7 final size:7
Alignment explanation
Indices: 19289485--19289528 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
19289475 ATTTTAATTT
*
19289485 TTTATAT
1 TTTATAA
19289492 TTTATATA
1 TTTATA-A
19289500 TTTATAA
1 TTTATAA
19289507 TTTATATA
1 TTTATA-A
19289515 TTTATAA
1 TTTATAA
19289522 TTTATAA
1 TTTATAA
19289529 ATGATTAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTATAA
Done.