Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 178 of 335
Found at i:53450026 original size:79 final size:79
Alignment explanation
Indices: 53449825--53450041 Score: 266
Period size: 79 Copynumber: 2.7 Consensus size: 79
53449815 TCGAATGATG
* **
53449825 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGGGTTAAG-TCCGAAGGCAT
53449888 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
*
53449905 TCCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCCGGGTTAAGTCCGAAGGCATTT
53449968 GTGCGAGTTACTATAA
65 GTGCGAGTTACTA-AA
* ** *
53449984 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGGTT-AAGTCCGAAGG
53450042 TACGTGATTC
Statistics
Matches: 121, Mismatches: 9, Indels: 15
0.83 0.06 0.10
Matches are distributed among these distances:
78 37 0.31
79 70 0.58
80 14 0.12
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:53458062 original size:78 final size:82
Alignment explanation
Indices: 53457927--53458110 Score: 256
Period size: 78 Copynumber: 2.3 Consensus size: 82
53457917 TCGAATGATG
*
53457927 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
53457991 TGTGCGAGTTACTA-AA
66 TGTGCGAGTTACTATAA
* * **
53458007 TCCGGG-TAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
53458068 TTGTGCGAGTTACTATAA
65 TTGTGCGAGTTACTATAA
*
53458086 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53458111 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
77 1 0.01
78 55 0.59
79 18 0.19
80 19 0.20
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:53458117 original size:40 final size:40
Alignment explanation
Indices: 53457927--53458110 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
53457917 TCGAATGATG
* * *
53457927 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
53457967 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
53458007 TCCGGG-TAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53458045 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53458086 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53458111 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
38 34 0.26
39 9 0.07
40 79 0.60
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53462135 original size:43 final size:43
Alignment explanation
Indices: 53462081--53462268 Score: 152
Period size: 42 Copynumber: 4.4 Consensus size: 43
53462071 GCCAACATCT
* * *
53462081 CAGACATGGTCTTACATGTAATCCAATATCGATG-CCACTGTCC
1 CAGACATGGTCTTACACGAAATCAAATATCGATGTCCA-TGTCC
* ** * * **
53462124 CAGACAGGGTCTTGTATC-AAATGAAACA-CGATGTTGATGTCC
1 CAGACATGGTCTTACA-CGAAATCAAATATCGATGTCCATGTCC
* * * *
53462166 CAGACATAGTCTTACACATAAATCATATATCGATG-CCACTATCC
1 CAGACATGGTCTTACAC-GAAATCAAATATCGATGTCCA-TGTCC
* *
53462210 CAGACAGGGTCTTACACGAAATCAAATAT-GATGTCGATGTCC
1 CAGACATGGTCTTACACGAAATCAAATATCGATGTCCATGTCC
*
53462252 CAGACATAGTCTTACAC
1 CAGACATGGTCTTACAC
53462269 ATAAATCATA
Statistics
Matches: 110, Mismatches: 28, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
41 1 0.01
42 45 0.41
43 40 0.36
44 24 0.22
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
CAGACATGGTCTTACACGAAATCAAATATCGATGTCCATGTCC
Found at i:53462213 original size:44 final size:43
Alignment explanation
Indices: 53462163--53462281 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 43
53462153 GATGTTGATG
53462163 TCCCAGACATAGTCTTACACATAAATCATATATCGATG-CCACTA
1 TCCCAGACATAGTCTTACACATAAATCATATAT-GATGTCCA-TA
** * * * *
53462207 TCCCAGACAGGGTCTTACAC-GAAATCAAATATGATGTCGATG
1 TCCCAGACATAGTCTTACACATAAATCATATATGATGTCCATA
53462249 TCCCAGACATAGTCTTACACATAAATCATATAT
1 TCCCAGACATAGTCTTACACATAAATCATATAT
53462282 TGGATCCTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 23 0.37
43 22 0.35
44 18 0.29
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (43 bp):
TCCCAGACATAGTCTTACACATAAATCATATATGATGTCCATA
Found at i:53462243 original size:86 final size:86
Alignment explanation
Indices: 53462081--53462281 Score: 273
Period size: 86 Copynumber: 2.3 Consensus size: 86
53462071 GCCAACATCT
* ** * **
53462081 CAGACATGGTCTTACATGT-AATCCA-ATATCGATGCCACTGTCCCAGACAGGGTCTTGTATCAA
1 CAGACATAGTCTTACACATAAAT-CATATATCGATGCCACTATCCCAGACAGGGTCTTACATCAA
* *
53462144 ATGAAACACGATGTTGATGTCC
65 ATCAAACACGATGTCGATGTCC
53462166 CAGACATAGTCTTACACATAAATCATATATCGATGCCACTATCCCAGACAGGGTCTTACA-CGAA
1 CAGACATAGTCTTACACATAAATCATATATCGATGCCACTATCCCAGACAGGGTCTTACATC-AA
* *
53462230 ATCAAATATGATGTCGATGTCC
65 ATCAAACACGATGTCGATGTCC
53462252 CAGACATAGTCTTACACATAAATCATATAT
1 CAGACATAGTCTTACACATAAATCATATAT
53462282 TGGATCCTAT
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
85 19 0.18
86 84 0.82
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (86 bp):
CAGACATAGTCTTACACATAAATCATATATCGATGCCACTATCCCAGACAGGGTCTTACATCAAA
TCAAACACGATGTCGATGTCC
Found at i:53462264 original size:42 final size:44
Alignment explanation
Indices: 53462152--53462281 Score: 149
Period size: 44 Copynumber: 3.0 Consensus size: 44
53462142 AAATGAAACA
* * *
53462152 CGATGTTGATGTCCCAGACATAGTCTTACACATAAATCATATAT
1 CGATGTCGATGTCCCAGACATAGTCTTACACAGAAATCAAATAT
* * **
53462196 CGATG-CCACTATCCCAGACAGGGTCTTACAC-GAAATCAAATAT
1 CGATGTCGA-TGTCCCAGACATAGTCTTACACAGAAATCAAATAT
* *
53462239 -GATGTCGATGTCCCAGACATAGTCTTACACATAAATCATATAT
1 CGATGTCGATGTCCCAGACATAGTCTTACACAGAAATCAAATAT
53462282 TGGATCCTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
42 23 0.33
43 23 0.33
44 24 0.34
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (44 bp):
CGATGTCGATGTCCCAGACATAGTCTTACACAGAAATCAAATAT
Found at i:53462747 original size:20 final size:19
Alignment explanation
Indices: 53462705--53462747 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
53462695 TAATGGAAGG
* *
53462705 TCATTAATGTCCATTAACT
1 TCATTAATGTCCAATAACA
*
53462724 TCATTAATGGTCTAATAACA
1 TCATTAAT-GTCCAATAACA
53462744 TCAT
1 TCAT
53462748 AAGGACTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.40
Consensus pattern (19 bp):
TCATTAATGTCCAATAACA
Found at i:53465815 original size:41 final size:39
Alignment explanation
Indices: 53465663--53465856 Score: 298
Period size: 39 Copynumber: 4.9 Consensus size: 39
53465653 GAATGTTCGA
*
53465663 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
53465702 GTGATATCCGAGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
53465741 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
53465780 GTGATATCCGGGTTAAGTCCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAG--CCCGAAGGCAATTGTGCGAGTT
* *
53465821 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
53465857 GGTTACCATA
Statistics
Matches: 143, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 87 0.61
40 17 0.12
41 39 0.27
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:53473233 original size:39 final size:40
Alignment explanation
Indices: 53473137--53473311 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
53473127 CGGATGATAA
* * * *
53473137 CCGGACTAAGATCC-AAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
53473176 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
53473216 CC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
53473255 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
53473295 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
53473312 ATACTTGGGT
Statistics
Matches: 117, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 56 0.48
40 60 0.51
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:53473293 original size:79 final size:79
Alignment explanation
Indices: 53473137--53473311 Score: 248
Period size: 79 Copynumber: 2.2 Consensus size: 79
53473127 CGGATGATAA
* * *
53473137 CCGGACTAAGATCC-AAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGG-CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
53473201 TGCTAGTGATTATAT
65 TGCGAGTGATTATAT
* *
53473216 CCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGT
1 CCGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTAT
53473281 GCGAGTTG-TTATAT
66 GCGAG-TGATTATAT
53473295 CCGGCTAA-ATCCCGAAG
1 CCGGCTAAGA-CCCGAAG
53473312 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
78 9 0.10
79 76 0.87
80 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTAT
GCGAGTGATTATAT
Found at i:53482073 original size:40 final size:40
Alignment explanation
Indices: 53481977--53482155 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
53481967 TGAATGGTGT
* * * *
53481977 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
53482018 CCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
53482058 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * * *
53482098 CCGAGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
53482138 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
53482156 ACAATCGAGC
Statistics
Matches: 112, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
40 87 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:53482118 original size:80 final size:80
Alignment explanation
Indices: 53481977--53482169 Score: 208
Period size: 80 Copynumber: 2.4 Consensus size: 80
53481967 TGAATGGTGT
* * * * *
53481977 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGCTCAACTCCCGAAGGCAATT
* *
53482042 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * *
53482058 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGAGCT-AATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCG-GCTCAACTCCCGAAGGCAATT
* *
53482122 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
53482138 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
53482170 CGCTATATCC
Statistics
Matches: 93, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
80 66 0.71
81 27 0.29
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGCTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:53482189 original size:80 final size:80
Alignment explanation
Indices: 53482011--53482195 Score: 178
Period size: 80 Copynumber: 2.3 Consensus size: 80
53482001 GTGCTAAGTG
* * * * * *
53482011 ACTAAATCCG-GGTCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAA
1 ACTAAATCCGAGCT-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
* * * *
53482075 GGCATTCGTGCGAGTT
65 GACAATCGAGCGAGTC
* * * *
53482091 ATTAAATCCGAGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGAGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
53482156 ACAATCGAGCGAGTC
66 ACAATCGAGCGAGTC
* * *
