Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 193 of 325
Found at i:59337659 original size:21 final size:21
Alignment explanation
Indices: 59337590--59337659 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
59337580 CCATCTAAAC
*
59337590 TCATTAAATTATGGTCTAAGT
1 TCATTAAATTATGGTCTGAGT
* * **
59337611 TCATGATA-TATGTGCCATCTGAAC
1 TCATTAAATTATG-G---TCTGAGT
59337635 TCATTAAATTATGGTCTGAGT
1 TCATTAAATTATGGTCTGAGT
59337656 TCAT
1 TCAT
59337660 GATGTATGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 4 0.11
21 16 0.46
24 11 0.31
25 4 0.11
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (21 bp):
TCATTAAATTATGGTCTGAGT
Found at i:59339326 original size:33 final size:33
Alignment explanation
Indices: 59339283--59339367 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 33
59339273 ATCCATCATG
59339283 TTATTTTTATTATTCTA-TATTTTGT-TTATAAA
1 TTATTTTTATTATTCTATTATTTT-TATTATAAA
* *
59339315 TTATATTTTATTA-TATATTATTTTTATTTTAAA
1 TTAT-TTTTATTATTCTATTATTTTTATTATAAA
*
59339348 TTATGTATTATTATTC-ATTA
1 TTAT-TTTTATTATTCTATTA
59339368 ATTGTATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 8 0.18
33 35 0.80
34 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (33 bp):
TTATTTTTATTATTCTATTATTTTTATTATAAA
Found at i:59339341 original size:16 final size:16
Alignment explanation
Indices: 59339308--59339361 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
59339298 TATATTTTGT
59339308 TTATAAATTATATTTTA
1 TTATAAATTAT-TTTTA
*
59339325 TTATATATTATTTTTA
1 TTATAAATTATTTTTA
* *
59339341 TTTTAAATTATGTATTA
1 TTATAAATTAT-TTTTA
59339358 TTAT
1 TTAT
59339362 TCATTAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTATAAATTATTTTTA
Found at i:59341245 original size:2 final size:2
Alignment explanation
Indices: 59341238--59341265 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
59341228 CATCAGCTAG
59341238 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59341266 ATAGGCTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59343726 original size:42 final size:43
Alignment explanation
Indices: 59343640--59343813 Score: 264
Period size: 43 Copynumber: 4.1 Consensus size: 43
59343630 CAGCATTACA
* *
59343640 CCTGCTAGGCACGAAGGCCCGAATACACATGACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
* *
59343683 CCTGCTAGGCACGAAGGCCCG-ATACACATCATCGGTACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
59343725 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
* * *
59343768 CCTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAGG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
59343809 CCTGC
1 CCTGC
59343814 GGGATTTATC
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
41 15 0.12
42 40 0.33
43 66 0.55
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
Found at i:59343839 original size:38 final size:38
Alignment explanation
Indices: 59343785--59343868 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
59343775 GGCACGAAGG
* * * *
59343785 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
*
59343823 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
59343861 CCCGAATA
1 CCCGAATA
59343869 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:59344132 original size:53 final size:53
Alignment explanation
Indices: 59344034--59344139 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
59344024 TCACCATTCA
59344034 AACTTAACCCATAGTGACCATTCGACTATAAGTCATATACATAAATTATTTAT
1 AACTTAACCCATAGTGACCATTCGACTATAAGTCATATACATAAATTATTTAT
59344087 AACTTAACCCATAGTGACCATTCGACTATAAGTCATATACATAAATTATTTAT
1 AACTTAACCCATAGTGACCATTCGACTATAAGTCATATACATAAATTATTTAT
59344140 CACACAACTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (53 bp):
AACTTAACCCATAGTGACCATTCGACTATAAGTCATATACATAAATTATTTAT
Found at i:59355195 original size:40 final size:40
Alignment explanation
Indices: 59355150--59355279 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
59355140 CGGAATATAA
59355150 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
59355190 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
59355230 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
59355270 CCGGATATAA
1 CCGGATATAA
59355280 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:59355294 original size:40 final size:40
Alignment explanation
Indices: 59355166--59355317 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
59355156 ATAAGCATGT
* * *
59355166 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
59355206 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
59355246 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
59355286 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
