Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 48 of 344
Found at i:16022621 original size:30 final size:30
Alignment explanation
Indices: 16022565--16022624 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16022555 TTTGATCCAA
*
16022565 TGTGCAATGTTATAAAATGAACTTTGATTT
1 TGTGCAATGTTATAAAATAAACTTTGATTT
* *
16022595 TGTGCAATTTTAT-AAATAAATTTTTGATTT
1 TGTGCAATGTTATAAAATAAA-CTTTGATTT
16022625 GATTCAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.48
Consensus pattern (30 bp):
TGTGCAATGTTATAAAATAAACTTTGATTT
Found at i:16026456 original size:9 final size:9
Alignment explanation
Indices: 16026442--16026499 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
16026432 ACATTTAATT
16026442 AAATTTTAA
1 AAATTTTAA
*
16026451 AAATTTAAA
1 AAATTTTAA
16026460 ATAATTTTAA
1 A-AATTTTAA
* *
16026470 AAAGTATAA
1 AAATTTTAA
**
16026479 AAATTAAAAA
1 AAATT-TTAA
16026489 AAATTTTAA
1 AAATTTTAA
16026498 AA
1 AA
16026500 TTTAAAAGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 23 0.59
10 16 0.41
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
AAATTTTAA
Found at i:16026458 original size:19 final size:19
Alignment explanation
Indices: 16026434--16026518 Score: 54
Period size: 19 Copynumber: 4.6 Consensus size: 19
16026424 ACATGTCAAC
16026434 ATTTAATTAAATTTTAAAA
1 ATTTAATTAAATTTTAAAA
*
16026453 ATTTAA-AATAATTTTAAAA
1 ATTTAATTA-AATTTTAAAA
* **
16026472 AGTATAA--AAATTAAAAAA
1 A-TTTAATTAAATTTTAAAA
* *
16026490 AATT--TTAAAATTTAAAA
1 ATTTAATTAAATTTTAAAA
*
16026507 GTTTAATTAAAT
1 ATTTAATTAAAT
16026519 GCTAACATAT
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
17 11 0.23
18 10 0.21
19 23 0.48
20 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTTAATTAAATTTTAAAA
Found at i:16030907 original size:51 final size:51
Alignment explanation
Indices: 16030847--16030952 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
16030837 TATACATACT
16030847 GACTTAATCACACGGCTAGAAGACACGCCCGTGTGCTTTGGCCGTGTTCAA
1 GACTTAATCACACGGCTAGAAGACACGCCCGTGTGCTTTGGCCGTGTTCAA
16030898 GACTTAATCACACGGCTAGAAGACACGCCCGTGTGCTTTGGCCGTGTTCAA
1 GACTTAATCACACGGCTAGAAGACACGCCCGTGTGCTTTGGCCGTGTTCAA
16030949 GACT
1 GACT
16030953 GACTTAAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (51 bp):
GACTTAATCACACGGCTAGAAGACACGCCCGTGTGCTTTGGCCGTGTTCAA
Found at i:16044095 original size:43 final size:43
Alignment explanation
Indices: 16043960--16044100 Score: 176
Period size: 43 Copynumber: 3.3 Consensus size: 43
16043950 AAGATCATAA
* *
16043960 CTTTTAGCGGCGTTTGTAGGAAAAGCATCGCTAAAAGTCATGG
1 CTTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAAGTCATGG
* ** **
16044003 CTTTTAACAACGTTTGTGGGAAAAGTGCCGCT-AAAGATCATGG
1 CTTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAAG-TCATGG
* *
16044046 CTTTTAGCGGCATTTGTGGGAAAGGCACCGCTAAAAGTCATGG
1 CTTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAAGTCATGG
*
16044089 CTTTTAGTGGCG
1 CTTTTAGCGGCG
16044101 CTTTTTTTAC
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 4 0.05
43 72 0.90
44 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
CTTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAAGTCATGG
Found at i:16044122 original size:86 final size:85
Alignment explanation
Indices: 16043938--16044094 Score: 233
Period size: 86 Copynumber: 1.8 Consensus size: 85
16043928 TTATTTGAAA
* * * *
16043938 AAAATGCCACAAAAGATCATAACTTTTAGCGGCGTTTGTAGGAAAAGCATCGCTAAAAGTCATGG
1 AAAATGCCGCTAAAGATCATAACTTTTAGCGGCATTTGTAGGAAAAGCACCGCTAAAAGTCATGG
16044003 CTTTTAACAACGTTTGTGGG
66 CTTTTAACAACGTTTGTGGG
** * *
16044023 AAAAGTGCCGCTAAAGATCATGGCTTTTAGCGGCATTTGTGGGAAAGGCACCGCTAAAAGTCATG
1 AAAA-TGCCGCTAAAGATCATAACTTTTAGCGGCATTTGTAGGAAAAGCACCGCTAAAAGTCATG
16044088 GCTTTTA
65 GCTTTTA
16044095 GTGGCGCTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 4 0.06
86 59 0.94
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (85 bp):
AAAATGCCGCTAAAGATCATAACTTTTAGCGGCATTTGTAGGAAAAGCACCGCTAAAAGTCATGG
CTTTTAACAACGTTTGTGGG
Found at i:16045171 original size:17 final size:19
Alignment explanation
Indices: 16045134--16045171 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16045124 TACAATATAG
*
16045134 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATCATTTAA
16045153 TAGTAAAAAT-TCA-TTAA
1 TAGTAAAAATATCATTTAA
16045170 TA
1 TA
16045172 TTTGATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
TAGTAAAAATATCATTTAA
Found at i:16051274 original size:93 final size:93
Alignment explanation
Indices: 16051115--16051285 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
16051105 GGATGGTTGA
* *
16051115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
16051180 TGATTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
16051208 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
16051273 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16051286 ACTTAGGGTC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16051288 original size:46 final size:46
Alignment explanation
Indices: 16051119--16051290 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
16051109 GGTTGAGCAT
* * *
16051119 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
16051165 CCGAACTCGTTGAGTTGATTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
16051210 ATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
16051258 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
16051291 GGGTCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.56
47 26 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:16071280 original size:93 final size:93
Alignment explanation
Indices: 16071121--16071291 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
16071111 GGATGGTTGA
* *
16071121 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
16071186 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
16071214 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
16071279 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16071292 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16071294 original size:46 final size:46
Alignment explanation
Indices: 16071125--16071296 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
16071115 GGTTGAGCAT
* * *
16071125 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
16071171 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
16071216 ATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
16071264 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
16071297 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 59 0.56
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:16072885 original size:30 final size:30
Alignment explanation
Indices: 16072851--16072962 Score: 127
Period size: 30 Copynumber: 3.6 Consensus size: 30
16072841 GTAAGTTATG
16072851 TAAATTATGTAAGTTATGAAATTTGAGCTT
1 TAAATTATGTAAGTTATGAAATTTGAGCTT
* * *
16072881 TAAATTATGTAAGTTATG-TATTACGTAAGTTAT
1 TAAATTATGTAAGTTATGAAATT---TGAGCT-T
*
16072914 GTAAATTATGTAAGTTATGAAATTTGATCTT
1 -TAAATTATGTAAGTTATGAAATTTGAGCTT
*
16072945 TAAATTATGTTAGTTATG
1 TAAATTATGTAAGTTATG
16072963 TATTATGTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
29 3 0.04
30 35 0.51
31 1 0.01
32 7 0.10
33 1 0.01
34 18 0.26
35 3 0.04
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTTGAGCTT
Found at i:16072909 original size:64 final size:64
Alignment explanation
Indices: 16072830--16072983 Score: 274
Period size: 64 Copynumber: 2.4 Consensus size: 64
16072820 TGATATATAT
16072830 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAGCTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAGCTTTAAATTATGTAAG
* * *
16072894 TTATGTATTACGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAGCTTTAAATTATGTAAG
16072958 TTATGTATTATGTAAGTTATG-AAATT
1 TTATGTATTATGTAAGTTATGTAAATT
16072984 TGAACTTTAA
Statistics
Matches: 86, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
63 5 0.06
64 81 0.94
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (64 bp):
TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAGCTTTAAATTATGTAAG
Found at i:16072972 original size:46 final size:46
Alignment explanation
Indices: 16072908--16073021 Score: 201
Period size: 46 Copynumber: 2.4 Consensus size: 46
16072898 GTATTACGTA
*
16072908 AGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTT
1 AGTTATGT--ATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTT
16072956 AGTTATGTATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTT
1 AGTTATGTATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTT
16073002 AGTTATGTATTATGTAAGTT
1 AGTTATGTATTATGTAAGTT
16073022 TTTTAAATTA
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
46 57 0.88
48 8 0.12
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (46 bp):
AGTTATGTATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTT
Found at i:16072985 original size:110 final size:110
Alignment explanation
Indices: 16072836--16073094 Score: 419
Period size: 110 Copynumber: 2.3 Consensus size: 110
16072826 ATATTTATGT
*
16072836 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAGCTTTAAATTATGTAAGTTATGTA