53482171 GCTATATCC-AGTTAAATT-CCGAAGG
1 ACTAAATCCGAGCT-AATTCCCGAAGG
53482196 TACGTGATTC
Statistics
Matches: 85, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
79 10 0.12
80 73 0.86
81 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGAGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:53484478 original size:40 final size:40
Alignment explanation
Indices: 53484399--53484575 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
53484389 CGGATGATAA
* * ** *
53484399 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATACGAGTTGCTATAT
* * * * * *
53484439 ACGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATACGAGTTG-CTATAT
*
53484479 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATACGAGTTGCTATAT
* * *
53484519 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATACGAGTTGCTATAT
53484559 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
53484576 ATACTTGGGT
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 98 0.84
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATACGAGTTGCTATAT
Found at i:53484537 original size:80 final size:80
Alignment explanation
Indices: 53484399--53484575 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 80
53484389 CGGATGATAA
* * * * *
53484399 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATACGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTACGAGTTGCTATATACGGGCTAAGACCCGAAGGCATTTA
*
53484464 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* * *
53484479 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTACGAGTTGCTATATACGGGCTAAGACCCGAAGGCATTTA
53484544 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
53484559 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
53484576 ATACTTGGGT
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 70 0.81
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTACGAGTTGCTATATACGGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:53484843 original size:22 final size:22
Alignment explanation
Indices: 53484803--53484844 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
53484793 GAATGTGCAT
*
53484803 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
53484825 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
53484845 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:53487318 original size:16 final size:16
Alignment explanation
Indices: 53487297--53487329 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
53487287 GAATAAAGAA
53487297 CAAAGAATGTAACATC
1 CAAAGAATGTAACATC
53487313 CAAAGAATGTAACATC
1 CAAAGAATGTAACATC
53487329 C
1 C
53487330 TAAATTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.18
Consensus pattern (16 bp):
CAAAGAATGTAACATC
Found at i:53488664 original size:45 final size:44
Alignment explanation
Indices: 53488579--53488664 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 44
53488569 TATGTAATCT
* *
53488579 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCACTGAGTTGTGTCTGAGTTCATGATATATATGACATCC
** *
53488623 GAACTCACTGAGTTGTGGTCTGAGTTTGTGATATGTATGACA
1 GAACTCACTGAGTTGT-GTCTGAGTTCATGATATATATGACA
53488665 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 15 0.42
45 21 0.58
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (44 bp):
GAACTCACTGAGTTGTGTCTGAGTTCATGATATATATGACATCC
Found at i:53499875 original size:40 final size:40
Alignment explanation
Indices: 53499830--53499997 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
53499820 CGGAATACAA
*
53499830 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
53499870 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
53499910 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
53499950 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
53499990 CCGGATAT
1 CCGGATAT
53499998 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:53499970 original size:80 final size:80
Alignment explanation
Indices: 53499830--53499997 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
53499820 CGGAATACAA
* * *
53499830 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
53499895 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
53499910 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
53499973 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
53499990 CCGGATAT
1 CCGGATAT
53499998 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:53505602 original size:37 final size:37
Alignment explanation
Indices: 53505549--53505670 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
53505539 TATAAAAGAA
*
53505549 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
53505586 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
53505623 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
53505660 GTCTCACCCGG
1 GTCTTACCCGG
53505671 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:53505825 original size:49 final size:49
Alignment explanation
Indices: 53505770--53506032 Score: 447
Period size: 49 Copynumber: 5.4 Consensus size: 49
53505760 TTTTACATTA
*
53505770 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
*
53505819 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
53505868 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
53505917 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
53505966 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* *
53506015 G-CATTCGGCCTTATCACA
1 GCCATTAGGCCTCATCACA
53506033 CATATATGTA
Statistics
Matches: 207, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
48 15 0.07
49 192 0.93
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
Found at i:53509369 original size:29 final size:29
Alignment explanation
Indices: 53509332--53509609 Score: 515
Period size: 29 Copynumber: 9.7 Consensus size: 29
53509322 TGTTGAAAAA
* * *
53509332 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
53509361 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
53509390 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
53509419 CTCGCACACAT-GTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
53509447 CTCGCACACAT-GTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
53509475 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
53509504 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
53509533 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
53509562 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
53509591 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
53509610 AATCATTCGC
Statistics
Matches: 245, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
28 56 0.23
29 189 0.77
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:53511751 original size:37 final size:37
Alignment explanation
Indices: 53511698--53511819 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
53511688 TATAAAAGAA
*
53511698 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
53511735 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
53511772 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
53511809 GTCTCACCCGG
1 GTCTTACCCGG
53511820 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:53511976 original size:49 final size:49
Alignment explanation
Indices: 53511921--53512184 Score: 456
Period size: 49 Copynumber: 5.4 Consensus size: 49
53511911 TTTTACATTA
*
53511921 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
*
53511970 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
53512019 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
53512068 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* * * *
53512117 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
* *
53512166 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTCATCACA
53512185 CATATATGTA
Statistics
Matches: 208, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 208 1.00
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
Found at i:53514803 original size:25 final size:25
Alignment explanation
Indices: 53514775--53514822 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53514765 TTATAGTATG
* * *
53514775 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
53514800 AAAATGACTATTATACCCCTAGG
1 AAAATGACTATTATACCCCTAGG
53514823 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:53514884 original size:11 final size:11
Alignment explanation
Indices: 53514870--53514945 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
53514860 CAATATTGAT
53514870 ATGATATGCAC
1 ATGATATGCAC
*
53514881 ATGATATG--T
1 ATGATATGCAC
53514890 ATGATATGCAC
1 ATGATATGCAC
*
53514901 ATGATATGTAC
1 ATGATATGCAC
53514912 --GATATGCAC
1 ATGATATGCAC
*
53514921 ATGATATG--T
1 ATGATATGCAC
*
53514930 ATGACATGCAC
1 ATGATATGCAC
53514941 ATGAT
1 ATGAT
53514946 GTATTCATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:53514894 original size:20 final size:20
Alignment explanation
Indices: 53514869--53514945 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
53514859 ACAATATTGA
53514869 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
53514889 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
53514909 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
53514929 TATGACATGCACATGAT
1 TATGATATGCACATGAT
53514946 GTATTCATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:53515073 original size:52 final size:49
Alignment explanation
Indices: 53514995--53515117 Score: 158
Period size: 52 Copynumber: 2.4 Consensus size: 49
53514985 GAGGAAGTGC
* *
53514995 AAAAGGGCTTATGCCCCAGTTTACCGAAAATGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTTAGGCCCCAGTTTACCG-AAAGGGCTTATGCCCCAG-TTATT
* *
53515046 GAAAAGGGCTTAGGCCCCAGTTTACCGAAAGGGCTTTTGCCCTAGTTATT
1 -AAAAGGGCTTAGGCCCCAGTTTACCGAAAGGGCTTATGCCCCAGTTATT
53515096 AAAAGAGGC-TAGGCCTCCAGTT
1 AAAAG-GGCTTAGGCC-CCAGTT
53515118 ATATGATAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
49 11 0.17
50 14 0.22
51 15 0.23
52 25 0.38
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAAGGGCTTAGGCCCCAGTTTACCGAAAGGGCTTATGCCCCAGTTATT
Found at i:53515087 original size:25 final size:26
Alignment explanation
Indices: 53514995--53515092 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
53514985 GAGGAAGTGC
53514995 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
53515021 AAAATGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
53515047 AAAAGGGCTTAGGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