59355318 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:59355300 original size:80 final size:80
Alignment explanation
Indices: 59355166--59355317 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
59355156 ATAAGCATGT
* *
59355166 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
59355231 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
59355246 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
59355309 CCCGGATAT
64 CCCGGATAT
59355318 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:59367777 original size:28 final size:28
Alignment explanation
Indices: 59367708--59367808 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
59367698 GACAAGATTG
* * * *
59367708 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
59367738 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59367766 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
59367795 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59367809 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59372033 original size:28 final size:28
Alignment explanation
Indices: 59371964--59372064 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
59371954 GACAAGATTG
* * * *
59371964 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
59371994 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59372022 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
59372051 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59372065 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59379987 original size:28 final size:28
Alignment explanation
Indices: 59379918--59380018 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
59379908 GACAAGATTG
* * * *
59379918 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
59379948 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59379976 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
59380005 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59380019 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59383322 original size:28 final size:28
Alignment explanation
Indices: 59383257--59383357 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
59383247 ATAGTGAATC
*
59383257 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
59383286 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
59383314 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
59383344 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59383358 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59385076 original size:47 final size:45
Alignment explanation
Indices: 59385014--59385274 Score: 179
Period size: 47 Copynumber: 5.6 Consensus size: 45
59385004 GGCTGTTACA
*
59385014 GTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCAT-CAGACGAGAGCTAGT
* * * * * *
59385062 GTAAGACATGTCTGGGACATGCTTCAGCCAT-ATTATGAGTGCTAGA
1 GTAAGACATGTCTGGGACATGCATC-GGCATCA-GACGAGAGCTAGT
* * * * *
59385108 GTAAGACATGTTTGTGACATGCATTGGCCTC-GACAGAGTTAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCATCAGAC-GAG--AGCTAGT
* * * *
59385155 GTAAGACATGTCTGGGACATGCATTGGC-TAAGA-GTTGTGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCATCAGACG-AGAGCTAGT
* * * *
59385199 GTAAGACATGTCTGGGACATGCATCAGCATGCATATATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCAT-C--AGACGAGAGCTAGT
*
59385247 GTAAGACCATGTCTGGGATATGGCATCG
1 GTAAGA-CATGTCTGGGACAT-GCATCG
59385275 ACAATTTATC
Statistics
Matches: 166, Mismatches: 32, Indels: 28
0.73 0.14 0.12
Matches are distributed among these distances:
44 32 0.19
45 9 0.05
46 36 0.22
47 50 0.30
48 20 0.12
49 14 0.08
50 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCATCGGCATCAGACGAGAGCTAGT
Found at i:59387574 original size:40 final size:40
Alignment explanation
Indices: 59387505--59387725 Score: 288
Period size: 40 Copynumber: 5.6 Consensus size: 40
59387495 AAACCAAGTA
* * *
59387505 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59387544 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
59387584 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
59387624 CCTTCGGGACTTAGCCCGG-TATACAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTA--ACTCGCACAAATG
*
59387665 CCTTC-GGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59387704 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59387726 CATCCGAATA
Statistics
Matches: 158, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 49 0.31
40 87 0.55
41 22 0.14
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59395936 original size:40 final size:40
Alignment explanation
Indices: 59395867--59396091 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
59395857 AAACCAAGTA
* * *
