Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 145 of 295
Found at i:49335289 original size:8 final size:8
Alignment explanation
Indices: 49335272--49335311 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
49335262 ATCTGTAACG
*
49335272 TCGAAGCA
1 TCGAAACA
49335280 TCGAAACA
1 TCGAAACA
*
49335288 TCGAAACG
1 TCGAAACA
*
49335296 TCGAAGCA
1 TCGAAACA
49335304 TCGAAACA
1 TCGAAACA
49335312 AAAAACATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.42, C:0.25, G:0.20, T:0.12
Consensus pattern (8 bp):
TCGAAACA
Found at i:49341203 original size:40 final size:40
Alignment explanation
Indices: 49341127--49341266 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 40
49341117 AAACCCAATA
* *
49341127 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAG-CACAAATG
* *
49341167 CCTTCGGGTCTCAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
49341207 CCTTCGGGACTTAGCCCGGATATAGTCA--AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
49341245 CCTTTGGGACTTAG-CCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
49341267 CATTCGAATA
Statistics
Matches: 91, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
37 8 0.09
38 23 0.25
40 45 0.49
41 14 0.15
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:49349119 original size:40 final size:40
Alignment explanation
Indices: 49349038--49349220 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
49349028 TATTCGAATG
* *
49349038 ATATCCGGGCTAAG-TCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
49349077 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
49349117 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
49349157 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
49349197 ATATCCGGGGTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
49349221 CTTGTGCGAG
Statistics
Matches: 123, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 14 0.11
40 107 0.87
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:49357298 original size:39 final size:40
Alignment explanation
Indices: 49357176--49357303 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
49357166 TATTCGAATG
* * * * *
49357176 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGCT
* * *
49357216 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGCT
* *
49357256 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGCT
49357295 ATATCCGGG
1 ATATCCGGG
49357304 TAACTCCCAA
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 21 0.28
40 54 0.72
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGCT
Found at i:49362064 original size:21 final size:21
Alignment explanation
Indices: 49362038--49362079 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
49362028 TTTGAATAGT
*
49362038 TGTAACACCCTAAGCCTGGCC
1 TGTAACACCCTAAACCTGGCC
49362059 TGTAACACCCTAAACCTGGCC
1 TGTAACACCCTAAACCTGGCC
49362080 CAGACGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.38, G:0.17, T:0.19
Consensus pattern (21 bp):
TGTAACACCCTAAACCTGGCC
Found at i:49363008 original size:30 final size:28
Alignment explanation
Indices: 49362971--49363058 Score: 108
Period size: 27 Copynumber: 3.1 Consensus size: 28
49362961 AGCATGGCTG
49362971 CCAGAACAGATAATAATAGTGGCAGAGCCA
1 CCAGAACAGATAAT-AT-GTGGCAGAGCCA
*
49363001 CCGGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
* * *
49363028 CCAGATCAGATAAT-TGTGGCATAACCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
49363055 CCAG
1 CCAG
49363059 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 36 0.69
28 4 0.08
29 2 0.04
30 10 0.19
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.16
Consensus pattern (28 bp):
CCAGAACAGATAATATGTGGCAGAGCCA
Found at i:49364157 original size:16 final size:15
Alignment explanation
Indices: 49364135--49364171 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 15
49364125 GCTAAAAGAA
49364135 AAAGAAAAGATGAGC
1 AAAGAAAAGATGAGC
49364150 AGAAGAAAAGATGAGC
1 A-AAGAAAAGATGAGC
49364166 AAAGAA
1 AAAGAA
49364172 TTTGATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.62, C:0.05, G:0.27, T:0.05
Consensus pattern (15 bp):
AAAGAAAAGATGAGC
Found at i:49368125 original size:14 final size:15
Alignment explanation
Indices: 49368106--49368139 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
49368096 TCATATAGCA
49368106 TCATAACTCAAATG-
1 TCATAACTCAAATGC
*
49368120 TCATAACTCATATGC
1 TCATAACTCAAATGC
49368135 TCATA
1 TCATA
49368140 TAATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (15 bp):
TCATAACTCAAATGC
Found at i:49370899 original size:43 final size:43
Alignment explanation
Indices: 49370852--49371032 Score: 192
Period size: 43 Copynumber: 4.2 Consensus size: 43
49370842 TCCTAGATGT
*
49370852 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGACAG
* * * *
49370895 GGTCTTACATGAAATTAAATA-CGATGCCAATGTCCCAAACAT
1 GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGACAG
*
49370937 GGTCTTACACGTAAATCTCAAAT-T-GATGCCAAC-GTCCCAGAC-G
1 GGTCTTACATG-AAA--TCAAATATCGATGCC-ACTGTCCCAGACAG
* * * *
49370980 TGGTCATACGTGAAATCATATATTGATGCCACTGTCCCAGACAG
1 -GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGACAG
49371024 GGTCTTACA
1 GGTCTTACA
49371033 CGATATCTCA
Statistics
Matches: 112, Mismatches: 16, Indels: 20
0.76 0.11 0.14
Matches are distributed among these distances:
41 5 0.04
42 31 0.28
43 47 0.42
44 23 0.21
45 6 0.05
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGACAG
Found at i:49370994 original size:86 final size:89
Alignment explanation
Indices: 49370851--49371042 Score: 213
Period size: 86 Copynumber: 2.2 Consensus size: 89
49370841 GTCCTAGATG
* * *
49370851 TGGTCTTACATGT-AA--TCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACATGAAATTAA
1 TGGTCTTACACGTAAATCTCAAATATCGATGCCACTGTCCCAGACAGGGTCATACATGAAATCAA
49370913 ATA-CGATGCCAATGTCCCAAACA
66 ATATCGATGCCAATGTCCCAAACA
*
49370936 TGGTCTTACACGTAAATCTCAAAT-T-GATGCCAAC-GTCCCAGAC-GTGGTCATACGTGAAATC
1 TGGTCTTACACGTAAATCTCAAATATCGATGCC-ACTGTCCCAGACAG-GGTCATACATGAAATC
* * * *
49370997 ATATATTGATGCCACTGTCCCAGACA
64 AAATATCGATGCCAATGTCCCAAACA
* *
49371023 GGGTCTTACACG-ATATCTCA
1 TGGTCTTACACGTAAATCTCA
49371043 CACCTCGGAA
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
85 13 0.14
86 41 0.45
87 31 0.34
88 6 0.07
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (89 bp):
TGGTCTTACACGTAAATCTCAAATATCGATGCCACTGTCCCAGACAGGGTCATACATGAAATCAA
ATATCGATGCCAATGTCCCAAACA
Found at i:49371556 original size:12 final size:14
Alignment explanation
Indices: 49371539--49371576 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
49371529 TTACAATGAA
49371539 AATAATAATAA-T-
1 AATAATAATAATTC
49371551 AATAATAATAATTC
1 AATAATAATAATTC
49371565 AAGTAATAATAA
1 AA-TAATAATAA
49371577 CATAATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.48
13 1 0.04
14 2 0.09
15 9 0.39
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (14 bp):
AATAATAATAATTC
Found at i:49372501 original size:28 final size:29
Alignment explanation
Indices: 49372469--49372544 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 29
49372459 ATTCATATTC
* *
49372469 ATATGACCTATTAGGCCCTAATCAC-CTT
1 ATATGACCCATTAGGCCCAAATCACACTT
* *
49372497 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGACCCATTAGGCCCAAATCACACTT
* *
49372526 ATATGGCCCACTAGGCCCA
1 ATATGACCCATTAGGCCCA
49372545 GTCACATTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 22 0.52
29 20 0.48
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
ATATGACCCATTAGGCCCAAATCACACTT
Found at i:49372540 original size:29 final size:28
Alignment explanation
Indices: 49372480--49372557 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
49372470 TATGACCTAT
* *
49372480 TAGGCCCTAATCAC-CTTATATGGCCCAT
1 TAGGCCC-AATCACATTTATATGGCCCAC
49372508 TAGGCCCAAATCACATTTATATGGCCCAC
1 TAGGCCC-AATCACATTTATATGGCCCAC
* *
49372537 TAGGCCCAGTCACATTCATAT
1 TAGGCCCAATCACATTTATAT
49372558 TCATGCTCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 25 0.57
29 19 0.43
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (28 bp):
TAGGCCCAATCACATTTATATGGCCCAC
Found at i:49374037 original size:16 final size:16
Alignment explanation
Indices: 49374018--49374050 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49374008 AAAATTTCAA
49374018 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
*
49374034 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
49374050 G
1 G
49374051 GGCGTTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:49375347 original size:48 final size:48
Alignment explanation
Indices: 49375295--49375392 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
49375285 TACATTTTGT
49375295 ACCATTAGACATCAAAATGCACAAATATTCTTCATCAGTAAATTTTAG
1 ACCATTAGACATCAAAATGCACAAATATTCTTCATCAGTAAATTTTAG
49375343 ACCATTAGACATCAAAATGCACAAATATTCTTCATCAGTAAATTTTAG
1 ACCATTAGACATCAAAATGCACAAATATTCTTCATCAGTAAATTTTAG
49375391 AC
1 AC
49375393 TTTGATTTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (48 bp):
ACCATTAGACATCAAAATGCACAAATATTCTTCATCAGTAAATTTTAG
Found at i:49379124 original size:27 final size:26
Alignment explanation
Indices: 49379076--49379135 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
49379066 GCGAGACTGC
*
49379076 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
49379103 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
49379129 CATATAT
1 CAGATAT
49379136 ATATGGAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49381956 original size:53 final size:55
Alignment explanation
Indices: 49381886--49382028 Score: 195
Period size: 55 Copynumber: 2.6 Consensus size: 55
49381876 AACTTTCCAT
* * *
49381886 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-AACTCAAT-AA
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGTAACTC-ATCAA
*
49381939 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTATAGTAACTCATCAA
*
49381994 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
49382029 ATCTTACCAA
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
52 2 0.03
53 35 0.44
54 3 0.04
55 37 0.47
56 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (55 bp):
TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGTAACTCATCAA
Found at i:49382005 original size:55 final size:53