53515073 -AAAGGGCTTTTGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
53515093 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
25 17 0.27
26 45 0.73
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:53521214 original size:74 final size:74
Alignment explanation
Indices: 53521135--53521282 Score: 201
Period size: 75 Copynumber: 2.0 Consensus size: 74
53521125 GTAAAATAAT
* * *
53521135 TATTTTTT-ATAATTTTATAATTTTTTATTACATTTAAATTATTTGTGATTTAATTGT-TACTTA
1 TATTTTTTAATAATTTTAAAATTTATTATTACATTTAAATTATTTGTGA-TTAATT-TCTACTCA
*
53521198 ATGTTCAAATA
64 ATGTCCAAATA
* * *
53521209 TATTTTTTAATAATTTTAAAATTTATTGTTATATTTTAATTATTTGTGATTAATTTCTACTCAAT
1 TATTTTTTAATAATTTTAAAATTTATTATTACATTTAAATTATTTGTGATTAATTTCTACTCAAT
53521274 GTCCAAATA
66 GTCCAAATA
53521283 AATTCATTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
73 1 0.02
74 29 0.45
75 35 0.54
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (74 bp):
TATTTTTTAATAATTTTAAAATTTATTATTACATTTAAATTATTTGTGATTAATTTCTACTCAAT
GTCCAAATA
Found at i:53526631 original size:27 final size:27
Alignment explanation
Indices: 53526601--53526739 Score: 138
Period size: 27 Copynumber: 5.1 Consensus size: 27
53526591 AAATGTCCTT
* * *
53526601 GATTTGTAGAATTGCCGCTTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTC
*
53526628 GATTTATAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTC
* *
53526655 GATTTACAAAATTACCGTTTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTC
* * *
53526682 GATTTACA-AATTTACCATTTTACCTTC
1 GATTTATAGAA-TTACCGTTTTACCCTC
* * *
53526709 -AGTTTACAAAATTATCGTTTTACCCTC
1 GA-TTTATAGAATTACCGTTTTACCCTC
53526736 GATT
1 GATT
53526740 GTGAAATTAC
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.03
27 90 0.94
28 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
GATTTATAGAATTACCGTTTTACCCTC
Found at i:53526747 original size:54 final size:54
Alignment explanation
Indices: 53526610--53526739 Score: 183
Period size: 54 Copynumber: 2.4 Consensus size: 54
53526600 TGATTTGTAG
* * *
53526610 AATTGCCGCTTTACCCTCGATTTATAGAA-TTACCATTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACA-AATTTACCATTTTACCCTCGATTTACAA
*
53526664 AATTACCGTTTTACCCTCGATTTACAAATTTACCATTTTACCTTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGATTTACAAATTTACCATTTTACCCTCGA-TTTACAA
*
53526718 AATTATCGTTTTACCCTCGATT
1 AATTACCGTTTTACCCTCGATT
53526740 GTGAAATTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
53 3 0.04
54 66 0.96
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.40
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTACAAATTTACCATTTTACCCTCGATTTACAA
Found at i:53526801 original size:27 final size:27
Alignment explanation
Indices: 53526771--53526948 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
53526761 TGTAGGATAG
53526771 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
53526798 AATTACCAAAATACCCCTAGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
53526825 AATTACCGAAATACCACTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
53526852 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
53526879 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
* * *
53526906 AATTA-CAGAAATACCCTTGGTTTGTAG
1 AATTACCA-AAATACCCCTAGTTTGTAA
* *
53526933 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
53526949 TTGTAGGATG
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.04
27 115 0.91
28 7 0.06
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:53526810 original size:54 final size:54
Alignment explanation
Indices: 53526738--53526921 Score: 176
Period size: 54 Copynumber: 3.4 Consensus size: 54
53526728 TTACCCTCGA
* * * *
53526738 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTAGT-GGATAAAATTACCAAAATACCACTAGT
* ** * *
53526792 TTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCGAAATACCCCTAGTGGATAAAATTACCAAAATACCACTAGT
* * * *
53526846 TTGTAAAATTACCGAAATACCCTCAATTTG-TAAAATTACCAAAATACCCCT-GAT
1 TTGTAAAATTACCGAAATACCC-CTAGTGGATAAAATTACCAAAATACCACTAG-T
** *
53526900 TTACAAAATTACAGAAATACCC
1 TTGTAAAATTACCGAAATACCC
53526922 TTGGTTTGTA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 102 0.94
55 6 0.06
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (54 bp):
TTGTAAAATTACCGAAATACCCCTAGTGGATAAAATTACCAAAATACCACTAGT
Found at i:53526949 original size:81 final size:82
Alignment explanation
Indices: 53526768--53526949 Score: 255
Period size: 81 Copynumber: 2.2 Consensus size: 82
53526758 CCCTGTAGGA
* * *
53526768 TAGAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACC
1 TAGAATTACCAAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACA
53526832 GAAATACCACTGGTTTG
66 GAAATACCACTGGTTTG
* *
53526849 TAAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTAC
1 TAGAATTACCAAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTAC
53526912 AGAAATACC-CTTGGTTTG
65 AGAAATACCAC-TGGTTTG
* *
53526930 TAGATTTACCAAAACACCCT
1 TAGAATTACCAAAATACCCT
53526950 TGTAGGATGA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
80 2 0.02
81 86 0.97
82 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (82 bp):
TAGAATTACCAAAATACCCTCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACA
GAAATACCACTGGTTTG
Found at i:53527012 original size:27 final size:27
Alignment explanation
Indices: 53526982--53527042 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
53526972 ACCCTTAATA
53526982 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** * *
53527009 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
53527036 GGTAAAA
1 GGTAAAA
53527043 TAATGAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:53527894 original size:25 final size:25
Alignment explanation
Indices: 53527856--53527925 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
53527846 AGGAAGTGCT
*
53527856 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
53527881 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
53527906 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
53527926 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:53529130 original size:68 final size:68
Alignment explanation
Indices: 53529021--53529152 Score: 246
Period size: 68 Copynumber: 1.9 Consensus size: 68
53529011 CACATATACA
*
53529021 TTACCATACCAATGCCATATCTCAGATATGGTCTTACATGGATCTCATATCAATGCCAATAGCCT
1 TTACCATACCAATGCCATATCCCAGATATGGTCTTACATGGATCTCATATCAATGCCAATAGCCT
53529086 ACG
66 ACG
*
53529089 TTACCATACCAATGCCATATCCCAGATATGGTCTTACATGGATCTCATATCGATGCCAATAGCC
1 TTACCATACCAATGCCATATCCCAGATATGGTCTTACATGGATCTCATATCAATGCCAATAGCC
53529153 CAGCTATGGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (68 bp):
TTACCATACCAATGCCATATCCCAGATATGGTCTTACATGGATCTCATATCAATGCCAATAGCCT
ACG
Found at i:53529189 original size:43 final size:41
Alignment explanation
Indices: 53529100--53529220 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 41
53529090 TACCATACCA
* * *
53529100 ATGCCATATCCCAGATATGGTCTTACATGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAATCTCACATCG
* * *
53529141 ATGCCAATAGCCCAGCTATGGTCTTATACGAAGTCTCACATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAA-TCTCACATCG
53529184 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCA
53529221 AATAACCCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
41 5 0.07
42 47 0.69
43 16 0.24
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCACATCG
Found at i:53535613 original size:54 final size:54
Alignment explanation
Indices: 53535502--53535807 Score: 321
Period size: 54 Copynumber: 5.7 Consensus size: 54
53535492 TTACACTACA
* * * * *
53535502 AGGGTATTTCAATAATTTTAC-ACTACAAGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAAT-CGAGGGTATTTCAGTAATTTTACAAATTG
53535556 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTG
** * * *
53535610 AGGGTGGTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTAC-AATTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTG
* * * * * *
53535663 AAGGTATTTCGATAATTTTAGAAATTGAGGGTATTTTAGTAATTTTACAAAATA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTG
* * ** * * * *
53535717 AGGATATTTCGATAATTTCACAAGCCGGGGGTATTTCGGTAATTTTTCAAA-TC
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTG
* * * *
53535770 AGGGGTACTTCGGTAATTTTACAAACCGGGGGTATTTC
1 A-GGGTATTTCGATAATTTTACAAATCGAGGGTATTTC
53535808 GGTACAAATC
Statistics
Matches: 215, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
53 50 0.23
54 163 0.76
55 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTG
Found at i:53535733 original size:107 final size:108
Alignment explanation
Indices: 53535529--53535807 Score: 301
Period size: 107 Copynumber: 2.6 Consensus size: 108
53535519 TTACACTACA
*
53535529 AGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
1 AGGGTATTTCAATAATTTTACAAATCGAAGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
* * * * * *
53535594 GTAATTTTACAAATTGAGGGTGGTTCGGTAATTTTACAAATTG
66 GTAATTTTACAAAATAAGGATAGTTCGATAATTTCACAAATTG
* * * * * *
53535637 AGGGTATTTTAGTAATTTTAC-AATTGAAGGTATTTCGATAATTTTAGAAATTGAGGGTATTTTA
1 AGGGTATTTCAATAATTTTACAAATCGAAGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
* ***
53535701 GTAATTTTACAAAATAAGGATATTTCGATAATTTCACAAGCCG
66 GTAATTTTACAAAATAAGGATAGTTCGATAATTTCACAAATTG
* ** * * * * * *
53535744 GGGGTATTTCGGTAATTTTTCAAATC-AGGGGTACTTCGGTAATTTTACAAACCGGGGGTATTTC
1 AGGGTATTTCAATAATTTTACAAATCGA-AGGTATTTCGATAATTTTACAAATCGAGGGTATTTC
53535808 GGTACAAATC
Statistics
Matches: 139, Mismatches: 30, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
107 89 0.64
108 50 0.36
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (108 bp):
AGGGTATTTCAATAATTTTACAAATCGAAGGTATTTCGATAATTTTACAAATCGAGGGTATTTCA
GTAATTTTACAAAATAAGGATAGTTCGATAATTTCACAAATTG
Found at i:53535808 original size:27 final size:27
Alignment explanation
Indices: 53535502--53535811 Score: 277
Period size: 27 Copynumber: 11.5 Consensus size: 27
53535492 TTACACTACA
** * *
53535502 AGGGTATTTCAATAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
**
53535529 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
53535556 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
53535583 AGGGTATTTCAGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
53535610 AGGGTGGTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
53535637 AGGGTATTTTAGTAATTTTAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