1 ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTA
*
16072901 TTACGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAA
64 TTACGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAA
* *
16072948 ATTATGTTAGTTATGTATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTTAGTTATGTATT
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTATT
* * *
16073013 ATGTAAGTTTTTTAAATTATGTAAGTTATGAAATTTGAACTTTAA
66 ACGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAA
*
16073058 ATTATGTAAGTTATGTATTATGTAAATTATGTAAATT
1 ATTATGTAAGTTATGTATTATGTAAGTTATG-AAATT
16073095 ATGTGAGTTG
Statistics
Matches: 137, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
110 117 0.85
111 5 0.04
112 15 0.11
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (110 bp):
ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTATT
ACGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAA
Found at i:16072998 original size:30 final size:30
Alignment explanation
Indices: 16072964--16073072 Score: 139
Period size: 30 Copynumber: 3.5 Consensus size: 30
16072954 TTAGTTATGT
16072964 ATTATGTAAGTTATGAAATTTGAACTTTAA
1 ATTATGTAAGTTATGAAATTTGAACTTTAA
* * *
16072994 ATTATGTTAGTTATG-TATTATGTAAGTTTTTTAA
1 ATTATGTAAGTTATGAAATT-TG-AA---CTTTAA
16073028 ATTATGTAAGTTATGAAATTTGAACTTTAA
1 ATTATGTAAGTTATGAAATTTGAACTTTAA
16073058 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
16073073 TATTATGTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
29 3 0.04
30 36 0.54
31 2 0.03
33 2 0.03
34 21 0.31
35 3 0.04
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.48
Consensus pattern (30 bp):
ATTATGTAAGTTATGAAATTTGAACTTTAA
Found at i:16073032 original size:64 final size:64
Alignment explanation
Indices: 16072948--16073103 Score: 235
Period size: 64 Copynumber: 2.5 Consensus size: 64
16072938 TGATCTTTAA
* * *
16072948 ATTATGTTAGTTATGT--ATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTTAGTTATGT
1 ATTATGTAAATTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGT
* * *
16073010 ATTATGTAAGTTTTTTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGT
1 ATTATGTAAATTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGT
*
16073074 ATTATGTAAATTATGTAAATTATGTGAGTT
1 ATTATGTAAATTATGTAAATTATGTAAGTT
16073104 GCTGGTGAAC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
62 13 0.15
64 71 0.85
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (64 bp):
ATTATGTAAATTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATGT
Found at i:16073239 original size:110 final size:104
Alignment explanation
Indices: 16073118--16074005 Score: 862
Period size: 110 Copynumber: 8.5 Consensus size: 104
16073108 GTGAACTTGA
*
16073118 AAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
1 AAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATAATTTTCGTG
16073183 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTT
66 -----ATTAAA-TGAAATAAAATAAAATATTTAAAATAAAACTTT
* * *** *
16073228 AAATACAACTTAATTTAATTATGT-AATGTTAAAATAAAA-TAAA-ATATTGAAATTAATTTTCG
1 AAATACAACTTAATTTAATTAGGTAAAT-TGAAAATAAAATTAAAGA-AAACAAAATAATTTTCG
* *
16073290 TGA-T---TCAAATAAAATAAAATATTTAAAATGAAACTTT
64 TGATTAAATGAAATAAAATAAAATATTTAAAATAAAACTTT
* * * *
16073327 AAATATAATTTAATTTAATTAGGTAAATTAAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
1 AAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATAATTTTCGTG
16073392 ATCAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTT
66 -----ATTAAA-TGAAATAAAATAAAATATTTAAAATAAAACTTT
* * * *** *
16073437 AAGTACAACTTAATTTAATTATGT-AATGTTAAAATAAAA-TAAA-ATATTGAAATTAATTTTCG
1 AAATACAACTTAATTTAATTAGGTAAAT-TGAAAATAAAATTAAAGA-AAACAAAATAATTTTCG
* *
16073499 TGA-T---TCAAATAAAATAAAATATTTAAAATGAAACTTT
64 TGATTAAATGAAATAAAATAAAATATTTAAAATAAAACTTT
* * *
16073536 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
1 AAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATAATTTTCGTG
*
16073601 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATGAAACTTT
66 -----ATTAAA-TGAAATAAAATAAAATATTTAAAATAAAACTTT
* * *
16073646 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
1 AAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATAATTTTCGTG
16073711 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTT
66 -----ATTAAA-TGAAATAAAATAAAATATTTAAAATAAAACTTT
* * *** *
16073756 AAATACAACTTAATTTAATTA--TTAATGTTAAAATAAAA-TAAA-ATATTGAAATTAATTTTCG
1 AAATACAACTTAATTTAATTAGGTAAAT-TGAAAATAAAATTAAAGA-AAACAAAATAATTTTCG
*
16073817 TGA-T---TCAAATAAAATAAAATATTTAAAATAAAACTTT
64 TGATTAAATGAAATAAAATAAAATATTTAAAATAAAACTTT
* * *** *
16073854 AAATACAACTTAATTTAATTATGT-AATGTTAAAATAAAA-TAAA-ATATTGAAATTAATTTTCG
1 AAATACAACTTAATTTAATTAGGTAAAT-TGAAAATAAAATTAAAGA-AAACAAAATAATTTTCG
* *
16073916 TGATTCAA-G---TAAAATAAAATATTTAAAATGAAACTTT
64 TGATTAAATGAAATAAAATAAAATATTTAAAATAAAACTTT
* * *
16073953 AAATATAATTTAATTTAATTAGGTAAATTGAAAATATAATTAAAGAAAACAAA
1 AAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAA
16074006 TGTATGCCAT
Statistics
Matches: 673, Mismatches: 64, Indels: 92
0.81 0.08 0.11
Matches are distributed among these distances:
98 53 0.08
99 221 0.33
100 55 0.08
101 3 0.00
102 1 0.00
103 3 0.00
104 2 0.00
105 2 0.00
106 2 0.00
107 1 0.00
108 24 0.04
109 52 0.08
110 254 0.38
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (104 bp):
AAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATAATTTTCGTG
ATTAAATGAAATAAAATAAAATATTTAAAATAAAACTTT
Found at i:16073483 original size:209 final size:209
Alignment explanation
Indices: 16073118--16074005 Score: 1268
Period size: 209 Copynumber: 4.3 Consensus size: 209
16073108 GTGAACTTGA
* *
16073118 AAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
16073183 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
66 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
16073248 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
131 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
16073313 TAAAATGAAACTTT
196 TAAAATGAAACTTT
*
16073327 AAATATAATTTAATTTAATTAGGTAAATTAAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
* *
16073392 ATCAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAGTACAACTTAATTTAATT
66 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
16073457 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
131 ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
16073522 TAAAATGAAACTTT
196 TAAAATGAAACTTT
16073536 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
* * *
16073601 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATT
66 ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
* * *** * * *
16073666 AGGTAAAT-TGAAAATAAAATTAAAGA-AAACAAAATATTTTTCGTGATTAAATTAAAGTGAAAT
131 ATGT-AATGTTAAAATAAAA-TAAA-ATATTGAAATTAATTTTCGTG-----A-T----TCAAAT
*
16073729 AAAATAAAATATTTAAAATAAAACTTT
183 AAAATAAAATATTTAAAATGAAACTTT
* * * * *** * *
16073756 AAATACAACTTAATTTAATTA--TTAATGTTAAAATAAAA-TAAA-ATATTGAAATTAATTTTCG
1 AAATATAATTTAATTTAATTAGGTAAAT-TGAAAATAAAATTAAAGA-AAACAAAATATTTTTCG
*
16073817 TG-----A-T----TCAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAA
64 TGATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAA
*
16073872 TTATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAGTAAAATAAAATA
129 TTATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATA
16073937 TTTAAAATGAAACTTT
194 TTTAAAATGAAACTTT
*
16073953 AAATATAATTTAATTTAATTAGGTAAATTGAAAATATAATTAAAGAAAACAAA
1 AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAA
16074006 TGTATGCCAT
Statistics
Matches: 607, Mismatches: 51, Indels: 52
0.85 0.07 0.07
Matches are distributed among these distances:
197 49 0.08
198 9 0.01
199 12 0.02
200 1 0.00
201 1 0.00
202 1 0.00
206 1 0.00
207 21 0.03
208 62 0.10
209 341 0.56
210 21 0.03
211 1 0.00
212 1 0.00
213 1 0.00
215 1 0.00
216 1 0.00
217 1 0.00
218 22 0.04
219 10 0.02
220 50 0.08
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (209 bp):
AAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGAAAACAAAATATTTTTCGTG
ATTAAATTAAAGTGAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATT
ATGTAATGTTAAAATAAAATAAAATATTGAAATTAATTTTCGTGATTCAAATAAAATAAAATATT
TAAAATGAAACTTT
Found at i:16073623 original size:53 final size:53
Alignment explanation
Indices: 16073566--16073738 Score: 176
Period size: 53 Copynumber: 3.2 Consensus size: 53
16073556 AGGTAAATTG
16073566 AAAATAAAATTAAAGAAAACAAAATATTTTTCGTGATTAAATTAAAGTGAAAT
1 AAAATAAAATTAAAGAAAACAAAATATTTTTCGTGATTAAATTAAAGTGAAAT
* ** * * *
16073619 AAAATAAAATATTTAAA-ATGAAACTTTAAATATAATT--TAATTTAATT-AGGT-AAATT
1 AAAAT-AAA-A-TTAAAGA--AAAC--AAAATATTTTTCGTGATTAAATTAAAGTGAAA-T
16073675 GAAAATAAAATTAAAGAAAACAAAATATTTTTCGTGATTAAATTAAAGTGAAAT
1 -AAAATAAAATTAAAGAAAACAAAATATTTTTCGTGATTAAATTAAAGTGAAAT
16073729 AAAATAAAAT
1 AAAATAAAAT
16073739 ATTTAAAATA
Statistics
Matches: 94, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
51 8 0.09
53 27 0.29
54 12 0.13
55 10 0.11
56 12 0.13
57 17 0.18
59 8 0.09
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAATAAAATTAAAGAAAACAAAATATTTTTCGTGATTAAATTAAAGTGAAAT
