Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 63 of 318
Found at i:18219843 original size:47 final size:47
Alignment explanation
Indices: 18219774--18219963 Score: 276
Period size: 47 Copynumber: 4.0 Consensus size: 47
18219764 GGAGGAAGTG
*
18219774 CAAAAGGGCTTATGCCCCAGTTATGAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
18219821 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
* *
18219869 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* * *
18219915 TAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
18219964 ATGATAAAGC
Statistics
Matches: 131, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
46 22 0.17
47 66 0.50
48 32 0.24
49 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:18231556 original size:28 final size:28
Alignment explanation
Indices: 18231516--18231581 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
18231506 AGCTTAGCCG
*
18231516 AATTTAGTCCCTCAAAACTCATTTTTAC
1 AATTTAGCCCCTCAAAACTCATTTTTAC
18231544 AATTTAGCCCCTCAAAACTCATTTTTAC
1 AATTTAGCCCCTCAAAACTCATTTTTAC
18231572 AATTTAGCCC
1 AATTTAGCCC
18231582 ACATAGCTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (28 bp):
AATTTAGCCCCTCAAAACTCATTTTTAC
Found at i:18231591 original size:27 final size:28
Alignment explanation
Indices: 18231516--18231594 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 28
18231506 AGCTTAGCCG
* *
18231516 AATTTAGTCCCTCAAAACTCATTTTTAC
1 AATTTAGCCCCACAAAACTCATTTTTAC
*
18231544 AATTTAGCCCCTCAAAACTCATTTTTAC
1 AATTTAGCCCCACAAAACTCATTTTTAC
* *
18231572 AATTTAG-CCCACATAGCTCATTT
1 AATTTAGCCCCACAAAACTCATTT
18231595 CATCAAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 13 0.28
28 34 0.72
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (28 bp):
AATTTAGCCCCACAAAACTCATTTTTAC
Found at i:18234319 original size:40 final size:40
Alignment explanation
Indices: 18234193--18234321 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
18234183 TGCTGGAAAT
* * * * *
18234193 TATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
* * **
18234233 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACAC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
* *
18234273 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGAC
18234313 TATATCCGG
1 TATATCCGG
18234322 TTATATTCCG
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
Found at i:18237354 original size:27 final size:28
Alignment explanation
Indices: 18237298--18237367 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
18237288 AAATTTGTAC
18237298 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
18237326 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
18237353 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
18237368 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:18237378 original size:27 final size:27
Alignment explanation
Indices: 18237298--18237379 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
18237288 AAATTTGTAC
* *
18237298 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
18237326 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
18237353 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
18237380 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:18245162 original size:27 final size:28
Alignment explanation
Indices: 18245106--18245175 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
18245096 AAATTTGTAC
18245106 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
18245134 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
18245161 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
18245176 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:18245186 original size:27 final size:27
Alignment explanation
Indices: 18245106--18245187 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
18245096 AAATTTGTAC
* *
18245106 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
18245134 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
18245161 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
18245188 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:18247822 original size:6 final size:6
Alignment explanation
Indices: 18247811--18247843 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
18247801 TAAGATACAC
18247811 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGA
1 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGA
18247844 TATTTCCACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
AGAGGA
Found at i:18254654 original size:46 final size:43
Alignment explanation
Indices: 18254523--18254693 Score: 146
Period size: 46 Copynumber: 3.7 Consensus size: 43
18254513 TATGAGAGCC
* * * *
18254523 AGTGTAAGACCATGTCTGGGAAATGGCATCGGTATTGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTCGAGA--CGTGCT
* * *
18254571 AGTGTAAGACATGTCTGGGACACGTATCAGCCTCGAGACGTACGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTCGAGACGT--GCT
* *
18254617 AGTGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGTG-T
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGACGTGCT
18254660 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
18254694 ACAGATATAC
Statistics
Matches: 103, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 12 0.12
45 16 0.16
46 52 0.50
47 13 0.13
48 9 0.09
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGACGTGCT
Found at i:18261412 original size:40 final size:40
Alignment explanation
Indices: 18261355--18261537 Score: 242
Period size: 40 Copynumber: 4.6 Consensus size: 40
18261345 TGGATGATAA
* * * *
18261355 CCGGGCTAAGTCTCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
18261395 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
18261435 CCGGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
* * ***
18261475 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTAAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
18261515 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
18261538 CAAGTAAGTA
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
Found at i:18261553 original size:80 final size:80
Alignment explanation
Indices: 18261355--18261572 Score: 217
Period size: 80 Copynumber: 2.7 Consensus size: 80
18261345 TGGATGATAA
* *** * * *
18261355 CCGGGCTAAGTCTCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCAAGCAAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
* * *
18261419 GTGCGAGTTACTAGAT
65 GTACGAGTTACTAAAG
* *** *
18261435 CCGGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTCAAGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
18261500 TACGAGTTACTAAAG
66 TACGAGTTACTAAAG
* * * * *
18261515 CCGGGCTATGTCCCGAAGGCATTCAAGTAAG-TAGCTATATTC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCAAGCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
18261573 TACTTGGCTT
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 17 0.15
80 100 0.85
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCAAGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
TACGAGTTACTAAAG
Found at i:18265165 original size:41 final size:41
Alignment explanation
Indices: 18265120--18265237 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
18265110 TGAAAGATAA
18265120 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
18265161 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18265191 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18265232 ATGTAG
1 ATGTAG
18265238 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:18265176 original size:71 final size:71
Alignment explanation
Indices: 18265088--18265251 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18265078 GAGATGTATC
18265088 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18265153 AGGACA
66 AGGACA
18265159 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18265224 AGGACA
66 AGGACA
18265230 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
18265252 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:18270506 original size:93 final size:93
Alignment explanation
Indices: 18270394--18270565 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18270384 GCCCATAAGT
* *
18270394 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18270459 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
18270487 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18270552 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
18270566 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18270561 original size:46 final size:46
Alignment explanation
Indices: 18270386--18270561 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
18270376 TGTAACCCGC
* * *
18270386 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
18270432 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
18270482 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
18270525 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18270562 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:18272989 original size:30 final size:30
Alignment explanation
Indices: 18272945--18273033 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
18272935 CAAAGATAAC
18272945 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
18272974 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
18273004 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
18273034 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:18272993 original size:15 final size:15
Alignment explanation
Indices: 18272945--18273024 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