53535663 AAGGTATTTCGATAATTTTAGAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
53535690 AGGGTATTTTAGTAATTTTACAAAAT-A
1 AGGGTATTTCGGTAATTTTAC-AAATCG
* * * **
53535717 AGGATATTTCGATAATTTCACAAGCCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
53535744 GGGGTATTTCGGTAATTTTTCAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
53535770 AGGGGTACTTCGGTAATTTTACAAACCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
*
53535798 GGGGTATTTCGGTA
1 AGGGTATTTCGGTA
53535812 CAAATCGAGG
Statistics
Matches: 232, Mismatches: 45, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.10
27 203 0.88
28 6 0.03
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:53535813 original size:21 final size:21
Alignment explanation
Indices: 53535789--53535832 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
53535779 TCGGTAATTT
*
53535789 TACAAACCGGGGGTATTTCGG
1 TACAAACCGAGGGTATTTCGG
* *
53535810 TACAAATCGAGGGTATTTTGG
1 TACAAACCGAGGGTATTTCGG
53535831 TA
1 TA
53535833 ATTTCTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (21 bp):
TACAAACCGAGGGTATTTCGG
Found at i:53542433 original size:27 final size:27
Alignment explanation
Indices: 53542403--53542464 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
53542393 CATGTCGGTC
53542403 ATTTTACACTACAAAGGTATTTC-AGTA
1 ATTTTACACTACAAAGGTATTTCGA-TA
* *
53542430 ATTTTACACTATAAGGGTATTTCGATA
1 ATTTTACACTACAAAGGTATTTCGATA
53542457 ATTTTACA
1 ATTTTACA
53542465 AATCGAGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAAGGTATTTCGATA
Found at i:53542473 original size:27 final size:27
Alignment explanation
Indices: 53542418--53542721 Score: 298
Period size: 27 Copynumber: 11.3 Consensus size: 27
53542408 ACACTACAAA
* *
53542418 GGTATTTC-AGTAATTTTACACTAT-AAG
1 GGTATTTCGA-TAATTTTACA-AATCGAG
53542445 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* * *
53542472 GGTGTTTCGGTAATTTTACAAATTGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
53542499 GGTATTTCTG-TAATTTTACAAATCGAT
1 GGTATTTC-GATAATTTTACAAATCGAG
* *
53542526 GGTGTTTTGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
53542553 GGTATTTC-AGTAATTTTAC-AATTGAT
1 GGTATTTCGA-TAATTTTACAAATCGAG
* * * * *
53542579 AGTATTTTGGTAATTTTACGAATCAAG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
53542606 GGTATTTCAATAATTTTGCAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
53542633 GGTATTTC-ACTAATTTTACAAATCAAG
1 GGTATTTCGA-TAATTTTACAAATCGAG
* * * *
53542660 GATATTTCGGTAATTTTTCAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
53542687 GGTA-CTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
53542713 GGTATTTCG
1 GGTATTTCG
53542722 GTACAAACCG
Statistics
Matches: 227, Mismatches: 40, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
26 48 0.21
27 177 0.78
28 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCGAG
Found at i:53542628 original size:107 final size:107
Alignment explanation
Indices: 53542418--53542720 Score: 328
Period size: 107 Copynumber: 2.8 Consensus size: 107
53542408 ACACTACAAA
* * * *
53542418 GGTATTTCAGTAATTTTACACTAT-AAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGG
1 GGTATTTCACTAATTTTACA-AATCAAGGGTATTTCG-TAATTTTACAAATCGAGAGTATTTCGG
** **
53542482 TAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAATCGATG
64 TAATTTTACAAATCAAGGGTATTTCAATAATTTTACAAATCGA-G
* * * * *
53542527 GTGT-TTTGA-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AATTGATAGTATTTTGG
1 G-GTATTTCACTAATTTTACAAATCAAGGGTATTTC-GTAATTTTACAAATCGAGAGTATTTCGG
* *
53542589 TAATTTTACGAATCAAGGGTATTTCAATAATTTTGCAAATCGAG
64 TAATTTTACAAATCAAGGGTATTTCAATAATTTTACAAATCGAG
* * * * *
53542633 GGTATTTCACTAATTTTACAAATCAAGGATATTTCGGTAATTTTTCAAATCGGGGGTA-CTCGGT
1 GGTATTTCACTAATTTTACAAATCAAGGGTATTTC-GTAATTTTACAAATCGAGAGTATTTCGGT
*
53542697 AATTTTACAAATCGAGGGTATTTC
65 AATTTTACAAATCAAGGGTATTTC
53542721 GGTACAAACC
Statistics
Matches: 161, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
105 2 0.01
106 6 0.04
107 109 0.68
108 36 0.22
109 6 0.04
110 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (107 bp):
GGTATTTCACTAATTTTACAAATCAAGGGTATTTCGTAATTTTACAAATCGAGAGTATTTCGGTA
ATTTTACAAATCAAGGGTATTTCAATAATTTTACAAATCGAG
Found at i:53542726 original size:21 final size:21
Alignment explanation
Indices: 53542702--53542741 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53542692 TCGGTAATTT
*
53542702 TACAAATCGAGGGTATTTCGG
1 TACAAACCGAGGGTATTTCGG
53542723 TACAAACCGAGGGTATTTC
1 TACAAACCGAGGGTATTTC
53542742 TGTAATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (21 bp):
TACAAACCGAGGGTATTTCGG
Found at i:53543097 original size:28 final size:28
Alignment explanation
Indices: 53543064--53543155 Score: 112
Period size: 28 Copynumber: 3.3 Consensus size: 28
53543054 TGCCCCCTTT
* * *
53543064 AGGCCCAATCTCTTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * * *
53543092 GGGCCCAATCACATTCATATGTCGCATT
1 AGGCCCAATCACATTCATATGGCCCATC
*
53543120 AGGCCCAATCACATTCATATGGTCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
53543148 AGGCCCAA
1 AGGCCCAA
53543156 CTACTTCCCA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:53544993 original size:46 final size:46
Alignment explanation
Indices: 53544926--53545100 Score: 217
Period size: 46 Copynumber: 3.8 Consensus size: 46
53544916 TGTAACCCGC
53544926 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * * *
53544972 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCG-TTCGCAT
* *** * * *
53545018 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
53545065 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
53545101 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 73 0.68
47 34 0.32
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:53545046 original size:93 final size:93
Alignment explanation
Indices: 53544934--53545105 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
53544924 GCCCATAAGT
* *
53544934 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53544999 CGAGCTCGGGTGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
53545027 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53545092 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
53545106 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:53545120 original size:46 final size:44
Alignment explanation
Indices: 53544931--53545120 Score: 118
Period size: 46 Copynumber: 4.1 Consensus size: 44
53544921 CCCGCCCATA
* ** ** **
53544931 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* * *
53544976 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
53545026 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
53545069 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
53545116 AGTGA
1 AGTGA
53545121 CATGTCACTT
Statistics
Matches: 114, Mismatches: 15, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
46 66 0.58
47 28 0.25
48 4 0.04
49 2 0.02
50 4 0.04
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:53550102 original size:39 final size:39
Alignment explanation
Indices: 53550059--53550225 Score: 280
Period size: 39 Copynumber: 4.3 Consensus size: 39
53550049 GGTCTTTAAC
** *
53550059 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
53550098 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGC
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
53550137 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
53550176 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
53550215 CCGGATATTTT
1 CCGGATATTTT
53550226 CAATCTCATA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 119 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:53559737 original size:40 final size:40
Alignment explanation
Indices: 53559663--53559808 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
53559653 CCGCACCAAG
* * * * * *
53559663 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
53559703 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
53559743 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
53559783 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
53559809 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:53559823 original size:40 final size:40
Alignment explanation
Indices: 53559695--53559846 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
53559685 ATCACGATTT
* * * * *
53559695 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
53559735 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
53559775 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
53559815 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
53559847 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:53565005 original size:40 final size:39
Alignment explanation
Indices: 53564840--53565023 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
53564830 AAATTGAATG
* * *
53564840 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
53564880 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
53564920 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
53564960 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
53564999 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
53565024 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:53565048 original size:80 final size:81
Alignment explanation
Indices: 53564880--53565068 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
53564870 GCTGGAAATT
* * * *
53564880 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
53564945 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
53564961 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
53565024 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
53565040 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
53565069 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:53571845 original size:27 final size:28
Alignment explanation
Indices: 53571811--53571879 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
53571801 TACTCGATCA
* *
53571811 CGCACACTTAGTGCCATATATTC-AGCT
1 CGCACACTTAGTGCCATATAATCAAACT
*
53571838 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCCATATAATCAAACT
53571866 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53571880 TGTACAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATAATCAAACT
Found at i:53573248 original size:18 final size:18
Alignment explanation
Indices: 53573216--53573253 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
