Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 203 of 427
Found at i:56857309 original size:24 final size:24
Alignment explanation
Indices: 56857282--56857426 Score: 281
Period size: 24 Copynumber: 6.0 Consensus size: 24
56857272 GCTTATTATG
*
56857282 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
56857306 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
56857330 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
56857354 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
56857378 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
56857402 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
56857426 A
1 A
56857427 CTTTCTACCC
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 120 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:56861745 original size:40 final size:40
Alignment explanation
Indices: 56861686--56861893 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
56861676 CAATTGAATG
* * * *
56861686 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
56861726 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
56861766 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
56861806 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
56861846 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
56861886 ATATCCGG
1 ATATCCGG
56861894 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:56861824 original size:80 final size:80
Alignment explanation
Indices: 56861687--56861893 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
56861677 AATTGAATGA
* * ** * * *
56861687 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
56861752 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
56861765 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
56861830 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
56861847 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
56861894 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:56869890 original size:40 final size:40
Alignment explanation
Indices: 56869831--56870038 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
56869821 CAATTGAATG
* * * *
56869831 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
56869871 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
56869911 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
56869951 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
56869991 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
56870031 ATATCCGG
1 ATATCCGG
56870039 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:56869969 original size:80 final size:80
Alignment explanation
Indices: 56869832--56870038 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
56869822 AATTGAATGA
* * ** * * *
56869832 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
56869897 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
56869910 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
56869975 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
56869992 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
56870039 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:56872886 original size:39 final size:40
Alignment explanation
Indices: 56872761--56872886 Score: 211
Period size: 40 Copynumber: 3.2 Consensus size: 40
56872751 GGACTAAGAT
*
56872761 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
56872801 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
*
56872841 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
56872880 CCGAAGG
1 CCGAAGG
56872887 TACTTGGGTT
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
39 15 0.18
40 66 0.80
41 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
Found at i:56874829 original size:42 final size:42
Alignment explanation
Indices: 56874773--56874880 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
56874763 AATGCCAACA
* * *
56874773 TCCCAAACATGGTCTTACATGTAATCAAATATC-ATGCC-ACTG
1 TCCCAGACATGGTCTTACAAGAAATCAAATA-CGATGCCTA-TG
* *
56874815 TCCCAGACAGGGTCTTACAAGAAATCATATACGATGCCTATG
1 TCCCAGACATGGTCTTACAAGAAATCAAATACGATGCCTATG
* *
56874857 TCCCAGACATGGTTTTACACGAAA
1 TCCCAGACATGGTCTTACAAGAAA
56874881 CCACATGTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 54 0.96
43 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACAAGAAATCAAATACGATGCCTATG
Found at i:56877880 original size:40 final size:40
Alignment explanation
Indices: 56877825--56877955 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
56877815 AGGTGCCGAA
*
56877825 GTGCAAACAAGGACACTAAAGTGTATTCAGTGGCACAGTT
1 GTGCAAACAAGGACACTAAAGTGTATTCAGAGGCACAGTT
* * * *
56877865 GTGCAAACAGGGACACTAAACTGTATTAAGGGGCACAGTT
1 GTGCAAACAAGGACACTAAAGTGTATTCAGAGGCACAGTT
** *
56877905 GTGCAAACAAGGACAC-CGAGTTGTATTCAGAGGCATAGTT
1 GTGCAAACAAGGACACTAAAG-TGTATTCAGAGGCACAGTT
56877945 GTGCAAACAAG
1 GTGCAAACAAG
56877956 AGCACTTCTT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 78 0.99
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.21
Consensus pattern (40 bp):
GTGCAAACAAGGACACTAAAGTGTATTCAGAGGCACAGTT
Found at i:56883375 original size:25 final size:25
Alignment explanation
Indices: 56883347--56883406 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
56883337 AAAAGCGCTA
*
56883347 TGCCCCAGTTTACCGAAAAGGACTT
1 TGCCCCAGTTTACCAAAAAGGACTT
* * *
56883372 TGCCCCATTTTATCAAAAAGGGCTT
1 TGCCCCAGTTTACCAAAAAGGACTT
56883397 TGCCCCAGTT
1 TGCCCCAGTT
56883407 ATTAAAAGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (25 bp):
TGCCCCAGTTTACCAAAAAGGACTT
Found at i:56883419 original size:24 final size:24
Alignment explanation
Indices: 56883337--56883413 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 24
56883327 GAGAAAGTGC
* * * *
56883337 AAAAGCGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAG-TTATCA
* *
56883362 AAAAGGACTTTGCCCCATTTTATCA
1 AAAAGGGCTTTGCCCCA-GTTATCA
*
56883387 AAAAGGGCTTTGCCCCAGTTATTA
1 AAAAGGGCTTTGCCCCAGTTATCA
56883411 AAA
1 AAA
56883414 GAGGCTAGGC
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
24 8 0.19
25 34 0.81
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATCA
Found at i:56884244 original size:38 final size:38
Alignment explanation
Indices: 56884184--56884260 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
56884174 AGCCTTCATG
* * *
56884184 GCTCACCTCCTCTGTTTTGGATACCTACTTGGTGCACA
1 GCTCACCTCCTCTATTTCGGATACCTACCTGGTGCACA
56884222 GCTCACCTCCTCTATTTCGGATACCTACCTGGTGCACA
1 GCTCACCTCCTCTATTTCGGATACCTACCTGGTGCACA
56884260 G
1 G
56884261 TTTCCATTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.17, C:0.34, G:0.18, T:0.31
Consensus pattern (38 bp):
GCTCACCTCCTCTATTTCGGATACCTACCTGGTGCACA
Found at i:56891270 original size:25 final size:25
Alignment explanation
Indices: 56891242--56891301 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
56891232 AAAAGCACTA
*
56891242 TGCCCCAGTTTACCGAAAAGGGCTT
1 TGCCCCAGTTTACCAAAAAGGGCTT
* *
56891267 TGCCCCATTTTATCAAAAAGGGCTT
1 TGCCCCAGTTTACCAAAAAGGGCTT
56891292 TGCCCCAGTT
1 TGCCCCAGTT
56891302 ATTAAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (25 bp):
TGCCCCAGTTTACCAAAAAGGGCTT
Found at i:56891303 original size:24 final size:24
Alignment explanation
Indices: 56891242--56891308 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
56891232 AAAAGCACTA
* *
56891242 TGCCCCAGTTTACCGAAAAGGGCTT
1 TGCCCCAG-TTATCAAAAAGGGCTT
*
56891267 TGCCCCATTTTATCAAAAAGGGCTT
1 TGCCCCA-GTTATCAAAAAGGGCTT
*
56891292 TGCCCCAGTTATTAAAA
1 TGCCCCAGTTATCAAAA
56891309 TAGGCTAGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.22
25 28 0.78
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (24 bp):
TGCCCCAGTTATCAAAAAGGGCTT
Found at i:56893859 original size:46 final size:44
Alignment explanation
Indices: 56893746--56894044 Score: 160
Period size: 46 Copynumber: 6.5 Consensus size: 44
56893736 TATGAGAGCT
* * * *
56893746 AGTGTAAGACCATGTCTGGGACATGGCATTGGTATTGAGACGA-ATGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTCTCG-G--GATATGCC
56893794 AGTGTAAGACATGTCTGGGACATGCATCGGTCTCGGGATATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGTCTCGGGATAT--GCC
* * * * * *
56893840 AATGTAAGACATGTTTGGGACATGGATCGG-CTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGTCT-CGGGATATGCC
* * *
56893884 AGTGTAAGACCATGTTTGGGACATGGCATCGGT-AC-GGATATGTGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTCTCGGGATA----TGCC
** * * *
56893932 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATCGTGA-AAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-G-GTC-TCGGGATATGCC
* ** * **
56893978 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGATATGTGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTCTCGGGATATGCC
*
56894023 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
56894045 CGGTATCGAC
Statistics
Matches: 201, Mismatches: 31, Indels: 42
0.73 0.11 0.15
Matches are distributed among these distances:
43 2 0.01
44 30 0.15
45 30 0.15
46 67 0.33
47 43 0.21
48 25 0.12
50 2 0.01
51 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGTCTCGGGATATGCC
Found at i:56893908 original size:138 final size:139
Alignment explanation
Indices: 56893746--56894044 Score: 367
Period size: 138 Copynumber: 2.2 Consensus size: 139
56893736 TATGAGAGCT
* **
56893746 AGTGTAAGACCATGTCTGGGACATGGCATTGGTATTGAGACGAATGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGAGACGAATGCTAGTGTAAGACATGTCTG
** *
56893811 GGACATGCATC-G-GTC-TCGGGATATAAGCCAATGTAAGA-CATGTTTGGGACATGG-ATCGGC
66 GGACATGCATCAGCCACATCGGG--A-AAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGC
56893871 TACGAGATGTGTC
128 T-CGAGATGTGTC
* * * **
56893884 AGTGTAAGACCATGTTTGGGACATGGCATCGGTACGGATATGTGTGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGAGACGAATGCTAGTGTAAGACATGTCTG
* * * *
56893949 GGACATGCATCAGCCACATCGTGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTG
66 GGACATGCATCAGCCACATCGGGAAAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTCG
* *
56894014 ATATGTGTT
131 AGATGTGTC