59395867 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59395906 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
59395946 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59395986 CCTTCGGGACTTAGCCC-GAGTATAGCAACTACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGA-TATAG-TA--ACTCGCACAAATG
* *
59396029 CCTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
59396069 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59396092 CATCCGAATA
Statistics
Matches: 159, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 14 0.09
40 109 0.69
42 1 0.01
43 33 0.21
44 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59396064 original size:83 final size:80
Alignment explanation
Indices: 59395867--59396091 Score: 292
Period size: 83 Copynumber: 2.8 Consensus size: 80
59395857 AAACCAAGTA
* * * * *
59395867 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
59395931 TAACTCGCACACATG
66 CAACTCGCACACATG
* * *
59395946 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC-GAGTATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA-TATA
*
59396010 GCAACTACTCACACAAATG
65 GCAACT-CGCACAC--ATG
* *
59396029 CCTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
59396092 CATCCGAATA
Statistics
Matches: 125, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
79 14 0.11
80 45 0.36
81 6 0.05
83 58 0.46
84 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
CAACTCGCACACATG
Found at i:59400381 original size:30 final size:30
Alignment explanation
Indices: 59400345--59400475 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
59400335 GACAAGATTG
* * * * *
59400345 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
59400375 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
59400403 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
59400433 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
59400462 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59400476 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:59400436 original size:58 final size:58
Alignment explanation
Indices: 59400345--59400475 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
59400335 GACAAGATTG
* * * * * *
59400345 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
59400403 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
59400462 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59400476 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:59410990 original size:44 final size:47
Alignment explanation
Indices: 59410792--59411002 Score: 152
Period size: 47 Copynumber: 4.6 Consensus size: 47
59410782 TTGTACGCCG
* * * * * *
59410792 GTGTAAGACATGTCTGGGACATGGCATCGGCATC-CAGACAAGGGCTA
1 GTGTAAGAGATGTCTGGGACAT-GCATCGGCCTCACAGAGATGTGCCA
* * * * *
59410839 GTGTAAGACATGTCTGGGACATGCTTCAGCCAT-ATTA-TGA-GTGCCA
1 GTGTAAGAGATGTCTGGGACATGCATCGGCC-TCA-CAGAGATGTGCCA
* * * *
59410885 GAGTAAGACATGTCTGGGACATGCATTGGCCTCGACAGAGAT-AGCCA
1 GTGTAAGAGATGTCTGGGACATGCATCGGCCTC-ACAGAGATGTGCCA
*
59410932 GTGTAAGACG-TGTCTGGGACATGCATCGG-CT-A-AGAGTTGTGCCA
1 GTGTAAGA-GATGTCTGGGACATGCATCGGCCTCACAGAGATGTGCCA
* *
59410976 GTGTAAGAGATGTCTTGGACATACATC
1 GTGTAAGAGATGTCTGGGACATGCATC
59411003 AACACTCATA
Statistics
Matches: 132, Mismatches: 22, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
43 6 0.05
44 28 0.21
45 1 0.01
46 40 0.30
47 56 0.42
48 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GTGTAAGAGATGTCTGGGACATGCATCGGCCTCACAGAGATGTGCCA
Found at i:59415686 original size:41 final size:41
Alignment explanation
Indices: 59415570--59415686 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 41
59415560 ATAATGATAT
* * **
59415570 TTAGACTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTAA
1 TTAGACTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
** * * *
59415611 TCGGGC-TTGATGCCTAGCAGG-CTTATTGCCGGTGTATAAAA
1 TTAGACTTTGA-GCCTAGCAGGCCTT-GTGCTGGTGTATAAAA
*
59415652 TTAGACTTTGAGTCTAGCAGGCCTTGTGCTGGTGT
1 TTAGACTTTGAGCCTAGCAGGCCTTGTGCTGGTGT
59415687 GTGATACAGG
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
40 7 0.12
41 43 0.75
42 7 0.12
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (41 bp):
TTAGACTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
Found at i:59421519 original size:33 final size:31
Alignment explanation
Indices: 59421441--59421530 Score: 80
Period size: 33 Copynumber: 2.9 Consensus size: 31
59421431 ATGAAAATCC
* *
59421441 AAAAGA-AAATAA-AAATGAGAAAAAGAGAGG
1 AAAAGAGAAA-AAGAAATGAGAAAAAGACAAG
59421471 AAAA-ATGATAAAAGAAACTGAGAAAAAGACAAG
1 AAAAGA-GA-AAAAGAAA-TGAGAAAAAGACAAG
*
59421504 AAAAGAGAAAGAAGAAA-AAGAAAAAGA
1 AAAAGAGAAA-AAGAAATGAGAAAAAGA