53573206 TCCACACCCA
53573216 TTTTTTTTCATCATTATCTT
1 TTTTTTTTCA-CATT-TCTT
53573236 TTTTTTTTC-CATTTCTT
1 TTTTTTTTCACATTTCTT
53573253 T
1 T
53573254 ATTCTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
20 9 0.50
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTCACATTTCTT
Found at i:53578943 original size:16 final size:16
Alignment explanation
Indices: 53578922--53578959 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
53578912 ATGTATCGAC
53578922 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
53578938 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
53578954 AAAAGC
1 AAAAGC
53578960 CAAAAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.11
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:53579224 original size:28 final size:28
Alignment explanation
Indices: 53579175--53579272 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
53579165 ATGAGCATGA
* * * * *
53579175 ATATGAATGTGACTAGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCTAATGGGCC
53579203 ATATAAATGTGATTTGGGCTAATGGGCC
1 ATATAAATGTGATTTGGGCTAATGGGCC
* *
53579231 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGG-CTAATGGGCC
* *
53579260 -TATGAATATGATT
1 ATATAAATGTGATT
53579273 AGGCTTAATA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 48 0.83
29 10 0.17
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTTGGGCTAATGGGCC
Found at i:53579293 original size:56 final size:57
Alignment explanation
Indices: 53579190--53579296 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 57
53579180 AATGTGACTA
* * * *
53579190 GGCCTAACGGGCCATATAAATGTGATTTGGGCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAACGGGCCATATAAATATGATTTAGGCTAATAGGCCAGATACAGGTGATTTG
* *
53579247 GGCCTAATGGGCC-TATGAATATGA-TTAGGCTTAATAGGCCAGATACAGGT
1 GGCCTAACGGGCCATATAAATATGATTTAGGC-TAATAGGCCAGATACAGGT
53579297 ATGTGAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
55 5 0.12
56 26 0.60
57 12 0.28
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (57 bp):
GGCCTAACGGGCCATATAAATATGATTTAGGCTAATAGGCCAGATACAGGTGATTTG
Found at i:53587864 original size:20 final size:20
Alignment explanation
Indices: 53587835--53587878 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
53587825 CAATTCATTC
*
53587835 TCATTCATATAATCAACAAT
1 TCATTCATATAACCAACAAT
* *
53587855 TCATTTATATAACCAAGAAT
1 TCATTCATATAACCAACAAT
53587875 TCAT
1 TCAT
53587879 CTGTATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (20 bp):
TCATTCATATAACCAACAAT
Found at i:53587885 original size:20 final size:20
Alignment explanation
Indices: 53587841--53587886 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
53587831 ATTCTCATTC
* *
53587841 ATATAATCAACAATTCATTT
1 ATATAACCAACAATTCATCT
*
53587861 ATATAACCAAGAATTCATCT
1 ATATAACCAACAATTCATCT
*
53587881 GTATAA
1 ATATAA
53587887 TTGTTAAGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (20 bp):
ATATAACCAACAATTCATCT
Found at i:53592003 original size:101 final size:100
Alignment explanation
Indices: 53591875--53592078 Score: 286
Period size: 101 Copynumber: 2.0 Consensus size: 100
53591865 CATGGCCCTG
* * *
53591875 CCATGGTCTTACATTCGTAGTGCCATAACCCGGTTATGGTCTTATCATCAGAATGT-CATAGCCC
1 CCATGGTCTTACATTCGAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAAT-TCCATAG-CC
* * *
53591939 AGCTATGGTCTTACATATAAATATTGTCATGGTCTAA
64 AGCTATGGTCTTACATATAAATACTGCCATGGTCCAA
* * *
53591976 CCATGGTCTTACATTC-AAGGTGTCATAACCCAGTTATGGTCTTTTCATTAAAATTCCATAGCCA
1 CCATGGTCTTACATTCGAA-GTGCCATAACCCAGTTATGGTCTTATCATCAAAATTCCATAGCCA
53592040 GCTATGGTCTTACATATAAATACTGCCATGGTCCAA
65 GCTATGGTCTTACATATAAATACTGCCATGGTCCAA
53592076 CCA
1 CCA
53592079 CAGGCTTACG
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
100 41 0.45
101 51 0.55
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (100 bp):
CCATGGTCTTACATTCGAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATTCCATAGCCAG
CTATGGTCTTACATATAAATACTGCCATGGTCCAA
Found at i:53592087 original size:100 final size:101
Alignment explanation
Indices: 53591879--53592093 Score: 276
Period size: 100 Copynumber: 2.1 Consensus size: 101
53591869 GCCCTGCCAT
* * * *
53591879 GGTCTTACATTCGTA-GTGCCATAACCCGGTTATGGTCTTATCATCAGAATGTCATAGCCCAGCT
1 GGTCTTACATTC-AAGGTGTCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCT
* * * *
53591943 ATGGTCTTACATATAAATATTGTCATGGTCTAACCAT
65 ATGGTCTTACATATAAATACTGCCATGGTCCAACCAA
* *
53591980 GGTCTTACATTCAAGGTGTCATAACCCAGTTATGGTCTTTTCATTAAAAT-TCCATAG-CCAGCT
1 GGTCTTACATTCAAGGTGTCATAACCCAGTTATGGTCTTATCATCAAAATGT-CATAGCCCAGCT
53592043 ATGGTCTTACATATAAATACTGCCATGGTCCAACCACA
65 ATGGTCTTACATATAAATACTGCCATGGTCCAACCA-A
*
53592081 GG-CTTACGTTCAA
1 GGTCTTACATTCAA
53592094 TTCATCCTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
100 51 0.51
101 49 0.49
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (101 bp):
GGTCTTACATTCAAGGTGTCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCCAGCTA
TGGTCTTACATATAAATACTGCCATGGTCCAACCAA
Found at i:53592682 original size:21 final size:20
Alignment explanation
Indices: 53592654--53592693 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
53592644 CAAATCTTGT
53592654 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
53592674 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
53592694 AAATCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:53594465 original size:27 final size:27
Alignment explanation
Indices: 53594435--53594694 Score: 281
Period size: 27 Copynumber: 9.6 Consensus size: 27
53594425 AAAGTACTCC
*
53594435 CGATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
*
53594462 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
** * * *
53594489 CGATTTTTAAAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCATTTTACCCT
53594516 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
53594543 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
* *
53594570 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
** * *
53594597 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* * *
53594624 TGATTTACAGAATTACTAGTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* * *
53594651 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
* *
53594678 CGATTTACTGAAATACC
1 CGATTTACAGAATTACC
53594695 CCTATAGGGC
Statistics
Matches: 190, Mismatches: 39, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 186 0.98
28 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCATTTTACCCT
Found at i:53594476 original size:54 final size:54
Alignment explanation
Indices: 53594435--53594694 Score: 326
Period size: 54 Copynumber: 4.8 Consensus size: 54
53594425 AAAGTACTCC
* * *
53594435 CGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCT
1 CGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
* *
53594489 CGATTTTTAAAATTACCGTTTTACCTTCGATTTACAGAATTACCATTTTACCCT
1 CGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
* ** * *
53594543 C-AGTTTATAGAATTACTATTTTACCCTCAATTTACAGAATTACCGTTTTACCCT
1 CGA-TTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
* * * *
53594597 CGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTAGTTTACCCT
1 CGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
* * * *
53594651 C-AGTTTACAAAATTATCGTTTTACCCTCGATTTACTGAAATACC
1 CGA-TTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACC
53594695 CCTATAGGGC
Statistics
Matches: 175, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.01
54 172 0.98
55 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (54 bp):
CGATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
Found at i:53594530 original size:81 final size:80
Alignment explanation
Indices: 53594435--53594685 Score: 351
Period size: 81 Copynumber: 3.1 Consensus size: 80
53594425 AAAGTACTCC
**
53594435 CGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTTTAAA
1 CGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTC-ATTTACAAA
*
53594500 ATTACCGTTTTACCTT
65 ATTACCGTTTTACCCT
* * *
53594516 CGATTTACAGAATTACCATTTTACCCTC-AGTTTATAGAATTACTATTTTACCCTCAATTTACAG
1 CGATTTACAAAATTACCATTTTACCCTCGA-TTTACAGAATTACTATTTTACCCTC-ATTTACAA
53594580 AATTACCGTTTTACCCT
64 AATTACCGTTTTACCCT
** * * *
53594597 CGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTAGTTTACCCTCAGTTTACAAA
1 CGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCA-TTTACAAA
*
53594662 ATTATCGTTTTACCCT
65 ATTACCGTTTTACCCT
53594678 CGATTTAC
1 CGATTTAC
53594686 TGAAATACCC
Statistics
Matches: 149, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 146 0.98
82 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (80 bp):
CGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCATTTACAAAA
TTACCGTTTTACCCT
Found at i:53594719 original size:27 final size:27
Alignment explanation
Indices: 53594682--53594911 Score: 300
Period size: 27 Copynumber: 8.5 Consensus size: 27
53594672 TACCCTCGAT
*
53594682 TTACTGAAATACCCCTATAGGGCAGAA
1 TTACTGAAATACCCCTATAGGGTAGAA
* *
53594709 TTTCTAAAATACCCCTATAGGGTAGAA
1 TTACTGAAATACCCCTATAGGGTAGAA
*
53594736 TTACTGAAATACCCCTATAGGGCAGAA
1 TTACTGAAATACCCCTATAGGGTAGAA
*
53594763 TTTCTGAAATACCCCTATAGGGTAGAA
1 TTACTGAAATACCCCTATAGGGTAGAA
* *
53594790 TTACTGAAATACCCTTATAGGATAGAA
1 TTACTGAAATACCCCTATAGGGTAGAA
** *
53594817 TTACCAAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTATAGGGTAGAA
* *
53594844 TTA-TCGAAATACCCTTGTAGGGTAGAA
1 TTACT-GAAATACCCCTATAGGGTAGAA
* * *
53594871 ATACCGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTATAGGGTAGAA
*
53594898 TTACTGAGATACCC
1 TTACTGAAATACCC
53594912 TTGTGGGGTA
Statistics
Matches: 176, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
27 176 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (27 bp):
TTACTGAAATACCCCTATAGGGTAGAA
Found at i:53594939 original size:27 final size:27
Alignment explanation
Indices: 53594909--53594972 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
53594899 TACTGAGATA
*
53594909 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * **
53594936 CCCTTAG-GGTGTTAAATGACTGTTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
53594963 CCCTTGTGGG
1 CCCTTGTGGG
53594973 CAAGTGACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:53595171 original size:27 final size:26
Alignment explanation
Indices: 53595132--53595210 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