56894023 AGTGTAAGACC-TGTCTGGGACA
1 AGTGTAAGACCATGTCTGGGACA
56894045 CGGTATCGAC
Statistics
Matches: 138, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
138 90 0.65
139 36 0.26
140 8 0.06
141 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (139 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGAGACGAATGCTAGTGTAAGACATGTCTG
GGACATGCATCAGCCACATCGGGAAAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTCG
AGATGTGTC
Found at i:56898863 original size:40 final size:40
Alignment explanation
Indices: 56898818--56898947 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
56898808 CGGAATACAA
56898818 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
56898858 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
56898898 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
56898938 CCGGATATAA
1 CCGGATATAA
56898948 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:56900688 original size:78 final size:78
Alignment explanation
Indices: 56900559--56900710 Score: 295
Period size: 78 Copynumber: 1.9 Consensus size: 78
56900549 AAAATAAATT
56900559 TTAAATTATTTTTATGCCTCGGTTTTGTGGTCCAGAAACCACATTCCGACTAGGGTCAATTTTGG
1 TTAAATTATTTTTATGCCTCGGTTTTGTGGTCCAGAAACCACATTCCGACTAGGGTCAATTTTGG
56900624 GCTGTCACAACTC
66 GCTGTCACAACTC
*
56900637 TTAAATTATTTTTATGCCTCGGTTTTGTGGTCCCGAAACCACATTCCGACTAGGGTCAATTTTGG
1 TTAAATTATTTTTATGCCTCGGTTTTGTGGTCCAGAAACCACATTCCGACTAGGGTCAATTTTGG
56900702 GCTGTCACA
66 GCTGTCACA
56900711 CCGAGGGTTC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (78 bp):
TTAAATTATTTTTATGCCTCGGTTTTGTGGTCCAGAAACCACATTCCGACTAGGGTCAATTTTGG
GCTGTCACAACTC
Found at i:56904429 original size:45 final size:44
Alignment explanation
Indices: 56904272--56904445 Score: 206
Period size: 45 Copynumber: 3.8 Consensus size: 44
56904262 GTTTGGGCAT
56904272 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * * *
56904317 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
56904365 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
56904410 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56904446 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 37 0.34
46 32 0.29
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56907396 original size:15 final size:15
Alignment explanation
Indices: 56907376--56907444 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
56907366 GTATCTTGGG
56907376 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
56907391 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
56907406 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
56907421 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
56907436 TTTCTTTAT
1 TTTCTTTAT
56907445 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:56907445 original size:30 final size:30
Alignment explanation
Indices: 56907367--56907454 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
56907357 CATAGTATCG
* * * *
56907367 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
56907397 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
56907427 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
56907455 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:56915838 original size:6 final size:6
Alignment explanation
Indices: 56915820--56915908 Score: 58
Period size: 6 Copynumber: 14.5 Consensus size: 6
56915810 AAGAAACATT
* * * *
56915820 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAAA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
56915869 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA ATC
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATC
56915909 GGTATCAGGT
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 5 0.08
6 52 0.80
7 5 0.08
8 3 0.05
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:56915894 original size:25 final size:24
Alignment explanation
Indices: 56915866--56915912 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
56915856 TGACAGAATC
* *
56915866 AGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATC-GGTAAT
56915891 AGAATCAAAATCAGAATCGGTA
1 AGAATCAAAATCAGAATCGGTA
56915913 TCAGGTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (24 bp):
AGAATCAAAATCAGAATCGGTAAT
Found at i:56915895 original size:31 final size:31
Alignment explanation
Indices: 56915829--56915939 Score: 123
Period size: 31 Copynumber: 3.5 Consensus size: 31
56915819 TATCAGAACT
* * ** * *
56915829 AGAATCAGAATCAAAATCAAAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
56915860 AGAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
56915891 AGAATCAAAATCAGAATCGGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
56915922 AAAATCAAAATTCAGAAT
1 AGAATCAAAA-TCAGAAT
56915940 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
31 62 0.90
32 7 0.10
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:56916149 original size:28 final size:27
Alignment explanation
Indices: 56916076--56916177 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
56916066 GCTCAGTTAT
* *
56916076 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
56916103 CAGATATTGTGGCAGAGCCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
56916130 CAGATATTTGTGGCAGAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAGATA
*
56916158 CAGAT-TTGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
56916178 TTAACAGAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
26 14 0.20
27 31 0.44
28 25 0.36
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:56916361 original size:22 final size:22
Alignment explanation
Indices: 56916336--56916400 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
56916326 GCAAATACGT
* *
56916336 TTGGCATACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
56916358 TTGGCACAAAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
56916380 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
56916401 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:56916892 original size:27 final size:26
Alignment explanation
Indices: 56916819--56917174 Score: 385
Period size: 27 Copynumber: 13.3 Consensus size: 26
56916809 AGGGGCAAAA
* * *
56916819 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTAT-T
* *
56916845 CGGTAATTCCACCCTACAGGGGTATT
1 TGGTAATTCTACCCTACAGGGGTATT
* * *
56916871 TAGTAATTCTACCCAACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTA-TT
*
56916898 TGGTAATTCTACCCTACAGGGG-AAT
1 TGGTAATTCTACCCTACAGGGGTATT
*
56916923 TGCGATAATTCTACCCTACAAGGGTATT
1 TG-G-TAATTCTACCCTACAGGGGTATT
* *
56916951 TCGATAATTCTACACTACAGGGGTATT
1 T-GGTAATTCTACCCTACAGGGGTATT
*
56916978 CCGGTAATTCTACCCTACAGGGGTATT
1 -TGGTAATTCTACCCTACAGGGGTATT
*
56917005 CCGGTAATTCTACCCTACAGGGGTATT
1 -TGGTAATTCTACCCTACAGGGGTATT
**
56917032 CTGGTAATTCTACCCTACAAAGGTATT
1 -TGGTAATTCTACCCTACAGGGGTATT
56917059 TCGGTAATTCTACCCTACAGGGGTATT
1 T-GGTAATTCTACCCTACAGGGGTATT
* *
56917086 CCGATAATT-TACCCTACAGGGGTATT
1 -TGGTAATTCTACCCTACAGGGGTATT
*
56917112 TCGATAATTCTACCCTACAGGGGTATT
1 T-GGTAATTCTACCCTACAGGGGTATT
* *
56917139 TCGGTATTTCTACCCTACAAGGGTATT
1 T-GGTAATTCTACCCTACAGGGGTATT
56917166 TCGGTAATT
1 T-GGTAATT
56917175 TTGTAAATCG
Statistics
Matches: 285, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
25 3 0.01
26 61 0.21
27 217 0.76
28 3 0.01
29 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (26 bp):
TGGTAATTCTACCCTACAGGGGTATT
Found at i:56916948 original size:54 final size:54
Alignment explanation
Indices: 56916820--56917174 Score: 491
Period size: 54 Copynumber: 6.6 Consensus size: 54
56916810 GGGGCAAAAT
* * * * *
56916820 GGTAATTTTACCCCACAA-GGTATCTCGGTAATTCCACCCTACAGGGGTATT-T
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCC
* * * * *
56916872 AGTAATTCTACCCAACAAGGGTATTTTGGTAATTCTACCCTACAGGGGAATTGC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCC
* * *
56916926 GATAATTCTACCCTACAAGGGTATTTCGATAATTCTACACTACAGGGGTATTCC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCC
* * *
56916980 GGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCC
*
56917034 GGTAATTCTACCCTACAAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCC
* * * *
56917088 GATAATT-TACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCC
*
56917141 GGTATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATT
56917175 TTGTAAATCG
Statistics
Matches: 265, Mismatches: 35, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
52 15 0.06
53 76 0.29
54 174 0.66
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCC
Found at i:56916985 original size:81 final size:81
Alignment explanation
Indices: 56916848--56917174 Score: 462
Period size: 81 Copynumber: 4.1 Consensus size: 81
56916838 GGTATCTCGG
* * * *
56916848 TAATTCCACCCTACAGGGGTATTTAG-TAATTCTACCCAACAAGGGTATTTTGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
* *
56916912 TACAGGGGAATTGCGA
66 TACAGGGGTATTCCGA
* * * *
56916928 TAATTCTACCCTACAAGGGTATTTCGATAATTCTACACTACAGGGGTATTCCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
*
56916993 TACAGGGGTATTCCGG
66 TACAGGGGTATTCCGA
* *
56917009 TAATTCTACCCTACAGGGGTA-TTCTGGTAATTCTACCCTACAAAGGTATTTCGGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTC-GATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
56917073 CTACAGGGGTATTCCGA
65 CTACAGGGGTATTCCGA
* *
56917090 TAATT-TACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
* * *
56917154 TACAAGGGTATTTCGG
66 TACAGGGGTATTCCGA
56917170 TAATT
1 TAATT
56917175 TTGTAAATCG
Statistics
Matches: 219, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
80 95 0.43
81 124 0.57
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
TACAGGGGTATTCCGA
Found at i:56920040 original size:9 final size:9
Alignment explanation
Indices: 56920026--56920054 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
56920016 GTAAAAGAAA
56920026 AGAAAAATG
1 AGAAAAATG
56920035 AGAAAAATG
1 AGAAAAATG
56920044 AGAAAAA-G
1 AGAAAAATG
56920052 AGA
1 AGA
56920055 GGAAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (9 bp):
AGAAAAATG