Alignment explanation
Indices: 49381886--49382020 Score: 184
Period size: 53 Copynumber: 2.5 Consensus size: 53
49381876 AACTTTCCAT
* * * *
49381886 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCAATAA
1 TGCCATGCCTTGGCATGGTCTTACATGGGATCCTTGCCTTATGAACTCAATAA
49381939 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTC-ATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCAAT-AA
49381994 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGGCATGGTCTTACATG
49382021 ATATCCTTAT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
52 2 0.03
53 35 0.47
54 3 0.04
55 34 0.46
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (53 bp):
TGCCATGCCTTGGCATGGTCTTACATGGGATCCTTGCCTTATGAACTCAATAA
Found at i:49386593 original size:48 final size:48
Alignment explanation
Indices: 49386541--49386774 Score: 258
Period size: 48 Copynumber: 4.9 Consensus size: 48
49386531 TACGAAGTCT
* * *
49386541 CATATCAATGTCAATGCCATGTCCCAAACATAGTCTCACACTAGCACA
1 CATATCAATGTCGATGCCATGTCCCAAACATAGTCTTACACTGGCACA
49386589 CATATC-ATCGTCGATGCCATGTCCCAAACATAGTCTTACACTGGCACA
1 CATATCAAT-GTCGATGCCATGTCCCAAACATAGTCTTACACTGGCACA
* * *
49386637 CATAGCAATG-CTGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
1 CATATCAATGTC-GATGCCATGTCCCAAACATAGTCTTACACTGGCACA
* * * * * *
49386685 CATATCAATGCCGATGCCATGTCCCAGAGATGGTCTTACACTGGCTCT
1 CATATCAATGTCGATGCCATGTCCCAAACATAGTCTTACACTGGCACA
* * * * *
49386733 TATCTCAGACGTCGATGCCATGT-CTAAGACATGGTCTTACAC
1 CATATCA-ATGTCGATGCCATGTCCCAA-ACATAGTCTTACAC
49386775 AGGTTCTCAT
Statistics
Matches: 163, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
47 3 0.02
48 131 0.80
49 29 0.18
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (48 bp):
CATATCAATGTCGATGCCATGTCCCAAACATAGTCTTACACTGGCACA
Found at i:49390126 original size:49 final size:48
Alignment explanation
Indices: 49390046--49390238 Score: 197
Period size: 50 Copynumber: 3.9 Consensus size: 48
49390036 ATCTATTGTG
* *
49390046 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTAT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAATT-T
* * * *
49390095 GGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC-A-AATTT
* * * * * * *
49390146 CGATCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAAT--TT
* *
49390196 AGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCA
49390239 GATAGCTTTG
Statistics
Matches: 115, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
49 36 0.31
50 40 0.35
51 35 0.30
52 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAATTT
Found at i:49402301 original size:54 final size:54
Alignment explanation
Indices: 49402243--49402350 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
49402233 CAGCATGAAG
*
49402243 AAGATAGTATTTTGATATGTTATTATTCGATAGATGAGATCGACTTAGTTGTTT
1 AAGATAGTATTTTGATATGTTATTATTCGATAGATGAGATCAACTTAGTTGTTT
*
49402297 AAGATAGTATTTTGTTATGTTATTATTCGATAGATGAGATCAACTTAGTTGTTT
1 AAGATAGTATTTTGATATGTTATTATTCGATAGATGAGATCAACTTAGTTGTTT
49402351 TTTTCAGAGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (54 bp):
AAGATAGTATTTTGATATGTTATTATTCGATAGATGAGATCAACTTAGTTGTTT
Found at i:49404281 original size:28 final size:27
Alignment explanation
Indices: 49404250--49404312 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
49404240 AATTACTAGA
* *
49404250 ATACCCCTAAGTATGGAAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATGACCATT
*
49404278 ATACCCCT-AGGTGCAAAATGACCATT
1 ATACCCCTAAGATGCAAAATGACCATT
*
49404304 TTACCCCTA
1 ATACCCCTA
49404313 GGGTTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 20 0.67
27 2 0.07
28 8 0.27
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATGACCATT
Found at i:49408952 original size:12 final size:12
Alignment explanation
Indices: 49408935--49408961 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49408925 ATTCCGAAGT
49408935 ATATATATATAC
1 ATATATATATAC
49408947 ATATATATATAC
1 ATATATATATAC
49408959 ATA
1 ATA
49408962 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:49409490 original size:27 final size:28
Alignment explanation
Indices: 49409406--49409503 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
49409396 CATGAGATTG
* * * *
49409406 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
49409435 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
49409463 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
49409490 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
49409504 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:49409514 original size:27 final size:27
Alignment explanation
Indices: 49409434--49409516 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
49409424 TAAATTGTAC
* *
49409434 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
49409462 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
49409489 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
49409516 A
1 A
49409517 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:49414164 original size:51 final size:47
Alignment explanation
Indices: 49413986--49414251 Score: 379
Period size: 47 Copynumber: 5.6 Consensus size: 47
49413976 CCCTTCGGGA
* * * * * * *
49413986 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49414033 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49414080 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49414127 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49414178 CTTATCACATATATACGCTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49414225 CTTATCACATATATACACTCTCACATT
1 CTTATCACATATATACACTTTCACATT
49414252 TATTCAAATA
Statistics
Matches: 198, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
47 152 0.77
51 46 0.23
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49414183 original size:98 final size:98
Alignment explanation
Indices: 49414041--49414239 Score: 371
Period size: 98 Copynumber: 2.0 Consensus size: 98
49414031 GCCCTGTCAC
49414041 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
49414106 TCATCACATCGGCCATTAGGCCTTATCACATAT
66 TCATCACATCGGCCATTAGGCCTTATCACATAT
* *
49414139 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACGCTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
*
49414204 TCATCACATCGGTCATTAGGCCTTATCACATAT
66 TCATCACATCGGCCATTAGGCCTTATCACATAT
49414237 ATA
1 ATA
49414240 CACTCTCACA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (98 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
TCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:49414257 original size:98 final size:96
Alignment explanation
Indices: 49413986--49414257 Score: 336
Period size: 98 Copynumber: 2.8 Consensus size: 96
49413976 CCCTTCGGGA
* * * * * * * * *
49413986 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49414051 TTTCAC---ATTCATCACATCGGCCATTAGGC
66 -TTCACTTTATTCATCACATCGGCCATTAGGC
* *
49414080 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49414144 TACACTTTCACATTCATCACATCGGCCATTAGGC
66 TTCACTTT---ATTCATCACATCGGCCATTAGGC
* *
49414178 CTTATCACATATATACGCTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49414243 TCTCACATTTATTCA
66 T-TCAC-TTTATTCA
49414258 AATATACTTC
Statistics
Matches: 152, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
92 4 0.03
94 53 0.35
98 88 0.58
99 1 0.01
100 3 0.02
101 3 0.02
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTCACTTTATTCATCACATCGGCCATTAGGC
Found at i:49421646 original size:12 final size:12
Alignment explanation
Indices: 49421629--49421654 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49421619 CATTCCGAAG
49421629 TATATATATACA
1 TATATATATACA
49421641 TATATATATACA
1 TATATATATACA
49421653 TA
1 TA
49421655 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:49422185 original size:27 final size:28
Alignment explanation
Indices: 49422101--49422198 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
49422091 CATGAGATTG
* * * *
49422101 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
49422130 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
49422158 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
49422185 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
49422199 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:49422209 original size:27 final size:27
Alignment explanation
Indices: 49422129--49422211 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
49422119 TAAATTGTAC
* *
49422129 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
49422157 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
49422184 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
49422211 A
1 A
49422212 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:49424180 original size:452 final size:452
Alignment explanation
Indices: 49423331--49424240 Score: 1660
Period size: 452 Copynumber: 2.0 Consensus size: 452
49423321 TAAATTAACC
*
49423331 AGAGATAATTAGAAGTCATGCCATATGTGCATAGATTCCCCTTCGAGTATAGTTTCTATAGAAAC
1 AGAGCTAATTAGAAGTCATGCCATATGTGCATAGATTCCCCTTCGAGTATAGTTTCTATAGAAAC
* *
49423396 AAATGACATCAGTAATGAAGTCCTGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGTG
66 AAACGACATCAGTAATGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGTG
* * *
49423461 TAGTCGATCCCTGTAACATGGGAGACTTTTACTAATAAACTGTACTAATTGGCCCAACCAAAAAT
131 TAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGACAAACCAAAAAT
*
49423526 TCTAGAAAAAAATATGTGGATGGGTATATGAGTCTAGCTTCAGGGAAAATTTACGGAACTGGATT
196 TCTAGAAAAAAATATGTGGATGGGCATATGAGTCTAGCTTCAGGGAAAATTTACGGAACTGGATT
49423591 TCGAGTTTCAGAACTCAAGATATGATTTTTAAAGCGACTACTACGCAGATTGGAAGCTTGTCTGG
261 TCGAGTTTCAGAACTCAAGATATGATTTTTAAAGCGACTACTACGCAGATTGGAAGCTTGTCTGG
49423656 GAAATTTTTTTTAAGTGGTTTGAAGTCTGTTAACACCTCGTGTTCGACTCCGGCGACGGCCTCGG
326 GAAATTTTTTTTAAGTGGTTTGAAGTCTGTTAACACCTCGTGTTCGACTCCGGCGACGGCCTCGG
49423721 GTTCGGGGTGTTACAGTGGAGACCGTCAGAACTGTTAGGGAATTCTGGGATGTTTTCCCAGA
391 GTTCGGGGTGTTACAGTGGAGACCGTCAGAACTGTTAGGGAATTCTGGGATGTTTTCCCAGA
49423783 AGAGCTAATTAGAAGTCATGCCATATGTGCATAGATTCCCCTTCGAGTATAGTTTCTATAGAAAC
1 AGAGCTAATTAGAAGTCATGCCATATGTGCATAGATTCCCCTTCGAGTATAGTTTCTATAGAAAC
49423848 AAACGACATCAGTAATGAAGCCCTGTACAGGGAGATATCCAAGTCGT-ATGCGCAAAGGTCAGTG
66 AAACGACATCAGTAATGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGTG
*
49423912 TAGTTGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGACAAACCAAAAAT
131 TAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGACAAACCAAAAAT
* * ** *
49423977 TCTAGCAAAAAATATGTGGATGGGCATATGAGTCTAGTTTTTGGGAAAATTTATGGAACTGGATT
196 TCTAGAAAAAAATATGTGGATGGGCATATGAGTCTAGCTTCAGGGAAAATTTACGGAACTGGATT
* * *
49424042 TCGAGTTTCAGAACTCAATATATGATTTTTAAAGCGACTAGTACGCAGATTGGCAGCTTGTCTGG
261 TCGAGTTTCAGAACTCAAGATATGATTTTTAAAGCGACTACTACGCAGATTGGAAGCTTGTCTGG
49424107 GAAATTTTTTTTTAAGTGGTTTGAAGTCTGTTAACACCTCGTGTTCGACTCCGGCGACGGCCTCG
326 GAAA-TTTTTTTTAAGTGGTTTGAAGTCTGTTAACACCTCGTGTTCGACTCCGGCGACGGCCTCG
49424172 GGTTCGGGGTGTTACAGTGGAGACCGTCAGAACTGTTAGGGAATTCTGGGATGTTTTCCCAGA
390 GGTTCGGGGTGTTACAGTGGAGACCGTCAGAACTGTTAGGGAATTCTGGGATGTTTTCCCAGA
49424235 AGAGCT
1 AGAGCT
49424241 TCTTGGATTA
Statistics
Matches: 441, Mismatches: 16, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
451 203 0.46
452 238 0.54
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (452 bp):
AGAGCTAATTAGAAGTCATGCCATATGTGCATAGATTCCCCTTCGAGTATAGTTTCTATAGAAAC
AAACGACATCAGTAATGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGCGCAAAGGTCAGTG
TAGTCGATCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGACAAACCAAAAAT
TCTAGAAAAAAATATGTGGATGGGCATATGAGTCTAGCTTCAGGGAAAATTTACGGAACTGGATT
TCGAGTTTCAGAACTCAAGATATGATTTTTAAAGCGACTACTACGCAGATTGGAAGCTTGTCTGG
GAAATTTTTTTTAAGTGGTTTGAAGTCTGTTAACACCTCGTGTTCGACTCCGGCGACGGCCTCGG
GTTCGGGGTGTTACAGTGGAGACCGTCAGAACTGTTAGGGAATTCTGGGATGTTTTCCCAGA
Found at i:49437427 original size:28 final size:27
Alignment explanation
Indices: 49437396--49437457 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
49437386 ATTACTAGAA
*
49437396 TACCCCTAAGTATGGAAAATTACCATTG
1 TACCCCTAAG-ATGGAAAATGACCATTG
* * *
49437424 TACCCCT-AGGTGTAAAATGACCATTT
1 TACCCCTAAGATGGAAAATGACCATTG
49437450 TACCCCTA
1 TACCCCTA
49437458 GGGTTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 20 0.69
27 2 0.07
28 7 0.24
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (27 bp):
TACCCCTAAGATGGAAAATGACCATTG
Found at i:49439726 original size:27 final size:27
Alignment explanation
Indices: 49439692--49439869 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
49439682 TAAATTGTAC
*
49439692 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
49439719 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
49439745 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
49439773 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
49439800 AGCACTAAGTGTGCGAGTTTGATTATGC
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
49439828 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
49439855 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49439870 GACTTAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:49439753 original size:54 final size:55
Alignment explanation
Indices: 49439692--49439869 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
49439682 TAAATTGTAC
** **
49439692 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAGTTGAATATGAT
* * *
49439747 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAGTTGAATATGAT
* *
49439800 AGCACTAAGTGTGCGAGTTTGATTATGCGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGCGGCACTAAGTGTGCGAGTTGAATATGAT
*
49439855 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49439870 GACTTAATAT
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 47 0.44
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGCGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:49451998 original size:40 final size:40
Alignment explanation
Indices: 49451914--49452096 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
49451904 TTGAATGCTG
* * * *
49451914 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
49451953 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
49451994 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATA-CAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
49452033 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
49452073 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49452097 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:49452065 original size:79 final size:81
Alignment explanation
Indices: 49451914--49452093 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 81
49451904 TTGAATGCTG
* * * *
49451914 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
* *
49451978 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
49451994 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACAAT-TCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACAATATCCGGACTAAGAT-CCGAAGGCA
49452055 TTCGTGCGAGTTTTAAAA
64 TTCGTGCGAGTTTTAAAA
49452073 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
49452094 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 51 0.58
80 25 0.28
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:49452117 original size:39 final size:39
Alignment explanation
Indices: 49451994--49452143 Score: 117
Period size: 39 Copynumber: 3.8 Consensus size: 39
49451984 AGTTATTAAT
* ** * *
49451994 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAG--ATACAAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTCTA-AAA
** *
49452033 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
49452073 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
49452113 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
49452144 GAGCTATATC
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
38 3 0.03
39 52 0.55
40 37 0.39
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:49452117 original size:79 final size:79
Alignment explanation
Indices: 49451967--49452133 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
49451957 GGACTAAGAT
* * * * **
49451967 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACAA
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCATTGAACGAGATACAA
* *
49452032 TTCCGGGTTAAGTC
66 TACCGGGCTAAGTC
* * *
49452046 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTCCCGAAGG-CATTGAATGAGTTACT
1 CCGAAGGCATTCGTGCGAGTTATT-AAATCCGGGTTAAGTCCCGAAGGCCATTGAACGAGATACA
*
49452109 ATGACCGGGCTATGTC
65 AT-ACCGGGCTAAGTC
49452125 CCGAAGGCA
1 CCGAAGGCA
49452134 CTTGAACGAG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
78 14 0.19
79 60 0.81
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCATTGAACGAGATACAA
TACCGGGCTAAGTC
Found at i:49453708 original size:25 final size:25
Alignment explanation
Indices: 49453658--49453708 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
49453648 TGTGTAACAA
* *
49453658 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
49453683 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
49453708 C
1 C
49453709 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:49456049 original size:48 final size:48
Alignment explanation
Indices: 49455978--49456473 Score: 875
Period size: 48 Copynumber: 10.3 Consensus size: 48
49455968 ATGTACAAGA
* * *
49455978 GAAATATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGT
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
49456026 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
49456074 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
*
49456122 GAAATATGTATGAGATATGTATATGTGATAAAGCCGAATGGCTAATGT
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
*
49456170 GAAATATGTATGAGATATGTATATGTGGTACAGCCGAATGGCTAATGT
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
49456218 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
* *
49456266 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
* *
49456314 GAAATATGTATGAGATATGTATATGTGGTAAAGCCAAATGGATAATGT
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
* *
49456362 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
*
49456410 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
*
49456458 GAAATATGTAGGAGAT
1 GAAATATGTATGAGAT
49456474 GTGTGTATAT
Statistics
Matches: 429, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 429 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
Found at i:49456624 original size:37 final size:37
Alignment explanation
Indices: 49456583--49456685 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
49456573 TGTAACATAT
49456583 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49456620 TCCGGGTAAGACCCGACGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49456657 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
49456686 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49457638 original size:9 final size:9
Alignment explanation
Indices: 49457626--49457650 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49457616 CATGTGATAA
49457626 ATGTGATTT
1 ATGTGATTT
49457635 ATGTGATTT
1 ATGTGATTT
49457644 ATGTGAT
1 ATGTGAT
49457651 CTGGGTGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (9 bp):
ATGTGATTT
Found at i:49458537 original size:25 final size:26
Alignment explanation
Indices: 49458483--49458537 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
49458473 TTTCATATTT
49458483 TATAATAAGGTTAAATATGTAATTAA
1 TATAATAAGGTTAAATATGTAATTAA
* *
49458509 -ATAAT-ATGTTAATATATGTTA-TAA
1 TATAATAAGGTTAA-ATATGTAATTAA
49458533 TATAA
1 TATAA
49458538 CATAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (26 bp):
TATAATAAGGTTAAATATGTAATTAA
Found at i:49459462 original size:45 final size:44
Alignment explanation
Indices: 49459387--49459480 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
49459377 TAGGATTCCG
* *
49459387 ATGTGTTTTCGGTGTCAGACCACATCTGGGACGTTGGCATCGATAT
1 ATGTGTTTTCGGTGTAAGACCACATCTGGGACATTGGCATC-A-AT
* *
49459433 ATGTGTTTTC-GTGTAAGACCACGTTTGGGACATTGGCATCAAT
1 ATGTGTTTTCGGTGTAAGACCACATCTGGGACATTGGCATCAAT
49459476 ATGTG
1 ATGTG
49459481 GTTACTAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 7 0.16
44 1 0.02
45 26 0.59
46 10 0.23
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (44 bp):
ATGTGTTTTCGGTGTAAGACCACATCTGGGACATTGGCATCAAT
Found at i:49459492 original size:43 final size:45
Alignment explanation
Indices: 49459398--49459561 Score: 128
Period size: 43 Copynumber: 3.8 Consensus size: 45