59421531 TTGTGAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
29 1 0.02
30 4 0.08
31 12 0.24
32 7 0.14
33 25 0.50
34 1 0.02
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.06
Consensus pattern (31 bp):
AAAAGAGAAAAAGAAATGAGAAAAAGACAAG
Found at i:59428042 original size:46 final size:46
Alignment explanation
Indices: 59427974--59428149 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
59427964 TGTAACCCGC
* * *
59427974 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
59428020 CCATAAGTGAACTCGGAATCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTC-G--GAC--GTTCGCAT
* * *
59428070 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
59428113 CCATAAGTGAACTCAGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
59428150 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 57 0.55
47 26 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:59428110 original size:93 final size:93
Alignment explanation
Indices: 59427981--59428152 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
59427971 CGCCCATAAG
* * * *
59427981 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGAATCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGAATCAACTCA
59428046 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
* * *
59428074 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGAATCAACTCA
* *
59428139 ATGAGTTCGGATGC
66 ACGAGTTCAGATGC
59428153 TCAACCATCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGAATCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:59435653 original size:93 final size:93
Alignment explanation
Indices: 59435541--59435712 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59435531 CGCCCATAAG
* *
59435541 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59435606 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
59435634 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59435699 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59435713 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59435709 original size:46 final size:46
Alignment explanation
Indices: 59435534--59435709 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59435524 TGTAACCCGC
* * *
59435534 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
59435580 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
59435630 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
59435673 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59435710 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59440283 original size:80 final size:80
Alignment explanation
Indices: 59440199--59440347 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
59440189 TATGGTAACC
* * * *
59440199 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
59440263 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
59440279 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
59440344 CCGG
66 CCGG
59440348 TATATAATTT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:59440289 original size:40 final size:38
Alignment explanation
Indices: 59440240--59440347 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
59440230 ATCACGATTT
*
59440240 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
59440280 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
59440320 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
59440348 TATATAATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:59448376 original size:40 final size:38
Alignment explanation
Indices: 59448327--59448434 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
59448317 ATCACGATTT
*
59448327 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
59448367 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
59448407 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
59448435 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:59450218 original size:17 final size:16
Alignment explanation
Indices: 59450187--59450217 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
59450177 GGGTTTACAA
59450187 AAAAACAAAAATTTTC
1 AAAAACAAAAATTTTC
59450203 AAAAACAAAAATTTT
1 AAAAACAAAAATTTT
59450218 TTTGCGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAACAAAAATTTTC
Found at i:59455518 original size:24 final size:24
Alignment explanation
Indices: 59455486--59455556 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
59455476 CTGTCAGGAG
59455486 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
59455510 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
59455534 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
59455557 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:59455568 original size:48 final size:48