Found at i:56920110 original size:15 final size:14
Alignment explanation
Indices: 56920069--56920116 Score: 64
Period size: 13 Copynumber: 3.5 Consensus size: 14
56920059 AAACAACAAA
56920069 AAAAAG-TGAAAAG
1 AAAAAGATGAAAAG
*
56920082 AAAATGA-GAAAAG
1 AAAAAGATGAAAAG
56920095 AAAAAGATGAAAAAG
1 AAAAAGATG-AAAAG
56920110 AAAAAGA
1 AAAAAGA
56920117 ACGTGAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 17 0.57
14 1 0.03
15 12 0.40
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (14 bp):
AAAAAGATGAAAAG
Found at i:56929065 original size:44 final size:42
Alignment explanation
Indices: 56929014--56929175 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
56929004 GATAATGTGT
*
56929014 TTTTGTGTAAGACCATGTTTGGGACATTGGCATC-AACTTATGA
1 TTTTGTGTAAGACCATGTCTGGGACATTGGCATCGAA-TT-TGA
* *
56929057 TTTATGTGT-AGTACCATGTCTGGGACATCGGCATCGTATTTGA
1 TTT-TGTGTAAG-ACCATGTCTGGGACATTGGCATCGAATTTGA
* * * * *
56929100 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCGTTGATATTTGA
1 TTTTGTGTAAGACCATGTCTGGGACATTGGCATCGA-ATTTGA
*** * *
56929143 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTTTGTGTAAGACCATGTCTGGGACATTGGCAT
56929176 TATACGAGCT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 23 0.24
43 45 0.46
44 28 0.29
45 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (42 bp):
TTTTGTGTAAGACCATGTCTGGGACATTGGCATCGAATTTGA
Found at i:56933299 original size:31 final size:31
Alignment explanation
Indices: 56933258--56933321 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
56933248 CCTTTTCATA
*
56933258 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
56933289 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
56933320 TT
1 TT
56933322 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:56933567 original size:24 final size:24
Alignment explanation
Indices: 56933529--56933704 Score: 248
Period size: 24 Copynumber: 7.4 Consensus size: 24
56933519 CTAGAGGCCT
* *
56933529 AGCCTCTTTTAATAACTAGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
56933554 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
56933578 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
* *
56933601 AGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
56933625 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
56933649 AGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56933673 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56933696 AGCCCTTTT
1 AGCCCTTTT
56933705 TCACTTCCTC
Statistics
Matches: 137, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
23 42 0.31
24 91 0.66
25 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:56933589 original size:47 final size:47
Alignment explanation
Indices: 56933536--56933704 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
56933526 CCTAGCCTCT
* * * *
56933536 TTTAATAACTAGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
*
56933583 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
*
56933630 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
56933678 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
56933705 TCACTTCCTC
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
47 68 0.60
48 45 0.40
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
Found at i:56933615 original size:71 final size:72
Alignment explanation
Indices: 56933515--56933705 Score: 271
Period size: 71 Copynumber: 2.7 Consensus size: 72
56933505 GCTTTATCAT
* *
56933515 ATAACTAGAGGCCT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTAG-GGCATAAGCC-CTTTTAATAACTAGGGCATAAGCCCTTTTTATAACTGGGGCATAA
56933579 GCCC-TTTA
64 GCCCTTTTA
* * * *
56933587 ATAACTGGGGCGTAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTAGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
56933652 CCTTTTG
66 CCTTTTA
*
56933659 ATAACTAGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTAGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTTT
56933706 CACTTCCTCC
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
71 75 0.71
72 31 0.29
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (72 bp):
ATAACTAGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:56933777 original size:9 final size:9
Alignment explanation
Indices: 56933763--56933839 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
56933753 ATCTCGTGTG
56933763 CATATCATA
1 CATATCATA
*
56933772 CATATCATGTG
1 CATATCA--TA
56933783 CATATCATA
1 CATATCATA
* *
56933792 CATGTCATGTG
1 CATATCA--TA
56933803 CATATCATA
1 CATATCATA
*
56933812 CATATCATGTG
1 CATATCA--TA
56933823 CATATCATA
1 CATATCATA
56933832 CATATCAT
1 CATATCAT
56933840 GTGCATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:56933782 original size:20 final size:20
Alignment explanation
Indices: 56933759--56933845 Score: 165
Period size: 20 Copynumber: 4.3 Consensus size: 20
56933749 GAACATCTCG
56933759 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
56933779 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
56933799 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
56933819 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
56933839 TGTGCAT
1 TGTGCAT
56933846 CAAAATCCCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:56933924 original size:25 final size:25
Alignment explanation
Indices: 56933878--56933925 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
56933868 ATATATAAAC
* * * *
56933878 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
56933903 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
56933926 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:56935189 original size:27 final size:27
Alignment explanation
Indices: 56935169--56935563 Score: 485
Period size: 27 Copynumber: 14.6 Consensus size: 27
56935159 AGGGTATTTT
*
56935169 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
56935196 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
56935223 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
56935250 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
56935277 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
56935304 -GATAATTATGTAAATCTG-GGGTAAAAT
1 AG-TAATTCTGTAAATC-GAGGGTAAAAC
* * *
56935331 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
56935358 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
56935385 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
56935412 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * ** *
56935439 GGTAATTTTACAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
56935466 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
56935493 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
56935520 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
56935547 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
56935564 GGAGTACTTT
Statistics
Matches: 323, Mismatches: 35, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
26 3 0.01
27 315 0.98
28 5 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:56937734 original size:28 final size:28
Alignment explanation
Indices: 56937689--56937753 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
56937679 GTTAGCCGAA
*
56937689 TTAATGTGT-CATGTTTTATGACAATAT
1 TTAATTTGTCCATGTTTTATGACAATAT
56937716 TTAATTTGTCCATGTTTTATGACAATAT
1 TTAATTTGTCCATGTTTTATGACAATAT
56937744 TTAATTTGTC
1 TTAATTTGTC
56937754 TTAGCATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (28 bp):
TTAATTTGTCCATGTTTTATGACAATAT
Found at i:56943138 original size:22 final size:22
Alignment explanation
Indices: 56943113--56943155 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
56943103 AAGCCACCAC
*
56943113 TGATTTACAGATATGCTGCCAT
1 TGATTTACAGATATACTGCCAT
*
56943135 TGATTTGCAGATATACTGCCA
1 TGATTTACAGATATACTGCCA
56943156 CTACTTCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (22 bp):
TGATTTACAGATATACTGCCAT
Found at i:56944726 original size:21 final size:21
Alignment explanation
Indices: 56944701--56944741 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
56944691 ATTATCTAGT
56944701 CATTAAA-ACTATGTTTTTAGC
1 CATTAAACAC-ATGTTTTTAGC
56944722 CATTAAATCACATGTTTTTA
1 CATTAAA-CACATGTTTTTA
56944742 ATAAAAGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 9 0.50
23 2 0.11
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (21 bp):
CATTAAACACATGTTTTTAGC
Found at i:56975806 original size:42 final size:42
Alignment explanation
Indices: 56975759--56975856 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
56975749 TCCTATACGT
*
56975759 GGTCTTACATGTAATCAAACATCGAT-CC-ACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAACA-CGATGCCGA-TGTCCCAAACAG
* * * *
56975801 GGTCTTACATGAAATCAGATACGATGCCGATGTCCCAAACAT
1 GGTCTTACATGTAATCAAACACGATGCCGATGTCCCAAACAG
*
56975843 GGTCTTACACGTAA
1 GGTCTTACATGTAA
56975857 AACAAAAGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.09
42 42 0.89
43 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAACACGATGCCGATGTCCCAAACAG
Found at i:56979614 original size:50 final size:50
Alignment explanation
Indices: 56979498--56979727 Score: 259
Period size: 50 Copynumber: 4.6 Consensus size: 50
56979488 CTGATATGCA
* * * * * *
56979498 TAGTAGCCTGCACTTAGTACTACATATGCGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
56979547 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * * *
56979597 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGA-TACACG
* * * * *
56979648 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTGATACACG
56979698 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
56979728 TACTCACAAT
Statistics
Matches: 153, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 32 0.21
50 81 0.53
51 40 0.26
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:56981703 original size:50 final size:50
Alignment explanation
Indices: 56981628--56981859 Score: 180
Period size: 50 Copynumber: 4.6 Consensus size: 50
56981618 CTAGTACGCA
* * * * * * *
56981628 TAGTAGCCTGCACTAAGTACTACACAAGTGACCTATCAATTTGGTACATG