49459388 TGTGTTTTCG
* * * *
49459398 GTGTCAGACCACATCTGGGACGTTGGCATCGATATATGTGTTTTC
1 GTGTAAGACCACATCTGGGACATTGGCATCGATATATGTGGTTAC
* *
49459443 GTGTAAGACCACGTTTGGGACATTGGCATC-A-ATATGTGGTTAC
1 GTGTAAGACCACATCTGGGACATTGGCATCGATATATGTGGTTAC
*** * * *
49459486 -TAGTAAGACCTTGTCTGAGACATCGGCATCG-TAT-T-TGATT-C
1 GT-GTAAGACCACATCTGGGACATTGGCATCGATATATGTGGTTAC
* *
49459527 GTGTAAGACC-CTATCTGGGACAGTGGCATTGATAT
1 GTGTAAGACCAC-ATCTGGGACATTGGCATCGATAT
49459562 GAGATAACAT
Statistics
Matches: 95, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
41 23 0.24
42 9 0.09
43 34 0.36
44 3 0.03
45 26 0.27
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (45 bp):
GTGTAAGACCACATCTGGGACATTGGCATCGATATATGTGGTTAC
Found at i:49461718 original size:39 final size:39
Alignment explanation
Indices: 49461675--49461850 Score: 289
Period size: 39 Copynumber: 4.5 Consensus size: 39
49461665 CCGGACATAT
* *
49461675 TTCCAGCACGTAGCCTGCGGACCTTAAGTCTGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTATAA
*
49461714 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTATAA
* *
49461753 TTCCAGCGCATAGCCTGCGGACCTTAAGTCCAGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTATAA
*
49461792 TTCCAGCATATAGCCTGCGGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTATAA
*
49461831 TTCCAGCATATAGCCTGCGG
1 TTCCAGCACATAGCCTGCGG
49461851 GTCTTTAAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 128 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTTATAA
Found at i:49461720 original size:78 final size:78
Alignment explanation
Indices: 49461647--49461850 Score: 266
Period size: 78 Copynumber: 2.6 Consensus size: 78
49461637 ACCAGCTCGA
* * * **
49461647 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGTCTGGTTA
1 AGCCTGC-GGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCAGTTA
49461711 TAATTCCAGCACAT
65 TAATTCCAGCACAT
* ** *
49461725 AGCCTGCGGACCTTAAGTCCGGGTATAATTCCAGCGCATAGCCTGCGGACCTTAAGTCCAGTTAT
1 AGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCAGTTAT
*
49461790 AATTCCAGCATAT
66 AATTCCAGCACAT
* ** *
49461803 AGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCATATAGCCTGCGG
1 AGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTGCGG
49461851 GTCTTTAAGC
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
77 3 0.03
78 109 0.97
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (78 bp):
AGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCAGTTAT
AATTCCAGCACAT
Found at i:49473462 original size:21 final size:20
Alignment explanation
Indices: 49473438--49473479 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
49473428 AAACTTGTTT
*
49473438 ATCTATCAACAAGCATTCAAA
1 ATCTATCAACAAACA-TCAAA
*
49473459 ATCTATCATCAAACATCAAA
1 ATCTATCAACAAACATCAAA
49473479 A
1 A
49473480 CACACATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (20 bp):
ATCTATCAACAAACATCAAA
Found at i:49483615 original size:48 final size:48
Alignment explanation
Indices: 49483573--49483796 Score: 207
Period size: 48 Copynumber: 4.6 Consensus size: 48
49483563 CATATTAGTG
* * *
49483573 CCGATGTCGTGTCCCAGACATGGTCTTACACTAGCACACATATC-ATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAT-A
* * *
49483621 CCGATGCCATGTCCCAGATATGGTCCTACACTGGCACACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATA
** * * * *
49483669 TTGATGCCATGTTCCAGACATGGTCTTATATTGGCACACATATCAACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATA
** * * * * * * *
49483717 TTGATGACATGTCCCAGACATGGTCTTACACTTGCTCTCATCTCGCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AATA
* * *
49483766 TCGATGTCATGTCCTAGACATGGTCTTACAC
1 CCGATGCCATGTCCCAGACATGGTCTTACAC
49483797 GGGATCTCAT
Statistics
Matches: 145, Mismatches: 29, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 114 0.79
49 31 0.21
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATA
Found at i:49483663 original size:96 final size:96
Alignment explanation
Indices: 49483571--49483796 Score: 245
Period size: 96 Copynumber: 2.3 Consensus size: 96
49483561 CTCATATTAG
* * * *
49483571 TGCCGATGTCGTGTCCCAGACATGGTCTTACACTAGCACACATATCATCACCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCGATGACATGTCCC
*
49483636 AGATATGGTCCTACACTGGCACACATATCAA
66 AGACATGGTCCTACACTGGCACACATATCAA
** * * * * **
49483667 TGTTGATGCCATGTTCCAGACATGGTCTTATATTGGCACACATATCAACATTGATGACATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCGATGACATGTCCC
* * * * * *
49483732 AGACATGGTCTTACACTTGCTCTCATCTCGCA
66 AGACATGGTCCTACACTGGCACACATATC-AA
* * *
49483764 TGTCGATGTCATGTCCTAGACATGGTCTTACAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACAC
49483797 GGGATCTCAT
Statistics
Matches: 104, Mismatches: 25, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
96 76 0.73
97 28 0.27
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (96 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCGATGACATGTCCC
AGACATGGTCCTACACTGGCACACATATCAA
Found at i:49490436 original size:39 final size:39
Alignment explanation
Indices: 49490382--49490458 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
49490372 CAAGACACTA
*
49490382 GAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
49490421 GAAATGTATCCGGGCTAAAGTCCCGCAGGGTTCGTGCT
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCT
49490459 AGTAATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:49495919 original size:12 final size:13
Alignment explanation
Indices: 49495902--49495939 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
49495892 ATCCTAGAAT
49495902 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
49495914 ATTAAGAACACATA
1 ATTAAGAACA-AGA
49495928 ATTAAGAACAAG
1 ATTAAGAACAAG
49495940 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:49499717 original size:40 final size:39
Alignment explanation
Indices: 49499648--49499723 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
49499638 ACAGTAGCAA
*
49499648 TATCAGTATGGGCCTTAGCCTACTACAGTAGTAGTATCAG
1 TATCAGTATGGGCCTTAGCCAACTACAGTA-TAGTATCAG
* *
49499688 TATCAGTCTGGGCCTTTGCCCAACT-CAGTATAGTAT
1 TATCAGTATGGGCCTTAG-CCAACTACAGTATAGTAT
49499724 AAGAAATGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 6 0.19
40 21 0.66
41 5 0.16
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (39 bp):
TATCAGTATGGGCCTTAGCCAACTACAGTATAGTATCAG
Found at i:49506387 original size:29 final size:30
Alignment explanation
Indices: 49506352--49506411 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
49506342 TCCTTAACTC
49506352 AAACTTTT-CAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
49506381 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
49506411 A
1 A
49506412 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:49624614 original size:39 final size:39
Alignment explanation
Indices: 49624567--49624697 Score: 140
Period size: 39 Copynumber: 3.3 Consensus size: 39
49624557 GCTCCTCGTT
* * * *
49624567 CAATGCCTTCGGGAACATAGCCCGTTTTAGTAACTCACA
1 CAATGCCTTCGGGAACTTAACCCGATTTAGTAACTCGCA
* *
49624606 CAATGCCTTC-GGAGCTTAACCCGGATTTAATAACTCGCA
1 CAATGCCTTCGGGAACTTAACCC-GATTTAGTAACTCGCA
* *
49624645 CGAATTGCCTTCGGG-ACTTAACCGGATTTAGTATCTCGCA
1 C-AA-TGCCTTCGGGAACTTAACCCGATTTAGTAACTCGCA
*
49624685 CAAGGCCTTCGGG
1 CAATGCCTTCGGG
49624698 CTAACCCGGA
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
38 18 0.23
39 26 0.34
40 17 0.22
41 14 0.18
42 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAATGCCTTCGGGAACTTAACCCGATTTAGTAACTCGCA
Found at i:49624656 original size:41 final size:38
Alignment explanation
Indices: 49624592--49624789 Score: 150
Period size: 40 Copynumber: 5.0 Consensus size: 38
49624582 CATAGCCCGT
*
49624592 TTTAGTAACTCACACAATGCCTTCGGAGCTTAACCCGGA
1 TTTAGTAACTCGCACAATGCCTTCGG-GCTTAACCCGGA
*
49624631 TTTAATAACTCGCACGAATTGCCTTCGGGACTTAA-CCGGA
1 TTTAGTAACTCGCAC-AA-TGCCTTCGGG-CTTAACCCGGA
* *
49624671 TTTAGTATCTCGCACAAGGCCTTCGGGC-TAACCCGGAA
1 TTTAGTAACTCGCACAATGCCTTCGGGCTTAACCCGG-A
* * * **
49624709 CTT-GTATCTCGCACAAAATGCCTTCGGATCTTAGTCCGGA
1 TTTAGTAACTCGCAC--AATGCCTTCGG-GCTTAACCCGGA
* * * * *
49624749 TATATTCACTTAGCACAAAGCCTTCGGGACTTAAGCCCGGA
1 TTTAGTAAC-TCGCACAATGCCTTCGGG-CTTAA-CCCGGA
49624790 CAGCATTCAT
Statistics
Matches: 126, Mismatches: 20, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
36 3 0.02
37 16 0.13
38 12 0.10
39 25 0.20
40 38 0.30
41 27 0.21
42 5 0.04
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (38 bp):
TTTAGTAACTCGCACAATGCCTTCGGGCTTAACCCGGA
Found at i:49624731 original size:77 final size:80
Alignment explanation
Indices: 49624568--49624735 Score: 191
Period size: 79 Copynumber: 2.1 Consensus size: 80
49624558 CTCCTCGTTC
* * * *
49624568 AATGCCTTCGGGAACATAGCCCGTTTTAGTAACTCACACAATGCCTTCGGAGCTTAACCCGGATT
1 AATGCCTTCGGGAACATAACCCGATTTAGTAACTCACACAAGGCCTTCGGAGCTTAACCCGGACT
*
49624633 TAATAACTCGCACGA
66 TAATAACTCGCACAA
* * * * *
49624648 ATTGCCTTCGGG-ACTTAACCGGATTTAGTATCTCGCACAAGGCCTTCGG-GC-TAACCCGGAAC
1 AATGCCTTCGGGAACATAACCCGATTTAGTAACTCACACAAGGCCTTCGGAGCTTAACCCGG-AC
* *
49624710 TT-GTATCTCGCACAA
65 TTAATAACTCGCACAA
49624725 AATGCCTTCGG
1 AATGCCTTCGG
49624736 ATCTTAGTCC
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
77 28 0.38
78 5 0.07
79 30 0.41
80 11 0.15
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
AATGCCTTCGGGAACATAACCCGATTTAGTAACTCACACAAGGCCTTCGGAGCTTAACCCGGACT
TAATAACTCGCACAA
Found at i:49632559 original size:39 final size:40
Alignment explanation
Indices: 49632514--49632738 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
49632504 GCTCCTCGTT
* * * *
49632514 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
49632554 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
49632593 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
49632633 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
49632673 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
49632714 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
49632739 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:49632747 original size:41 final size:41
Alignment explanation
Indices: 49632670--49632747 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
49632660 CTTGTATCTC
* * *
49632670 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