18272935 CAAAGATAAC
*
18272945 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
18272959 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
18272974 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
18272989 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
18273004 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
18273019 AAGAAA
1 AAGAAA
18273025 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:18273033 original size:15 final size:15
Alignment explanation
Indices: 18272956--18273033 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
18272946 AGAAAACCGA
18272956 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
18272971 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
18272985 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
18273000 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
18273016 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
18273031 ATA
1 ATA
18273034 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:18276093 original size:93 final size:93
Alignment explanation
Indices: 18275981--18276152 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18275971 GCCCATAAGT
* *
18275981 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18276046 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
18276074 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18276139 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
18276153 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18276148 original size:46 final size:46
Alignment explanation
Indices: 18275973--18276148 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
18275963 TGTAACCCGC
* * *
18275973 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
18276019 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
18276069 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
18276112 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18276149 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:18281106 original size:41 final size:41
Alignment explanation
Indices: 18281061--18281178 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
18281051 TGAAAGATAA
18281061 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
18281102 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18281132 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
18281173 ATGTAG
1 ATGTAG
18281179 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:18281117 original size:71 final size:71
Alignment explanation
Indices: 18281029--18281192 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18281019 GAGATGTATC
18281029 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18281094 AGGACA
66 AGGACA
18281100 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
18281165 AGGACA
66 AGGACA
18281171 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
18281193 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:18288079 original size:40 final size:40
Alignment explanation
Indices: 18288024--18288206 Score: 276
Period size: 40 Copynumber: 4.6 Consensus size: 40
18288014 TGGATGATAA
* * * *
18288024 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAT
18288064 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAT
*
18288104 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAT
* * * *
18288144 CCGGGCTAAGTCCGGAAGGCATTGGTGCGAGTTACTAAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAT
*
18288184 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
18288207 CGAGTAAGTA
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGAT
Found at i:18288222 original size:80 final size:79
Alignment explanation
Indices: 18288024--18288241 Score: 255
Period size: 80 Copynumber: 2.7 Consensus size: 79
18288014 TGGATGATAA
*
18288024 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGT-GACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAG-TAGTAG-CTA-TATCCGGGCTAAGTCCCGAAGGCATT
* * *
18288087 TGTGCGAGTTACTAGAT
63 GGTGCGAGTTACTAAAG
* * *
18288104 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCGGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAG-TAG-TAGCTATATCCGGGCTAAGTCCCGAAGGCATTG
18288168 GTGCGAGTTACTAAAG
64 GTGCGAGTTACTAAAG
* * * *
18288184 CCGGGCTATGTCCCGAAGGCATTCGAGTAAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGT-AGTAGCTATATCCGGGCTAAGTCCCGAAGG
18288242 TACTTGGCTT
Statistics
Matches: 120, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
79 16 0.13
80 103 0.86
81 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGTAGTAGCTATATCCGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTAAAG
Found at i:18289460 original size:43 final size:43
Alignment explanation
Indices: 18289412--18289495 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
18289402 ATATATGAGT
* *
18289412 CTAGTTTCAGGAAAAATTTACGGAACTAGTTTTTGAGTTTTTC
1 CTAGTTTCAGGAAAAATTTACAGAACTAGTTTTCGAGTTTTTC
*
18289455 CTAGTTTCAGGAAAAATTTACAGAACTGGTTTTCGAGTTTT
1 CTAGTTTCAGGAAAAATTTACAGAACTAGTTTTCGAGTTTT
18289496 GGAACTCGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (43 bp):
CTAGTTTCAGGAAAAATTTACAGAACTAGTTTTCGAGTTTTTC
Found at i:18291832 original size:30 final size:30
Alignment explanation
Indices: 18291798--18291877 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
18291788 TTTCGGGCCT
*
18291798 AGGGGTAAAATGGTCATTTTGTTAAAGTCA
1 AGGGGCAAAATGGTCATTTTGTTAAAGTCA
*
18291828 AGGGGCAAAATGGTCATTTTGTTAAAGTCT
1 AGGGGCAAAATGGTCATTTTGTTAAAGTCA
*
18291858 ATGGGCAAAATGGTCATTTT
1 AGGGGCAAAATGGTCATTTT
18291878 ACCAAAGATA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (30 bp):
AGGGGCAAAATGGTCATTTTGTTAAAGTCA
Found at i:18304646 original size:27 final size:28
Alignment explanation
Indices: 18304616--18304685 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
18304606 ATAATAAGTC
*
18304616 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
18304643 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
18304671 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18304686 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:18310101 original size:29 final size:30
Alignment explanation
Indices: 18310067--18310125 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18310057 ATTTAATACG
18310067 AACTTTGGCA-AAATACA-TTTTTGCCCCTA
1 AACTTTGGCATAAATACACTTTTT-CCCCTA
* *
18310096 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCATAAATACACTTTTTCCCCTA
18310126 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 9 0.35
30 12 0.46
31 5 0.19
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AACTTTGGCATAAATACACTTTTTCCCCTA
Found at i:18314614 original size:51 final size:49
Alignment explanation
Indices: 18314546--18314681 Score: 166
Period size: 49 Copynumber: 2.7 Consensus size: 49
18314536 TGTGAGGTCG
18314546 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAA-AACTGTGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GAATAA-T-TGATCA
* * * * * *
18314597 CGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGAATAATTGATCA
* *
18314646 CATGTGTAGTACTATGTGCAGCCTACTATGCGTACC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
18314682 AGATAGCTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
49 34 0.47
50 4 0.06
51 34 0.47
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGAATAATTGATCA
Found at i:18314672 original size:49 final size:51
Alignment explanation
Indices: 18314541--18314681 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 51
18314531 TCTATTGTGA
*
18314541 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCTGAAAACTGT
* * * * *
18314592 GATCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTACC-GAATAA-T-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCTGAA-AACTGT
* * *
18314641 GGTCGCATGTGTAGTACTATGTGCAGCCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
18314682 AGATAGCTTT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 34 0.45
50 4 0.05
51 37 0.49
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCTGAAAACTGT
Found at i:18318559 original size:40 final size:40
Alignment explanation
Indices: 18318490--18318630 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
18318480 CCAAGGCTTA
* * * * *
18318490 CGGGACTTAACCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* *
18318530 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * * *
18318570 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
*
18318610 CGGGTCTTAACCCGGATATAA
1 CGGGTCTTAGCCCGGATATAA
18318631 TTTTTAGCAT
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
Found at i:18318639 original size:40 final size:39
Alignment explanation
Indices: 18318490--18318668 Score: 153
Period size: 40 Copynumber: 4.5 Consensus size: 39
18318480 CCAAGGCTTA
* * ** *
18318490 CGGGACTTAACCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATAT-AAAATTTGCACAATTGCCTT
* *
18318530 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAA-AATTTGCAC-AATTGCCTT
** * *
18318570 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATA-AAATTTGCACAATTGCCTT
* ** * *
18318610 CGGGTCTTAACCCGGATATAATTTTTAGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAAAATTT-GCACAATTGCCTT
*
18318650 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
18318669 CATTCAATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 5 0.04
40 108 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.29
Consensus pattern (39 bp):
CGGGTCTTAGCCCGGATATAAAATTTGCACAATTGCCTT