1 TAGTATCCTACACTTAGTACTACACAAGTGACCTAACAATCTGATACACG
* * *
56981678 TAGTATCCTACACTTAGTACTACACATGTGACTTAACCATCTGATACACG
1 TAGTATCCTACACTTAGTACTACACAAGTGACCTAACAATCTGATACACG
* * * * * * * * * *
56981728 TAGCATCCTACACTTAGTACTGCACACGTGATCGAAGTTAA-CGGTTACGCA
1 TAGTATCCTACACTTAGTACTACACAAGTGACCTAA--CAATCTGATACACG
* * * * *
56981779 TAGGAGCCTGCACTTAGTACTACACACA-TGACTTAACCATCTGATACACG
1 TAGTATCCTACACTTAGTACTACACA-AGTGACCTAACAATCTGATACACG
* *
56981829 TAGTAGCCTACACTTAGTACTACACACGTGA
1 TAGTATCCTACACTTAGTACTACACAAGTGA
56981860 TAGAAGTTAA
Statistics
Matches: 138, Mismatches: 39, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
49 1 0.01
50 103 0.75
51 33 0.24
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (50 bp):
TAGTATCCTACACTTAGTACTACACAAGTGACCTAACAATCTGATACACG
Found at i:56981798 original size:51 final size:51
Alignment explanation
Indices: 56981738--56981905 Score: 178
Period size: 51 Copynumber: 3.3 Consensus size: 51
56981728 TAGCATCCTA
* * *
56981738 CACTTAGTACTGCACACGTGATCGAAGTTAACGGTTACGCATAGGAGCCTG
1 CACTTAGTACTACACACGTGATCGAAGTTAACGGATACGCATAGTAGCCTG
* * ** * * * * *
56981789 CACTTAGTACTACACACATGA-CTTAA-CCATCTGATACACGTAGTAGCCTA
1 CACTTAGTACTACACACGTGATC-GAAGTTAACGGATACGCATAGTAGCCTG
* * *
56981839 CACTTAGTACTACACACGTGATAGAAGTTAACGGATATGCATAGTAGCTTG
1 CACTTAGTACTACACACGTGATCGAAGTTAACGGATACGCATAGTAGCCTG
56981890 CACTTAGTACTACACA
1 CACTTAGTACTACACA
56981906 TGCGGCCTAT
Statistics
Matches: 90, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
50 38 0.42
51 52 0.58
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (51 bp):
CACTTAGTACTACACACGTGATCGAAGTTAACGGATACGCATAGTAGCCTG
Found at i:56981866 original size:101 final size:101
Alignment explanation
Indices: 56981688--56981956 Score: 376
Period size: 101 Copynumber: 2.7 Consensus size: 101
56981678 TAGTATCCTA
* * *
56981688 CACTTAGTACTACACATGTGACTTAACCATCTGATACACGTAGCATCCTACACTTAGTACTGCAC
1 CACTTAGTACTACACATGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACAC
* *
56981753 ACGTGATCGAAGTTAACGGTTACGCATAGGAGCCTG
66 ACGTGATAGAAGTTAACGGATACGCATAGGAGCCTG
**
56981789 CACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACAC
1 CACTTAGTACTACACATGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACAC
* * *
56981854 ACGTGATAGAAGTTAACGGATATGCATAGTAGCTTG
66 ACGTGATAGAAGTTAACGGATACGCATAGGAGCCTG
* * * * * * * *
56981890 CACTTAGTACTACACATGCGGCCTATCAATCTGGTATACGTAGTAGCCTGCACTTAGTACTACAC
1 CACTTAGTACTACACATGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACAC
56981955 AC
66 AC
56981957 ATGACTCACA
Statistics
Matches: 148, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
CACTTAGTACTACACATGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACAC
ACGTGATAGAAGTTAACGGATACGCATAGGAGCCTG
Found at i:56989249 original size:55 final size:54
Alignment explanation
Indices: 56989125--56989315 Score: 233
Period size: 55 Copynumber: 3.6 Consensus size: 54
56989115 CTTACCATTT
* * *
56989125 CCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-GAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTCACCAATG
** * *
56989178 CCATGCCTTGGTATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG-AACTCACCAATG
* * * * *
56989233 CCATGTCTTGACATGGTCTTACATGATTTCTTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTCACCAATG
* *
56989287 CCATGCCTTGGCATGGTCTT-CATGATATC
1 CCATGCCTTGACATGGTCTTACATGGTATC
56989316 CTTATCTTAC
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
53 41 0.35
54 29 0.25
55 47 0.40
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTCACCAATG
Found at i:56989548 original size:47 final size:47
Alignment explanation
Indices: 56989492--56989595 Score: 190
Period size: 47 Copynumber: 2.2 Consensus size: 47
56989482 CCATGTCTTG
56989492 ACATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAA
* *
56989539 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAA
56989586 ACATGGTCTT
1 ACATGGTCTT
56989596 TTTTAGTCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAA
Found at i:56989595 original size:195 final size:193
Alignment explanation
Indices: 56989230--56989595 Score: 545
Period size: 195 Copynumber: 1.9 Consensus size: 193
56989220 TAACTCACCA
*
56989230 ATGCCATGTCTTGACATGGTCTTACATGATTTCTTTGCCTTATAGAACTTATCAATGCCATGCCT
1 ATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCT
* *
56989295 TGGCATGGTCTTCATGATATCCTTATCTTACCAAATGCTATGTTCCAAACATGGTCTTACATGGT
66 TGACATGGTCTTCATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGT
*** **
56989360 ATCCTTGTCTTAGTGCCAATGCCACATCTTGATGTGGTCTTACATGGACTCCTTAATCAATGCCG
131 ATCCTTGTCTTA--GCCAATGCCACATCCAAACATGGTCTTACATGGACTCCTTAATCAATGCCG
* * *
56989425 ATGCCATGTCTTGACATGGTCTTCCATGATTTCCTTGCCTTATAGAACTTGTCAATGCCATGTCT
1 ATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCT
*
56989490 TGACATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGG
66 TGACATGGTCTT-CATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGG
* **
56989555 TATCCTTGTCTTA-CCAAATGTCATGTTCCAAACATGGTCTT
130 TATCCTTGTCTTAGCC-AATGCCA-CATCCAAACATGGTCTT
56989596 TTTTAGTCAA
Statistics
Matches: 153, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
193 2 0.01
194 6 0.04
195 82 0.54
196 63 0.41
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (193 bp):
ATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCT
TGACATGGTCTTCATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGT
ATCCTTGTCTTAGCCAATGCCACATCCAAACATGGTCTTACATGGACTCCTTAATCAATGCCG
Found at i:56991629 original size:11 final size:11
Alignment explanation
Indices: 56991597--56991638 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
56991587 GTAACTAAAA
*
56991597 TCACAA-CATT
1 TCACAACCAAT
*
56991607 TCTCAACCAAT
1 TCACAACCAAT
*
56991618 TCACATCCAAT
1 TCACAACCAAT
56991629 TCACAACCAA
1 TCACAACCAA
56991639 AACTTTAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 5 0.19
11 21 0.81
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (11 bp):
TCACAACCAAT
Found at i:56998477 original size:40 final size:40
Alignment explanation
Indices: 56998384--56998534 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 40
56998374 AATTGAATGA
* * *
56998384 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
56998424 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
* *
56998465 -ATCTGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
56998504 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
56998535 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.06
40 77 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:56998548 original size:40 final size:40
Alignment explanation
Indices: 56998421--56998550 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
56998411 ATGCTGGAAA
* * * *
56998421 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * * **
56998461 CTACATCTGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
56998501 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
56998541 TTATATCCGG
1 TTATATCCGG
56998551 TTATATTCCG
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:57001434 original size:40 final size:40
Alignment explanation
Indices: 57001375--57001516 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
57001365 AAATTGAATG
* * *
57001375 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
57001415 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
57001455 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
57001495 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
57001517 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:57001517 original size:40 final size:39
Alignment explanation
Indices: 57001414--57001542 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
57001404 TGCTGGAAAT
* * *
57001414 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
57001454 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
57001494 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
57001534 TATATCCGG
1 TATATCCGG
57001543 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:57004992 original size:29 final size:29
Alignment explanation
Indices: 57004959--57005032 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
57004949 GTGACGAGAT
57004959 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
57004988 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
57005017 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57005033 AGCTCGAAGG
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:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:57005048 original size:29 final size:29
Alignment explanation
Indices: 57005016--57005091 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
57005006 CTGGAAATAT
* *
57005016 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
57005045 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
57005074 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
57005092 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:57005059 original size:58 final size:58
Alignment explanation
Indices: 57004959--57005091 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
57004949 GTGACGAGAT
* * * * * *
57004959 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
57005017 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
57005075 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
57005092 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:57011878 original size:57 final size:58
Alignment explanation
Indices: 57011817--57011946 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 58
57011807 ATTTAAGCCC
* * * *
57011817 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGT-TATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
57011874 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
57011932 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
57011947 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 35 0.56
58 28 0.44
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:57011902 original size:29 final size:29