49632711 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
49632748 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:49635673 original size:26 final size:26
Alignment explanation
Indices: 49635644--49635695 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
49635634 AGAAAGTGCC
49635644 AAAATTCAAAGCCCTATTTTTTTCTT
1 AAAATTCAAAGCCCTATTTTTTTCTT
49635670 AAAATTCAAAGCCCTATTTTTTTCTT
1 AAAATTCAAAGCCCTATTTTTTTCTT
49635696 CTTCTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (26 bp):
AAAATTCAAAGCCCTATTTTTTTCTT
Found at i:49640332 original size:47 final size:47
Alignment explanation
Indices: 49640278--49640471 Score: 246
Period size: 47 Copynumber: 4.1 Consensus size: 47
49640268 TTAGGATTTT
* **
49640278 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCA
49640325 ATGTGATGAATATGAACATGCATATAT-ATGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGA-GATAAGGCCGAATGGCCA
* * * * * *
49640372 ATCTGATGAATGTGAGCACGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCA
* * * * *
49640419 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCA
49640466 ATGTGA
1 ATGTGA
49640472 AAAATGTATG
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
46 1 0.01
47 125 0.99
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATATGAACATGCATATATGAGATAAGGCCGAATGGCCA
Found at i:49640379 original size:94 final size:94
Alignment explanation
Indices: 49640281--49640463 Score: 276
Period size: 94 Copynumber: 1.9 Consensus size: 94
49640271 GGATTTTATG
***
49640281 TGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 TGATGAATGTGAACACGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
*
49640346 ATATATATGATAAGGCCGAATGGCCAATC
66 ATATATATGATAAAGCCGAATGGCCAATC
* * * *
49640375 TGATGAATGTGAGCACGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGC
1 TGATGAATGTGAACACGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
* *
49640440 ATATATGTGGTAAAGCCGAATGGC
66 ATATATATGATAAAGCCGAATGGC
49640464 TAATGTGAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 79 1.00
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (94 bp):
TGATGAATGTGAACACGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
ATATATATGATAAAGCCGAATGGCCAATC
Found at i:49640597 original size:98 final size:96
Alignment explanation
Indices: 49640442--49640625 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
49640432 GAACATGCAT
*
49640442 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGAAATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAGAAATGTATATGTGGTAAAGCCGA
49640507 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
49640538 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAA-A-ATATATGAGAAATGTATATGTGGTAAAGC
*
49640602 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
49640626 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 29 0.36
97 1 0.01
98 50 0.62
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:49640641 original size:50 final size:48
Alignment explanation
Indices: 49640441--49640625 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
49640431 TGAACATGCA
* *
49640441 TATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
49640489 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
49640537 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
49640587 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
49640626 GGCGATGTGC
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 78 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:49640879 original size:37 final size:37
Alignment explanation
Indices: 49640771--49640879 Score: 175
Period size: 37 Copynumber: 2.9 Consensus size: 37
49640761 GGAAATATAT
*
49640771 TCCGGGTAAGACCCGATGACTAT-GTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACT-TCGTGTGGAGATTTTG
*
49640808 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTTTG
*
49640845 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTT
49640880 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTTTG
Found at i:49648866 original size:37 final size:37
Alignment explanation
Indices: 49648816--49648894 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49648806 TTATTACGAA
* * *
49648816 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
49648853 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
49648890 GTCTT
1 GTCTT
49648895 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:49649187 original size:49 final size:49
Alignment explanation
Indices: 49649013--49649495 Score: 758
Period size: 47 Copynumber: 10.1 Consensus size: 49
49649003 CCCTTCGGGA
* * * * *
49649013 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49649060 CTTGTCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49649107 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49649154 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49649203 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49649251 CTTATCTC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49649298 CTTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49649345 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49649394 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49649445 CTTATCAC--ATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49649492 CTTA
1 CTTA
49649496 CTATCATTTC
Statistics
Matches: 410, Mismatches: 15, Indels: 22
0.92 0.03 0.05
Matches are distributed among these distances:
45 6 0.01
47 214 0.52
48 49 0.12
49 93 0.23
51 48 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49649353 original size:191 final size:192
Alignment explanation
Indices: 49649013--49649495 Score: 819
Period size: 191 Copynumber: 2.5 Consensus size: 192
49649003 CCCTTCGGGA
* * * * * * *
49649013 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTGTCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
49649076 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49649141 TCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49649203 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
49649267 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
49649332 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
131 TCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49649394 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
49649459 ACACTTTCACGTTCATCACATCGGCCATTAGGCCTTA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
49649496 CTATCATTTC
Statistics
Matches: 275, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
189 8 0.03
190 2 0.01
191 169 0.61
192 6 0.02
194 90 0.33
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (192 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49650892 original size:30 final size:30
Alignment explanation
Indices: 49650856--49650951 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
49650846 ACCAAAATCC
49650856 ATAAGTAAGTCATCCAATTCCACCATTTCA
1 ATAAGTAAGTCATCCAATTCCACCATTTCA
** * * * **
49650886 ATAAGTATTTTATACCAAATCTA--AAATCA
1 ATAAGTAAGTCAT-CCAATTCCACCATTTCA
49650915 ATAAGTAAGTCATCCAATTCCACCATTTCA
1 ATAAGTAAGTCATCCAATTCCACCATTTCA
49650945 ATAAGTA
1 ATAAGTA
49650952 TTTTATACCA
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
28 7 0.14
29 14 0.29
30 21 0.43
31 7 0.14
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (30 bp):
ATAAGTAAGTCATCCAATTCCACCATTTCA
Found at i:49650941 original size:59 final size:59
Alignment explanation
Indices: 49650849--49650968 Score: 231
Period size: 59 Copynumber: 2.0 Consensus size: 59
49650839 TCTCATAACC
*
49650849 AAAATCCATAAGTAAGTCATCCAATTCCACCATTTCAATAAGTATTTTATACCAAATCT
1 AAAATCAATAAGTAAGTCATCCAATTCCACCATTTCAATAAGTATTTTATACCAAATCT
49650908 AAAATCAATAAGTAAGTCATCCAATTCCACCATTTCAATAAGTATTTTATACCAAATCT
1 AAAATCAATAAGTAAGTCATCCAATTCCACCATTTCAATAAGTATTTTATACCAAATCT
49650967 AA
1 AA
49650969 TAACTAAATG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (59 bp):
AAAATCAATAAGTAAGTCATCCAATTCCACCATTTCAATAAGTATTTTATACCAAATCT
Found at i:49656504 original size:45 final size:45
Alignment explanation
Indices: 49656403--49656529 Score: 129
Period size: 45 Copynumber: 2.9 Consensus size: 45
49656393 TTTTCTCAAA
* * *
49656403 TCACTGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
*
49656445 TCACCAGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
49656489 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
49656530 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 9 0.13
43 14 0.20
44 8 0.11
45 39 0.55
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:49656925 original size:43 final size:43
Alignment explanation
Indices: 49656859--49657013 Score: 238
Period size: 43 Copynumber: 3.6 Consensus size: 43
49656849 CCGGCATTAC
*
49656859 GCCTGCTAGGCACTAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
* * * *
49656902 GCCTGCTAGGCACGAAGGTCCGAATACACATCTCCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
*
49656945 GCCTACTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
* *
49656988 GCCTGCTAGGCACAAAGGCCTGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
49657014 TAATACCAGC
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.31, C:0.32, G:0.24, T:0.14
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
Found at i:49657054 original size:38 final size:38
Alignment explanation
Indices: 49657011--49657169 Score: 183
Period size: 38 Copynumber: 4.1 Consensus size: 38
49657001 AAAGGCCTGA
* * *
49657011 ATATAATACCAGCACTAGGCCTGCGAGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
* * *
49657049 ATATAATACCAGCATGAAGACTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
** * * * *
49657087 ATATTTTACCAGCACGAAGCCTGCGGGTCTTTAAGACCGA
1 ATATAATACCAGCACGAAGCCTGCGAG-ATTTAA-CCCGG
*
49657127 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
49657165 ATATA
1 ATATA
49657170 CATCGAATAT
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
38 62 0.63
39 10 0.10
40 27 0.27
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGAGATTTAACCCGG
Found at i:49665149 original size:28 final size:29
Alignment explanation
Indices: 49665100--49665155 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
49665090 TACAGGGATT