53595122 GGAAGCGTTA
*
53595132 TGGTGGCTATGCCACAAATATCTGTTC
1 TGGTGGCTCTGCCAC-AATATCTGTTC
* *
53595159 TGGTGGCTCTGCCATAATATCTGTATT
1 TGGTGGCTCTGCCACAATATCTGT-TC
* *
53595186 TGGTGACTCTGTCACAATATCTGTT
1 TGGTGGCTCTGCCACAATATCTGTT
53595211 GACCGATCGA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.22
27 35 0.78
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACAATATCTGTTC
Found at i:53595330 original size:22 final size:22
Alignment explanation
Indices: 53595298--53595356 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
53595288 CCCGTTATTA
*
53595298 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
53595320 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
53595342 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
53595357 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:53595553 original size:27 final size:25
Alignment explanation
Indices: 53595523--53595594 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 25
53595513 GGTGGGTTTT
*
53595523 CCACATTATCTGATTCTGGTGGCTCTG
1 CCACA-TATCTG-TTCTGGTGACTCTG
53595550 CCACAATATCTGTATCTGGTGACTCTG
1 CCAC-ATATCTGT-TCTGGTGACTCTG
*
53595577 TCACGATATCTGTTCTGG
1 CCAC-ATATCTGTTCTGG
53595595 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 6 0.15
27 33 0.82
28 1 0.03
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (25 bp):
CCACATATCTGTTCTGGTGACTCTG
Found at i:53595723 original size:6 final size:6
Alignment explanation
Indices: 53595712--53595874 Score: 131
Period size: 6 Copynumber: 26.8 Consensus size: 6
53595702 TTGCTTTCAC
* *
53595712 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
53595761 -TTACTA ATACTG ATTCTG ATTTTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
53595809 ATTCTG -TCACTTA ATTCTG ATTCTG ATTCTG ATTTTG -TTACTA ATAT-TG
1 ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
53595858 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
53595875 CATTTTGGTT
Statistics
Matches: 125, Mismatches: 18, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
5 9 0.07
6 105 0.84
7 8 0.06
8 3 0.02
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:53595852 original size:85 final size:85
Alignment explanation
Indices: 53595712--53595874 Score: 290
Period size: 85 Copynumber: 1.9 Consensus size: 85
53595702 TTGCTTTCAC
53595712 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
53595777 TGATTTTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* * *
53595797 ATTCTGATTCTGATTCTGTCACTTAATTCTGATTCTGATTCTGATTTTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
53595862 TGATTCTGATTCT
66 TGATTCTGATTCT
53595875 CATTTTGGTT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:53595892 original size:85 final size:85
Alignment explanation
Indices: 53595718--53595895 Score: 259
Period size: 85 Copynumber: 2.1 Consensus size: 85
53595708 TCACATTCTG
*
53595718 ATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTT
1 ATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTC
* **
53595783 TGATTCTGTTACTGATTCTG
66 TGATTCTATTACTGATTCCA
* * *
53595803 ATTCTGATTCTGTCACTTAATTCTGATTCTGATTCTGATTTTGTTACTAATATTGATTCTGATTC
1 ATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTC
* *
53595868 TGATTCTCATT-TTGGTTCCA
66 TGATTCT-ATTACTGATTCCA
53595888 ATTCTGAT
1 ATTCTGAT
53595896 AATGTTTCTT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 81 0.98
86 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTC
TGATTCTATTACTGATTCCA
Found at i:53602202 original size:25 final size:25
Alignment explanation
Indices: 53602174--53602260 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
53602164 TAGCTCGTGA
*
53602174 GAGCTTACCGATTCTCAGCTTATAT
1 GAGCTTACCGATTCTCAACTTATAT
* *
53602199 GAGCTTACCAATT-TCAACTCTAGA-
1 GAGCTTACCGATTCTCAACT-TATAT
** **
53602223 GAGCTTATAGATTCTCAACTCGTAT
1 GAGCTTACCGATTCTCAACTTATAT
53602248 GAGCTTACCGATT
1 GAGCTTACCGATT
53602261 TATAGCTTGT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
24 16 0.33
25 32 0.67
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (25 bp):
GAGCTTACCGATTCTCAACTTATAT
Found at i:53602301 original size:25 final size:25
Alignment explanation
Indices: 53602241--53602303 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
53602231 AGATTCTCAA
* *
53602241 CTCGTATGAGCTTACCGATTTATAG
1 CTCGTATGAGCATACCGATTCATAG
*
53602266 CTTGTGA-GAGCATACCGATTCATAG
1 CTCGT-ATGAGCATACCGATTCATAG
53602291 CTCGTATGAGCAT
1 CTCGTATGAGCAT
53602304 TATGTACAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (25 bp):
CTCGTATGAGCATACCGATTCATAG
Found at i:53605523 original size:4 final size:4
Alignment explanation
Indices: 53605514--53605540 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
53605504 TGTAGGTGTA
53605514 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
53605541 ATATAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:53606545 original size:28 final size:29
Alignment explanation
Indices: 53606494--53606551 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
53606484 CTGATGGGCC
*
53606494 AAATGTGATTTGGTCCTAAGGGGCCATAT
1 AAATGTGATTTGGGCCTAAGGGGCCATAT
53606523 AAATGTGA-TTGGGCCT-AGTGGGCCATAT
1 AAATGTGATTTGGGCCTAAG-GGGCCATAT
53606551 A
1 A
53606552 CAGGTATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 2 0.07
28 17 0.63
29 8 0.30
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (29 bp):
AAATGTGATTTGGGCCTAAGGGGCCATAT
Found at i:53609765 original size:15 final size:16
Alignment explanation
Indices: 53609745--53609774 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53609735 TGGTGCCTTG
53609745 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
53609760 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
53609775 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:53611591 original size:28 final size:27
Alignment explanation
Indices: 53611560--53611622 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
53611550 AGTTACTAGA
*
53611560 ATACCCCTAAGTATGGAAAATTACCATT
1 ATACCCCTAAG-ATGGAAAATGACCATT
* * *
53611588 ATACTCCT-AGGTGTAAAATGACCATT
1 ATACCCCTAAGATGGAAAATGACCATT
53611614 ATACCCCTA
1 ATACCCCTA
53611623 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 20 0.69
27 2 0.07
28 7 0.24
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (27 bp):
ATACCCCTAAGATGGAAAATGACCATT
Found at i:53611766 original size:27 final size:27
Alignment explanation
Indices: 53611726--53611837 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
53611716 AGGAAGTGTC
* * *
53611726 CTGGTGGCTATGCCACAATTATCTATT
1 CTGGTGACTATGCCACAAATATCTGTT
*
53611753 CTGGTGACTCTGCCACAAATATCTGTT
1 CTGGTGACTATGCCACAAATATCTGTT
* * *
53611780 TTGGTGGCTCTGCCACAAATATCTGTAT
1 CTGGTGACTATGCCACAAATATCTGT-T
* *
53611808 CTGGTGACTATGTCAC-ATTATCTGTT
1 CTGGTGACTATGCCACAAATATCTGTT
53611834 CTGG
1 CTGG
53611838 CAACCATGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.75
28 13 0.18
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGACTATGCCACAAATATCTGTT
Found at i:53611830 original size:54 final size:54
Alignment explanation
Indices: 53611727--53611833 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
53611717 GGAAGTGTCC
* *
53611727 TGGTGGCTATGCCACAATTATCTATTCTGGTGACTCTGCCACAAATATCTGTTT
1 TGGTGGCTATGCCACAAATATCTATTCTGGTGACTATGCCACAAATATCTGTTT
* * * *
53611781 TGGTGGCTCTGCCACAAATATCTGTATCTGGTGACTATGTCAC-ATTATCTGTT
1 TGGTGGCTATGCCACAAATATCTAT-TCTGGTGACTATGCCACAAATATCTGTT
53611834 CTGGCAACCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 31 0.67
55 15 0.33
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATATCTATTCTGGTGACTATGCCACAAATATCTGTTT
Found at i:53612363 original size:60 final size:60
Alignment explanation
Indices: 53612294--53612418 Score: 250
Period size: 60 Copynumber: 2.1 Consensus size: 60
53612284 CTTTTATTAT
53612294 GTTTTACTAGAACAGGTATGATATTATCTTAATCGCTGAAACTGATTAGTTTTAGGGCGC
1 GTTTTACTAGAACAGGTATGATATTATCTTAATCGCTGAAACTGATTAGTTTTAGGGCGC
53612354 GTTTTACTAGAACAGGTATGATATTATCTTAATCGCTGAAACTGATTAGTTTTAGGGCGC
1 GTTTTACTAGAACAGGTATGATATTATCTTAATCGCTGAAACTGATTAGTTTTAGGGCGC
53612414 GTTTT
1 GTTTT
53612419 CAATAATAGT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (60 bp):
GTTTTACTAGAACAGGTATGATATTATCTTAATCGCTGAAACTGATTAGTTTTAGGGCGC
Found at i:53616859 original size:27 final size:26
Alignment explanation
Indices: 53616811--53616870 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
53616801 GCGAGGCTGG
*
53616811 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
53616838 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
53616864 CAAATAT
1 CAGATAT
53616871 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53616874 original size:2 final size:2
Alignment explanation
Indices: 53616867--53616898 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
53616857 ACCAGAACAA
53616867 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53616899 GTGGCGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53621779 original size:56 final size:56
Alignment explanation
Indices: 53621698--53621814 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 56
53621688 GGTCAGCTTG
* * *
53621698 CAAGATTAATGTTCGGGTTGGTAGGGAATGTTGTTGGACTAAGGGTAGGCTTGAAA
1 CAAGATTAATGTTCAGGTTGATAGGGAATGTTGTAGGACTAAGGGTAGGCTTGAAA
53621754 CAAGATTAATGTTCAGGTTGATAGGGAATGTTGTAGGACTAAGGGTAGGCTTGAAA
1 CAAGATTAATGTTCAGGTTGATAGGGAATGTTGTAGGACTAAGGGTAGGCTTGAAA
53621810 CAAGA
1 CAAGA
53621815 AATGAAAAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.31, C:0.08, G:0.33, T:0.28
Consensus pattern (56 bp):
CAAGATTAATGTTCAGGTTGATAGGGAATGTTGTAGGACTAAGGGTAGGCTTGAAA
Found at i:53623025 original size:33 final size:33
Alignment explanation
Indices: 53622983--53623051 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
53622973 ATTTAATTCA
53622983 AAACTTTTCAAACACATGCATAGACTCATATTT
1 AAACTTTTCAAACACATGCATAGACTCATATTT
53623016 AAACTTTTCAAACACATGCATAGACTCATATTT
1 AAACTTTTCAAACACATGCATAGACTCATATTT
53623049 AAA
1 AAA
53623052 GACATATAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (33 bp):
AAACTTTTCAAACACATGCATAGACTCATATTT
Found at i:53623330 original size:37 final size:37
Alignment explanation
Indices: 53623280--53623355 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
53623270 CATGATCCAC
53623280 TGGCCTGAATTTAACTTACCTGATGTATTACCAATCA
1 TGGCCTGAATTTAACTTACCTGATGTATTACCAATCA