Alignment explanation
Indices: 57011788--57011946 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
57011778 ACTCGATTTC
* * **
57011788 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
57011817 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
57011845 CGCACACCCAGTGCCGT-TATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
57011874 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
57011903 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
57011932 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
57011947 ATCTCGTCAC
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
28 21 0.19
29 88 0.81
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:57019134 original size:29 final size:29
Alignment explanation
Indices: 57019044--57019232 Score: 238
Period size: 29 Copynumber: 6.5 Consensus size: 29
57019034 ACTCGATTTC
* * **
57019044 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
57019073 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
57019101 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
57019131 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
57019160 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
57019189 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
57019218 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
57019233 ATCTCGTCAC
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.01
29 137 0.98
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:57025218 original size:2 final size:2
Alignment explanation
Indices: 57025211--57025235 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57025201 CATGTATTCG
57025211 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
57025236 GTTTATAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57025578 original size:30 final size:30
Alignment explanation
Indices: 57025542--57025602 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
57025532 AATCAAGTCA
57025542 TACGTCAAATGTGTTATATGATAGGTTAAC
1 TACGTCAAATGTGTTATATGATAGGTTAAC
57025572 TACGTCAAATGTGTTATATGATAGGTTAAC
1 TACGTCAAATGTGTTATATGATAGGTTAAC
57025602 T
1 T
57025603 TTGATTTGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.38
Consensus pattern (30 bp):
TACGTCAAATGTGTTATATGATAGGTTAAC
Found at i:57026052 original size:4 final size:4
Alignment explanation
Indices: 57026043--57026072 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
57026033 CCCTTATAAA
57026043 TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TA
57026073 GGATAAAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:57027809 original size:15 final size:15
Alignment explanation
Indices: 57027789--57027837 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
57027779 AAAAAATTTG
57027789 GTGTTGCTAGTTGTA
1 GTGTTGCTAGTTGTA
* *
57027804 GTGTTG--ACGTCG-C
1 GTGTTGCTA-GTTGTA
57027817 GTGTTGCTAGTTGTA
1 GTGTTGCTAGTTGTA
57027832 GTGTTG
1 GTGTTG
57027838 ATGTCGCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 13 0.50
ACGTcount: A:0.10, C:0.10, G:0.37, T:0.43
Consensus pattern (15 bp):
GTGTTGCTAGTTGTA
Found at i:57027829 original size:28 final size:28
Alignment explanation
Indices: 57027789--57027844 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
57027779 AAAAAATTTG
57027789 GTGTTGCTAGTTGTAGTGTTGACGTCGC
1 GTGTTGCTAGTTGTAGTGTTGACGTCGC
*
57027817 GTGTTGCTAGTTGTAGTGTTGATGTCGC
1 GTGTTGCTAGTTGTAGTGTTGACGTCGC
57027845 AAAAATGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.11, C:0.12, G:0.36, T:0.41
Consensus pattern (28 bp):
GTGTTGCTAGTTGTAGTGTTGACGTCGC
Found at i:57030120 original size:37 final size:37
Alignment explanation
Indices: 57030070--57030143 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
57030060 GACAGGAATT
57030070 TAGTTTTGTTCTGAATTTGATATGTACTAAAAATTGG
1 TAGTTTTGTTCTGAATTTGATATGTACTAAAAATTGG
57030107 TAGTTTTGTTCTGAATTTGATATGTACTAAAAATTGG
1 TAGTTTTGTTCTGAATTTGATATGTACTAAAAATTGG
57030144 CTAAGGAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (37 bp):
TAGTTTTGTTCTGAATTTGATATGTACTAAAAATTGG
Found at i:57030198 original size:15 final size:16
Alignment explanation
Indices: 57030178--57030210 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
57030168 TATAGGGTTG
57030178 TTTTTTTAAATG-AGT
1 TTTTTTTAAATGAAGT
*
57030193 TTTTTTTATATGAAGT
1 TTTTTTTAAATGAAGT
57030209 TT
1 TT
57030211 AGTTTGATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (16 bp):
TTTTTTTAAATGAAGT
Found at i:57034023 original size:40 final size:40
Alignment explanation
Indices: 57033837--57034044 Score: 199
Period size: 40 Copynumber: 5.2 Consensus size: 40
57033827 TATTCGAATG
* *
57033837 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTG-CT
* * * *
57033878 ATATCCGGACTAAGAT-CCGAGGGCCTTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTGCT
** *
57033918 A-ATCCGGGGCTAAG-CCCGAAGGCATGGGTGCGAGTTACT
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* * *
57033957 AAATCCGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* * ** *
57033997 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
57034037 ATATCCGG
1 ATATCCGG
57034045 TTAAACTCTG
Statistics
Matches: 138, Mismatches: 23, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
39 31 0.22
40 78 0.57
41 28 0.20
42 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
Found at i:57045792 original size:40 final size:40
Alignment explanation
Indices: 57045737--57045986 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
57045727 AACATTGGAA
57045737 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
57045777 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
57045817 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
57045857 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
57045897 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
57045936 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
57045977 CTATATCCGG
1 ATATATCCGG
57045987 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:57053897 original size:40 final size:40
Alignment explanation
Indices: 57053842--57054091 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
57053832 AACATTGGAA
57053842 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
57053882 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
57053922 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
57053962 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
57054002 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
57054041 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
57054082 CTATATCCGG
1 ATATATCCGG
57054092 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:57057991 original size:16 final size:17
Alignment explanation
Indices: 57057970--57058003 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
57057960 GGTTAGTTAA
57057970 TCTTTTATTTTC-TTTT
1 TCTTTTATTTTCGTTTT
*
57057986 TCTTTTTTTTTCGTTTT
1 TCTTTTATTTTCGTTTT
57058003 T
1 T
57058004 TAAATTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (17 bp):
TCTTTTATTTTCGTTTT
Found at i:57059044 original size:24 final size:24
Alignment explanation
Indices: 57059017--57059063 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
57059007 ATTATTATTG
*
57059017 AAATATTCTCATCCGTTTTATCAC
1 AAATATTATCATCCGTTTTATCAC
*
57059041 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCATCCGTTTTATCA
57059064 TTTAAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (24 bp):
AAATATTATCATCCGTTTTATCAC
Found at i:57059379 original size:30 final size:30
Alignment explanation
Indices: 57059300--57059364 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
57059290 AATTTGGATT
*
57059300 AATTTATT-TAAATATTATTTAATTAAAATA
1 AATTT-TTATAAATCTTATTTAATTAAAATA
*
57059330 AGTTTTTATAAATCTTATTTAATTAAAATA
1 AATTTTTATAAATCTTATTTAATTAAAATA
57059360 AATTT
1 AATTT
57059365 CTTTCCATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
AATTTTTATAAATCTTATTTAATTAAAATA
Found at i:57059553 original size:9 final size:9
Alignment explanation
Indices: 57059539--57059784 Score: 147
Period size: 9 Copynumber: 28.0 Consensus size: 9
57059529 TACATGATAT
57059539 CATAACTTA
1 CATAACTTA
57059548 CATAACTTA
1 CATAACTTA
*
57059557 CAAAACTTA
1 CATAACTTA
57059566 CATAA--TA
1 CATAACTTA
* *
57059573 TATAA-ATA
1 CATAACTTA
* **
57059581 TATAAGATA
1 CATAACTTA
*
57059590 TCATAAATTA
1 -CATAACTTA
57059600 CATAACTTA
1 CATAACTTA
*
57059609 CAAAACTTA
1 CATAACTTA
57059618 CATAA--TA
1 CATAACTTA
*
57059625 CATAAATATA
1 CATAACT-TA
* *
57059635 TATGA--TA
1 CATAACTTA
57059642 TCATAACTTA
1 -CATAACTTA
57059652 CATAACTTA
1 CATAACTTA
57059661 CATAA--TA
1 CATAACTTA
* *
57059668 TATAA-ATA
1 CATAACTTA
* *
57059676 TATATCATATA
1 CATAAC-T-TA
57059687 -ATAACTTA
1 CATAACTTA
57059695 CATAACTTA
1 CATAACTTA
57059704 CATAACTTA
1 CATAACTTA
57059713 CATAACTTA
1 CATAACTTA
*
57059722 CATACCTTA
1 CATAACTTA
*
57059731 CATAAATT-
1 CATAACTTA
* * *
57059739 TATATCATA
1 CATAACTTA
57059748 TCATAACTTA
1 -CATAACTTA
*
57059758 CGTAACTTA
1 CATAACTTA
*
57059767 CAAAACTTA
1 CATAACTTA
*
57059776 CTTAACTTA
1 CATAACTTA
57059785 TGTAATACAT
Statistics
Matches: 189, Mismatches: 32, Indels: 32
0.75 0.13 0.13
Matches are distributed among these distances:
7 21 0.11
8 22 0.12
9 121 0.64
10 23 0.12
11 2 0.01
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:57059593 original size:52 final size:52
Alignment explanation
Indices: 57059534--57059776 Score: 285
Period size: 52 Copynumber: 4.6 Consensus size: 52
57059524 TTAAATACAT
*
57059534 GATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATATAA
1 GATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAA
* *
57059586 GATATCATAAATTACATAACTTACAAAACTTACATAATACATAAATATATAT
1 GATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAA
* * * *
57059638 GATATCATAACTTACATAACTTACATAA--TATATAAATATATATCATATAATAA
1 GATATCATAACTTACATAACTTACAAAACTTACAT-AATACATA-AATAT-ATAA
** * * * *
57059691 CTTA-CATAACTTACATAACTTACATAACTTACATACCTTACATAAATTTATAT