49665100 TTCACACAGCCAAGCACACGCCCGTGTCC
1 TTCACACAGCCAAGCACACGCCCGTGTCC
* * *
49665129 TTCACACGGCCTAG-ACACGCCCTTGTC
1 TTCACACAGCCAAGCACACGCCCGTGTC
49665156 ATCACCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.21, C:0.43, G:0.18, T:0.18
Consensus pattern (29 bp):
TTCACACAGCCAAGCACACGCCCGTGTCC
Found at i:49665270 original size:83 final size:83
Alignment explanation
Indices: 49665131--49665300 Score: 250
Period size: 83 Copynumber: 2.0 Consensus size: 83
49665121 CCGTGTCCTT
* * *
49665131 CACACGGCCTAGACACGCCCTTGTCATCACCCGTGTTCAAAAACCCAAACATTTTGTTTATGACG
1 CACACAGCCTAGACACACCCGTGTCATCACCCGTGTTCAAAAACCCAAACATTTTGTTTATGACG
* *
49665196 CCATCATTCATTTTGAGG
66 CAATCATTCATTTTAAGG
* * * *
49665214 CACACAGCCTAGACACACCCGTGTCATCGCCCGTGTTCAAAAACCTAGACATTTTGTTTATGATG
1 CACACAGCCTAGACACACCCGTGTCATCACCCGTGTTCAAAAACCCAAACATTTTGTTTATGACG
*
49665279 TAATCATTCATTTTAAGG
66 CAATCATTCATTTTAAGG
49665297 CACA
1 CACA
49665301 TGGCCAAGGC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (83 bp):
CACACAGCCTAGACACACCCGTGTCATCACCCGTGTTCAAAAACCCAAACATTTTGTTTATGACG
CAATCATTCATTTTAAGG
Found at i:49665314 original size:83 final size:83
Alignment explanation
Indices: 49665131--49665321 Score: 238
Period size: 83 Copynumber: 2.3 Consensus size: 83
49665121 CCGTGTCCTT
* * * *
49665131 CACACGGCCTAGACACGCCCTTGTCATCACCCGTGTTCAAAAACCCAAACATTTTGTTTATGACG
1 CACACAGCCAAGACACACCCGTGTCATCACCCGTGTTCAAAAACCCAAACATTTTGTTTATGACG
* *
49665196 CCATCATTCATTTTGAGG
66 CAATCATTCATTTTAAGG
* * * * *
49665214 CACACAGCCTAGACACACCCGTGTCATCGCCCGTGTTCAAAAACCTAGACATTTTGTTTATGATG
1 CACACAGCCAAGACACACCCGTGTCATCACCCGTGTTCAAAAACCCAAACATTTTGTTTATGACG
*
49665279 TAATCATTCATTTTAAGG
66 CAATCATTCATTTTAAGG
**
49665297 CACATGGCCAAGGCACACACCCGTG
1 CACACAGCCAA-G-ACACACCCGTG
49665322 CGCTAGGCCG
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 81 0.87
84 1 0.01
85 11 0.12
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (83 bp):
CACACAGCCAAGACACACCCGTGTCATCACCCGTGTTCAAAAACCCAAACATTTTGTTTATGACG
CAATCATTCATTTTAAGG
Found at i:49669993 original size:24 final size:24
Alignment explanation
Indices: 49669961--49670009 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
49669951 ATGGAGAAGG
*
49669961 TGAATGACATGATTTTTGCTTATT
1 TGAATGACATGATTTTGGCTTATT
49669985 TGAATGACATGATTTTGGCTTATT
1 TGAATGACATGATTTTGGCTTATT
49670009 T
1 T
49670010 TTTCCTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.49
Consensus pattern (24 bp):
TGAATGACATGATTTTGGCTTATT
Found at i:49684878 original size:29 final size:29
Alignment explanation
Indices: 49684803--49684917 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
49684793 TACATACATG
* *
49684803 CATATGGCCCACTAGG-CCGAATCTTATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* * **
49684831 CAAATGGCCCATCT-TGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAAATCATATT
* * **
49684860 CTTATGGCCCACTAGGCCCAATTCACCTT
1 CATATGGCCCACTAGGCCCAAATCATATT
*
49684889 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAAATCATATT
49684918 ATACTCATGC
Statistics
Matches: 67, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 13 0.19
29 54 0.81
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATCATATT
Found at i:49684915 original size:58 final size:57
Alignment explanation
Indices: 49684805--49684917 Score: 131
Period size: 58 Copynumber: 2.0 Consensus size: 57
49684795 CATACATGCA
* * * **
49684805 TATGGCCCACTAGGCCGAATCTTATTCAAATGGCCCATCTTGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCT
*
49684862 TATGGCCCACTAGGCCCAAT-TCACCTTCATATGGCCCAT-TAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATCT-GGCCCAAATCATATT
49684918 ATACTCATGC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
56 2 0.04
57 20 0.43
58 25 0.53
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCT
Found at i:49699520 original size:47 final size:47
Alignment explanation
Indices: 49699414--49699811 Score: 586
Period size: 47 Copynumber: 8.4 Consensus size: 47
49699404 ATATATGAGG
* ** *
49699414 TAAGGCTGAATGG-CAATGTGATGAATGTGAACCTGTATATATATGCGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAA-C---ATGCATATGTGTGA
49699464 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
49699511 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
49699558 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
49699605 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCGTATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
49699652 TAAGGCCGAATGGCCAATGTGAT-AACTGTGAACATGCGTATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAA-TGTGAACATGCATATGTGTGA
* *
49699699 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
49699746 TAAGGCCGAATTGCCAATGTGATGAATGTGAACATGTATATATGT-A
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
49699792 GTAAGGCCGAATGGCTAATG
1 -TAAGGCCGAATGGCCAATG
49699812 CGAAATGTGT
Statistics
Matches: 330, Mismatches: 14, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
46 3 0.01
47 294 0.89
48 2 0.01
50 13 0.04
51 18 0.05
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:49699533 original size:22 final size:22
Alignment explanation
Indices: 49699506--49699629 Score: 58
Period size: 23 Copynumber: 5.4 Consensus size: 22
49699496 CATGCATATG
49699506 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * **
49699528 TGTGATGAATG-TGAACAT-GCGTA
1 TGTGAT-AAGGCCG-A-ATGGCCAA
49699551 TGTGTGATAAGGCCGAATGGCCAA
1 T--GTGATAAGGCCGAATGGCCAA
* * **
49699575 TGTGATGAATG-TGAACAT-GCGTA
1 TGTGAT-AAGGCCG-A-ATGGCCAA
49699598 TGTGTGATAAGGCCGAATGGCCAA
1 TG--TGATAAGGCCGAATGGCCAA
49699622 TGTGATAA
1 TGTGATAA
49699630 ATGTGAACAT
Statistics
Matches: 72, Mismatches: 16, Indels: 28
0.62 0.14 0.24
Matches are distributed among these distances:
22 19 0.26
23 21 0.29
24 21 0.29
25 11 0.15
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:49699917 original size:46 final size:46
Alignment explanation
Indices: 49699785--49699921 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
49699775 GAACATGTAT
* * *
49699785 ATATGTAGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
49699831 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
49699877 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATATATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
49699922 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:49700289 original size:37 final size:37
Alignment explanation
Indices: 49700104--49700289 Score: 300
Period size: 37 Copynumber: 5.0 Consensus size: 37
49700094 GTGGTGACTA
* *
49700104 TGTCTGGGTTAAGACCCGATGACTACGTGTGGAGATTA
1 TGTCCGGG-TAAGACCCGATGACTACGTGTGGAGATTT
*
49700142 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGACTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
49700179 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
49700216 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* * * *
49700253 TGTCTGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
49700290 CATCTGAGCT
Statistics
Matches: 140, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
37 133 0.95
38 7 0.05
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:49704655 original size:39 final size:40
Alignment explanation
Indices: 49704462--49704671 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
49704452 CTAACGGGGT
* * * *
49704462 TAAGTCCCGAAGACATTTGTGCTAGTGATTA-ATTCCAGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
*
49704502 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
*
49704542 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * * *
49704582 TAAGTCCCAAAGACATTTGTGCTAGTGACCATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * * **
49704622 TAAGACCCGACGGC-CTTGTGCGAGTGGTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
*
49704660 TAAATCCCGAAG
1 TAAGTCCCGAAG
49704672 ATACTTGGGT
Statistics
Matches: 147, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
38 12 0.08
39 16 0.11
40 118 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
Found at i:49712657 original size:40 final size:40
Alignment explanation
Indices: 49712600--49712824 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 40
49712590 CTAATGGGGT
* * * *
49712600 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
49712640 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCAGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
49712680 TAAGTCTCGAAGGAATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
49712720 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * * * * *
49712760 TAAGTCCCGATGACATTTGTGCTAGTGAC-CATATCCAGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
49712800 TAAGACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
49712825 GGTTATATCC
Statistics
Matches: 163, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
39 11 0.07
40 152 0.93
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:49712733 original size:80 final size:80
Alignment explanation
Indices: 49712600--49712850 Score: 296
Period size: 80 Copynumber: 3.2 Consensus size: 80
49712590 CTAATGGGGT
* *
49712600 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
49712665 TTACTA-ATTCCAGGC
66 TTACTATA-TCCAGGC
* *
49712680 TAAGTCTCGAAGGA-ATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAA-GACATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
49712744 GTTACTATATCCGGGC
65 GTTACTATATCCAGGC
* * * * * * *
49712760 TAAGTCCCGATGACATTTGTGCTAGTGAC-CATATCCAGGCTAAGACCCGACGGC-CTTGTGCGA
1 TAAGTCCCGAAGACATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
***
49712823 GTGGTTATATCCA-GC
65 GTTACTATATCCAGGC
*
49712838 TAAATCCCGAAGA
1 TAAGTCCCGAAGA
49712851 TACTTGGGTT
Statistics
Matches: 147, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
78 13 0.09
79 21 0.14
80 110 0.75
81 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGACATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTATATCCAGGC
Found at i:49724778 original size:23 final size:23
Alignment explanation
Indices: 49724752--49724798 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
49724742 CATTCTATTG
*
49724752 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
49724775 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