Found at i:16073680 original size:57 final size:57
Alignment explanation
Indices: 16073509--16073685 Score: 192
Period size: 57 Copynumber: 3.2 Consensus size: 57
16073499 TGATTCAAAT
16073509 AAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTG
1 AAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTG
* ** * * *
16073566 AAAAT-AAA-A-TT-AAA-GAAAAC--AAAATATTTTTCGTGATTAAATTAAAGTGAAA-T-
1 AAAATAAAATATTTAAAATG-AAACTTTAAATATAATT--TAATTTAATT-AGGT-AAATTG
16073619 AAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTG
1 AAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTG
16073676 AAAATAAAAT
1 AAAATAAAAT
16073686 TAAAGAAAAC
Statistics
Matches: 94, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
51 8 0.09
52 1 0.01
53 20 0.21
54 9 0.10
55 8 0.09
56 9 0.10
57 30 0.32
58 1 0.01
59 8 0.09
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.35
Consensus pattern (57 bp):
AAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTG
Found at i:16073828 original size:98 final size:99
Alignment explanation
Indices: 16073725--16073978 Score: 456
Period size: 99 Copynumber: 2.6 Consensus size: 99
16073715 AATTAAAGTG
16073725 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTAT-TAATGTTAAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAA
16073789 TAAAATAAAATATTGAAATTAATTTTCGTGATTC
66 TAAAATAAAATATTGAAATTAATTTTCGTGATTC
16073823 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAA
16073888 TAAAATAAAATATTGAAATTAATTTTCGTGATTC
66 TAAAATAAAATATTGAAATTAATTTTCGTGATTC
* * * * *
16073922 AAGTAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAA
16073979 ATTGAAAATA
Statistics
Matches: 150, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
98 53 0.35
99 97 0.65
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.37
Consensus pattern (99 bp):
AAATAAAATAAAATATTTAAAATAAAACTTTAAATACAACTTAATTTAATTATGTAATGTTAAAA
TAAAATAAAATATTGAAATTAATTTTCGTGATTC
Found at i:16076377 original size:70 final size:70
Alignment explanation
Indices: 16076264--16076403 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
16076254 TCTTTTGATG
* *
16076264 TTAGTTTTCAATGAGGATTAGATTACACCCCCTACAGCATATCTATTAATATTATTATATAATAA
1 TTAGTTTTCAATGAGAATTAGATTACACCCCCTACAACATATCTATTAATATTATTATATAATAA
16076329 TGTTA
66 TGTTA
*
16076334 TTAGTTTTCAATGAGAATTCGATTACACCCCCTACAACATATCTATTAATATTATTATATAATAA
1 TTAGTTTTCAATGAGAATTAGATTACACCCCCTACAACATATCTATTAATATTATTATATAATAA
16076399 TGTTA
66 TGTTA
16076404 GATGCATGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (70 bp):
TTAGTTTTCAATGAGAATTAGATTACACCCCCTACAACATATCTATTAATATTATTATATAATAA
TGTTA
Found at i:16077223 original size:23 final size:23
Alignment explanation
Indices: 16077196--16077239 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
16077186 TAAACAATTA
*
16077196 TGTTTTTTTACGGCTTTTTTTTT
1 TGTTTTTTTACGGCGTTTTTTTT
16077219 TGTTTTTTTACGGCGTTTTTT
1 TGTTTTTTTACGGCGTTTTTT
16077240 GAAAAAACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.05, C:0.09, G:0.16, T:0.70
Consensus pattern (23 bp):
TGTTTTTTTACGGCGTTTTTTTT
Found at i:16077563 original size:181 final size:181
Alignment explanation
Indices: 16077259--16077622 Score: 728
Period size: 181 Copynumber: 2.0 Consensus size: 181
16077249 TCACTAATCC
16077259 CTTAAATCTCTAATTAAATTTTACTTAAATTTTTTCATATTTATAAATACTTAACGTAAATTTAG
1 CTTAAATCTCTAATTAAATTTTACTTAAATTTTTTCATATTTATAAATACTTAACGTAAATTTAG
16077324 TTAAACCTAATGATATTGTTTTAATTTTTTTATAAATATATGCATGTTATTTTCATTTGATATTT
66 TTAAACCTAATGATATTGTTTTAATTTTTTTATAAATATATGCATGTTATTTTCATTTGATATTT
16077389 ATTAATTTTTTAAATATAAACAAGTTAAATATTTTTAAATATTATTTTTTT
131 ATTAATTTTTTAAATATAAACAAGTTAAATATTTTTAAATATTATTTTTTT
16077440 CTTAAATCTCTAATTAAATTTTACTTAAATTTTTTCATATTTATAAATACTTAACGTAAATTTAG
1 CTTAAATCTCTAATTAAATTTTACTTAAATTTTTTCATATTTATAAATACTTAACGTAAATTTAG
16077505 TTAAACCTAATGATATTGTTTTAATTTTTTTATAAATATATGCATGTTATTTTCATTTGATATTT
66 TTAAACCTAATGATATTGTTTTAATTTTTTTATAAATATATGCATGTTATTTTCATTTGATATTT
16077570 ATTAATTTTTTAAATATAAACAAGTTAAATATTTTTAAATATTATTTTTTT
131 ATTAATTTTTTAAATATAAACAAGTTAAATATTTTTAAATATTATTTTTTT
16077621 CT
1 CT
16077623 ATTAGTCGTT
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 183 1.00
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.52
Consensus pattern (181 bp):
CTTAAATCTCTAATTAAATTTTACTTAAATTTTTTCATATTTATAAATACTTAACGTAAATTTAG
TTAAACCTAATGATATTGTTTTAATTTTTTTATAAATATATGCATGTTATTTTCATTTGATATTT
ATTAATTTTTTAAATATAAACAAGTTAAATATTTTTAAATATTATTTTTTT
Found at i:16078442 original size:82 final size:82
Alignment explanation
Indices: 16078322--16078479 Score: 280
Period size: 82 Copynumber: 1.9 Consensus size: 82
16078312 GAAACGCCAC
* * *
16078322 AAAAAACATAATAGTTTAACGAAAATGGCGTCGTTTTAATTGGAGATTTAGTGGATTGGCGGCGT
1 AAAAAACATAATAGTTTAACGAAAATGGCGTCGCTTTAATTGGAGATTTAGAGGATTAGCGGCGT
16078387 TTTTTAAAAAACACAGA
66 TTTTTAAAAAACACAGA
*
16078404 AAAAAACATAATAGTTTAACGAAAATGGCGTCGCTTTAATTGGAGATTTAGAGGATTAGCGGTGT
1 AAAAAACATAATAGTTTAACGAAAATGGCGTCGCTTTAATTGGAGATTTAGAGGATTAGCGGCGT
16078469 TTTTTAAAAAA
66 TTTTTAAAAAA
16078480 AGCTACTAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.31
Consensus pattern (82 bp):
AAAAAACATAATAGTTTAACGAAAATGGCGTCGCTTTAATTGGAGATTTAGAGGATTAGCGGCGT
TTTTTAAAAAACACAGA
Found at i:16078936 original size:28 final size:27
Alignment explanation
Indices: 16078897--16078956 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
16078887 AACCCTTCCC
* *
16078897 ATAAATACTAAA-CTTTAAACCCTAAATT
1 ATAAACACTAAACCCTT-AACCCTAAA-T
16078925 ATAAACACTAAACCCTTAACCCTAAAT
1 ATAAACACTAAACCCTTAACCCTAAAT
16078952 ATAAA
1 ATAAA
16078957 ATGATGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 20 0.69
29 3 0.10
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.27
Consensus pattern (27 bp):
ATAAACACTAAACCCTTAACCCTAAAT
Found at i:16079222 original size:7 final size:7
Alignment explanation
Indices: 16079204--16079274 Score: 56
Period size: 7 Copynumber: 10.4 Consensus size: 7
16079194 TTAAACTATC
16079204 AAACCC-
1 AAACCCT
16079210 AAACCCT
1 AAACCCT
16079217 AAACCCT
1 AAACCCT
* *
16079224 AAATCAT
1 AAACCCT
*
16079231 AAACACT
1 AAACCCT
* *
16079238 AAATCTT
1 AAACCCT
* *
16079245 AGACCAT
1 AAACCCT
16079252 AAA-CCT
1 AAACCCT
*
16079258 ACACCCT
1 AAACCCT
16079265 AAACCCT
1 AAACCCT
16079272 AAA
1 AAA
16079275 TATATATATT
Statistics
Matches: 48, Mismatches: 15, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
6 10 0.21
7 38 0.79
ACGTcount: A:0.48, C:0.34, G:0.01, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:16079882 original size:42 final size:40
Alignment explanation
Indices: 16079770--16079884 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 40
16079760 TTCTAAAAAG
* ** *
16079770 CGCCGCTAATTCTCGATCTATTGCGGCGTTTGTTTCATAAA
1 CGCCGCTAATGCTTAATCTTTTGCGGCGTTT-TTTCATAAA
* * * *
16079811 CGCCTCTAATGCTTGACCTTTTGCAGCGTTTTTGTCATAAA
1 CGCCGCTAATGCTTAATCTTTTGCGGCGTTTTT-TCATAAA
16079852 CGCCGCT-ATAGCTTTAATCTTTTGCGGCGTTTT
1 CGCCGCTAAT-GC-TTAATCTTTTGCGGCGTTTT
16079885 CTTACTAGCG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.07
41 40 0.66
42 17 0.28
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.39
Consensus pattern (40 bp):
CGCCGCTAATGCTTAATCTTTTGCGGCGTTTTTTCATAAA
Found at i:16082505 original size:19 final size:19
Alignment explanation
Indices: 16082481--16082519 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16082471 TATAGTATGA
16082481 ATGGTAAGTTAAGTATACG
1 ATGGTAAGTTAAGTATACG
16082500 ATGGTAAGTTAAGTATACG
1 ATGGTAAGTTAAGTATACG
16082519 A
1 A
16082520 ACTTACTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (19 bp):
ATGGTAAGTTAAGTATACG
Found at i:16086224 original size:22 final size:22
Alignment explanation
Indices: 16086196--16086239 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
16086186 AGTTATGATC
*
16086196 CGTCTGTCTTTTGACATGTTTT
1 CGTCTGTCTTTTGACACGTTTT
16086218 CGTCTGTCTTTTGACACGTTTT
1 CGTCTGTCTTTTGACACGTTTT
16086240 TTCGTCGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.20, G:0.18, T:0.52
Consensus pattern (22 bp):
CGTCTGTCTTTTGACACGTTTT
Found at i:16090503 original size:14 final size:14
Alignment explanation
Indices: 16090484--16090515 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
16090474 AGGTCATTTA
*
16090484 GCCCAACCAATCTG
1 GCCCAACCAAACTG
16090498 GCCCAACCAAACTG
1 GCCCAACCAAACTG
16090512 GCCC
1 GCCC
16090516 GGTGATTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.47, G:0.16, T:0.09
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:16095628 original size:14 final size:14
Alignment explanation
Indices: 16095609--16095640 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
16095599 AGGTCATTTA
16095609 GCCCAACCAAACTG
1 GCCCAACCAAACTG
16095623 GCCCAACCAAACTG
1 GCCCAACCAAACTG
16095637 GCCC
1 GCCC
16095641 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:16097967 original size:2 final size:2
Alignment explanation
Indices: 16097960--16097990 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16097950 GAATATCATG
*