Found at i:18321288 original size:49 final size:48
Alignment explanation
Indices: 18321224--18321398 Score: 174
Period size: 49 Copynumber: 3.5 Consensus size: 48
18321214 CAGGTACGCA
* *
18321224 TAGTAGCCTACACTTAGTACTACACATAAGTCCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGAGTCCAAT-ATCTGGTACACG
* * * * * *
18321273 TAGTAGCCTGCACTTAGTACTACGCACGTGA-TCACAGTTTTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTA--CACATGAGTC-CAATATCT-GGTACACG
* * *
18321324 TAGTAGCCTGCACTTACTACTACACATGCGACCAATTATCCT-GTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGAGTCCAA-TAT-CTGGTACACG
18321373 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
18321399 CGTAACCTCA
Statistics
Matches: 101, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
49 58 0.57
50 7 0.07
51 36 0.36
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGAGTCCAATATCTGGTACACG
Found at i:18321338 original size:100 final size:100
Alignment explanation
Indices: 18321216--18321401 Score: 293
Period size: 100 Copynumber: 1.9 Consensus size: 100
18321206 GAAGCTATCA
* *
18321216 GGTACGCATAGTAGCCTACACTTAGTACTACACATAAGTCCAATAAT-CTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTACTACTACACATAAGACCAATAATCCT-GTACACGTAGTAGC
*
18321280 CTGCACTTAGTACTACGCACGTGATCACAGTTTTTG
65 CTGCACTTAGTACTACACACGTGATCACAGTTTTTG
* ** *
18321316 GGTACGCATAGTAGCCTGCACTTACTACTACACATGCGACCAATTATCCTGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTACTACTACACATAAGACCAATAATCCTGTACACGTAGTAGCC
18321381 TGCACTTAGTACTACACACGT
66 TGCACTTAGTACTACACACGT
18321402 AACCTCACAA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 76 0.97
101 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTACACTTACTACTACACATAAGACCAATAATCCTGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTTG
Found at i:18325647 original size:93 final size:93
Alignment explanation
Indices: 18325534--18325705 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
18325524 GCCCATAAGT
* *
18325534 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18325599 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
18325627 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18325692 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
18325706 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18325701 original size:46 final size:46
Alignment explanation
Indices: 18325526--18325701 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
18325516 TGTAACCCGC
* * * *
18325526 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
18325572 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
18325622 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
18325665 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18325702 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:18325720 original size:46 final size:45
Alignment explanation
Indices: 18325577--18325720 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
18325567 CGCATCCATA
* *
18325577 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
18325625 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
18325670 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
18325716 AGTGA
1 AGTGA
18325721 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:18331965 original size:38 final size:38
Alignment explanation
Indices: 18331868--18331967 Score: 157
Period size: 38 Copynumber: 2.6 Consensus size: 38
18331858 TTAAGCTCAA
*
18331868 ATATAATACCAGGACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* *
18331906 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
18331944 ATATAATACCAGCA-TATAGCCTGC
1 ATATAATACCAGCACTA-AGCCTGC
18331968 AGATCTTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
37 1 0.02
38 56 0.98
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
Found at i:18334454 original size:48 final size:48
Alignment explanation
Indices: 18334383--18334696 Score: 304
Period size: 48 Copynumber: 6.5 Consensus size: 48
18334373 AGTACCAATA
* * *
18334383 CCATGTCCCCGACATGGTCTTACA-TGAATCCACATATCATCGCAGATG
1 CCATGTCCCAGACATGGTCTTACACTG-AGCCACATATCATCGCCGATG
* * *
18334431 CCATGTCCCAGACATGATCTTACACTG-GCACATATATCATCACCGATG
1 CCATGTCCCAGACATGGTCTTACACTGAGC-CACATATCATCGCCGATG
*
18334479 CCATGTCCCAGACATGGTCTTACACT-AG-CACATACATCATCGTCGAATG
1 CCATGTCCCAGACATGGTCTTACACTGAGCCACAT--ATCATCGCCG-ATG
* * *
18334528 CCATGCCCCAGACATGGTCTTACACTG-GCACATATATCATCGCCGTTG
1 CCATGTCCCAGACATGGTCTTACACTGAGC-CACATATCATCGCCGATG
* * *
18334576 CCATGTCCCAAACATGGTCTTACACTG-GCATACATATTATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGAGC-CACATATCATCGCCGATG
* * * *
18334624 CCATGTCCCAAACATGGTCTTACAC--AGGCACCTATC-TCAGATGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTGAGCCACATATCATC----GCCGATG
*
18334673 CCATGTCCTAGACATGGTCTTACA
1 CCATGTCCCAGACATGGTCTTACA
18334697 TGGAATCTCA
Statistics
Matches: 225, Mismatches: 27, Indels: 27
0.81 0.10 0.10
Matches are distributed among these distances:
45 2 0.01
46 9 0.04
47 2 0.01
48 140 0.62
49 68 0.30
51 4 0.02
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGAGCCACATATCATCGCCGATG
Found at i:18334556 original size:97 final size:94
Alignment explanation
Indices: 18334383--18334696 Score: 350
Period size: 97 Copynumber: 3.3 Consensus size: 94
18334373 AGTACCAATA
* *
18334383 CCATGTCCCCGACATGGTCTTACA-TG-AATCCACATATCATCGCAGATGCCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTGCAAT--ACATATCGTCG-A-ATGCCATGTCCCAGACAT
* *
18334446 GATCTTACACTGGCACATATATCATCACCGATG
62 GGTCTTACACTGGCACATATATCATCGCCGATG
*
18334479 CCATGTCCCAGACATGGTCTTACACTAGCACATACATCATCGTCGAATGCCATGCCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACT-GCA-ATACAT-ATCGTCGAATGCCATGTCCCAGACATG
*
18334544 GTCTTACACTGGCACATATATCATCGCCGTTG
63 GTCTTACACTGGCACATATATCATCGCCGATG
* * *
18334576 CCATGTCCCAAACATGGTCTTACACTGGC-ATACATATTATCGCCG-ATGCCATGTCCCAAACAT
1 CCATGTCCCAGACATGGTCTTACACT-GCAATAC--A-TATCGTCGAATGCCATGTCCCAGACAT
* * * *
18334639 GGTCTTACACAGGCACCTATCTCAGAT-GCTGATG
62 GGTCTTACACTGGCACATATATC--ATCGCCGATG
*
18334673 CCATGTCCTAGACATGGTCTTACA
1 CCATGTCCCAGACATGGTCTTACA
18334697 TGGAATCTCA
Statistics
Matches: 190, Mismatches: 18, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
95 4 0.02
96 59 0.31
97 109 0.57
98 9 0.05
99 7 0.04
100 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (94 bp):
CCATGTCCCAGACATGGTCTTACACTGCAATACATATCGTCGAATGCCATGTCCCAGACATGGTC
TTACACTGGCACATATATCATCGCCGATG
Found at i:18334696 original size:145 final size:145
Alignment explanation
Indices: 18334383--18334648 Score: 385
Period size: 145 Copynumber: 1.8 Consensus size: 145
18334373 AGTACCAATA
* * *
18334383 CCATGTCCCC-GACATGGTCTTACA-T-GAATCCACATATCATCGCAGATGCCATGTCCCAGACA
1 CCATG-CCCCAGACATGGTCTTACACTGGCA--CATATATCATCGCAGATGCCATGTCCCAAACA
* *
18334445 TGATCTTACACTGGCACATATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
63 TGATCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACTAGCAC
18334510 ATACATCATCGTCGAATG
128 ATACATCATCGTCGAATG
* * *
18334528 CCATGCCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGTTGCCATGTCCCAAACATGG
1 CCATGCCCCAGACATGGTCTTACACTGGCACATATATCATCGCAGATGCCATGTCCCAAACATGA
* * *
18334593 TCTTACACTGGCATACATATTATCGCCGATGCCATGTCCCAAACATGGTCTTACAC
66 TCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACAC
18334649 AGGCACCTAT
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
144 4 0.04
145 100 0.93
146 1 0.01
147 2 0.02
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (145 bp):
CCATGCCCCAGACATGGTCTTACACTGGCACATATATCATCGCAGATGCCATGTCCCAAACATGA
TCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACTAGCACATA
CATCATCGTCGAATG
Found at i:18337785 original size:15 final size:15
Alignment explanation
Indices: 18337765--18337795 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18337755 CCTTTCCCGT
18337765 CTCAGGTTAAACTAA
1 CTCAGGTTAAACTAA
18337780 CTCAGGTTAAACTAA
1 CTCAGGTTAAACTAA
18337795 C
1 C
18337796 ACTGGAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (15 bp):
CTCAGGTTAAACTAA
Found at i:18341933 original size:43 final size:41
Alignment explanation
Indices: 18341823--18341934 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 41
18341813 ATGATTTATG
* * *
18341823 TGTAAGACCACATCTGGACATTGGCATCGTATTTGATTTCA
1 TGTAAGACCACGTCTGGACTTTGGCATCGTATTTGATTACA
* * *
18341864 TGTAAGATCC-TGTCTAGGA-TAGTGGCATCGATATTTGGTTACA
1 TGTAAGA-CCACGTCT-GGACT-TTGGCATCG-TATTTGATTACA
18341907 TGTAAGACCACGTCTGGGACTTTGGCAT
1 TGTAAGACCACGTCT-GGACTTTGGCAT
18341935 TGTACGAGCT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
41 10 0.18
42 15 0.27
43 30 0.54
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGACTTTGGCATCGTATTTGATTACA
Found at i:18342195 original size:22 final size:22
Alignment explanation
Indices: 18342169--18342240 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
18342159 TGAATTGGAA
18342169 ATATGAGAAATGTATATGAACT
1 ATATGAGAAATGTATATGAACT
*** *
18342191 ATATGA-TTTTTTATAATTGGAA--
1 ATATGAGAAATGTAT-A-T-GAACT
18342213 ATATGAGAAATGTATATGAACT
1 ATATGAGAAATGTATATGAACT
18342235 ATATGA
1 ATATGA
18342241 TTTTTTTAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
20 3 0.08
21 5 0.14
22 20 0.56
23 5 0.14
24 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.38
Consensus pattern (22 bp):
ATATGAGAAATGTATATGAACT
Found at i:18342261 original size:44 final size:44
Alignment explanation
Indices: 18342161--18342246 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