49724798 T
1 T
49724799 AATGTCAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:49738933 original size:21 final size:21
Alignment explanation
Indices: 49738895--49738934 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49738885 TAGACAAGCC
* **
49738895 ACCACATAATTGTCGATAATG
1 ACCACATAATCGAAGATAATG
49738916 ACCACATAATCGAAGATAA
1 ACCACATAATCGAAGATAA
49738935 ATTGCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (21 bp):
ACCACATAATCGAAGATAATG
Found at i:49745752 original size:9 final size:9
Alignment explanation
Indices: 49745731--49745782 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
49745721 ATGAGTTCAT
49745731 AATTTTTATG
1 AATTTTTA-G
49745741 AATTTTTAG
1 AATTTTTAG
49745750 AATTTTTAG
1 AATTTTTAG
*
49745759 AATTATTA-
1 AATTTTTAG
*
49745767 ATATTTTTAT
1 A-ATTTTTAG
49745777 AATTTT
1 AATTTT
49745783 ATACTCATCC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
8 1 0.03
9 28 0.74
10 9 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (9 bp):
AATTTTTAG
Found at i:49753274 original size:40 final size:40
Alignment explanation
Indices: 49753204--49753457 Score: 374
Period size: 40 Copynumber: 6.5 Consensus size: 40
49753194 AAACCAAGTA
* *
49753204 CCTTCGGGATTTAG-CCGAATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGAATATAG-TAACTCGCACAAATG
*
49753243 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
*
49753283 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* *
49753323 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
*
49753363 CCTTCGGGACTTAGCCCG--GATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* * *
49753401 CCTTCGGGGCTTAGCCCGAAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
49753440 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
49753458 GTTATCATCC
Statistics
Matches: 198, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
38 35 0.18
39 47 0.24
40 116 0.59
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
Found at i:49761284 original size:40 final size:40
Alignment explanation
Indices: 49761214--49761471 Score: 373
Period size: 40 Copynumber: 6.5 Consensus size: 40
49761204 AAACCAAGTA
* *
49761214 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
*
49761253 CCTTCGAGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
49761293 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
49761333 CCTTCGGGACTTAGCCCGGATATAGTAACTCGA-ACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTC-ACACAAATG
*
49761373 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* * *
49761413 CCTTTGGGGCTTAGCCCGGA-ATTAGTCACT-AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
49761453 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49761472 TTATCATCCG
Statistics
Matches: 200, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
39 14 0.07
40 186 0.93
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:49763341 original size:24 final size:22
Alignment explanation
Indices: 49763314--49763392 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 22
49763304 TGTACAACGA
*
49763314 GAAGCTCATAAGAGCCATAATCAG
1 GAAGCTCA-AAGAGCCAT-ATCGG
* *
49763338 GAAGTTTACAAAGAACCATATCGG
1 GAAG-CT-CAAAGAGCCATATCGG
49763362 GAAGCTCACGAAGAGCC-TATCGG
1 GAAGCTCA--AAGAGCCATATCGG
49763385 GAAGCTCA
1 GAAGCTCA
49763393 CAAAAAGCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
22 2 0.04
23 15 0.33
24 18 0.39
25 9 0.20
26 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (22 bp):
GAAGCTCAAAGAGCCATATCGG
Found at i:49763401 original size:23 final size:23
Alignment explanation
Indices: 49763356--49763401 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
49763346 CAAAGAACCA
* *
49763356 TATCGGGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACAAAAAGCC
49763379 TATCGGGAAGCTCACAAAAAGCC
1 TATCGGGAAGCTCACAAAAAGCC
49763402 AATTTAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (23 bp):
TATCGGGAAGCTCACAAAAAGCC
Found at i:49771822 original size:28 final size:28
Alignment explanation
Indices: 49771791--49771875 Score: 102
Period size: 28 Copynumber: 3.1 Consensus size: 28
49771781 ACAGAGTCAT
* *
49771791 CAGATATAGATAATTGTGGTA-GAGCCAC
1 CAGATACAGATATTTGTGGTATG-GCCAC
* *
49771819 CAGAAACAGATATTTATGGTATGGCCAC
1 CAGATACAGATATTTGTGGTATGGCCAC
*
49771847 CAGAT-CAGATATTTGTGGCATGGCCAC
1 CAGATACAGATATTTGTGGTATGGCCAC
49771874 CA
1 CA
49771876 AAACGCTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 22 0.45
28 26 0.53
29 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (28 bp):
CAGATACAGATATTTGTGGTATGGCCAC
Found at i:49771869 original size:27 final size:28
Alignment explanation
Indices: 49771814--49771879 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
49771804 TTGTGGTAGA
*
49771814 GCCACCAGAAACAGATATTTATGGTATG
1 GCCACCAGAAACAGATATTTATGGCATG
* *
49771842 GCCACCAG-ATCAGATATTTGTGGCATG
1 GCCACCAGAAACAGATATTTATGGCATG
49771869 GCCACCA-AAAC
1 GCCACCAGAAAC
49771880 GCTTCCTCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 25 0.76
28 8 0.24
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (28 bp):
GCCACCAGAAACAGATATTTATGGCATG
Found at i:49773130 original size:18 final size:18
Alignment explanation
Indices: 49773074--49773130 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
49773064 GGCTATAGAG
49773074 GAAAAGAAGAAGAAGAGAA
1 GAAAAGAAGAAG-AGAGAA
* * *
49773093 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGAA
*
49773110 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
49773128 GAA
1 GAA
49773131 TTGTCAGAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:49786824 original size:33 final size:33
Alignment explanation
Indices: 49786777--49786846 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
49786767 CATTGCAACC
49786777 CTATTCTGACATTTCAACTCAATAGTCTTTCGT
1 CTATTCTGACATTTCAACTCAATAGTCTTTCGT
* * *
49786810 CTATTTTGATATTTCAACTCAATAGTCTTTTGT
1 CTATTCTGACATTTCAACTCAATAGTCTTTCGT
49786843 CTAT
1 CTAT
49786847 AGTTCACAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (33 bp):
CTATTCTGACATTTCAACTCAATAGTCTTTCGT
Found at i:49789008 original size:16 final size:16
Alignment explanation
Indices: 49788987--49789019 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49788977 CTATAACGCC
49788987 CCAAAAAT-TCCAAAAT
1 CCAAAAATCT-CAAAAT
49789003 CCAAAAATCTCAAAAT
1 CCAAAAATCTCAAAAT
49789019 C
1 C
49789020 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (16 bp):
CCAAAAATCTCAAAAT
Found at i:49790556 original size:29 final size:29
Alignment explanation
Indices: 49790514--49790625 Score: 127
Period size: 29 Copynumber: 3.9 Consensus size: 29
49790504 ATAATATGAT
49790514 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
49790543 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * *
49790572 CTAGGCCAAATGGGCCATATGAATGAG-A
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
49790600 TTGGGCCCAGTGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
49790626 ATGTAGGGGT
Statistics
Matches: 67, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
28 21 0.31
29 46 0.69
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:49791694 original size:17 final size:18
Alignment explanation
Indices: 49791662--49791695 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49791652 TTTAAGAAGA
49791662 GTTTTCAATGAAAACACG
1 GTTTTCAATGAAAACACG
*
49791680 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
49791696 TTCAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACG
Found at i:49793343 original size:28 final size:28
Alignment explanation
Indices: 49793308--49793412 Score: 129
Period size: 28 Copynumber: 3.8 Consensus size: 28
49793298 GACATCAACT
49793308 ATGGCACTTAGTGGGCAAAATATTGAGA
1 ATGGCACTTAGTGGGCAAAATATTGAGA
* * *
49793336 ATGACACTTAGTGGGTAAAATATTAAGA
1 ATGGCACTTAGTGGGCAAAATATTGAGA
* ** *
49793364 ATGGCGCTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGGGCAAAATATTGAGA
* *
49793392 ATGGCGCTTAGTGTGCAAAAT
1 ATGGCACTTAGTGGGCAAAAT
49793413 GTCGAATGAT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGGGCAAAATATTGAGA
Found at i:49794908 original size:21 final size:22
Alignment explanation
Indices: 49794882--49794924 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
49794872 GTTTGGTAGC
49794882 CGTGTGAGGCA-ACGGGCGTGT
1 CGTGTGAGGCAGACGGGCGTGT
*
49794903 CGTGTGAGGCAGACTGGCGTGT
1 CGTGTGAGGCAGACGGGCGTGT
49794925 GACCCTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.14, C:0.19, G:0.47, T:0.21
Consensus pattern (22 bp):
CGTGTGAGGCAGACGGGCGTGT
Found at i:49800649 original size:43 final size:43
Alignment explanation
Indices: 49800596--49800766 Score: 191
Period size: 43 Copynumber: 4.0 Consensus size: 43
49800586 ACATAGGATT
* * *
49800596 TCGATATGTGATTTCGTGTAAGACGATGTCTAGGACGTTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTAGGACATTGGCA
* * *
49800639 TCGATTTGTGATTTACATGTAAGACCATGTCTGGGACATCGGCA
1 TCGATATGTGATTT-CATGTAAGACCATGTCTAGGACATTGGCA
* * * * *
49800683 TCG-TATATGAGTTCGTGTAAGACCTTGTCTAGGACAGTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTAGGACATTGGCA
* * * *
49800725 TCGAAATGTGATTACATGTAAGACCACGTCTGGGACATTGGC
1 TCGATATGTGATTTCATGTAAGACCATGTCTAGGACATTGGC
49800767 GTTGTACGAG
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 27 0.26
43 49 0.48
44 27 0.26
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCATGTCTAGGACATTGGCA
Found at i:49800712 original size:42 final size:42
Alignment explanation
Indices: 49800612--49800762 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 42
49800602 TGTGATTTCG
* * * ** *
49800612 TGTAAGACGATGTCTAGGACGTTGGCATCGATTTGTGATTTACA
1 TGTAAGACCATGTCTGGGAC-ATGGCATCGAAATGAGA-TTACA
* *
49800656 TGTAAGACCATGTCTGGGACATCGGCATCGTATATGAG-TT-CG
1 TGTAAGACCATGTCTGGGACAT-GGCATCG-AAATGAGATTACA
* * *
49800698 TGTAAGACCTTGTCTAGGACAGTGGCATCGAAATGTGATTACA
1 TGTAAGACCATGTCTGGGACA-TGGCATCGAAATGAGATTACA
*
49800741 TGTAAGACCACGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
49800763 TGGCGTTGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
41 5 0.06
42 30 0.34
43 23 0.26
44 25 0.28
45 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGAAATGAGATTACA
Found at i:49809994 original size:30 final size:30