16097960 GA GA GA GA GA GA GA GA GC GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
16097991 TGTGAGACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16100410 original size:50 final size:50
Alignment explanation
Indices: 16100335--16100433 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
16100325 CAATAGTAAG
16100335 TCAAAGGGAGAAAAGAGAAAAAAGAACAAAAAAACCTATATATGTGGATT
1 TCAAAGGGAGAAAAGAGAAAAAAGAACAAAAAAACCTATATATGTGGATT
16100385 TCAAAGGGAGAAAAGAGAAAAAAGAACAAAAAAACCTATATATGTGGAT
1 TCAAAGGGAGAAAAGAGAAAAAAGAACAAAAAAACCTATATATGTGGAT
16100434 GCACTATTGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.57, C:0.08, G:0.20, T:0.15
Consensus pattern (50 bp):
TCAAAGGGAGAAAAGAGAAAAAAGAACAAAAAAACCTATATATGTGGATT
Found at i:16111220 original size:14 final size:14
Alignment explanation
Indices: 16111201--16111227 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16111191 TAGCTCATGA
16111201 TAGGACCCCACTAC
1 TAGGACCCCACTAC
16111215 TAGGACCCCACTA
1 TAGGACCCCACTA
16111228 TTTTGTCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.41, G:0.15, T:0.15
Consensus pattern (14 bp):
TAGGACCCCACTAC
Found at i:16111337 original size:216 final size:215
Alignment explanation
Indices: 16110952--16111363 Score: 621
Period size: 216 Copynumber: 1.9 Consensus size: 215
16110942 AGGTATTTAT
* * *
16110952 ACATGTTGTCACAGATATTATTACAGCTCATAATAGGACCCCACTAGTAGGACCCCATTATTTTG
1 ACATGTTGTCACAAATATTATTACAGCTCATAATAGGACCCCACTACTAGGACCCCACTATTTTG
* * * *
16111017 TCTTAACTCCACTACCTTTAGCCCTAACATTCTCTGTCCCTAATACTGACATTCTCAGCGGACTC
66 TCTTAACTCAACTACCTCTAGCCCTAACATTCTCTGTACCTAATACTGACATTCTCAGCAGACTC
*
16111082 TAGGCCTGTTGGACACATGTCTACAGAGCACGTGGTCCTTTTTGTTCTTGGGGCT-AGCGATTTG
131 TAGGCCTGTTGGACACATGTCTACAGAGCACGCGGTCCTTTTTGTTCTTGGGGCTGA-CGATTTG
16111146 AGTGGGACCTATACCTGTTGG
195 AGTGGGACCTATACCTGTTGG
* *
16111167 ACATGTGTGTCACAAATATTATTATAGCTCATGATAGGACCCCACTACTAGGACCCCACTATTTT
1 ACATGT-TGTCACAAATATTATTACAGCTCATAATAGGACCCCACTACTAGGACCCCACTATTTT
* * *
16111232 GTCTTGACTCAATTACCTCTAGCCCTGACATTCTCTGTACCTAATACTGACATTCTCAGCAGACT
65 GTCTTAACTCAACTACCTCTAGCCCTAACATTCTCTGTACCTAATACTGACATTCTCAGCAGACT
* * * **
16111297 -TCAGGCTTGTTGGGCAGATGTCTATGGAGCACGCGGTCCTTTTTGTTCTTGGGGCTGACGATTT
130 CT-AGGCCTGTTGGACACATGTCTACAGAGCACGCGGTCCTTTTTGTTCTTGGGGCTGACGATTT
16111361 GAG
194 GAG
16111364 CGGGCTCCGT
Statistics
Matches: 176, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
215 7 0.04
216 168 0.95
217 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (215 bp):
ACATGTTGTCACAAATATTATTACAGCTCATAATAGGACCCCACTACTAGGACCCCACTATTTTG
TCTTAACTCAACTACCTCTAGCCCTAACATTCTCTGTACCTAATACTGACATTCTCAGCAGACTC
TAGGCCTGTTGGACACATGTCTACAGAGCACGCGGTCCTTTTTGTTCTTGGGGCTGACGATTTGA
GTGGGACCTATACCTGTTGG
Found at i:16114630 original size:17 final size:17
Alignment explanation
Indices: 16114589--16114630 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
16114579 CTTTTAAGTT
*
16114589 TGTAATGTTTTATATTA
1 TGTAATTTTTTATATTA
* *
16114606 TGTTATTTTTTATATTG
1 TGTAATTTTTTATATTA
16114623 TGTAATTT
1 TGTAATTT
16114631 ATAACACAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:16114735 original size:16 final size:16
Alignment explanation
Indices: 16114701--16114759 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
16114691 GAAGATAACT
* * *
16114701 AAATATAAATTTTAAA
1 AAATATAAAATATATA
16114717 AAATATAAAATATATA
1 AAATATAAAATATATA
*
16114733 AAATCATTAAATAT-TA
1 AAAT-ATAAAATATATA
*
16114749 AATTA-AAAATA
1 AAATATAAAATA
16114760 ACATGAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 5 0.14
15 1 0.03
16 22 0.61
17 8 0.22
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATATAAAATATATA
Found at i:16117232 original size:18 final size:19
Alignment explanation
Indices: 16117209--16117252 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
16117199 ACTTGATATT
16117209 GAAATGGAAAAT-AAACGA
1 GAAATGGAAAATGAAACGA
* *
16117227 GAAAT-GAAAATGGAATGA
1 GAAATGGAAAATGAAACGA
16117245 GAAATGGA
1 GAAATGGA
16117253 GTACTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 14 0.64
19 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.27, T:0.14
Consensus pattern (19 bp):
GAAATGGAAAATGAAACGA
Found at i:16122653 original size:26 final size:26
Alignment explanation
Indices: 16122624--16122731 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
16122614 TGATACAAAT
16122624 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16122650 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16122676 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16122702 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16122728 TGAT
1 TGAT
16122732 GGGCATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16128354 original size:23 final size:22
Alignment explanation
Indices: 16128313--16128368 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
16128303 TTTTATATTG
*
16128313 TTACTTTTAATTTGTTTTAAG-
1 TTACTTTTTATTTGTTTTAAGC
*
16128334 TCTACTTTTTATTTTTCTTTAAGC
1 T-TACTTTTTATTTGT-TTTAAGC
16128358 TTA-TTTTTATT
1 TTACTTTTTATT
16128369 AGGTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.03
22 20 0.67
23 8 0.27
24 1 0.03
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (22 bp):
TTACTTTTTATTTGTTTTAAGC
Found at i:16140159 original size:26 final size:26
Alignment explanation
Indices: 16140130--16140237 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
16140120 TGATACAAAT
16140130 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16140156 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16140182 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16140208 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16140234 TGAT
1 TGAT
16140238 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16141912 original size:54 final size:53
Alignment explanation
Indices: 16141830--16141970 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
16141820 AGGAAGCTTC
16141830 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* *
16141884 CTGGTGGTTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* *
16141938 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
16141971 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:16141966 original size:32 final size:27
Alignment explanation
Indices: 16141830--16141970 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
16141820 AGGAAGCTTC
*
16141830 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* *
16141857 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
16141884 CTGGTGGTTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
16141911 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
16141938 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
16141965 CTGGTG
1 CTGGTG
16141971 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 9 0.09
27 87 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:16141981 original size:27 final size:27
Alignment explanation
Indices: 16141830--16141988 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
16141820 AGGAAGCTTC
*
16141830 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
16141857 CTGGTGGCTCTACCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* * *
16141884 CTGGTGGTTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
16141911 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
16141938 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
16141965 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
16141989 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:16142968 original size:17 final size:17
Alignment explanation
Indices: 16142937--16142976 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
16142927 ATGGAATGGG
16142937 TTTACAAAAAAAAAAGATT
1 TTTA-AAAAAAAAAA-ATT
*
16142956 TTTAAAAACAAAAAATT
1 TTTAAAAAAAAAAAATT
16142973 TTTA
1 TTTA
16142977 TAAAGATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (17 bp):
TTTAAAAAAAAAAAATT
Found at i:16146928 original size:26 final size:26
Alignment explanation
Indices: 16146899--16147032 Score: 241
Period size: 26 Copynumber: 5.2 Consensus size: 26
16146889 TGATACAAAT
16146899 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
16146925 TGATAATGGGTTAGGAAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16146951 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16146977 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16147003 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16147029 TGAT
1 TGAT
16147033 GGGAATTTCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16148701 original size:27 final size:26
Alignment explanation
Indices: 16148659--16148799 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 26
16148649 AGGAAGCGTC
16148659 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* * *
16148686 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
16148713 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* * * *
16148740 CTGGTGGCTTTACCACATATATATGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* *
16148767 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACATTATCTG-AT