18342151 TGTGCAAATG
18342161 AATTGGAAATATGAGAAATGTATATGAACTATATGATTTTTTAT
1 AATTGGAAATATGAGAAATGTATATGAACTATATGATTTTTTAT
18342205 AATTGGAAATATGAGAAATGTATATGAACTATATGATTTTTT
1 AATTGGAAATATGAGAAATGTATATGAACTATATGATTTTTT
18342247 TAGTATTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (44 bp):
AATTGGAAATATGAGAAATGTATATGAACTATATGATTTTTTAT
Found at i:18363469 original size:22 final size:20
Alignment explanation
Indices: 18363444--18363486 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
18363434 CATCGGCCGA
18363444 ATATGCATAAACTCATTTACAT
1 ATATGCATAAA-TCATTT-CAT
* *
18363466 ATATTCATGAATCATTTCAT
1 ATATGCATAAATCATTTCAT
18363486 A
1 A
18363487 AATATTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 6 0.32
22 9 0.47
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (20 bp):
ATATGCATAAATCATTTCAT
Found at i:18370196 original size:40 final size:40
Alignment explanation
Indices: 18370159--18370290 Score: 162
Period size: 40 Copynumber: 3.3 Consensus size: 40
18370149 GCTACTCGTT
*
18370159 CAAATGCCTTCGGGACAT-AGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TGAACCCGGATT-TAGTAACTCGCA
18370199 CAAATGCCTTCGGGACTGAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTGAACCCGGATTTAGTAACTCGCA
* * * ** *
18370239 CCAATGCCTTCGGG-CTTAGCTTGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTGAACCCGGATTTAGTAACTCGCA
18370278 CAAATGCCTTCGG
1 CAAATGCCTTCGG
18370291 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
39 33 0.40
40 47 0.57
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTGAACCCGGATTTAGTAACTCGCA
Found at i:18370327 original size:79 final size:80
Alignment explanation
Indices: 18370187--18370338 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 80
18370177 AGCCCGGTTA
* * *
18370187 TAGTAACTCGCACAAATGCCTTCGGGACTGAACCCGGATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTGAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
18370252 G-CTTAGCTTGGAAT
66 GACTTAGCTTGGAAT
* ** * *
18370266 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTGAACCCGGATATAGTAAC-TAGCACCAAAGCCTTC
18370329 GGGACTTAGC
64 GGGACTTAGC
18370339 CCGGACATCA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
78 3 0.05
79 49 0.79
80 10 0.16
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTGAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
GACTTAGCTTGGAAT
Found at i:18378376 original size:79 final size:80
Alignment explanation
Indices: 18378234--18378416 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 80
18378224 CTACTCTTCA
* * *
18378234 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
* *
18378298 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
* **
18378314 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCTCACAAATGCCTTC-AGATCTTAGTCCGGA
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGGA
* *
18378377 TATGGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
18378393 AAAGCCTTCGGGGCTTAGCCCGGA
1 AATGCCTTC-GGGCTTAGCCCGGA
18378417 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 55 0.62
80 31 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:18378416 original size:40 final size:40
Alignment explanation
Indices: 18378232--18378416 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
18378222 AGCTACTCTT
* *
18378232 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
18378272 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
18378312 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
18378351 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
18378392 CAAA-GCCTTCGGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18378417 CATCATTCGA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 31 0.26
40 80 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:18385901 original size:47 final size:47
Alignment explanation
Indices: 18385845--18385987 Score: 250
Period size: 47 Copynumber: 3.0 Consensus size: 47
18385835 GTTGAATTTA
*
18385845 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTTCTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
18385892 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
* * *
18385939 AAGCTTGTTAAATTTGCTCTTAACATTTCCGAATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
18385986 AA
1 AA
18385988 AGAAAATTTT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 92 1.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.43
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
Found at i:18386863 original size:44 final size:45
Alignment explanation
Indices: 18386790--18386906 Score: 157
Period size: 44 Copynumber: 2.6 Consensus size: 45
18386780 ATATCGTACA
* * *
18386790 ATACCATTCGGGCCTTTGAGCCTAACAGGCGA-AATACCGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCGATAATACCAGTGAG
* **
18386834 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGGCAGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCGATAATACCAGTGAG
*
18386879 ATACTATTCGGG-CTTCGAGCCTAGCAGG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGG
18386907 AAAAATGCTG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 44 0.68
45 21 0.32
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (45 bp):
ATACTATTCGGGCCTTTGAGCCTAGCAGGCGATAATACCAGTGAG
Found at i:18388368 original size:40 final size:39
Alignment explanation
Indices: 18388324--18388477 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
18388314 GTTCAAAACA
* * ** * *
18388324 CCTTCGGGACGTAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
18388364 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
18388404 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
18388443 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
18388478 TTCATTCACA
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:18388435 original size:39 final size:39
Alignment explanation
Indices: 18388354--18388477 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
18388344 TATGGTAACC
* *
18388354 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
18388394 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
18388433 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
18388472 CGCACA
1 CGCACA
18388478 TTCATTCACA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 60 0.78
40 17 0.22
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:18395869 original size:40 final size:39
Alignment explanation
Indices: 18395825--18395978 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
18395815 GTTCAAAACA
* * ** * *
18395825 CCTTCGGGACGTAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
18395865 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
18395905 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
18395944 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
18395979 TTCATTCACA
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:18395936 original size:39 final size:39
Alignment explanation
Indices: 18395855--18395978 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
18395845 TATGGTAACC
* *
18395855 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
18395895 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
18395934 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
18395973 CGCACA
1 CGCACA
18395979 TTCATTCACA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 60 0.78
40 17 0.22
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:18398224 original size:16 final size:18
Alignment explanation
Indices: 18398193--18398225 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
18398183 AACTCGTCAC
18398193 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
18398211 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
18398226 AGCCTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:18399591 original size:45 final size:43
Alignment explanation
Indices: 18399477--18399610 Score: 132
Period size: 45 Copynumber: 3.1 Consensus size: 43
18399467 ATGCTATTTC
* *
18399477 ATATCGATGCCACTGTCCCAAACAG-GGTCTTACACAAATCA-A-
1 ATATCGATGCCAATGTCCCAGAC-GTGGTCTTACACAAA-CACAT
* * *
18399519 ATA-CGATGCCGATGTCACAGACATGGTCTTACACATAACCACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACACA-AA-CACAT
*
18399563 ATATCGAGGCCAATGTCCCAGACGTGGTCTTACACGAGAACACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACAC-A-AACACAT
18399608 ATA
1 ATA
18399611 AAAAATCCTA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
41 26 0.35
42 7 0.09
43 1 0.01
44 3 0.04
45 35 0.47
46 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
ATATCGATGCCAATGTCCCAGACGTGGTCTTACACAAACACAT
Found at i:18402417 original size:48 final size:48
Alignment explanation
Indices: 18402346--18402609 Score: 349
Period size: 48 Copynumber: 5.5 Consensus size: 48
18402336 AGTACCAATT
* *
18402346 CCATGTCCCCA-ACATGGTCTTACA-T-GAATCCATATATCATCGCTGATG
1 CCATGT-CCCAGACATGGTCTTACACTGGCA--CATATATCATCGCCGATG
* *
18402394 CCATGTCCAAGACATGGTCTTACACTGGCACATATATCATTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
* * *
18402442 CCATGTCCCGGACATGATCTTACACTGGCACATACATCATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
18402490 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCC-ATTG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGA-TG
* * * *
18402538 CCATGTCCCA-AGCATGGTCTTACACTGGCATACATATTAACGCCGATG
1 CCATGTCCCAGA-CATGGTCTTACACTGGCACATATATCATCGCCGATG
18402586 CCATGTCCCAGACATGGTCTTACA
1 CCATGTCCCAGACATGGTCTTACA
18402610 TGGAATCTCA
Statistics
Matches: 193, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