53623317 TGGCCTGAATTTAACTTACCTGATGTATTACCAATCA
1 TGGCCTGAATTTAACTTACCTGATGTATTACCAATCA
53623354 TG
1 TG
53623356 CATAACAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (37 bp):
TGGCCTGAATTTAACTTACCTGATGTATTACCAATCA
Found at i:53624622 original size:49 final size:48
Alignment explanation
Indices: 53624564--53624792 Score: 235
Period size: 49 Copynumber: 4.6 Consensus size: 48
53624554 ATCTGGTATG
53624564 CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATG-AACCAATTATCCGGTACA
* ** * *
53624613 CGTAGTAGCCTGCACTTAGTACTACACACTTG-ACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACA--TGAACC-AATTATCCGGTACA
* * * * * *
53624663 CGTAGTAGTCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACA--TGAACCAA-TTATCCGGTACA
* * * *
53624714 CATAGCAGCATGCACTTAGTACTATACATGCGACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATG-AACCAATTATCCGGTACA
*
53624763 CATAGTAGCCTACACTTAGTACTACACATG
1 CATAGTAGCCTGCACTTAGTACTACACATG
53624793 TGACCTCACA
Statistics
Matches: 146, Mismatches: 28, Indels: 12
0.78 0.15 0.06
Matches are distributed among these distances:
49 68 0.47
50 45 0.31
51 33 0.23
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (48 bp):
CATAGTAGCCTGCACTTAGTACTACACATGAACCAATTATCCGGTACA
Found at i:53625074 original size:27 final size:27
Alignment explanation
Indices: 53625044--53625097 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
53625034 TCATACAACC
*
53625044 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
**
53625071 CATGTAATAATAATTTGCCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
53625098 TCACATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:53636544 original size:50 final size:50
Alignment explanation
Indices: 53636427--53636709 Score: 300
Period size: 50 Copynumber: 5.6 Consensus size: 50
53636417 TGTGAGAACG
* * *
53636427 CATGTGTAGTACTATGTGCAGGCTACTATGTGCTTAAGACAG-TT-TTAGGTTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTG--T-A-CCAGATTGTTAGGTCA
** *
53636479 TGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCA
* * * * *
53636529 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGCTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGTCA
* ** * **
53636580 CGTGTGTAGTACTAAGTTTAGGCTACTATGTGTATCAGAAGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCA
* * * * *
53636630 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGAACCAGATCGTTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCA
*
53636680 CATGTGTAGTACTAAGTGTAGGCTACTATG
1 CATGTGTAGTACTAAGTGCAGGCTACTATG
53636710 CTTACTAGAG
Statistics
Matches: 194, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
48 3 0.02
49 3 0.02
50 120 0.62
51 40 0.21
52 28 0.14
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCA
Found at i:53636611 original size:26 final size:26
Alignment explanation
Indices: 53636582--53636661 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 26
53636572 TTCGATCACG
53636582 TGTGTAGTACTAAGTTTAGGCTACTA
1 TGTGTAGTACTAAGTTTAGGCTACTA
* * *
53636608 TGTGTA-T-CAGAAGGTTAGG-TCAC-G
1 TGTGTAGTAC-TAAGTTTAGGCT-ACTA
**
53636632 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTTTAGGCTACTA
53636658 TGTG
1 TGTG
53636662 AACCAGATCG
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
24 8 0.20
25 20 0.50
26 12 0.30
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (26 bp):
TGTGTAGTACTAAGTTTAGGCTACTA
Found at i:53636625 original size:101 final size:100
Alignment explanation
Indices: 53636480--53636709 Score: 316
Period size: 101 Copynumber: 2.3 Consensus size: 100
53636470 TTTAGGTTAT
* * **
53636480 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGAAGGTTAGGTCACATGTGTAGTACTAAG
* *
53636545 TGCAGGCTACTATGCGTACCTGATAGCTTCGATCAC
66 TGCAGGCTACTATGCGAACCAGATAG-TTCGATCAC
* * *
53636581 GTGTGTAGTACTAAGTTTAGGCTACTATGTGTATCAGAAGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGAAGGTTAGGTCACATGTGTAGTACTAAG
* * * * *
53636646 TGCAGGCTACTATGTGAACCAGATCGTTTGGTCGC
66 TGCAGGCTACTATGCGAACCAGATAGTTCGATCAC
*
53636681 ATGTGTAGTACTAAGTGTAGGCTACTATG
1 GTGTGTAGTACTAAGTGTAGGCTACTATG
53636710 CTTACTAGAG
Statistics
Matches: 113, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 33 0.29
101 80 0.71
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGAAGGTTAGGTCACATGTGTAGTACTAAG
TGCAGGCTACTATGCGAACCAGATAGTTCGATCAC
Found at i:53636705 original size:151 final size:153
Alignment explanation
Indices: 53636429--53636710 Score: 417
Period size: 151 Copynumber: 1.9 Consensus size: 153
53636419 TGAGAACGCA
* * * *
53636429 TGTGTAGTACTATGTGCAGGCTACTATGTGCTTAAGACAGTTTTAGGTTATGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGCTTAAGACAGTGTTAGGTCACGTGTGTAGTACTAA
* *
53636494 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
66 GTGCAGGCTACTACGTGAACCAGATCGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
53636559 CGTACCTGATAGCTTCGATCACG
131 CGTACCTGATAGCTTCGATCACG
** *
53636582 TGTGTAGTACTAAGTTTAGGCTACTATGTG-TATCAGA-AG-GTTAGGTCACGTGTGTAGTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGCT-TAAGACAGTGTTAGGTCACGTGTGTAGTACTA
* * * *
53636644 AGTGCAGGCTACTATGTGAACCAGATCGTTTGGTCGCATGTGTAGTACTAAGTGTAGGCTACTAT
65 AGTGCAGGCTACTACGTGAACCAGATCGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTAT
53636709 GC
130 GC
53636711 TTACTAGAGA
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
151 81 0.70
152 3 0.03
153 31 0.27
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (153 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGCTTAAGACAGTGTTAGGTCACGTGTGTAGTACTAA
GTGCAGGCTACTACGTGAACCAGATCGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
CGTACCTGATAGCTTCGATCACG
Found at i:53645654 original size:32 final size:32
Alignment explanation
Indices: 53645618--53645678 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
53645608 GTCACAGCCC
*
53645618 ATAACAGAATCAATTGGGCATAA-CCCAATCCA
1 ATAACAGAA-CAAGTGGGCATAAGCCCAATCCA
*
53645650 ATAACAGAACAAGTGGGCCTAAGCCCAAT
1 ATAACAGAACAAGTGGGCATAAGCCCAAT
53645679 ATAGTGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.43, C:0.25, G:0.16, T:0.16
Consensus pattern (32 bp):
ATAACAGAACAAGTGGGCATAAGCCCAATCCA
Found at i:53655804 original size:29 final size:29
Alignment explanation
Indices: 53655771--53655930 Score: 178
Period size: 29 Copynumber: 5.6 Consensus size: 29
53655761 GTGACGAGAT
53655771 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
53655800 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
53655829 TGGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
53655857 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
53655886 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
53655915 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
53655931 GGCTTAAATT
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 25 0.22
29 89 0.78
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:53655841 original size:58 final size:57
Alignment explanation
Indices: 53655771--53655930 Score: 185
Period size: 57 Copynumber: 2.8 Consensus size: 57
53655761 GTGACGAGAT
* * *
53655771 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAA-ATATGGCACTATGTGTGCGAGCTGGAAAAATA
* * *
53655829 TGGCACTAAGTGTGCATGCTGGAAAATATGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAATATGGCACTATGTGTGCGAGCTGGAAAAATA
* ** * * **
53655886 CGGCACTGGGTGTGCGAGCTCGAAGGGTATGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCGTGCTGGAA-AATATGGCACTATGTGTGCG
53655931 GGCTTAAATT
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
57 45 0.53
58 40 0.47
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.25
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGTGCTGGAAAATATGGCACTATGTGTGCGAGCTGGAAAAATA
Found at i:53662752 original size:29 final size:29
Alignment explanation
Indices: 53662719--53662840 Score: 174
Period size: 29 Copynumber: 4.2 Consensus size: 29
53662709 GTGACGAGAT
*
53662719 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53662748 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53662777 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * *
53662806 TGACACTATGTGTGCAAGCTGGAAA-ATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53662834 CGGCACT
1 TGGCACT
53662841 GGGTGTGGAG
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
28 8 0.09
29 78 0.91
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:53670607 original size:29 final size:29
Alignment explanation
Indices: 53670574--53670647 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
53670564 CCTTCGAGCT
53670574 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
53670603 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
53670632 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
53670648 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:53670608 original size:57 final size:58
Alignment explanation
Indices: 53670516--53670647 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
53670506 ATACTCGATT
* * * * *
53670516 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACAC-AAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACTAAGTGCCATACACTTCCAGC
* * * * * *
53670573 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACTAAGTGCCATACACTTCCAGC
*
53670631 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
53670648 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 27 0.44
58 30 0.49
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACTAAGTGCCATACACTTCCAGC
Found at i:53678416 original size:28 final size:29
Alignment explanation
Indices: 53678349--53678449 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
53678339 ATAGTGAATC
*
53678349 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
53678378 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
53678406 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
53678436 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53678450 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:53686121 original size:33 final size:33
Alignment explanation
Indices: 53686039--53686125 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 33
53686029 GGCTTTAGCT
*
53686039 CATTTCAGAATCA-TAAACAGTGTGGGCCTGAGCC
1 CATTTCAGAATCAGT--ACAGTGTGGGCCTAAGCC
*
53686073 CATTTTAGTAA-CAGTATCAGTG-GGGCCTAAGCC
1 CATTTCAG-AATCAGTA-CAGTGTGGGCCTAAGCC
*
53686106 CATTACAGAATCAGTACAGT
1 CATTTCAGAATCAGTACAGT