1 GATATCATAACTTACATAACTTACAAAACTTACATA--ATACATAAATATATAA
* *
57059744 CATATCATAACTTACGTAACTTACAAAACTTAC
1 GATATCATAACTTACATAACTTACAAAACTTAC
57059777 TTAACTTATG
Statistics
Matches: 163, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
50 4 0.02
51 7 0.04
52 102 0.63
53 12 0.07
54 33 0.20
55 5 0.03
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (52 bp):
GATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAA
Found at i:57059601 original size:43 final size:43
Alignment explanation
Indices: 57059548--57059708 Score: 187
Period size: 43 Copynumber: 3.5 Consensus size: 43
57059538 TCATAACTTA
*
57059548 CATAACTTACAAAACTTACATAATATATAAATATATAAGATATCATAAATT
1 CATAACTTACAAAACTTACATAATATAT-AA-ATAT---ATATGAT--A-T
*
57059599 ACATAACTTACAAAACTTACATAATACATAAATATATATGATAT
1 -CATAACTTACAAAACTTACATAATATATAAATATATATGATAT
* *
57059643 CATAACTTACATAACTTACATAATATATAAATATATATCATAT
1 CATAACTTACAAAACTTACATAATATATAAATATATATGATAT
* *
57059686 AATAACTTACATAACTTACATAA
1 CATAACTTACAAAACTTACATAA
57059709 CTTACATAAC
Statistics
Matches: 103, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
43 62 0.60
44 1 0.01
45 1 0.01
47 6 0.06
50 4 0.04
51 2 0.02
52 27 0.26
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.34
Consensus pattern (43 bp):
CATAACTTACAAAACTTACATAATATATAAATATATATGATAT
Found at i:57059755 original size:63 final size:61
Alignment explanation
Indices: 57059643--57059801 Score: 219
Period size: 63 Copynumber: 2.6 Consensus size: 61
57059633 TATATGATAT
*
57059643 CATAACTTACATAACTTACATAATATATAAATATATATCATATAATAACTTACATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTACATAACTTA
* * * *
57059704 CATAACTTACATAACTTACATACCTTACATAAATTTATATCATATCATAACTTACGTAACTTA
1 CATAACTTACATAACTTACATA--ATACATAAATATATATCATATAATAACTTACATAACTTA
* * **
57059767 CAAAACTTACTTAACTTATGTAATACATAAATATA
1 CATAACTTACATAACTTACATAATACATAAATATA
57059802 CACTTGAAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
61 33 0.39
63 52 0.61
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (61 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTACATAACTTA
Found at i:57061589 original size:12 final size:12
Alignment explanation
Indices: 57061572--57061597 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57061562 AAGATCGAGG
57061572 GATGAATCTGAT
1 GATGAATCTGAT
57061584 GATGAATCTGAT
1 GATGAATCTGAT
57061596 GA
1 GA
57061598 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:57065663 original size:43 final size:43
Alignment explanation
Indices: 57065600--57065684 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
57065590 ATTTTTTGAG
*
57065600 AAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTATA
1 AAAAGCGCCGCTAAAAGTCATGTTCTTAAGCGGCGTTTGTATA
* *
57065643 AAAAGCGCCGCTAAAGGTCATGTTCTTAAGTGGCGTTTGTAT
1 AAAAGCGCCGCTAAAAGTCATGTTCTTAAGCGGCGTTTGTAT
57065685 GAACCTTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCATGTTCTTAAGCGGCGTTTGTATA
Found at i:57065789 original size:109 final size:109
Alignment explanation
Indices: 57065590--57065789 Score: 283
Period size: 109 Copynumber: 1.8 Consensus size: 109
57065580 AATTAGTCGC
57065590 ATTTTTTGAGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTATAAAAAGCGCCGCT
1 ATTTTTTGAGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTATAAAAAGCGCCGCT
* ***
57065655 AAAGGTCATGTTCTTAAGTGGCGTTTGTATGAACCTTTAGCAGT
66 AAAGGTCATGCTCTTAAGCAACGTTTGTATGAACCTTTAGCAGT
** * * * ** *
57065699 ATTTTTTTTGAAAAGCGTCGCTAAAGGTGATGTTCTTTAGCGTTGTTTGTATTAAAAGCGCCGCT
1 ATTTTTTGAGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTATAAAAAGCGCCGCT
*
57065764 AAAGGTCATGCTCTTTAGCAACGTTT
66 AAAGGTCATGCTCTTAAGCAACGTTT
57065790 TTTTACATAA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
109 78 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (109 bp):
ATTTTTTGAGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTATAAAAAGCGCCGCT
AAAGGTCATGCTCTTAAGCAACGTTTGTATGAACCTTTAGCAGT
Found at i:57066484 original size:41 final size:41
Alignment explanation
Indices: 57066434--57066727 Score: 392
Period size: 41 Copynumber: 7.1 Consensus size: 41
57066424 AAACATCGCA
* *
57066434 AAAAGCCAGAGCATTAGCGGCGCTTTTGGTAAAACGCTGCT
1 AAAAGCCAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCT
*
57066475 AAAATCCAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCT
1 AAAAGCCAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCT
* * *
57066516 AAAAGCCAGAGCATTAACGACGCTTTTTTGTAAAACGCTGCT
1 AAAAGCCAGAGCATTAGCGGCGC-TTTTTGTAAAACGCCGCT
*
57066558 AAAAGCCAAAGCATTAGCGGCGCTTTTTTGTAAAAC-CCGCT
1 AAAAGCCAGAGCATTAGCGGCGC-TTTTTGTAAAACGCCGCT
*
57066599 AAAAGCCAGAGCATTAGCTGCGCTTTTTTGTAAAACGCCGCT
1 AAAAGCCAGAGCATTAGCGGCGC-TTTTTGTAAAACGCCGCT
* * * *
57066641 AAAAGCCAGAGCATTTGTGGCGCTTTTGGTAAAAAGCCGCT
1 AAAAGCCAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCT
* * * * * *
57066682 AAAAACCGGATCATTAGCGGCACTTTTGGTAAAACGCCACT
1 AAAAGCCAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCT
57066723 AAAAG
1 AAAAG
57066728 TCATATAACC
Statistics
Matches: 224, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
41 149 0.67
42 75 0.33
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (41 bp):
AAAAGCCAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCT
Found at i:57066577 original size:83 final size:82
Alignment explanation
Indices: 57066434--57066727 Score: 378
Period size: 83 Copynumber: 3.6 Consensus size: 82
57066424 AAACATCGCA
* *
57066434 AAAAGCCAGAGCATTAGCGGCGC-TTTTGGTAAAACGCTGCTAAAATCCAGAGCATTAGCGGCGC
1 AAAAGCCAGAGCATTAGC-GCGCTTTTTTGTAAAACGCTGCTAAAAGCCAGAGCATTAGCGGCGC
57066498 TTTTTGTAAAACGCCGCT
65 TTTTTGTAAAACGCCGCT
* *
57066516 AAAAGCCAGAGCATTAACGACGCTTTTTTGTAAAACGCTGCTAAAAGCCAAAGCATTAGCGGCGC
1 AAAAGCCAGAGCATTAGCG-CGCTTTTTTGTAAAACGCTGCTAAAAGCCAGAGCATTAGCGGCGC
57066581 TTTTTTGTAAAAC-CCGCT
65 -TTTTTGTAAAACGCCGCT
* * *
57066599 AAAAGCCAGAGCATTAGCTGCGCTTTTTTGTAAAACGCCGCTAAAAGCCAGAGCATTTGTGGCGC
1 AAAAGCCAGAGCATTAGC-GCGCTTTTTTGTAAAACGCTGCTAAAAGCCAGAGCATTAGCGGCGC
* *
57066664 TTTTGGTAAAAAGCCGCT
65 TTTTTGTAAAACGCCGCT
* * * * * **
57066682 AAAAACCGGATCATTAGCG-GCACTTTTGGTAAAACGCCACTAAAAG
1 AAAAGCCAGAGCATTAGCGCGC-TTTTTTGTAAAACGCTGCTAAAAG
57066728 TCATATAACC
Statistics
Matches: 189, Mismatches: 17, Indels: 12
0.87 0.08 0.06
Matches are distributed among these distances:
81 3 0.02
82 52 0.28
83 121 0.64
84 13 0.07
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (82 bp):
AAAAGCCAGAGCATTAGCGCGCTTTTTTGTAAAACGCTGCTAAAAGCCAGAGCATTAGCGGCGCT
TTTTGTAAAACGCCGCT
Found at i:57066824 original size:16 final size:17
Alignment explanation
Indices: 57066798--57066831 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
57066788 CTAAAAGAGT
*
57066798 AAACCCTTAAACCCTAA
1 AAACCCTTAAACACTAA
57066815 AAACCC-TAAACACTAA
1 AAACCCTTAAACACTAA
57066831 A
1 A
57066832 TTATATCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (17 bp):
AAACCCTTAAACACTAA
Found at i:57067306 original size:21 final size:21
Alignment explanation
Indices: 57067282--57067342 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
57067272 GTTTAAGTGT
57067282 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGG-TTAA
*
57067303 GGTTT-AGGTGTTAGGGGTTAG
1 GGTTTAAGG-GTTAGGGGTTAA
* *
57067324 GGGTTAAGGGTTAAGGGTT
1 GGTTTAAGGGTTAGGGGTT
57067343 CATGATTCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.09
21 24 0.71
22 7 0.21
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGGGTTAA
Found at i:57067307 original size:32 final size:32
Alignment explanation
Indices: 57067252--57067338 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
57067242 GAGTTACTAT
* *
57067252 TTTAAGGTTTAGGGATTATGGTTTAAGTGTGG
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
* *
57067284 TTTAAGGGTTGGGGTTTAAGGTTT-AG-GT-G
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
* * *
57067313 -TTAGGGGTTAGGGGTTAAGGGTTAAG
1 TTTAAGGGTTAGGGATTAAGGTTTAAG
57067339 GGTTCATGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 19 0.41
29 3 0.07
30 2 0.04
31 2 0.04
32 20 0.43
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (32 bp):
TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
Found at i:57067336 original size:14 final size:14
Alignment explanation
Indices: 57067285--57067342 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
57067275 TAAGTGTGGT
57067285 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
* *
57067298 TTTAAGGTTTAGGTG
1 -TTAAGGGTTAGGGG
*
57067313 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
57067327 TTAAGGGTTAAGGG
1 TTAAGGGTTAGGGG
57067341 TT
1 TT
57067343 CATGATTCAG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 33 0.92
15 3 0.08
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:57067509 original size:7 final size:7
Alignment explanation
Indices: 57067499--57067546 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
57067489 TATATTTATA
57067499 GTTTAGG
1 GTTTAGG
57067506 GTTTAGG
1 GTTTAGG
*
57067513 GTTTATG
1 GTTTAGG
*
57067520 GTTTAAG
1 GTTTAGG
** *
57067527 ACTTATG
1 GTTTAGG
57067534 GTTTAGG
1 GTTTAGG
57067541 GTTTAG
1 GTTTAG
57067547 TTTTCAGTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:57067968 original size:41 final size:40
Alignment explanation
Indices: 57067919--57068003 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 40
57067909 AAATAAAATT
*
57067919 AAAATTGAGCAATAGTGGTATTTTTAG-GTAAAACGCCGCA
1 AAAATTGAGCAATAGTGGCATTTTTAGTG-AAAACGCCGCA
* * *
57067959 AAAAGTTGAGCTATAGTGGCGTTTTTAGTGGAAACGCCGCA
1 AAAA-TTGAGCAATAGTGGCATTTTTAGTGAAAACGCCGCA
57068000 AAAA
1 AAAA
57068004 ATCTGAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
40 4 0.10
41 34 0.87
42 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (40 bp):
AAAATTGAGCAATAGTGGCATTTTTAGTGAAAACGCCGCA
Found at i:57070689 original size:101 final size:101
Alignment explanation
Indices: 57070536--57070722 Score: 338
Period size: 101 Copynumber: 1.9 Consensus size: 101
57070526 TATTATACAA