16148794 CTGGTG
1 CTGGTG
16148800 ACTTCGTCAC
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
26 9 0.09
27 84 0.88
28 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:16148741 original size:54 final size:53
Alignment explanation
Indices: 16148659--16148799 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
16148649 AGGAAGCGTC
*
16148659 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATATGTT
*
16148713 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTTTACCACATATATATGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATATGTT
* *
16148767 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
16148800 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 74 0.91
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATATGTT
Found at i:16152187 original size:18 final size:18
Alignment explanation
Indices: 16152156--16152203 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
16152146 AAAAATTACA
* *
16152156 AAATAATTTTTAAAATTCT
1 AAAT-ATTTATAAAATTCC
16152175 AAATATTTATAAAAATTCC
1 AAATATTTAT-AAAATTCC
16152194 AAAT-TTTATA
1 AAATATTTATA
16152204 TTTTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 10 0.38
19 15 0.58
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATTTATAAAATTCC
Found at i:16152189 original size:19 final size:18
Alignment explanation
Indices: 16152167--16152203 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
16152157 AATAATTTTT
*
16152167 AAAATTCTAAATATTTATA
1 AAAATTCCAAAT-TTTATA
16152186 AAAATTCCAAATTTTATA
1 AAAATTCCAAATTTTATA
16152204 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTCCAAATTTTATA
Found at i:16152251 original size:19 final size:20
Alignment explanation
Indices: 16152229--16152277 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
16152219 AAAAAACTAA
16152229 AAAATATATAAAGAA-TTT-T
1 AAAATATATAAA-AATTTTCT
*
16152248 AAAAT-TTTAAAAATTTTCT
1 AAAATATATAAAAATTTTCT
16152267 AAAATA-ATAAA
1 AAAATATATAAA
16152278 TTTGGGACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.08
18 8 0.32
19 15 0.60
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATATATAAAAATTTTCT
Found at i:16153168 original size:55 final size:55
Alignment explanation
Indices: 16153109--16153258 Score: 160
Period size: 55 Copynumber: 2.7 Consensus size: 55
16153099 TTAGTATTTC
** * *
16153109 ATATTGCGTAAACCCAAGTAGTAAGGTCAACGGTTGCACCTTCTGT-ATGCATATA
1 ATATTGCGTAAACCCAAGCCGTAAGGTCAATGGTTGCACCTTCCGTCA-GCATATA
* * * * * * * *
16153164 ATATTGTGTAAACTCAGGCCTTAGGGTCAATGGTTGCACTTTCCGTCAGCATCTC
1 ATATTGCGTAAACCCAAGCCGTAAGGTCAATGGTTGCACCTTCCGTCAGCATATA
16153219 ATATTGCGTAAACCCTAA-CCGTAAGGTCAATGGTTGCACC
1 ATATTGCGTAAACCC-AAGCCGTAAGGTCAATGGTTGCACC
16153259 CTCCACAAAC
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
55 73 0.97
56 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (55 bp):
ATATTGCGTAAACCCAAGCCGTAAGGTCAATGGTTGCACCTTCCGTCAGCATATA
Found at i:16153825 original size:16 final size:16
Alignment explanation
Indices: 16153789--16153822 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16153779 TCCCTTCAGA
*
16153789 TAAGGGTTCAGCCTCC
1 TAAGGGTACAGCCTCC
16153805 TAAGGGTACAG-CTCC
1 TAAGGGTACAGCCTCC
16153820 TAA
1 TAA
16153823 AGGCCTCGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (16 bp):
TAAGGGTACAGCCTCC
Found at i:16155025 original size:14 final size:16
Alignment explanation
Indices: 16154991--16155024 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16154981 TTTTATTTGA
16154991 ATATTGGTATGTTTAT
1 ATATTGGTATGTTTAT
16155007 ATATTGGTATGTTTAT
1 ATATTGGTATGTTTAT
16155023 AT
1 AT
16155025 TAGGTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (16 bp):
ATATTGGTATGTTTAT
Found at i:16156225 original size:13 final size:13
Alignment explanation
Indices: 16156207--16156233 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16156197 AAAGCACTTG
16156207 CACACGGGCGTGT
1 CACACGGGCGTGT
16156220 CACACGGGCGTGT
1 CACACGGGCGTGT
16156233 C
1 C
16156234 CCTATCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:16163150 original size:8 final size:8
Alignment explanation
Indices: 16163137--16163161 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16163127 AATTCATAGG
16163137 TGTAACAT
1 TGTAACAT
16163145 TGTAACAT
1 TGTAACAT
16163153 TGTAACAT
1 TGTAACAT
16163161 T
1 T
16163162 AGTATAGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (8 bp):
TGTAACAT
Found at i:16167343 original size:43 final size:42
Alignment explanation
Indices: 16167295--16167458 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 42
16167285 GATTGTGTTA
*
16167295 TCATGTAAGACCACGTCTGGTACATTGG-ATCG-ACTTATGATTT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCGTAC-T-TGA-TT
*
16167338 TCATGTAAGACCACGTCTGGGACGTTGGCATCGTACTTGATT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCGTACTTGATT
* * * * * *
16167380 TCAAGTAAGACC-C-TCTTTGGGATAGTGACATCGATATTTAATT
1 TCATGTAAGACCACGTC--TGGGACATTGGCATCG-TACTTGATT
* * * *
16167423 ACATATAAGACCACGTCTGGGACGTTGGCATTGTAC
1 TCATGTAAGACCACGTCTGGGACATTGGCATCGTAC
16167459 GAGCTTTTGA
Statistics
Matches: 96, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 27 0.28
43 56 0.58
44 6 0.06
45 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
TCATGTAAGACCACGTCTGGGACATTGGCATCGTACTTGATT
Found at i:16178090 original size:43 final size:44
Alignment explanation
Indices: 16177966--16178122 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 44
16177956 TGTGTTATCG
* * *
16177966 TGTAAGGCCACGTCTAGGACA-TTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTAGGACAGTTGGCATCGA-TATTTGATTT-CA
* *
16178010 TGTAAGACCACGTCTAGGAC-GTTGGCATC-CTACTTGATTTCA
1 TGTAAGACCACGTCTAGGACAGTTGGCATCGATATTTGATTTCA
* *
16178052 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTAGGACAGTTGGCATCGATATTTGATTTCA
* *
16178095 TATAAGACCACGTCTGGGA-AGTTGGCAT
1 TGTAAGACCACGTCTAGGACAGTTGGCAT
16178123 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 39 0.41
44 28 0.29
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (44 bp):
TGTAAGACCACGTCTAGGACAGTTGGCATCGATATTTGATTTCA
Found at i:16184782 original size:23 final size:23
Alignment explanation
Indices: 16184699--16184785 Score: 60
Period size: 23 Copynumber: 3.8 Consensus size: 23
16184689 TATCTTGTAC
16184699 ATTAAATTAAATTTAATATTAAGAT
1 ATTAAATTAAATTTAATA-TAAG-T
* * *
16184724 AATCACTATAATATTTAAT-TAA-T
1 ATTAAAT-TAA-ATTTAATATAAGT
16184747 A--AAA-T-AATATTAATATAAGT
1 ATTAAATTAAAT-TTAATATAAGT
16184767 ATTAAATTAAATTTAATAT
1 ATTAAATTAAATTTAATAT
16184786 TAAACTATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 20
0.66 0.07 0.27
Matches are distributed among these distances:
17 2 0.04
18 6 0.12
19 4 0.08
20 2 0.04
21 1 0.02
22 3 0.06
23 10 0.21
24 3 0.06
25 7 0.15
26 3 0.06
27 7 0.15
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTAAATTAAATTTAATATAAGT
Found at i:16184889 original size:14 final size:14
Alignment explanation
Indices: 16184870--16184902 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16184860 TTCCACAACT
16184870 CAACCACCGATGAC
1 CAACCACCGATGAC
*
16184884 CAACCACTGATGAC
1 CAACCACCGATGAC
16184898 CAACC
1 CAACC
16184903 GCAGCCGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.42, G:0.12, T:0.09
Consensus pattern (14 bp):
CAACCACCGATGAC
Found at i:16186427 original size:16 final size:16
Alignment explanation
Indices: 16186406--16186436 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16186396 CTATGCATGC
*
16186406 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
16186422 AAAATACAAAAGACA
1 AAAATACAAAAGACA
16186437 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:16193119 original size:15 final size:15
Alignment explanation
Indices: 16193101--16193130 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16193091 ATGCTCAGAA
16193101 TACAAAAGGAACCTT
1 TACAAAAGGAACCTT
16193116 TACAAAAGGAACCTT
1 TACAAAAGGAACCTT
16193131 ACTTAATAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
TACAAAAGGAACCTT
Found at i:16193585 original size:54 final size:54
Alignment explanation
Indices: 16193395--16193601 Score: 215
Period size: 55 Copynumber: 3.8 Consensus size: 54
16193385 TTCCTTTTTA
* * ** * * *
16193395 AACTTACCATTGCCATTTCTTGACATGGTCTTACGTGGTATCCTTACCTTAT-G
1 AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
* * *
16193448 AA-TTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACAT--TTGCCTTATAG
1 AACTT-ATCAATGCCATGCCTTGACATGGTCTTACAT--GATATCCTTGCCTTATAG
* * *
16193502 TAACTTATCAATTCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAG
1 -AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
* *
16193557 AACTTATCAATGCTATGCCTTGGCATGGTCTTACATGATATCCTT
1 AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
16193602 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
52 2 0.02
53 39 0.31
54 41 0.32
55 43 0.34
56 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (54 bp):
AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
Found at i:16193633 original size:47 final size:47
Alignment explanation
Indices: 16193580--16193679 Score: 146