53686126 ATGCAATCAG
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
32 6 0.13
33 22 0.49
34 14 0.31
35 3 0.07
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (33 bp):
CATTTCAGAATCAGTACAGTGTGGGCCTAAGCC
Found at i:53689072 original size:12 final size:12
Alignment explanation
Indices: 53689055--53689079 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53689045 ATGTAAGTGA
53689055 TCTTGATGATTT
1 TCTTGATGATTT
53689067 TCTTGATGATTT
1 TCTTGATGATTT
53689079 T
1 T
53689080 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:53689864 original size:47 final size:45
Alignment explanation
Indices: 53689796--53690150 Score: 288
Period size: 47 Copynumber: 7.6 Consensus size: 45
53689786 TGATTTGTAC
* *
53689796 GCCAGTGTAATACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGA
* * *
53689842 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-TATCCAGATGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGAGA
* * * *
53689890 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGGGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGA
* * * *
53689936 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACATATGAGA
* * *
53689984 GCCAGAT-TAAGATATGTCAGGGACATGCATCGGCCTCGATA-GAGATA
1 GCCAG-TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGAG--A
* * * * *
53690031 GCCAGTGTAAGACATGTCTGGGACACGCATCGGCTA-A-AAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATG-AGA
* * * *
53690075 GCTAGTGTAAGACATGTCTGGTACATGCATCAGCACGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-G-GC-CACATATGAGA
53690123 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
53690151 GAATCGGCAA
Statistics
Matches: 244, Mismatches: 43, Indels: 41
0.74 0.13 0.12
Matches are distributed among these distances:
44 29 0.12
45 8 0.03
46 45 0.18
47 84 0.34
48 56 0.23
49 22 0.09
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGA
Found at i:53689960 original size:94 final size:92
Alignment explanation
Indices: 53689799--53690157 Score: 390
Period size: 94 Copynumber: 3.8 Consensus size: 92
53689789 TTTGTACGCC
* * * *
53689799 AGTGTAATACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGAGAGCCAGTGTAAGACCATGTCTGG
* *
53689864 GACATGGCATCGGTATCCAGATGAGGGCT
65 GACATGGCATCGGTA-CAAGATGAGTGCT
* *
53689893 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGGGAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGAGAGCCAGTGTAAGACCATGTCTGG
* *
53689958 GACATGGCATCGGCACAGAGATGAGTGCC
65 GACATGGCATCGGTACA-AGATGAGTGCT
* * *
53689987 AGAT-TAAGATATGTCAGGGACATGCATCGGCC-TCGATA-GAGATAGCCAGTGTAAGA-CATGT
1 AG-TGTAAGACATGTCTGGGACATGCATCAGCCAT--ATATGAG--AGCCAGTGTAAGACCATGT
* * *
53690048 CTGGGACA-CGCATCGGCTAAAAG-T-TGTGCT
61 CTGGGACATGGCATCGG-TACAAGATGAGTGCT
*
53690078 AGTGTAAGACATGTCTGGTACATGCATCAGCACGCATATATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATATATGAGAGCCAGTGTAAGACCATGTCT
*
53690143 GGGACATGGAATCGG
63 GGGACATGGCATCGG
53690158 CAATATATCC
Statistics
Matches: 224, Mismatches: 26, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
90 1 0.00
91 28 0.12
92 14 0.06
93 30 0.13
94 135 0.60
95 16 0.07
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATATATGAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGTACAAGATGAGTGCT
Found at i:53690157 original size:141 final size:141
Alignment explanation
Indices: 53689796--53690159 Score: 372
Period size: 141 Copynumber: 2.6 Consensus size: 141
53689786 TGATTTGTAC
* *
53689796 GCCAGTGTAATACATGTCTGGGACATGCTTCGGC-CACAT-TATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-CATATATGAGAGCCAGTGTAAGACCATG
* * * *
53689859 TCTGGGACATGGCATCGGTATCCAGATGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
65 TCTGGGACATGGCATCGGCATCCAGATGAGAGCCAGTGTAAGACATGTCTGGGACACGCATCAGC
**
53689924 CATATTATGGGA
130 CATAAAATGGGA
* * * * *
53689936 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA-CAGAGATGAGTGCCAGAT-TAAGA-TA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACCATATATGAGAGCCAG-TGTAAGACCA
* *
53689998 TGTCAGGGACAT-GCATCGGCCT-C-GATAGAGATAGCCAGTGTAAGACATGTCTGGGACACGCA
63 TGTCTGGGACATGGCATCGGCATCCAGAT-GAG--AGCCAGTGTAAGACATGTCTGGGACACGCA
* * *
53690060 TC-GGC-TAAAA-GTTGT
125 TCAGCCATAAAATG-GGA
* * *
53690075 GCTAGTGTAAGACATGTCTGGTACATGCATCAGCACGCATATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-CATATATGAGAGCCAGTGTAAGACCATG
*
53690140 TCTGGGACATGGAATCGGCA
65 TCTGGGACATGGCATCGGCA
53690160 ATATATCCCA
Statistics
Matches: 181, Mismatches: 29, Indels: 27
0.76 0.12 0.11
Matches are distributed among these distances:
137 8 0.04
138 17 0.09
139 37 0.20
140 33 0.18
141 63 0.35
142 22 0.12
143 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACCATATATGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCATCCAGATGAGAGCCAGTGTAAGACATGTCTGGGACACGCATCAGCC
ATAAAATGGGA
Found at i:53691038 original size:44 final size:44
Alignment explanation
Indices: 53690975--53691064 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
53690965 GTGTCATAAA
*
53690975 GTCAGTATGCATGCTAGTGGTACACGAGCAAGAGACATGGTCGT
1 GTCAGTATGCATGCTAGTGGTACACGAGCAAGAGACATGGCCGT
53691019 GTCAGTATGCATGCTAGTGGTACACGAGCAAGAGACATGGCCGT
1 GTCAGTATGCATGCTAGTGGTACACGAGCAAGAGACATGGCCGT
53691063 GT
1 GT
53691065 GTCTCGGCCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (44 bp):
GTCAGTATGCATGCTAGTGGTACACGAGCAAGAGACATGGCCGT
Found at i:53701949 original size:42 final size:43
Alignment explanation
Indices: 53701872--53701961 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 43
53701862 TCCTAGATGT
* * **
53701872 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTAACATGTAAATCAATATCGATGCCAATGTCCCAGACAG
*
53701915 GGTCTAACATG-AAATCAGATAT-GATGCCAATGTCCCAGACAT
1 GGTCTAACATGTAAATCA-ATATCGATGCCAATGTCCCAGACAG
53701957 GGTCT
1 GGTCT
53701962 TATACGTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 27 0.66
43 14 0.34
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTAACATGTAAATCAATATCGATGCCAATGTCCCAGACAG
Found at i:53702611 original size:48 final size:48
Alignment explanation
Indices: 53702555--53702651 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
53702545 CAGACTGAAA
53702555 TGATCTACTCAAAAATCTCTTTCCAACATCTCTGGCTTCAA-AATCAAC
1 TGATCTACTCAAAAATCTCTTTCCAACATCTCTGGCTT-AAGAATCAAC
* *
53702603 TGATCTACTCGAAATTCTCTTTCCAACATCTCTGGCTTAAGAATCAAC
1 TGATCTACTCAAAAATCTCTTTCCAACATCTCTGGCTTAAGAATCAAC
53702651 T
1 T
53702652 TTTCTTTTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 2 0.04
48 44 0.96
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (48 bp):
TGATCTACTCAAAAATCTCTTTCCAACATCTCTGGCTTAAGAATCAAC
Found at i:53713490 original size:29 final size:28
Alignment explanation
Indices: 53713458--53713560 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
53713448 GTGACGAGAT
* *
53713458 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
53713487 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
53713516 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
53713545 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53713561 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:53721289 original size:29 final size:28
Alignment explanation
Indices: 53721257--53721359 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
53721247 GTGACGAGAT
* *
53721257 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
53721286 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
53721315 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
53721344 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53721360 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:53722969 original size:27 final size:27
Alignment explanation
Indices: 53722890--53722976 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
53722880 TAAGTATACC
* * ** *
53722890 TGACTATTTTGCCCTTATGAGGTAAAA
1 TGACTGTTTTGCCCTTTTTTGGTAAGA
* *
53722917 TAACTGTTTTGCCTTTTTTTGGTAAGA
1 TGACTGTTTTGCCCTTTTTTGGTAAGA
53722944 TGACTGTTTTGCCCTTTTTTGGTAAGA
1 TGACTGTTTTGCCCTTTTTTGGTAAGA
53722971 TGACTG
1 TGACTG
53722977 ATTTACCCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.45
Consensus pattern (27 bp):
TGACTGTTTTGCCCTTTTTTGGTAAGA
Found at i:53733510 original size:40 final size:40
Alignment explanation
Indices: 53733465--53733652 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
53733455 ATAACCACAA
* *
53733465 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * *
53733505 GCACAAATGCCTTCGAGTCTTAGCTCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
53733545 GCACTAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
53733585 GTACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
53733625 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
53733653 GTATCATTCA
Statistics
Matches: 128, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 126 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:53733568 original size:80 final size:78
Alignment explanation
Indices: 53733445--53733656 Score: 275
Period size: 80 Copynumber: 2.7 Consensus size: 78
53733435 TCTTCGGAAT
*
53733445 TTAGCCGGATATAACCACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCGGATATAA-CACTAGCACTAA-TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
53733509 AAATGCCTTCGAGTC
64 AAATGCCTTCGAGTC
* * *
53733524 TTAGCTCGGATATAACAACTCGCACTAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGTAC
1 TTAGC-CGGATATAAC-ACTAGCACTAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
53733589 AAATGCCTTCGGGTC
64 AAATGCCTTCGAGTC
* * *
53733604 TTAACCCGGATATAATCACTAGCA-TAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TT-AGCCGGATATAA-CACTAGCACT-AATGCCTTCGGGTCTTAACCCGGGTAT
53733657 CATTCAATTG
Statistics
Matches: 117, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
79 7 0.06
80 105 0.90
81 5 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (78 bp):
TTAGCCGGATATAACACTAGCACTAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAA
ATGCCTTCGAGTC
Found at i:53742766 original size:9 final size:9
Alignment explanation
Indices: 53742752--53742776 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
53742742 CTGTACCACA
53742752 AAACACATT
1 AAACACATT
53742761 AAACACATT
1 AAACACATT
53742770 AAACACA
1 AAACACA
53742777 ACCTAACTTT
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:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (9 bp):
AAACACATT
Done.