47 5 0.03
48 183 0.95
49 3 0.02
50 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
Found at i:18406570 original size:51 final size:51
Alignment explanation
Indices: 18406487--18406633 Score: 213
Period size: 51 Copynumber: 2.9 Consensus size: 51
18406477 GGATACACGA
* * *
18406487 TGGCCTTCACATAGTACCACCCTTGTAGCCAAAGCTATTTTATTTACAAAG
1 TGGCCTTCACATAGTACCACACTTGTATCCAAAGCTATTTTATTCACAAAG
* * *
18406538 TGGCTTTCACACAGTACCACACTTGTATCCAAAGCTATTATATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTATCCAAAGCTATTTTATTCACAAAG
* * *
18406589 TGGCCTTCACATAGTACCACACTTCTGTCCAAAGCTAGTTTATTC
1 TGGCCTTCACATAGTACCACACTTGTATCCAAAGCTATTTTATTC
18406634 CTAAGGTTCA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 84 1.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTATCCAAAGCTATTTTATTCACAAAG
Found at i:18406694 original size:28 final size:28
Alignment explanation
Indices: 18406657--18406751 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
18406647 GGGAAATTTC
* *
18406657 TCACCTAGCACAATGCCAAGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* * *
18406685 TCACTTAGCACATTACCGTGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
18406713 TCACTTAG----ATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
18406737 TCACTTAGCACAATG
1 TCACTTAGCACAATG
18406752 TCATATCCTA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
24 20 0.37
28 34 0.63
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:18408441 original size:2 final size:2
Alignment explanation
Indices: 18408434--18408469 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
18408424 TTTCAGTGTC
*
18408434 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT A
18408470 CAATTCACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18410294 original size:15 final size:17
Alignment explanation
Indices: 18410262--18410294 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18410252 TGTTGATACT
18410262 TGTGAATGTGAGTTTGG
1 TGTGAATGTGAGTTTGG
18410279 TGTGAAT-TGA-TTTGG
1 TGTGAATGTGAGTTTGG
18410294 T
1 T
18410295 AAATTATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (17 bp):
TGTGAATGTGAGTTTGG
Found at i:18412077 original size:49 final size:50
Alignment explanation
Indices: 18411997--18412225 Score: 232
Period size: 49 Copynumber: 4.6 Consensus size: 50
18411987 ATCTATTGTG
*
18411997 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATT
* * *** *
18412047 -GGTCGCATGTGTGGTACTAAGTGCAGGCTACTATACGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAA-TT
* * * * * * **
18412097 CGATCACGTGTGCAGTACTGAGTGCAGGCTACTACGTGTATCAT-ATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCTGATAATT
* *
18412147 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-CTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCT-GATAATT
* *
18412197 -GGTCGCATGTGTAGTACTGAGTGCAGGCT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCT
18412226 GCTATGCGTA
Statistics
Matches: 142, Mismatches: 32, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
48 1 0.01
49 65 0.46
50 43 0.30
51 32 0.23
52 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATT
Found at i:18441723 original size:39 final size:39
Alignment explanation
Indices: 18441680--18441982 Score: 421
Period size: 39 Copynumber: 7.5 Consensus size: 39
18441670 TAATGGAGAA
*
18441680 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
18441719 TTATATCCGGGCTAAG-CCCTGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGCTGGTG
18441758 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
18441797 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
18441836 TTATATCCGGGCTAAGCCCCAAAGGCATTCGTGCTGGTGTTAGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC------T-GGTG
18441882 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
18441921 TTATATCCGGGCTAAG-CCCCAAGGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAA-GGCATTCGTGCTGGTG
* *
18441960 CTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
18441983 CATGCTTTGT
Statistics
Matches: 239, Mismatches: 12, Indels: 23
0.87 0.04 0.08
Matches are distributed among these distances:
38 8 0.03
39 183 0.77
40 5 0.02
41 3 0.01
42 3 0.01
45 1 0.00
46 36 0.15
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.28
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:18441907 original size:46 final size:46
Alignment explanation
Indices: 18441832--18441958 Score: 178
Period size: 46 Copynumber: 2.9 Consensus size: 46
18441822 CATTCGTGCT
18441832 GGTGTTATATCCGGGCTAAGCCCCAAAGGCATTCGTGCTGGTGTTA
1 GGTGTTATATCCGGGCTAAGCCCCAAAGGCATTCGTGCTGGTGTTA
* *
18441878 GGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC------T-
1 GGTGTTATATCCGGGCTAAGCCCCAAAGGCATTCGTGCTGGTGTTA
*
18441917 GGTGTTATATCCGGGCTAAGCCCCAAGGGCATTCGTGCTGGT
1 GGTGTTATATCCGGGCTAAGCCCCAAAGGCATTCGTGCTGGT
18441959 ACTATATTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
39 35 0.49
40 1 0.01
46 36 0.50
ACGTcount: A:0.18, C:0.23, G:0.31, T:0.28
Consensus pattern (46 bp):
GGTGTTATATCCGGGCTAAGCCCCAAAGGCATTCGTGCTGGTGTTA
Found at i:18441934 original size:124 final size:117
Alignment explanation
Indices: 18441680--18441972 Score: 442
Period size: 124 Copynumber: 2.4 Consensus size: 117
18441670 TAATGGAGAA
**
18441680 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCTGAAGGC
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCAAAGGC
18441745 ATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
66 ATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
18441797 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCAAAGGC
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCAAAGGC
*
18441862 ATTCGTGCTGGTGTTAGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
66 A-T--T--T-GTGCT-GGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * ** *
18441921 TTATATCCGGGCTAAGCCCCAAGGGCATTCGTGCTGGTACTATATTCGGGCT
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTATATCCGGGCT
18441973 TAAAGTCCCG
Statistics
Matches: 159, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
117 63 0.40
118 1 0.01
120 1 0.01
122 1 0.01
123 4 0.03
124 89 0.56
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.29
Consensus pattern (117 bp):
TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCAAAGGC
ATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:18441936 original size:85 final size:85
Alignment explanation
Indices: 18441793--18441958 Score: 323
Period size: 85 Copynumber: 2.0 Consensus size: 85
18441783 CATTCGTGCT
18441793 GGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCAA
1 GGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCAA
18441858 AGGCATTCGTGCTGGTGTTA
66 AGGCATTCGTGCTGGTGTTA
18441878 GGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCAA
1 GGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCAA
*
18441943 GGGCATTCGTGCTGGT
66 AGGCATTCGTGCTGGT
18441959 ACTATATTCG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.18, C:0.23, G:0.31, T:0.28
Consensus pattern (85 bp):
GGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCAA
AGGCATTCGTGCTGGTGTTA
Found at i:18443849 original size:20 final size:20
Alignment explanation
Indices: 18443826--18443886 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
18443816 TGTGTGCCGT
18443826 TATTGTGGGCTTCGTATCGA
1 TATTGTGGGCTTCGTATCGA
*
18443846 TATTGTGGGCTTCGTATTGA
1 TATTGTGGGCTTCGTATCGA
*
18443866 TATTGTGGGCTTCGTGTCGA
1 TATTGTGGGCTTCGTATCGA
18443886 T
1 T
18443887 TATAGACCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.13, C:0.13, G:0.31, T:0.43
Consensus pattern (20 bp):
TATTGTGGGCTTCGTATCGA
Found at i:18445735 original size:18 final size:18
Alignment explanation
Indices: 18445712--18445766 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
18445702 CTTGGCCCAT
*
18445712 TGCAGTAACAGAAAACAG
1 TGCAGTAACAGTAAACAG
* *
18445730 TGCAGTCACAGTAATCAG
1 TGCAGTAACAGTAAACAG
18445748 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
18445766 T
1 T
18445767 ATGCAAGTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:18450303 original size:29 final size:29
Alignment explanation
Indices: 18450270--18450428 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
18450260 GTGACGAGAT
18450270 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
18450299 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
18450328 TGGCACTAAGTGTGCATGCTGGAAAT-TA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
18450356 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
18450385 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
18450414 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
18450429 GAAATCGAGT
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
28 22 0.20
29 88 0.80
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:18450340 original size:58 final size:58
Alignment explanation
Indices: 18450266--18450430 Score: 176
Period size: 57 Copynumber: 2.9 Consensus size: 58
18450256 TACGGTGACG
*
18450266 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
* * **
18450323 ATATATGGCACTAAGTGTGCATGCTGGAAAT-TACGGCACTGGGTGTGCGAGCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGAGCTCGAA
* * * ** * *
18450380 GGGTATGGCACTATGTGTGCGGGCT-TAAATCACATGGCACTAAGTGTGCGA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGCGA
18450431 AATCGAGTAT
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
56 4 0.05
57 42 0.48
58 42 0.48
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGAGCTCGAA
Found at i:18459956 original size:27 final size:27
Alignment explanation
Indices: 18459920--18460046 Score: 177
Period size: 26 Copynumber: 4.8 Consensus size: 27
18459910 CATCATATAG
**
18459920 GGGCAAAATAGTCATCCTACCACATAA
1 GGGCAAAATAGTCATTTTACCACATAA
*
18459947 GGGCAAAATAGTCA-TTTACCTCATAA
1 GGGCAAAATAGTCATTTTACCACATAA
*
18459973 GGGCAAAATCGTCATTTTACCACATAA
1 GGGCAAAATAGTCATTTTACCACATAA
* * *
18460000 GGGC-AAATCGTCATTTTAACATATAA
1 GGGCAAAATAGTCATTTTACCACATAA
18460026 GGGCAAAATAGTCATTTTACC
1 GGGCAAAATAGTCATTTTACC
18460047 TTGCAAGGGT
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 46 0.52
27 43 0.48
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTTACCACATAA
Found at i:18460041 original size:53 final size:52
Alignment explanation
Indices: 18459913--18460046 Score: 180
Period size: 53 Copynumber: 2.5 Consensus size: 52
18459903 AAACATGCAT
* **
18459913 CATATAGGGGCAAAATAGTCATCCTACCACATAAGGGCAAAATAGTCATTTA
1 CATATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCATTTA
* * *
18459965 CCTCATAAGGGCAAAATCGTCATTTTACCACATAAGGGC-AAATCGTCATTTTAA
1 CAT-ATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCA-TTT-A
18460019 CATATAAGGGCAAAATAGTCATTTTACC
1 CATATAAGGGCAAAATAGTCATTTTACC
18460047 TTGCAAGGGT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
52 10 0.14
53 58 0.82
54 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (52 bp):
CATATAAGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATAGTCATTTA
Found at i:18460055 original size:27 final size:27
Alignment explanation
Indices: 18459913--18460046 Score: 166
Period size: 27 Copynumber: 5.0 Consensus size: 27
18459903 AAACATGCAT
* **
18459913 CATATAGGGGCAAAATAGTCATCCTAC
1 CATATAAGGGCAAAATAGTCATTTTAC
*
18459940 CACATAAGGGCAAAATAGTCA-TTTAC
1 CATATAAGGGCAAAATAGTCATTTTAC
*
18459966 C-TCATAAGGGCAAAATCGTCATTTTAC
1 CAT-ATAAGGGCAAAATAGTCATTTTAC
* * *
18459993 CACATAAGGGC-AAATCGTCATTTTAA
1 CATATAAGGGCAAAATAGTCATTTTAC
18460019 CATATAAGGGCAAAATAGTCATTTTAC
1 CATATAAGGGCAAAATAGTCATTTTAC
18460046 C
1 C
18460047 TTGCAAGGGT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 45 0.49
27 47 0.51
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (27 bp):
CATATAAGGGCAAAATAGTCATTTTAC
Found at i:18460065 original size:27 final size:27
Alignment explanation
Indices: 18460035--18460238 Score: 113
Period size: 27 Copynumber: 7.6 Consensus size: 27
18460025 AGGGCAAAAT
* *
18460035 AGTCATTTTACCTTGCAAGGGTATCAC
1 AGTCATTTTACCCTACAAGGGTATCAC
*
18460062 AGTCATTTTACCCTACAAGGGTATTAC
1 AGTCATTTTACCCTACAAGGGTATCAC
* * *** **
18460089 AGTCATTTCATCCTATGGGGGTATTTC
1 AGTCATTTTACCCTACAAGGGTATCAC
* * **
18460116 AGTCATTTTACCCTATAGGGGTATTTC
1 AGTCATTTTACCCTACAAGGGTATCAC
*** **
18460143 -GATCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTACAAGGGTATCAC
* ** **
18460170 AGTCATCTTACCCTACTGGGGTATTTC
1 AGTCATTTTACCCTACAAGGGTATCAC
* *** **
18460197 AGTCAATTTACCCTATGGGGGTATGTC
1 AGTCATTTTACCCTACAAGGGTATCAC
*
18460224 AGTAATTTTACCCTA
1 AGTCATTTTACCCTA
18460239 GGGGGCTATT
Statistics
Matches: 152, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 150 0.99
28 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
AGTCATTTTACCCTACAAGGGTATCAC
Found at i:18460138 original size:81 final size:81
Alignment explanation
Indices: 18460035--18460238 Score: 225
Period size: 81 Copynumber: 2.5 Consensus size: 81
18460025 AGGGCAAAAT
* ** * *
18460035 AGTCATTTTACCTTGCAAGGGTATCACAGTCATTTTACCCTACAAGGGTATTACAGTCAT-TTCA
1 AGTCATTTTACCCTATAGGGGTATCTCAGTCATTTTACCCTACAAGGGTATTACAGTCATCTT-A
*
18460099 TCCTA-TGGGGGTATTTC
65 CCCTACT-GGGGTATTTC
* *** *
18460116 AGTCATTTTACCCTATAGGGGTATTTC-GATCATTTTACCCTATGGGGGTATTTCAGTCATCTTA
1 AGTCATTTTACCCTATAGGGGTATCTCAG-TCATTTTACCCTACAAGGGTATTACAGTCATCTTA
18460180 CCCTACTGGGGTATTTC
65 CCCTACTGGGGTATTTC
* * * *
18460197 AGTCAATTTACCCTATGGGGGTATGTCAGTAATTTTACCCTA
1 AGTCATTTTACCCTATAGGGGTATCTCAGTCATTTTACCCTA
18460239 GGGGGCTATT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
80 1 0.01
81 99 0.95
82 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (81 bp):
AGTCATTTTACCCTATAGGGGTATCTCAGTCATTTTACCCTACAAGGGTATTACAGTCATCTTAC
CCTACTGGGGTATTTC
Found at i:18460243 original size:27 final size:27
Alignment explanation
Indices: 18460061--18460262 Score: 239
Period size: 27 Copynumber: 7.5 Consensus size: 27
18460051 AAGGGTATCA
*** *
18460061 CAGTCATTTTACCCTACAAGGGTATTA
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
18460088 CAGTCATTTCATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
18460115 CAGTCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
18460142 C-GATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
*
18460169 CAGTCATCTTACCCTACT-GGGGTATTT
1 CAGTCATTTTACCCTA-TGGGGGTATTT
* *
18460196 CAGTCAATTTACCCTATGGGGGTATGT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
18460223 CAGTAATTTTACCCTA-GGGGGCTATTT
1 CAGTCATTTTACCCTATGGGGG-TATTT
* *
18460250 CGGTCATTCTACC
1 CAGTCATTTTACC
18460263 TTCTGGCCCA
Statistics
Matches: 150, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.05
27 141 0.94
28 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:18464367 original size:40 final size:39
Alignment explanation
Indices: 18464322--18464451 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
18464312 CGGAATACAA
18464322 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
18464362 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
18464402 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
18464442 CCGGATATAA
1 CCGGATATAA
18464452 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:18468659 original size:29 final size:28
Alignment explanation
Indices: 18468627--18468720 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 28
18468617 ACTGTCCCTA
**
18468627 TTCATATTCGATGGTTGAAACCATCTCTT
1 TTCATATTCGATGGTTGTCACCATC-CTT
* * *
18468656 TTCATTAATCGATAGTCGTCACCATCCTTT
1 TTCA-TATTCGATGGTTGTCACCATCC-TT
18468686 TTCATAGTT-GATGGTTGTCACCATCACTT
1 TTCATA-TTCGATGGTTGTCACCATC-CTT
18468715 TTCATA
1 TTCATA
18468721 ATCAATAGCC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
29 29 0.55
30 24 0.45
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.41
Consensus pattern (28 bp):
TTCATATTCGATGGTTGTCACCATCCTT
Found at i:18468680 original size:30 final size:28
Alignment explanation
Indices: 18468646--18468871 Score: 93
Period size: 29 Copynumber: 7.8 Consensus size: 28
18468636 GATGGTTGAA
18468646 ACCATCTCTTTTCATTAATCGATAGTCGTC
1 ACCATC-CTTTTCA-TAATCGATAGTCGTC
* * * *
18468676 ACCATCCTTTTTCATAGTTGATGGTTGTC
1 ACCATCC-TTTTCATAATCGATAGTCGTC
* ***
18468705 ACCATCACTTTTCATAATCAATAG-CCAA
1 ACCATC-CTTTTCATAATCGATAGTCGTC
* *
18468733 AGCTATCTCTTTTCAT-ATCTGATAGAT-G-A
1 A-CCATC-CTTTTCATAATC-GATAG-TCGTC
* * * * * *
18468762 AGCTATCCCTTCTCATATTCGCTGGGCGTC
1 A-CCAT-CCTTTTCATAATCGATAGTCGTC
* * *
18468792 ACCATCCCTTTTCATAATCGAAAGCCG-A
1 ACCAT-CCTTTTCATAATCGATAGTCGTC
* *
18468820 AGCTATCCCTTTTCATATTCGATAGTCGTC
1 A-CCAT-CCTTTTCATAATCGATAGTCGTC
*
18468850 ACCATCCCTTTTCATATTCGAT
1 ACCAT-CCTTTTCATAATCGAT
18468872 GATCACCGAT
Statistics
Matches: 148, Mismatches: 36, Indels: 25
0.71 0.17 0.12
Matches are distributed among these distances:
28 5 0.03
29 125 0.84
30 18 0.12
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (28 bp):
ACCATCCTTTTCATAATCGATAGTCGTC
Found at i:18468798 original size:29 final size:29
Alignment explanation
Indices: 18468766--18468871 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
18468756 AGATGAAGCT
* * * *
18468766 ATCCCTTCTCATATTCGCTGGGCGTCACC
1 ATCCCTTTTCATATTCGATAGCCGTCACC
* * * *
18468795 ATCCCTTTTCATAATCGAAAGCCG-AAGCT
1 ATCCCTTTTCATATTCGATAGCCGTCA-CC
*
18468824 ATCCCTTTTCATATTCGATAGTCGTCACC
1 ATCCCTTTTCATATTCGATAGCCGTCACC
18468853 ATCCCTTTTCATATTCGAT
1 ATCCCTTTTCATATTCGAT
18468872 GATCACCGAT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
28 1 0.02
29 60 0.97
30 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCGTCACC
Found at i:18468803 original size:58 final size:57
Alignment explanation
Indices: 18468741--18468866 Score: 171
Period size: 58 Copynumber: 2.2 Consensus size: 57
18468731 AAAGCTATCT
* * * *
18468741 CTTTTCATATCTGATAGATGAAGCTATCCCTTCTCATATTCGCTGGGCGTCACCATCC
1 CTTTTCATATC-GAAAGACGAAGCTATCCCTTCTCATATTCGATAGGCGTCACCATCC
* * *
18468799 CTTTTCATAATCGAAAGCCGAAGCTATCCCTTTTCATATTCGATAGTCGTCACCATCC
1 CTTTTCAT-ATCGAAAGACGAAGCTATCCCTTCTCATATTCGATAGGCGTCACCATCC
18468857 CTTTTCATAT
1 CTTTTCATAT
18468867 TCGATGATCA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 2 0.03
58 55 0.92
59 3 0.05
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.36
Consensus pattern (57 bp):
CTTTTCATATCGAAAGACGAAGCTATCCCTTCTCATATTCGATAGGCGTCACCATCC
Found at i:18468857 original size:87 final size:86
Alignment explanation
Indices: 18468653--18468872 Score: 250
Period size: 87 Copynumber: 2.5 Consensus size: 86
18468643 GAAACCATCT
* **
18468653 CTTTTCATTAATCGATAGTCGTCACCATCCTTTTTCATAGTT-GATGGTTGTCACCATCACTTTT
1 CTTTTCA-T-ATCGATAGTCGTCACCATCCCTTTTCATA-TTCGATGGGCGTCACCATCACTTTT
*
18468717 CATAATCAATAGCCAAAGCTATCT
63 CATAATCAATAGCCAAAGCTATCC
* * * * *
18468741 CTTTTCATATCTGATAGAT-G-AAGCTATCCCTTCTCATATTCGCTGGGCGTCACCATCCCTTTT
1 CTTTTCATATC-GATAG-TCGTCA-CCATCCCTTTTCATATTCGATGGGCGTCACCATCACTTTT
*
18468804 CATAATCGAA-AGCCGAAGCTATCC
63 CATAATC-AATAGCCAAAGCTATCC
18468828 CTTTTCATATTCGATAGTCGTCACCATCCCTTTTCATATTCGATG
1 CTTTTCATA-TCGATAGTCGTCACCATCCCTTTTCATATTCGATG