Period size: 47 Copynumber: 2.1 Consensus size: 47
16193570 TATGCCTTGG
* * *
16193580 CATGGTCTTACATGATATCCTTATCTTACCAAATGACATGTTTCAAA
1 CATGGTCTTACATGATATCATTACCTTACCAAATGACATGTTCCAAA
* * *
16193627 CATGGTCTTACATGGTATCATTGCCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCATTACCTTACCAAATGACATGTTCCAAA
16193674 CATGGT
1 CATGGT
16193680 ATCCTTGTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGATATCATTACCTTACCAAATGACATGTTCCAAA
Found at i:16193913 original size:44 final size:44
Alignment explanation
Indices: 16193828--16193914 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
16193818 GTATCCTTAA
* * *
16193828 CCGTCAATTCCTCCTTAAATGCCATGTTATGAACATTGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATGGACTTTT
* *
16193872 CCGTCAATTCTTCCTTAATTGCCATGGTA-CAAGCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAA-CATGGACTTT
16193915 GAGATATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATGGACTTTT
Found at i:16194493 original size:30 final size:31
Alignment explanation
Indices: 16194454--16194511 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
16194444 CTAACTCAAA
16194454 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
1 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
**
16194485 CTTT-GCAAAATTATGATTTTGCCCCTA
1 CTTTGGCAAAATTACAATTTTGCCCCTA
16194512 GGCTCGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.36
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTGCCCCTAAAC
Found at i:16197124 original size:25 final size:25
Alignment explanation
Indices: 16197096--16197162 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
16197086 TACTGATTTT
*
16197096 AGCTCTTATGAGCTTACCGATACTC
1 AGCTCGTATGAGCTTACCGATACTC
* *
16197121 AGCTCGTATGAGCTTACCGTTATTC
1 AGCTCGTATGAGCTTACCGATACTC
* *
16197146 AGCTCGAAGGAGCTTAC
1 AGCTCGTATGAGCTTAC
16197163 TGTTTAAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATACTC
Found at i:16197182 original size:24 final size:25
Alignment explanation
Indices: 16197096--16197182 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 25
16197086 TACTGATTTT
* * *
16197096 AGCTCTTATGAGCTTACCGATACT-C
1 AGCTCGTATGAGCTTACCGTTA-TAA
**
16197121 AGCTCGTATGAGCTTACCGTTATTC
1 AGCTCGTATGAGCTTACCGTTATAA
* * *
16197146 AGCTCGAAGGAGCTTACTGTT-TAA
1 AGCTCGTATGAGCTTACCGTTATAA
*
16197170 ATCTCGTATGAGC
1 AGCTCGTATGAGC
16197183 ATACATGTAC
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
24 12 0.24
25 39 0.76
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGTTATAA
Found at i:16197555 original size:18 final size:18
Alignment explanation
Indices: 16197532--16197570 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
16197522 CTTAAATGTG
16197532 ATTAAATTGGTAAGTTAA
1 ATTAAATTGGTAAGTTAA
16197550 ATTAAATTGGTAAGTTAA
1 ATTAAATTGGTAAGTTAA
16197568 ATT
1 ATT
16197571 CTCTATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (18 bp):
ATTAAATTGGTAAGTTAA
Found at i:16198078 original size:33 final size:33
Alignment explanation
Indices: 16198034--16198100 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
16198024 TTTTGGTAAG
* *
16198034 TAAGTTTAGTGACATGAATTGATGCAAAATGAT
1 TAAGTTAAGTGACATGAAATGATGCAAAATGAT
*
16198067 TAAGTTAAGTGACATGAAATGATGTAAAATGAT
1 TAAGTTAAGTGACATGAAATGATGCAAAATGAT
16198100 T
1 T
16198101 TATCTTGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (33 bp):
TAAGTTAAGTGACATGAAATGATGCAAAATGAT
Found at i:16202280 original size:50 final size:50
Alignment explanation
Indices: 16202212--16202310 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
16202202 TAAAATAAAA
* * * *
16202212 TACAAGTAAAATATGTATAGAAC-TACTCTTCTTCTATTTGATATTGATTG
1 TACAAGTAAAATACGTATAGAACTTA-TATCCTTCTATTTGACATTGATTG
* * *
16202262 TACAAGTAGAATCCGTATAGTACTTATATCCTTCTATTTGACATTGATT
1 TACAAGTAAAATACGTATAGAACTTATATCCTTCTATTTGACATTGATT
16202311 AGAATAAGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 39 0.95
51 2 0.05
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (50 bp):
TACAAGTAAAATACGTATAGAACTTATATCCTTCTATTTGACATTGATTG
Found at i:16206684 original size:12 final size:12
Alignment explanation
Indices: 16206667--16206710 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
16206657 CAAAGGAAAA
*
16206667 TCCTAATCTAAT
1 TCCTAATATAAT
*
16206679 TCCTAATTTAAT
1 TCCTAATATAAT
*
16206691 GTCCTAATAGAAT
1 -TCCTAATATAAT
16206704 TCCTAAT
1 TCCTAAT
16206711 TTAAAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (12 bp):
TCCTAATATAAT
Found at i:16206696 original size:25 final size:25
Alignment explanation
Indices: 16206667--16206714 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
16206657 CAAAGGAAAA
**
16206667 TCCTAATCTAATTCCTAATTTAATG
1 TCCTAATAGAATTCCTAATTTAATG
16206692 TCCTAATAGAATTCCTAATTTAA
1 TCCTAATAGAATTCCTAATTTAA
16206715 AGTTTATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAATG
Found at i:16211367 original size:25 final size:25
Alignment explanation
Indices: 16211338--16211388 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
16211328 CAAAGGAAAA
** *
16211338 TCCTAATCTAATTCCTAATTTGAAG
1 TCCTAATAGAATTCCTAATTTAAAG
16211363 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
16211388 T
1 T
16211389 TTATAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:16211715 original size:3 final size:3
Alignment explanation
Indices: 16211707--16211740 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
16211697 TTTCTTTCCC
*
16211707 CTT CTT CTT CTT CTT CCT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
16211741 CCTAACCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:16215447 original size:6 final size:7
Alignment explanation
Indices: 16215427--16215453 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
16215417 TTGAATTATA
16215427 TAATTTT
1 TAATTTT
16215434 TAATTTT
1 TAATTTT
16215441 TAATTTT
1 TAATTTT
16215448 TAATTT
1 TAATTT
16215454 ACTTAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TAATTTT
Found at i:16229980 original size:67 final size:67
Alignment explanation
Indices: 16229835--16230015 Score: 344
Period size: 67 Copynumber: 2.7 Consensus size: 67
16229825 GAAGAACACA
*
16229835 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAAACATATATTCCCAGTTCCTAA
1 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAAA-ATATATTCCCAATTCCTAA
16229900 AAT
65 AAT
16229903 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAAAATATATTCCCAATTCCTAAA
1 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAAAATATATTCCCAATTCCTAAA
16229968 AT
66 AT
16229970 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAAAA
1 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAAAA
16230016 AACAGACATT
Statistics
Matches: 112, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
67 67 0.60
68 45 0.40
ACGTcount: A:0.51, C:0.21, G:0.07, T:0.20
Consensus pattern (67 bp):
AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAAAATATATTCCCAATTCCTAAA
AT
Found at i:16230448 original size:16 final size:17
Alignment explanation
Indices: 16230421--16230452 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16230411 AGTTTTCTAA
16230421 ATATTAATTATTTATTT
1 ATATTAATTATTTATTT
16230438 ATATT-ATTATTTATT
1 ATATTAATTATTTATT
16230453 GCCCAAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTAATTATTTATTT
Found at i:16230858 original size:18 final size:19
Alignment explanation
Indices: 16230835--16230874 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
16230825 TAATGATTCA
16230835 ATAATTAGATTTATTA-AT
1 ATAATTAGATTTATTATAT
* *
16230853 ATAATTATATTTGTTATAT
1 ATAATTAGATTTATTATAT
16230872 ATA
1 ATA
16230875 TATAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
ATAATTAGATTTATTATAT
Found at i:16231390 original size:17 final size:16
Alignment explanation
Indices: 16231351--16231392 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16231341 TATAATAAAT
16231351 TATTAAAAAATAAACA
1 TATTAAAAAATAAACA
16231367 T-TTAAAAAA-AAGACA
1 TATTAAAAAATAA-ACA
*
16231382 TATTGAAAAAT
1 TATTAAAAAAT
16231393 TTTTAACACT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 2 0.09
15 12 0.55
16 8 0.36
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (16 bp):
TATTAAAAAATAAACA
Found at i:16232673 original size:10 final size:9
Alignment explanation
Indices: 16232651--16232690 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
16232641 TTATTTTAAT
16232651 ATTTTTA-A
1 ATTTTTATA
16232659 ATTTTTATGA
1 ATTTTTAT-A
16232669 ATTTTTATA
1 ATTTTTATA
*
16232678 ATTTTTTTA
1 ATTTTTATA
16232687 ATTT
1 ATTT
16232691 ATTTTTCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 7 0.24
9 13 0.45
10 9 0.31
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (9 bp):
ATTTTTATA
Found at i:16232695 original size:10 final size:9
Alignment explanation
Indices: 16232644--16232695 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
16232634 GTATATTTTA
16232644 TTTTAATATT
1 TTTTAAT-TT
*
16232654 TTTAAATTT
1 TTTTAATTT
*
16232663 TTATGAATTT
1 TT-TTAATTT
*
16232673 TTATAATTT
1 TTTTAATTT
16232682 TTTTAATTT
1 TTTTAATTT
16232691 ATTTT
1 -TTTT