Alignment explanation
Indices: 49809959--49810018 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49809949 ATATTAATTT
* *
49809959 TCTTTTT-ATTATTATTAGTTATTTAGTTGA
1 TCTTTTTGACTATT-TTAGATATTTAGTTGA
*
49809989 TCTTTTTGGCTATTTTAGATATTTAGTTGA
1 TCTTTTTGACTATTTTAGATATTTAGTTGA
49810019 ATCGTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.22, C:0.05, G:0.13, T:0.60
Consensus pattern (30 bp):
TCTTTTTGACTATTTTAGATATTTAGTTGA
Found at i:49810685 original size:60 final size:60
Alignment explanation
Indices: 49810612--49810731 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
49810602 TATCATTGAA
*
49810612 CCCACATATATGGAGCTTACTTTGGATTTTTGCTTGACGTTTTACCTTCAGCGAGTGATG
1 CCCACATATATGGAGCTTACTTTGGATTTTTGCTCGACGTTTTACCTTCAGCGAGTGATG
*
49810672 CCCACATATATGGAGCTTACTTTGGATTTTTGCTCGACGTTTTACCTTCAGTGAGTGATG
1 CCCACATATATGGAGCTTACTTTGGATTTTTGCTCGACGTTTTACCTTCAGCGAGTGATG
49810732 TCATCGTATG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (60 bp):
CCCACATATATGGAGCTTACTTTGGATTTTTGCTCGACGTTTTACCTTCAGCGAGTGATG
Found at i:49811886 original size:6 final size:6
Alignment explanation
Indices: 49811868--49811901 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
49811858 AAGAAACATT
49811868 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA
49811902 ATATTAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 24 0.92
7 1 0.04
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:49812404 original size:27 final size:27
Alignment explanation
Indices: 49812374--49812670 Score: 396
Period size: 27 Copynumber: 11.0 Consensus size: 27
49812364 ACACCCTAGA
49812374 GGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
* * *
49812401 GGTAAAACGATAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
* *
49812428 GGTAAAATGGTAATTCTGTAAATCGAT
1 GGTAAAATGGTAATTTTGTAAATCGAG
* *
49812455 GGTAAAGTAGTAATTTTGTAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
*
49812482 GGTAAAATGATAATTTTGTAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
* *
49812509 GGTAAAATAGTAATTTTGTAAATAGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
***
49812536 GGTAAAACAATAATTTTGTAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
* *
49812563 GGTAAAATAGTAATTTTGTAAATTGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
49812590 GGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
* * *
49812617 GGTAAAATAGTAATTCTGTAAATTGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
* ** *
49812644 GGTAAAACGACAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
49812671 AGTACTTTGG
Statistics
Matches: 238, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 238 1.00
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (27 bp):
GGTAAAATGGTAATTTTGTAAATCGAG
Found at i:49812706 original size:27 final size:27
Alignment explanation
Indices: 49812676--49812766 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
49812666 TCGAGAGTAC
*
49812676 TTTGGCAATTTTACAAACTAGAGGTAT
1 TTTGGTAATTTTACAAACTAGAGGTAT
* *
49812703 TTTGGTAATTTTACAAA-TCGGGGTTAT
1 TTTGGTAATTTTACAAACTAGAGG-TAT
* *
49812730 TTTGGTAATTTTATAAACCA-AGGGTAT
1 TTTGGTAATTTTACAAACTAGA-GGTAT
49812757 TTTGGTAATT
1 TTTGGTAATT
49812767 CTACCCTACA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
26 4 0.07
27 48 0.89
28 2 0.04
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (27 bp):
TTTGGTAATTTTACAAACTAGAGGTAT
Found at i:49812721 original size:54 final size:54
Alignment explanation
Indices: 49812663--49812766 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
49812653 ACAATTCTGT
*
49812663 AAATCGAGAG-TACTTTGGCAATTTTACAAA-CTAGAGGTATTTTGGTAATTTTAC
1 AAATCG-GAGTTACTTTGGCAATTTTACAAACCAAG-GGTATTTTGGTAATTTTAC
* * * *
49812717 AAATCGGGGTTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATT
1 AAATCGGAGTTACTTTGGCAATTTTACAAACCAAGGGTATTTTGGTAATT
49812767 CTACCCTACA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 2 0.05
54 38 0.88
55 3 0.07
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
AAATCGGAGTTACTTTGGCAATTTTACAAACCAAGGGTATTTTGGTAATTTTAC
Found at i:49812778 original size:27 final size:27
Alignment explanation
Indices: 49812748--49812830 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
49812738 TTTTATAAAC
**
49812748 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
49812775 CAAGTGCATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
49812802 CAAGGGTATTTCAGTAATGCTATCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
49812829 CA
1 CA
49812831 GATATGAGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:49814685 original size:6 final size:6
Alignment explanation
Indices: 49814667--49814725 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
49814657 AAGAAATATT
* *
49814667 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
49814716 ATCAGA ATCA
1 ATCAGA ATCA
49814726 TTATCAGGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 2 0.05
6 37 0.84
7 4 0.09
8 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:49814714 original size:31 final size:31
Alignment explanation
Indices: 49814676--49814754 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
49814666 TATCAGAACT
*
49814676 AGAATCAGAATCAGAATTAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
** *
49814707 AGAATCAGAATCAGAATCATTATCAGGTGAG
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
*
49814738 AGTATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
49814755 GTAAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.22
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:49814950 original size:29 final size:28
Alignment explanation
Indices: 49814873--49814953 Score: 85
Period size: 27 Copynumber: 2.9 Consensus size: 28
49814863 GCGAGGTTGC
* *
49814873 CAGATATTGTGACGAAGTCACCAG-ATA
1 CAGATATTGTGGCGAAGGCACCAGAATA
*
49814900 CAGATATTGTGGC-TAGGCCACCAGAATA
1 CAGATATTGTGGCGAAGG-CACCAGAATA
* *
49814928 GATATATATGTGGCGAAGGCACCAGA
1 CAGATAT-TGTGGCGAAGGCACCAGA
49814954 TTGCAGCGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
26 2 0.05
27 18 0.41
28 8 0.18
29 13 0.30
30 3 0.07
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (28 bp):
CAGATATTGTGGCGAAGGCACCAGAATA
Found at i:49815217 original size:27 final size:27
Alignment explanation
Indices: 49815187--49815484 Score: 339
Period size: 27 Copynumber: 11.0 Consensus size: 27
49815177 TTAACATCCT
*
49815187 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCG
* *
49815214 AGGGTAAAATGATAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCG
* *
49815241 AGGGTAAAAGGGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCG
***
49815268 AGGGTAAAACAATAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCG
*
49815295 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCG
*
49815322 AGGGTAAAA-GAGTAATTTTGTAAATTG
1 AGGGTAAAATG-GTAATTTTGTAAATCG
* * * *
49815349 AGGGTAAAATGGCAATTCTATAAATCT
1 AGGGTAAAATGGTAATTTTGTAAATCG
* * *
49815376 AGGGT-AAATCAGTAATTCTATAAATCG
1 AGGGTAAAAT-GGTAATTTTGTAAATCG
* **
49815403 AGGGTAAAATGGTAATTTTGCAAATTA
1 AGGGTAAAATGGTAATTTTGTAAATCG
** * *
49815430 AGGGTAAAACAGTAATTATGTAAATCA
1 AGGGTAAAATGGTAATTTTGTAAATCG
*
49815457 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCG
49815484 A
1 A
49815485 CAGTACTTTG
Statistics
Matches: 233, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.02
27 223 0.96
28 5 0.02
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTTTGTAAATCG
Found at i:49815269 original size:54 final size:54
Alignment explanation
Indices: 49815187--49815484 Score: 382
Period size: 54 Copynumber: 5.5 Consensus size: 54
49815177 TTAACATCCT
* *
49815187 AGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAA-TGATAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCG
* * * *
49815241 AGGGTAAAAGGGTAATTCTGTAAATCGAGGGTAAAACAATAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCG
* * * *
49815295 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAGAGTAATTTTGTAAATTG
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCG
* * * * * *
49815349 AGGGTAAAATGGCAATTCTATAAATCTAGGGTAAATCAGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCG
* ** * *
49815403 AGGGTAAAATGGTAATTTTGCAAATTAAGGGTAAAACAGTAATTATGTAAATCA
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCG
*
49815457 AGGGTAAAACGGTAATTTTGTAAATCGA
1 AGGGTAAAATGGTAATTTTGTAAATCGA
49815485 CAGTACTTTG
Statistics
Matches: 208, Mismatches: 35, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
54 208 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (54 bp):
AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCG
Found at i:49815521 original size:27 final size:27
Alignment explanation
Indices: 49815491--49815581 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
49815481 TCGACAGTAC
*
49815491 TTTGGCAATTTTACAAACTAGGGGTAT
1 TTTGGTAATTTTACAAACTAGGGGTAT
49815518 TTTGGTAATTTTACAAACT-GGGGTTAT
1 TTTGGTAATTTTACAAACTAGGGG-TAT
* * *
49815545 TTTGGTAATTTTATAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACTAGGGGTAT
49815572 TTTGGTAATT
1 TTTGGTAATT
49815582 CTACCCTACA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.07
27 51 0.88
28 3 0.05
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.43
Consensus pattern (27 bp):
TTTGGTAATTTTACAAACTAGGGGTAT
Found at i:49815593 original size:27 final size:27
Alignment explanation
Indices: 49815563--49815618 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
49815553 TTTTATAAAC
** *
49815563 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGTATTTCCGTAATGCTACCCTA
*
49815590 CAAGGGTATTTCCGTAATGCTAGCCTA
1 CAAGGGTATTTCCGTAATGCTACCCTA
49815617 CA
1 CA
49815619 GATATGAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (27 bp):
CAAGGGTATTTCCGTAATGCTACCCTA
Found at i:49817472 original size:6 final size:6
Alignment explanation
Indices: 49817454--49817519 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
49817444 AAGAAACATT
* *
49817454 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
49817503 ATCAGA ATCAGG ATCAG
1 ATCAGA ATCAGA ATCAG
49817520 TATTAGTATC
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
5 2 0.04
6 44 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
ATCAGA
Done.