18468873 ATCACCGATA
Statistics
Matches: 110, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
86 7 0.06
87 90 0.82
88 13 0.12
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (86 bp):
CTTTTCATATCGATAGTCGTCACCATCCCTTTTCATATTCGATGGGCGTCACCATCACTTTTCAT
AATCAATAGCCAAAGCTATCC
Found at i:18474852 original size:40 final size:40
Alignment explanation
Indices: 18474798--18474952 Score: 256
Period size: 40 Copynumber: 3.9 Consensus size: 40
18474788 GATATAGCTT
* *
18474798 CTCGCTCAAATGCCTTCGTGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
18474838 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
18474878 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
18474918 CTCGCACAAATGCCTTCTGGACTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
18474953 CAATCCGAAT
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:18482849 original size:40 final size:39
Alignment explanation
Indices: 18482684--18482867 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
18482674 AAATTGAATG
* * *
18482684 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
18482724 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
18482764 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
18482804 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
18482843 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
18482868 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:18482892 original size:80 final size:81
Alignment explanation
Indices: 18482724--18482912 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
18482714 GCTGGAAATT
* * * *
18482724 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
18482789 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
18482805 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
18482868 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
18482884 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
18482913 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:18486148 original size:40 final size:40
Alignment explanation
Indices: 18486094--18486248 Score: 274
Period size: 40 Copynumber: 3.9 Consensus size: 40
18486084 GATATAGCTT
*
18486094 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
18486134 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
18486174 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
18486214 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
18486249 CAATCCGAAT
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:18492509 original size:28 final size:27
Alignment explanation
Indices: 18492446--18492515 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
18492436 ATAGTGAGTC
18492446 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
18492473 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
18492501 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18492516 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:18500329 original size:28 final size:27
Alignment explanation
Indices: 18500266--18500335 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
18500256 ATAGTGAGTC
18500266 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
18500293 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
18500321 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18500336 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:18506353 original size:30 final size:29
Alignment explanation
Indices: 18506259--18506360 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
18506249 TATAGTGAAT
* * *
18506259 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
18506288 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
18506316 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
18506346 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
18506361 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:18514241 original size:30 final size:29
Alignment explanation
Indices: 18514147--18514248 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
18514137 TATAGTGAAT
* * *
18514147 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
18514176 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
18514204 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
18514234 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
18514249 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:18528951 original size:46 final size:46
Alignment explanation
Indices: 18528852--18528977 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
18528842 GAGGCATCCG
* * * * * *
18528852 AACTTGTTGAGTTGCATTTCGAGTTTACCTATGGATGCAAGCATCCA
1 AACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGCAAGCACCCA
*
18528899 AACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA-CACCCA
1 AACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGC-AAGCACCCA
* * *
18528945 AGCTCGTTGAGTTGCGTTTCGTGTTCATTATGG
1 AACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
18528978 GTGAGATTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
46 43 0.64
47 24 0.36
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (46 bp):
AACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGCAAGCACCCA
Found at i:18531740 original size:5 final size:5
Alignment explanation
Indices: 18531730--18531754 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18531720 TATTGGGGTT
18531730 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
18531755 AAATGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:18537038 original size:29 final size:29
Alignment explanation
Indices: 18537005--18537136 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
18536995 GTGACGAGAT
18537005 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
18537034 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
18537063 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
18537092 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
18537121 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18537137 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:18544386 original size:29 final size:29
Alignment explanation
Indices: 18544353--18544484 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
18544343 GTGACGAGAT
18544353 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
18544382 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
18544411 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
18544440 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
18544469 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18544485 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:18547890 original size:29 final size:29
Alignment explanation
Indices: 18547857--18547988 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
18547847 GTGACGAGAT
18547857 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
18547886 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
18547915 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
18547944 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
18547973 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18547989 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:18549939 original size:49 final size:49
Alignment explanation
Indices: 18549886--18549983 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
18549876 GTTGGGTGTT
18549886 AGATAAATGACTTTTGCTAAGCGATTTTACGTGAAAACGAGTAAAATGA
1 AGATAAATGACTTTTGCTAAGCGATTTTACGTGAAAACGAGTAAAATGA
18549935 AGATAAATGACTTTTGCTAAGCGATTTTACGTGAAAACGAGTAAAATGA
1 AGATAAATGACTTTTGCTAAGCGATTTTACGTGAAAACGAGTAAAATGA
18549984 CATAATCGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (49 bp):
AGATAAATGACTTTTGCTAAGCGATTTTACGTGAAAACGAGTAAAATGA
Found at i:18553495 original size:22 final size:23
Alignment explanation
Indices: 18553470--18553516 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
18553460 TTTAAGATTC
18553470 AATGATTAAGCAC-CATTAGTCA
1 AATGATTAAGCACTCATTAGTCA
18553492 AATGATTAAGCACTCATTAGTCA
1 AATGATTAAGCACTCATTAGTCA
18553515 AA
1 AA
18553517 CATGAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (23 bp):
AATGATTAAGCACTCATTAGTCA
Found at i:18554803 original size:6 final size:6
Alignment explanation
Indices: 18554777--18554846 Score: 113
Period size: 6 Copynumber: 11.3 Consensus size: 6
18554767 ATAAGTCTTC
*
18554777 AAAAAT AAATAAG AGAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAA-AAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
18554827 AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AA
18554847 GGGGACTCAA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
6 52 0.87
7 6 0.10
8 2 0.03
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:18556442 original size:19 final size:17
Alignment explanation
Indices: 18556405--18556443 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18556395 AAAAAATGCT
*
18556405 AAAATTAAAAATGAAAG
1 AAAATTAAAAATAAAAG
18556422 AAAATTAAGAAATAAAAAG
1 AAAATTAA-AAAT-AAAAG
18556441 AAA
1 AAA
18556444 GAAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 4 0.21
19 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (17 bp):
AAAATTAAAAATAAAAG
Found at i:18556462 original size:12 final size:13
Alignment explanation
Indices: 18556428--18556467 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
18556418 AAAGAAAATT
*
18556428 AAGAAATAAAAAGA
1 AAGAAATAAATA-A
18556442 AAGAAATAAATAA
1 AAGAAATAAATAA
18556455 AA-AAATAAATAA
1 AAGAAATAAATAA
18556467 A
1 A