16232696 TCATTTATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 17 0.49
10 18 0.51
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTAATTT
Found at i:16233512 original size:18 final size:18
Alignment explanation
Indices: 16233478--16233512 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16233468 AGTTTACTTT
16233478 TTATATTTAATTATATAC
1 TTATATTTAATTATATAC
16233496 TTATAGTTTAATT-TATA
1 TTATA-TTTAATTATATA
16233513 ATTTTCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTATATTTAATTATATAC
Found at i:16233891 original size:11 final size:11
Alignment explanation
Indices: 16233877--16233917 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
16233867 TATTTTCTCC
16233877 CTATTTTGCTA
1 CTATTTTGCTA
*
16233888 CTATTTTACTA
1 CTATTTTGCTA
* *
16233899 TTATGTTGCTA
1 CTATTTTGCTA
16233910 CTATTTTG
1 CTATTTTG
16233918 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:16234169 original size:12 final size:12
Alignment explanation
Indices: 16234139--16234172 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
16234129 TATATATTTT
16234139 AAAATT-ATATA
1 AAAATTAATATA
16234150 AAAA-TAATATA
1 AAAATTAATATA
16234161 AAAATTAATATA
1 AAAATTAATATA
16234173 GGCAGGCCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:16235281 original size:3 final size:3
Alignment explanation
Indices: 16235275--16235319 Score: 56
Period size: 3 Copynumber: 14.3 Consensus size: 3
16235265 AAGTGAAAAA
16235275 AAG AAG AAG AAG AAG AAG AAG AAG AA- ATAG ACCAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A-AG A--AG AAG AAG AAG A
16235320 GAACGAAGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
2 1 0.03
3 33 0.87
4 1 0.03
5 3 0.08
ACGTcount: A:0.64, C:0.04, G:0.29, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:16235624 original size:22 final size:23
Alignment explanation
Indices: 16235581--16235628 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
16235571 TTTTTTGTAG
*
16235581 GTTTAGGGTTTATCAAAATTATTT
1 GTTTAGGATTTAT-AAAATTATTT
16235605 GTTTAGGATTTAT-AAATTATTT
1 GTTTAGGATTTATAAAATTATTT
16235627 GT
1 GT
16235629 AGAGGGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.48
24 12 0.52
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (23 bp):
GTTTAGGATTTATAAAATTATTT
Found at i:16244888 original size:30 final size:30
Alignment explanation
Indices: 16244852--16244914 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
16244842 ACATTTTGAA
16244852 AAATATTCATTTACCTCCTAAAAGTTGATG
1 AAATATTCATTTACCTCCTAAAAGTTGATG
16244882 AAATATTCATTTACCTCCTAAAAGTTGATG
1 AAATATTCATTTACCTCCTAAAAGTTGATG
16244912 AAA
1 AAA
16244915 AATCCAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (30 bp):
AAATATTCATTTACCTCCTAAAAGTTGATG
Found at i:16246117 original size:20 final size:20
Alignment explanation
Indices: 16246094--16246140 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
16246084 TAATTTTTTT
* *
16246094 AAAAAATAT-AATAAAATTA
1 AAAAAAAATCAATAAAAGTA
*
16246113 AAAAAAAATCATTAAAAGTA
1 AAAAAAAATCAATAAAAGTA
16246133 AAAAAAAA
1 AAAAAAAA
16246141 ACCCAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAAAAATCAATAAAAGTA
Found at i:16246156 original size:20 final size:20
Alignment explanation
Indices: 16246106--16246156 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
16246096 AAAATATAAT
*
16246106 AAAATTAAAAAAAAATCATTA
1 AAAATTAAAAAAAAACCA-TA
* *
16246127 AAAGTAAAAAAAAAACCCA-A
1 AAAATTAAAAAAAAA-CCATA
16246147 AAAATTAAAA
1 AAAATTAAAA
16246157 CCAAGAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 9 0.38
21 13 0.54
22 2 0.08
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAATTAAAAAAAAACCATA
Found at i:16247355 original size:23 final size:20
Alignment explanation
Indices: 16247329--16247378 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
16247319 AATTGAAATG
16247329 TATATTTGAAATGTTTTATAACA
1 TATATTTGAAA--TTTTA-AACA
* *
16247352 TATATTTTAAATTTTAAATA
1 TATATTTGAAATTTTAAACA
16247372 TATATTT
1 TATATTT
16247379 TTGGAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.40
21 5 0.20
23 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TATATTTGAAATTTTAAACA
Found at i:16247508 original size:16 final size:16
Alignment explanation
Indices: 16247469--16247517 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
16247459 TTATTATTAG
16247469 TTTTATAATATTTTAAA
1 TTTTA-AATATTTTAAA
*
16247486 -TGT--ATATTTTAAA
1 TTTTAAATATTTTAAA
16247499 TTTTAAATATTTTAAA
1 TTTTAAATATTTTAAA
16247515 TTT
1 TTT
16247518 GTTTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 10 0.37
14 2 0.07
16 15 0.56
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTAAATATTTTAAA
Found at i:16247531 original size:29 final size:30
Alignment explanation
Indices: 16247469--16247536 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
16247459 TTATTATTAG
16247469 TTTTATAATATTTTAAATGTATATTTTAAA-
1 TTTTA-AATATTTTAAATGTATATTTTAAAT
*
16247499 TTTTAAATATTTTAAAT-T-TGTTTTATAATT
1 TTTTAAATATTTTAAATGTATATTTTA-AA-T
16247529 TTTTAAAT
1 TTTTAAAT
16247537 TATGATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 6 0.18
28 3 0.09
29 12 0.35
30 13 0.38
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTTAAATATTTTAAATGTATATTTTAAAT
Found at i:16247534 original size:21 final size:20
Alignment explanation
Indices: 16247499--16247556 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 20
16247489 ATATTTTAAA
16247499 TTTTAAATATTTTAAATTTG
1 TTTTAAATATTTTAAATTTG
*
16247519 TTTTATAATTTTTTAAATTATG
1 TTTTA-AATATTTTAAATT-TG
16247541 ATTTTTAAATTATTTT
1 --TTTTAAA-TATTTT
16247557 TAAAGATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
21 12 0.39
22 2 0.06
23 2 0.06
24 10 0.32
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTAAATATTTTAAATTTG
Found at i:16247617 original size:20 final size:20
Alignment explanation
Indices: 16247594--16247634 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
16247584 TCTATATAAA
*
16247594 ATTTTAAAAAAT-AATATTTG
1 ATTTAAAAAAATGAA-ATTTG
16247614 ATTTAAAAAAATGAAATTTG
1 ATTTAAAAAAATGAAATTTG
16247634 A
1 A
16247635 AATAATTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (20 bp):
ATTTAAAAAAATGAAATTTG
Found at i:16247664 original size:15 final size:16
Alignment explanation
Indices: 16247644--16247681 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
16247634 AAATAATTAG
16247644 AAAAAG-TATTTGTTA
1 AAAAAGTTATTTGTTA
16247659 AAAAAGATTTATTTGTTA
1 AAAAAG--TTATTTGTTA
16247677 AAAAA
1 AAAAA
16247682 TATGACTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
18 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (16 bp):
AAAAAGTTATTTGTTA
Found at i:16247751 original size:22 final size:21
Alignment explanation
Indices: 16247693--16247751 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
16247683 ATGACTTTAT
16247693 TTAAAATATATATATT-AAAAA
1 TTAAAA-ATATATATTAAAAAA
* * *
16247714 GTAAAAATTTAAATTAAAAAAA
1 TTAAAAATATATATT-AAAAAA
16247736 TTAAAAATATATATTA
1 TTAAAAATATATATTA
16247752 TAACTGGTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TTAAAAATATATATTAAAAAA
Found at i:16248823 original size:70 final size:70
Alignment explanation
Indices: 16248749--16248912 Score: 206
Period size: 70 Copynumber: 2.3 Consensus size: 70
16248739 ATTTTAAAAG
*
16248749 TTTAATATATTTAAAAT-TTTAA-AAAAATTTAAAAAATTAAATATATTAAAAAATGTTAACAAC
1 TTTAAAAT-TTTAAAATATTTAATAAAAATTTAAAAAATTAAATATATTAAAAAA-GTTAACAAC
16248812 AACCAAT
64 AACCAAT
* * ** ** *
16248819 TTTAAAATTTTAATATATTTAATATATTTTTAAAAAATTAAATATATTAAAAAAGTTAAGTATAA
1 TTTAAAATTTTAAAATATTTAATAAAAATTTAAAAAATTAAATATATTAAAAAAGTTAACAACAA
16248884 CCAAT
66 CCAAT
* *
16248889 TTTAAAATTTTAATATATTCAATA
1 TTTAAAATTTTAAAATATTTAATA
16248913 TATTTTTAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
69 7 0.08
70 48 0.58
71 28 0.34
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (70 bp):
TTTAAAATTTTAAAATATTTAATAAAAATTTAAAAAATTAAATATATTAAAAAAGTTAACAACAA
CCAAT
Found at i:16248870 original size:17 final size:18
Alignment explanation
Indices: 16248848--16248882 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
16248838 TAATATATTT
16248848 TTAAAAAA-TTAAATATA
1 TTAAAAAAGTTAAATATA
*
16248865 TTAAAAAAGTTAAGTATA
1 TTAAAAAAGTTAAATATA
16248883 ACCAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (18 bp):
TTAAAAAAGTTAAATATA
Found at i:16248913 original size:70 final size:71
Alignment explanation
Indices: 16248776--16248924 Score: 255
Period size: 70 Copynumber: 2.1 Consensus size: 71
16248766 TTTAAAAAAA
*
16248776 TTTAAAAAATTAAATATATTAAAAAATGTTAACAACAACCAATTTTAAAATTTTAATATATTTAA
1 TTTAAAAAATTAAATATATTAAAAAATGTTAACAACAACCAATTTTAAAATTTTAATATATTCAA
16248841 TATATT
66 TATATT
** *
16248847 TTTAAAAAATTAAATATATTAAAAAA-GTTAAGTATAACCAATTTTAAAATTTTAATATATTCAA
1 TTTAAAAAATTAAATATATTAAAAAATGTTAACAACAACCAATTTTAAAATTTTAATATATTCAA
16248911 TATATT
66 TATATT
16248917 TTTAAAAA
1 TTTAAAAA
16248925 TATATTTTAA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
70 48 0.65
71 26 0.35
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (71 bp):
TTTAAAAAATTAAATATATTAAAAAATGTTAACAACAACCAATTTTAAAATTTTAATATATTCAA