* *
57070536 ATTACTTTCTAGGATTGATTTAAATGAATAGTGTATTGACTATTATTATTATATGCCCAATACTA
1 ATTACTTTCTAGGATTAATTTAAATGAATAGTGTATTAACTATTATTATTATATGCCCAATACTA
57070601 TGTTAGTTTAAATGAATTATTATATGTCCAATGTTG
66 TGTTAGTTTAAATGAATTATTATATGTCCAATGTTG
* *
57070637 ATTACTTTCTAGGATTAATTTAAATGAATAGTGTATTAACTATTATTATTATATGTCCAATGCTA
1 ATTACTTTCTAGGATTAATTTAAATGAATAGTGTATTAACTATTATTATTATATGCCCAATACTA
57070702 TGTTAGTTTAAATGAATTATT
66 TGTTAGTTTAAATGAATTATT
57070723 GTGGGGATGG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 82 1.00
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (101 bp):
ATTACTTTCTAGGATTAATTTAAATGAATAGTGTATTAACTATTATTATTATATGCCCAATACTA
TGTTAGTTTAAATGAATTATTATATGTCCAATGTTG
Found at i:57072588 original size:19 final size:19
Alignment explanation
Indices: 57072566--57072606 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
57072556 TTTATTGATA
57072566 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
57072584 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
57072603 TTTT
1 TTTT
57072607 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:57072891 original size:2 final size:2
Alignment explanation
Indices: 57072880--57072923 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
57072870 TATAATATTT
57072880 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57072921 TA T
1 TA T
57072924 TTGAATTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57074926 original size:29 final size:30
Alignment explanation
Indices: 57074869--57074926 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
57074859 CTTTTGAAAA
* * *
57074869 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACGAAATTTTAT
57074899 TATTTACAAAAAGA-GCAACGAAATTTTA
1 TATTTACAAAAAGAGGCAACGAAATTTTA
57074927 AAAATAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACGAAATTTTAT
Found at i:57085675 original size:19 final size:20
Alignment explanation
Indices: 57085651--57085688 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
57085641 GGTACCACCA
57085651 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
57085670 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
57085689 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:57085980 original size:46 final size:46
Alignment explanation
Indices: 57085913--57086085 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
57085903 AACCCGCCCT
* * *
57085913 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCA
* * * * *
57085959 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTAGCATCCA
* * * *
57086005 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCA
*
57086052 TAAGTGAACTCGGACTCAACTCAGCGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57086086 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.02
46 65 0.64
47 33 0.32
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTAGCATCCA
Found at i:57086030 original size:93 final size:93
Alignment explanation
Indices: 57085918--57086088 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
57085908 GCCCTTAAGT
*
57085918 GAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
57085983 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
57086011 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAG
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
57086076 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57086089 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:57100290 original size:47 final size:48
Alignment explanation
Indices: 57100216--57100433 Score: 222
Period size: 47 Copynumber: 4.7 Consensus size: 48
57100206 AGGGTATAAT
* *
57100216 GCCGATGCCATGTCCCAAACATCGTCTTACACTGGCTCATC-TATTAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATATTAA
* * * *
57100263 GTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACA-CATTTTGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATATT-AA
* * * *
57100309 GCCGATG-CATGTCCCAGACATGTTC-TACACTAGCT-ATCGTATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATATTAA
* * *
57100354 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAATATG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATATTA-A
57100403 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
57100434 AGCACACAAA
Statistics
Matches: 141, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
44 7 0.05
45 25 0.18
46 28 0.20
47 61 0.43
48 20 0.14
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATATTAA
Found at i:57100381 original size:92 final size:91
Alignment explanation
Indices: 57100216--57100436 Score: 270
Period size: 92 Copynumber: 2.4 Consensus size: 91
57100206 AGGGTATAAT
* * * *
57100216 GCCGATGCCATGTCCCAAACATCGTCTTACACTGGCTCATCTATTAAGTCGATGCCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATCTATCAAGCCGATGCCATGTCCCAG
* *
57100281 ACATGGTCTTACACT-G-ACACATTTTG
64 ACATGGTCTTACACTGGCACACAATATG
57100307 TAGCCGATGCATGTCCCAGACATGT-TCTACACTAGCT-ATCGTATCAATGCCGATGCCATGTCC
1 --GCCGATGCATGTCCCAGACATGTCT-TACACTAGCTCATC-TATCAA-GCCGATGCCATGTCC
*
57100370 CAGACATGGTCTTACACTGGCTCTCACAATATG
61 CAGACATGGTCTTACACTGG--CACACAATATG
57100403 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
57100437 ACACAAATAA
Statistics
Matches: 113, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
90 4 0.04
91 16 0.14
92 45 0.40
93 8 0.07
94 32 0.28
95 1 0.01
96 7 0.06
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCTATCAAGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTGGCACACAATATG
Found at i:57108785 original size:21 final size:21
Alignment explanation
Indices: 57108759--57108809 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
57108749 ATTGTTGAGA
*
57108759 AGGAAGTTGTTGCT-ACAAAAG
1 AGGAAGTTGTTGATGA-AAAAG
57108780 AGGAAGTTGTTGATGAAAAAG
1 AGGAAGTTGTTGATGAAAAAG
*
57108801 AAGAAGTTG
1 AGGAAGTTG
57108810 CTGAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.31, T:0.24
Consensus pattern (21 bp):
AGGAAGTTGTTGATGAAAAAG
Found at i:57111897 original size:41 final size:41
Alignment explanation
Indices: 57111821--57111934 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 41
57111811 CTTGTATCAC
* *
57111821 ACACCGGCTTAAGGCCTGCTAGACTCAAAGTCTGATTTTAT
1 ACACCGGCATAAGGCCTGCTAGACTCAAAGCCTGATTTTAT
* *
57111862 ACACCGGCAATAA-GCCTGCTAGGCAT-AAAGCCTGATTTAAT
1 ACACCGGC-ATAAGGCCTGCTAGAC-TCAAAGCCTGATTTTAT
* * * * *
57111903 TCACCAGCACAAGGCTTGCTAGGCTCAAAGCC
1 ACACCGGCATAAGGCCTGCTAGACTCAAAGCC
57111935 CGAATGTCAC
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
40 4 0.07
41 53 0.87
42 4 0.07
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
ACACCGGCATAAGGCCTGCTAGACTCAAAGCCTGATTTTAT
Found at i:57115706 original size:24 final size:24
Alignment explanation
Indices: 57115666--57115712 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
57115656 TAGGGAATGA
**
57115666 AAACTTCCACAGTCTTGAGAATAG
1 AAACTTCCACAACCTTGAGAATAG
*
57115690 AAACTTCCACAACCTTGGGAATA
1 AAACTTCCACAACCTTGAGAATA
57115713 AGAACATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (24 bp):
AAACTTCCACAACCTTGAGAATAG
Found at i:57121489 original size:49 final size:49
Alignment explanation
Indices: 57121428--57121630 Score: 370
Period size: 49 Copynumber: 4.1 Consensus size: 49
57121418 ATGTATGAGA
* *
57121428 TGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
57121477 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
57121526 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
57121575 TGTATATGTGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
57121624 TATATAT
1 TGTATAT
57121631 ATATGTGGCA
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 150 1.00
ACGTcount: A:0.30, C:0.08, G:0.31, T:0.32
Consensus pattern (49 bp):
TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:57121669 original size:98 final size:96
Alignment explanation
Indices: 57121463--57121669 Score: 274
Period size: 98 Copynumber: 2.1 Consensus size: 96
57121453 GCTGATGTGA
*
57121463 TGAATG-TGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 TGAATGTTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGT
* * * * * *
57121527 GTATATGTGTGATAAGGCCTAATGGCCGATG
66 ATATATATGTGACAAAGCCGAATGGCCAATG
57121558 TG-ATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
1 TGAATG--T-TGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAG
* *
57121622 TGTATATATATATGTGGCAAAGCCGAATGGCTAATG
63 TG--TATATATATGTGACAAAGCCGAATGGCCAATG
57121658 TGAATGTTGAAA
1 TGAATGTTGAAA
57121670 CATGTGATTA
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
94 3 0.03
95 2 0.02
98 61 0.64
99 1 0.01
100 26 0.27
101 3 0.03
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (96 bp):
TGAATGTTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGT
ATATATATGTGACAAAGCCGAATGGCCAATG
Found at i:57121756 original size:37 final size:36
Alignment explanation
Indices: 57121701--57121787 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
57121691 AACTTGGAAA
57121701 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
57121739 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
57121776 TATGTCCGGGTA
1 TATGTCCGGGTA
57121788 AGACTTCGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:57124282 original size:46 final size:46
Alignment explanation
Indices: 57124196--57124410 Score: 224
Period size: 46 Copynumber: 4.6 Consensus size: 46
57124186 ACATATTCGT
* *
57124196 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGCA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AG
*
57124242 GCCGATGCATGTCCCAGACATATCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAG
* * * *
57124288 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
** * * *
57124334 GTTGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAG
57124382 GCCGATGCATGTCCCAGACATGTCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACA
57124411 ATAGCACACA
Statistics
Matches: 141, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
44 9 0.06
45 16 0.11
46 66 0.47
47 27 0.19
48 22 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAG
Found at i:57124363 original size:94 final size:97
Alignment explanation
Indices: 57124047--57124415 Score: 322
Period size: 94 Copynumber: 3.9 Consensus size: 97
57124037 CATAGGGTAT
* * * * *
57124047 AATGCTGATGGCATGTCCTAGACATGGTCTTACACTGG--CTCATCCATC-AAGTCGATGCCATG
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAC-TCGAGGCCGATGCCATG
* * * * **
57124109 TTCCAGACATGGTCTTACACTAACTATAGAAATC
65 TCCCAGACATGGTCTTACACTAGCTCTCG-TCTC
* * * * * *
57124143 AAGGCTGATGCCATGTCCAACACATGGTCTTACACTAGCTCTCACATATTCG-TGCCGATGCCAT
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATACTCGAGGCCGATGCCAT
* *
57124207 GTCCCAGACATGGTCTTACACT-GACACATC-TCGC
64 GTCCCAGACATGGTCTTACACTAG-CTC-TCGTCTC
* *
57124241 -A-GCCGATG-CATGTCCCAGACAT-ATCTTACACTGGCT-TACAT-CTCGAGGCCGATG-CATG
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATACTCGAGGCCGATGCCATG
57124299 TCCCAGACAT-GTCTTACACTAGCTCTCGTCTC
65 TCCCAGACATGGTCTTACACTAGCTCTCGTCTC
* * * *
57124331 AATGTTGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG-CATGT
1 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTCGAGGCCGATGCCATGT
*
57124394 CCCAGACAT-GTCTTACAATAGC
66 CCCAGACATGGTCTTACACTAGC
57124416 ACACAAATAA
Statistics
Matches: 224, Mismatches: 33, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
89 2 0.01
90 15 0.07
91 19 0.08
92 16 0.07
93 14 0.06
94 63 0.28
95 14 0.06
96 39 0.17
97 1 0.00
98 3 0.01
99 34 0.15
100 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (97 bp):
AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTCGAGGCCGATGCCATGT
CCCAGACATGGTCTTACACTAGCTCTCGTCTC
Found at i:57128076 original size:40 final size:40
Alignment explanation
Indices: 57128031--57128197 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57128021 CGGAATATAA
57128031 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57128071 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57128111 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57128151 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57128190 CCGGATAT
1 CCGGATAT
57128198 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57136045 original size:40 final size:40
Alignment explanation
Indices: 57136000--57136166 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57135990 CGGAATATAA
57136000 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57136040 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57136080 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57136120 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57136159 CCGGATAT
1 CCGGATAT
57136167 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57139221 original size:30 final size:29
Alignment explanation
Indices: 57139127--57139228 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
57139117 TATAGTGAAT
* * *
57139127 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
57139156 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
57139184 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
57139214 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
57139229 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:57147106 original size:30 final size:29
Alignment explanation
Indices: 57147012--57147113 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
57147002 TATAGTGAAT
* * *
57147012 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
57147041 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
57147069 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
57147099 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
57147114 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:57149355 original size:28 final size:28
Alignment explanation
Indices: 57149305--57149374 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
57149295 GTATATCCGA
57149305 ATCTCAAATTCGTA-ACTGATAATAACCTG
1 ATCTCAAA-TC-TATACTGATAATAACCTG
57149334 ATCTCAAATCTATACTGATAATAACCTG
1 ATCTCAAATCTATACTGATAATAACCTG
57149362 ATCTCAAATCTAT
1 ATCTCAAATCTAT
57149375 CTTTGAAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.05
28 30 0.75
29 8 0.20
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (28 bp):
ATCTCAAATCTATACTGATAATAACCTG
Found at i:57153087 original size:40 final size:40
Alignment explanation
Indices: 57153010--57153233 Score: 319
Period size: 40 Copynumber: 5.5 Consensus size: 40
57153000 ACCCAAGTAT
* *
57153010 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
57153049 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
57153089 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
57153129 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
57153172 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
57153212 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
57153234 CATCCGAATA
Statistics
Matches: 168, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
39 12 0.07
40 119 0.71
41 1 0.01
43 36 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:57153206 original size:83 final size:80
Alignment explanation
Indices: 57153010--57153233 Score: 326
Period size: 83 Copynumber: 2.8 Consensus size: 80
57153000 ACCCAAGTAT
* * * *
57153010 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
57153074 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* *
57153089 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
57153153 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
57153172 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
57153234 CATCCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 68 0.52
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:57156772 original size:20 final size:22
Alignment explanation
Indices: 57156734--57156773 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
57156724 TTAATATTAC
*
57156734 ATATATATTTTATAGTTGTTTT
1 ATATATATTATATAGTTGTTTT
57156756 ATATATATTAT-TA-TTGTT
1 ATATATATTATATAGTTGTT
57156774 CCTAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (22 bp):
ATATATATTATATAGTTGTTTT
Found at i:57157212 original size:15 final size:16
Alignment explanation
Indices: 57157180--57157218 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 16
57157170 TATGTATATG
57157180 TATTTGATTTTACCATA
1 TATTT-ATTTTACCATA
57157197 TATTTATTTT-CCATA
1 TATTTATTTTACCATA
57157212 TATTTAT
1 TATTTAT
57157219 GTAATGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 12 0.55
16 5 0.23
17 5 0.23
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (16 bp):
TATTTATTTTACCATA
Found at i:57160210 original size:34 final size:34
Alignment explanation
Indices: 57160158--57160240 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 34
57160148 TGACCAAATT
57160158 TCACTTG-C-AACA-TAACCAATTCATACATTGC
1 TCACTTGACTAACATTAACCAATTCATACATTGC
57160189 TCACTTGACTAACATTAACCAATTCATACATTGC
1 TCACTTGACTAACATTAACCAATTCATACATTGC
57160223 TCACTTGACTAACATTAA
1 TCACTTGACTAACATTAA
57160241 TCATTTTTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
31 7 0.14
32 1 0.02
33 4 0.08
34 37 0.76
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (34 bp):
TCACTTGACTAACATTAACCAATTCATACATTGC
Found at i:57162064 original size:100 final size:97
Alignment explanation
Indices: 57161875--57162099 Score: 231
Period size: 100 Copynumber: 2.3 Consensus size: 97
57161865 GTGAGGTCAT
* * ** *
57161875 GTGTGTAGTACTAAGTGCAAGCTACTACGTATACTGGATTATTGGTTGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTATACTAGATTATTGGTCACATGCGTAGTACTAAGT
57161940 GCAGGCTACTATGCGCACCTGATAACTTCGATCAC
66 GCAGGCTACTA-GCGCACCTGATAA-TT-GATCAC
* * *
57161975 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGT-TTAGGTCACGTGCGTATTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTATACT-AGAT-TATT-GGTCACATGCGTAGTACTA
*** * *
57162038 AGTGCAGGCTACTA-CGTGTCTGGATAATTGGTCGC
63 AGTGCAGGCTACTAGCGCACCT-GATAATTGATCAC
* *
57162073 ATGTTTAGTACTAAGTGCAGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
57162100 TGCGTACCAG
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
98 29 0.27
99 7 0.07
100 41 0.39
101 29 0.27
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (97 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTATACTAGATTATTGGTCACATGCGTAGTACTAAGT
GCAGGCTACTAGCGCACCTGATAATTGATCAC
Found at i:57181190 original size:24 final size:24
Alignment explanation
Indices: 57181022--57181190 Score: 252
Period size: 24 Copynumber: 7.0 Consensus size: 24
57181012 GCTTTATCAT
* *
57181022 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
57181047 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
57181071 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
57181095 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
57181118 AGTAACTGGGGCATAAGCCCTTTTG
1 A-TAACTGGGGCATAAGCCCTTTTG
57181143 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
57181167 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
57181191 CACTTCCTCC
Statistics
Matches: 135, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
23 1 0.01
24 121 0.90
25 13 0.10
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:57181264 original size:20 final size:20
Alignment explanation
Indices: 57181239--57181305 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
57181229 TTATGAATAC
57181239 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
57181259 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57181279 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57181299 ACCATGT
1 ATCATGT
57181306 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:57181270 original size:11 final size:11
Alignment explanation
Indices: 57181239--57181294 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
57181229 TTATGAATAC
57181239 ATCATGTGCAT
1 ATCATGTGCAT
*
57181250 ATCA--TACAT
1 ATCATGTGCAT
57181259 ATCATGTGCAT
1 ATCATGTGCAT
*
57181270 ATCA--TACAT
1 ATCATGTGCAT
*
57181279 GTCATGTGCAT
1 ATCATGTGCAT
57181290 ATCAT
1 ATCAT
57181295 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Done.