18556468 TAACTGAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.44
13 3 0.12
14 11 0.44
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (13 bp):
AAGAAATAAATAA
Found at i:18556870 original size:42 final size:43
Alignment explanation
Indices: 18556823--18556951 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 43
18556813 CACGGCCGTA
* *
18556823 TGAGGCCTGTGTTGGGCCACACGGCT-ATGCCACATGCTCATG
1 TGAGGCCTGTGTTGGGCCACACGGATCATGCCACATGCCCATG
* * * * *
18556865 TGAGGCCCGTTTTGGGCCACAC-AATCGTGCCACATGCCCGTG
1 TGAGGCCTGTGTTGGGCCACACGGATCATGCCACATGCCCATG
* * *
18556907 TGAGGCCTGTGTTGGGCCACACGG-TCGTGCCACACGCCCGTG
1 TGAGGCCTGTGTTGGGCCACACGGATCATGCCACATGCCCATG
18556949 TGA
1 TGA
18556952 CTCGCGTCCA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 73 0.99
ACGTcount: A:0.16, C:0.31, G:0.32, T:0.22
Consensus pattern (43 bp):
TGAGGCCTGTGTTGGGCCACACGGATCATGCCACATGCCCATG
Found at i:18564774 original size:6 final size:6
Alignment explanation
Indices: 18564701--18564763 Score: 90
Period size: 6 Copynumber: 10.5 Consensus size: 6
18564691 AAAAGTCTAG
* * *
18564701 AAAAAT ACAAAT AAACAG AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
18564749 AAAAAT AAAATT AAA
1 AAAAAT AAAAAT AAA
18564764 CAAAAATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:18569443 original size:49 final size:49
Alignment explanation
Indices: 18569371--18569471 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
18569361 AGTGATAGCT
18569371 TGTATTAATGCATTTTTAGATGTACCCTATATGGCCTAACATGTTGATG
1 TGTATTAATGCATTTTTAGATGTACCCTATATGGCCTAACATGTTGATG
18569420 TGTATTAATGCATTTTTAGATGTACCCTATATGGCCTAACATGTTGATG
1 TGTATTAATGCATTTTTAGATGTACCCTATATGGCCTAACATGTTGATG
18569469 TGT
1 TGT
18569472 GGATGAAAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (49 bp):
TGTATTAATGCATTTTTAGATGTACCCTATATGGCCTAACATGTTGATG
Found at i:18570557 original size:27 final size:28
Alignment explanation
Indices: 18570520--18570633 Score: 135
Period size: 28 Copynumber: 4.2 Consensus size: 28
18570510 AGCATGGCTG
*
18570520 CCAGA-ACAGATA-TTGTGACAGAGTCA
1 CCAGATACAGATATTTGTGACAGAGCCA
*
18570546 CCAGATACAGATAATTGTGACAGAGCCA
1 CCAGATACAGATATTTGTGACAGAGCCA
* * **
18570574 CCAAAAACAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATATTTGTGACAGAGCCA
* *
18570602 CCAGAT-CAGATATTTATGGCAGAGCCA
1 CCAGATACAGATATTTGTGACAGAGCCA
18570629 CCAGA
1 CCAGA
18570634 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 31 0.41
28 40 0.53
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGACAGAGCCA
Found at i:18570612 original size:55 final size:55
Alignment explanation
Indices: 18570524--18570631 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 55
18570514 TGGCTGCCAG
* *
18570524 AACAGATATTGTGACAGAGTCACCAGATACAGATAATTGTGACAGAGCCACCAAA
1 AACAGATATTGTGACAGAGCCACCAGATACAGATAATTATGACAGAGCCACCAAA
** * *
18570579 AACAGATATTTGTGGTAGAGCCACCAGAT-CAGATATTTATGGCAGAGCCACCA
1 AACAGATA-TTGTGACAGAGCCACCAGATACAGATAATTATGACAGAGCCACCA
18570632 GAACGCTTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 29 0.63
56 17 0.37
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (55 bp):
AACAGATATTGTGACAGAGCCACCAGATACAGATAATTATGACAGAGCCACCAAA
Found at i:18571735 original size:17 final size:17
Alignment explanation
Indices: 18571713--18571745 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18571703 TCGACTATGG
18571713 AGAAAAGAAAACATGAA
1 AGAAAAGAAAACATGAA
*
18571730 AGAAAAGAAAAGATGA
1 AGAAAAGAAAACATGA
18571746 GAAGGGAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.21, T:0.06
Consensus pattern (17 bp):
AGAAAAGAAAACATGAA
Found at i:18575008 original size:93 final size:93
Alignment explanation
Indices: 18574896--18575067 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
18574886 GCCCATAAGT
* **
18574896 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18574961 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
18574989 GAACTCGGACTCAACTCAACGAGTTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18575054 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
18575068 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18575063 original size:46 final size:45
Alignment explanation
Indices: 18574888--18575063 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 45
18574878 TGTAACCCGC
* * *
18574888 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-CTCGCAT
*
18574934 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTCG---CAT
* *
18574984 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACACTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-CTCGCAT
18575027 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18575064 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 3 0.03
46 67 0.60
47 31 0.28
48 3 0.03
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTCGCAT
Found at i:18575082 original size:46 final size:46
Alignment explanation
Indices: 18574939--18575082 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 46
18574929 CGCATCCATA
* * *
18574939 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--AACATCCC
* * *** *
18574987 A-CGAACTCGGACTCAACTCAACGAGTTCGGA--CACTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCC--C
*
18575032 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCC
18575078 AGTGA
1 AGTGA
18575083 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 34 0.45
47 29 0.38
48 7 0.09
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCC
Found at i:18577489 original size:30 final size:30
Alignment explanation
Indices: 18577445--18577533 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
18577435 CAAAGATAAC
18577445 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
18577474 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
18577504 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
18577534 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:18577493 original size:15 final size:15
Alignment explanation
Indices: 18577445--18577524 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
18577435 CAAAGATAAC
*
18577445 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
18577459 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
18577474 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
18577489 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
18577504 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
18577519 AAGAAA
1 AAGAAA
18577525 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:18577533 original size:15 final size:15
Alignment explanation
Indices: 18577456--18577533 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
18577446 AGAAAACCGA
18577456 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
18577471 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
18577485 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
18577500 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
18577516 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
18577531 ATA
1 ATA
18577534 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:18580595 original size:93 final size:93
Alignment explanation
Indices: 18580483--18580654 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18580473 GCCCATAAGT
* *
18580483 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18580548 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
18580576 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
18580641 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
18580655 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18580650 original size:46 final size:46
Alignment explanation
Indices: 18580475--18580650 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
18580465 TGTAACCCGC
* * *
18580475 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
18580521 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
18580571 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
18580614 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18580651 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:18585851 original size:40 final size:40
Alignment explanation
Indices: 18585806--18585972 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
18585796 CGGAATATAA
18585806 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
18585846 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
18585886 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
18585926 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
18585965 CCGGATAT
1 CCGGATAT
18585973 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:18587138 original size:28 final size:28
Alignment explanation
Indices: 18587098--18587153 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
18587088 CTTGATGTAA
18587098 ACTTAGCCAAATCTCCTTCTAGGTCTCT
1 ACTTAGCCAAATCTCCTTCTAGGTCTCT
18587126 ACTTAGCCAAATCTCCTTCTAGGTCTCT
1 ACTTAGCCAAATCTCCTTCTAGGTCTCT
18587154 TCCAACCCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (28 bp):
ACTTAGCCAAATCTCCTTCTAGGTCTCT
Found at i:18587163 original size:28 final size:28
Alignment explanation
Indices: 18587104--18587163 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
18587094 GTAAACTTAG
** *
18587104 CCAAATCTCCTTCTAGGTCTCTACTTAG
1 CCAAATCTCCTTCTAGGTCTCTACCAAC
*
18587132 CCAAATCTCCTTCTAGGTCTCTTCCAAC
1 CCAAATCTCCTTCTAGGTCTCTACCAAC
18587160 CCAA
1 CCAA
18587164 GCATGAAGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.37, G:0.08, T:0.32
Consensus pattern (28 bp):
CCAAATCTCCTTCTAGGTCTCTACCAAC
Done.