TATATT
Found at i:16249007 original size:10 final size:10
Alignment explanation
Indices: 16248992--16249020 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
16248982 TAATATATTT
16248992 AAAATTTAAA
1 AAAATTTAAA
16249002 AAAA-TTAAA
1 AAAATTTAAA
16249011 AAAATTTAAA
1 AAAATTTAAA
16249021 TATATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:16249016 original size:19 final size:19
Alignment explanation
Indices: 16248992--16249030 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16248982 TAATATATTT
16248992 AAAATTTAAAAAAATTAAA
1 AAAATTTAAAAAAATTAAA
* *
16249011 AAAATTTAAATATATTAAA
1 AAAATTTAAAAAAATTAAA
16249030 A
1 A
16249031 GTTTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATTTAAAAAAATTAAA
Found at i:16249030 original size:17 final size:17
Alignment explanation
Indices: 16248983--16249047 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
16248973 GAATTTTTTT
*
16248983 AATATATTTAAAATTTA
1 AATATATTAAAAATTTA
* *
16249000 AAAAAATTAAAAAAATTTA
1 AATATATT--AAAAATTTA
*
16249019 AATATATTAAAAGTTTA
1 AATATATTAAAAATTTA
*
16249036 AATATGTTAAAA
1 AATATATTAAAA
16249048 GAAAATGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 25 0.64
19 14 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AATATATTAAAAATTTA
Found at i:16251307 original size:30 final size:30
Alignment explanation
Indices: 16251263--16251329 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
16251253 CGCAAAGCAA
*
16251263 TTCATATCACTCAGACATTAGCGGTTCAAG
1 TTCATATCACTCAGACATGAGCGGTTCAAG
* * * *
16251293 TTTATATCATTCAGACATGGGCGGTTCGAG
1 TTCATATCACTCAGACATGAGCGGTTCAAG
16251323 TTCATAT
1 TTCATAT
16251330 TATTGGAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (30 bp):
TTCATATCACTCAGACATGAGCGGTTCAAG
Found at i:16253257 original size:19 final size:21
Alignment explanation
Indices: 16253214--16253262 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 21
16253204 AATTTTAAAA
16253214 TTAATAATTTATAAAAATTATAT
1 TTAA-AATTTATAAAAA-TATAT
16253237 TTAAAATTT-TAAAAA-ATAT
1 TTAAAATTTATAAAAATATAT
16253256 TTAAAAT
1 TTAAAAT
16253263 ATACATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.42
21 6 0.23
22 5 0.19
23 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAATTTATAAAAATATAT
Found at i:16253352 original size:19 final size:20
Alignment explanation
Indices: 16253328--16253376 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
16253318 AATAATATAT
*
16253328 TTTAAAAAATTAAAAAAC-A
1 TTTAAAAAATCAAAAAACAA
*
16253347 TTTAAAAAATCATAAAACAA
1 TTTAAAAAATCAAAAAACAA
*
16253367 ATTAAAAAAT
1 TTTAAAAAAT
16253377 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (20 bp):
TTTAAAAAATCAAAAAACAA
Found at i:16253363 original size:20 final size:19
Alignment explanation
Indices: 16253328--16253376 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
16253318 AATAATATAT
*
16253328 TTTAAAAAATTAAAAA-ACA
1 TTTAAAAAATCAAAAACA-A
16253347 TTTAAAAAATCATAAAACAA
1 TTTAAAAAATCA-AAAACAA
*
16253367 ATTAAAAAAT
1 TTTAAAAAAT
16253377 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 11 0.42
20 14 0.54
21 1 0.04
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (19 bp):
TTTAAAAAATCAAAAACAA
Found at i:16253432 original size:28 final size:29
Alignment explanation
Indices: 16253372--16253432 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
16253362 AACAAATTAA
*
16253372 AAAATATTTAAAATTTAAAATATACATTT
1 AAAATATTTAAAATCTAAAATATACATTT
16253401 AAAATATTATAAAA-CTAATAATA-A-ATTT
1 AAAATATT-TAAAATCTAA-AATATACATTT
16253429 AAAA
1 AAAA
16253433 GGTCATATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.28
29 12 0.41
30 9 0.31
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAATATTTAAAATCTAAAATATACATTT
Found at i:16253488 original size:22 final size:21
Alignment explanation
Indices: 16253463--16253524 Score: 83
Period size: 20 Copynumber: 3.0 Consensus size: 21
16253453 TAAATGTTTT
16253463 ATATTATTAAAAAATATATTTA
1 ATATT-TTAAAAAATATATTTA
16253485 ATA-TTTAAAAAATAATATTTA
1 ATATTTTAAAAAAT-ATATTTA
*
16253506 AAATTTTAAAAAATA-ATTT
1 ATATTTTAAAAAATATATTT
16253525 CAAAAATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 13 0.35
21 11 0.30
22 13 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTTTAAAAAATATATTTA
Found at i:16253492 original size:20 final size:21
Alignment explanation
Indices: 16253469--16253566 Score: 86
Period size: 22 Copynumber: 4.9 Consensus size: 21
16253459 TTTTATATTA
*
16253469 TTAAAAAATATATTTAATA-T
1 TTAAAAAATATATTTAAAATT
16253489 TTAAAAAATAATATTTAAAATT
1 TTAAAAAAT-ATATTTAAAATT
*
16253511 TTAAAAAATA-ATTT--CA--
1 TTAAAAAATATATTTAAAATT
*
16253527 --AAAATATATATTTAAAATT
1 TTAAAAAATATATTTAAAATT
16253546 TTAAAAATATATATTATAAAA
1 TTAAAAA-ATATATT-TAAAA
16253567 CATTTCAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 7 0.11
15 4 0.06
17 1 0.02
18 1 0.02
20 13 0.21
21 14 0.23
22 17 0.27
23 5 0.08
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:16253529 original size:21 final size:19
Alignment explanation
Indices: 16253469--16253529 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 19
16253459 TTTTATATTA
*
16253469 TTAAAAAATATATTTAATAT
1 TTAAAAAATA-ATTTAAAAT
16253489 TTAAAAAATAATATTTAAAATT
1 TTAAAAAAT-A-ATTTAAAA-T
16253511 TTAAAAAATAATTTCAAAA
1 TTAAAAAATAATTT-AAAA
16253530 ATATATATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 13 0.35
21 14 0.38
22 10 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAAAAATAATTTAAAAT
Found at i:16253538 original size:35 final size:34
Alignment explanation
Indices: 16253487--16253566 Score: 115
Period size: 35 Copynumber: 2.2 Consensus size: 34
16253477 TATATTTAAT
16253487 ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
1 ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
*
16253521 ATTTCAAAAATATATATTTAAAATTTTAAAAATATA
1 ATTTAAAAAATA-ATATTTAAAATTTTAAAAA-ATA
16253557 TATTATAAAA
1 -ATT-TAAAA
16253567 CATTTCAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 11 0.28
35 19 0.47
36 3 0.08
37 3 0.08
38 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (34 bp):
ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
Found at i:16253545 original size:22 final size:24
Alignment explanation
Indices: 16253520--16253575 Score: 80
Period size: 22 Copynumber: 2.4 Consensus size: 24
16253510 TTTAAAAAAT
16253520 AATTTCAAAAATATATATT-T-AA
1 AATTTCAAAAATATATATTATAAA
*
16253542 AATTTTAAAAATATATATTATAAA
1 AATTTCAAAAATATATATTATAAA
16253566 ACATTTCAAA
1 A-ATTTCAAA
16253576 TATACATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 18 0.62
23 1 0.03
24 3 0.10
25 7 0.24
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (24 bp):
AATTTCAAAAATATATATTATAAA
Found at i:16253576 original size:23 final size:22
Alignment explanation
Indices: 16253520--16253584 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
16253510 TTTAAAAAAT
16253520 AATTTCAAAAATATATATTTAAA
1 AATTT-AAAAATATATATTTAAA
*
16253543 ATTTTAAAAATATATATTATAAA
1 AATTTAAAAATATATATT-TAAA
* *
16253566 ACATTT-CAAATATACATTT
1 A-ATTTAAAAATATATATTT
16253585 CAAGTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 14 0.39
23 19 0.53
24 3 0.08
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAAAAATATATATTTAAA
Found at i:16253636 original size:9 final size:9
Alignment explanation
Indices: 16253607--16253662 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
16253597 AATGAATAAT
*
16253607 AAATAAAAT
1 AAATAAAAA
16253616 AAATAAAGAA
1 AAATAAA-AA
16253626 AAATAAAAA
1 AAATAAAAA
*
16253635 AACTTAAAAA
1 AA-ATAAAAA
*
16253645 AAGTAAAAA
1 AAATAAAAA
16253654 AAA-AAAAA
1 AAATAAAAA
16253662 A
1 A
16253663 GAAAGAACAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 6 0.15
9 19 0.46
10 16 0.39
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.12
Consensus pattern (9 bp):
AAATAAAAA
Found at i:16253646 original size:19 final size:18
Alignment explanation
Indices: 16253607--16253655 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
16253597 AATGAATAAT
16253607 AAATAAAATAAATAAAGAA
1 AAATAAAA-AAATAAAGAA
16253626 AAATAAAAAAACTTAAA-AA
1 AAATAAAAAAA--TAAAGAA
*
16253645 AAGTAAAAAAA
1 AAATAAAAAAA
16253656 AAAAAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 20 0.74
20 4 0.15
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (18 bp):
AAATAAAAAAATAAAGAA
Found at i:16253647 original size:24 final size:25
Alignment explanation
Indices: 16253615--16253661 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16253605 ATAAATAAAA
* *
16253615 TAAATAAAG-AAAAATAAAAAAACT
1 TAAAAAAAGTAAAAAAAAAAAAACT
16253639 TAAAAAAAGTAAAAAAAAAAAAA
1 TAAAAAAAGTAAAAAAAAAAAAA
16253662 AGAAAGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (25 bp):
TAAAAAAAGTAAAAAAAAAAAAACT
Found at i:16255079 original size:5 final size:5
Alignment explanation
Indices: 16255071--16255097 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16255061 ATATGTTTTA
16255071 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
16255098 AAACTAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Done.