Alignment explanation
Indices: 59455486--59455579 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
59455476 CTGTCAGGAG
** * *
59455486 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
59455534 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
59455580 AACAAAAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:59457015 original size:27 final size:26
Alignment explanation
Indices: 59456977--59457085 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
59456967 AAGCGTCCTA
*
59456977 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
59457004 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
* *
59457031 GTGGTTCTACCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* * *
59457059 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
59457085 G
1 G
59457086 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.68
28 15 0.22
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:59471090 original size:57 final size:57
Alignment explanation
Indices: 59470996--59471105 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 57
59470986 TGAAAAAAAA
59470996 AAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
** ***
59471053 AAAAGAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAGAAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
59471106 GAAAAGGGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 2 0.04
57 41 0.89
58 3 0.07
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (57 bp):
AAAAGAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:59472362 original size:40 final size:40
Alignment explanation
Indices: 59472296--59472462 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
59472286 AAATTGAATG
* * *
59472296 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
59472335 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
59472375 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
59472415 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
59472455 ATATCCGG
1 ATATCCGG
59472463 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:59474899 original size:70 final size:70
Alignment explanation
Indices: 59474823--59475025 Score: 205
Period size: 70 Copynumber: 2.9 Consensus size: 70
59474813 TTATATTATT
* * *
59474823 TCATATGGCCGAATAT-ATAAGTTCAATAT-ATCATCACATGTAACCTAATGTTCAAGTTCAATA
1 TCATATGGCCGAATATAATAA-TTCAATATAATC-TCACATGTAACCGAATATACAAGTTCAATA
59474886 AAACATC
64 AAACATC
*
59474893 TCATATGGCCGAATATAATAATTCCATATAATCTCACATGTAACCGAATATACAAGTTCAATATA
1 TCATATGGCCGAATATAATAATTCAATATAATCTCACATGTAACCGAATATACAAGTTCAATA-A
*
59474958 AGC-TC
65 AACATC
* * *** * ** * * * *
59474963 ACATGTAATCGAATACACGAGTTCAATATAACCTCACATGCAGCCGAATATACAAGTTCAATA
1 TCATATGGCCGAATATAATAATTCAATATAATCTCACATGTAACCGAATATACAAGTTCAATA
59475026 CAACTTCACA
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
70 102 0.91
71 10 0.09
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (70 bp):
TCATATGGCCGAATATAATAATTCAATATAATCTCACATGTAACCGAATATACAAGTTCAATAAA
ACATC
Found at i:59474941 original size:35 final size:34
Alignment explanation
Indices: 59474831--59475036 Score: 160
Period size: 35 Copynumber: 5.9 Consensus size: 34
59474821 TTTCATATGG
* *
59474831 CCGAATATATAAGTTCAATATATCATCACATGTAA
1 CCGAATATA-AAGTTCAATATAACCTCACATGTAA
* * * * * * * **
59474866 CCTAATGTTCAAGTTCAATAAAACATCTCATATGG
1 CCGAAT-ATAAAGTTCAATATAACCTCACATGTAA
* * *
59474901 CCGAATATAATAATTCCATATAATCTCACATGTAA
1 CCGAATATAA-AGTTCAATATAACCTCACATGTAA
*
59474936 CCGAATATACAAGTTCAATATAAGCTCACATGTAA
1 CCGAATATA-AAGTTCAATATAACCTCACATGTAA
* * * * *
59474971 TCGAATACACGAGTTCAATATAACCTCACATGCAG
1 CCGAATATA-AAGTTCAATATAACCTCACATGTAA
* *
59475006 CCGAATATACAAGTTCAATACAACTTCACAT
1 CCGAATATA-AAGTTCAATATAACCTCACAT
59475037 ATACTTACCT
Statistics
Matches: 133, Mismatches: 35, Indels: 6
0.76 0.20 0.03
Matches are distributed among these distances:
34 2 0.02
35 129 0.97
36 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (34 bp):
CCGAATATAAAGTTCAATATAACCTCACATGTAA
Found at i:59477305 original size:71 final size:71
Alignment explanation
Indices: 59477189--59477402 Score: 394
Period size: 71 Copynumber: 3.0 Consensus size: 71
59477179 TATGGATTGG
59477189 TTAACTTTGCACGATGCTGTTGTGAACTGCAAGAGAAAGACTATTGATTTACAGAGCTAGAATGA
1 TTAACTTTGCACGATGCTGTTGTGAACTGCAAGAGAAAGACTATTGATTTACAGAGCTAGAATGA
59477254 TGAGAT
66 TGAGAT
59477260 TTAACTTTGCACGATGCTGTTGTGAACTGCAAGAGAAAGACTATTGATTTACAGAGCTAGAATGA
1 TTAACTTTGCACGATGCTGTTGTGAACTGCAAGAGAAAGACTATTGATTTACAGAGCTAGAATGA
59477325 TGAGAT
66 TGAGAT
*
59477331 TTAACTTTGCACGATGCTGTTGTGAACTGCAAGAGAAAGACTATTGATTTAC-GAAGCCAGAATG
1 TTAACTTTGCACGATGCTGTTGTGAACTGCAAGAGAAAGACTATTGATTTACAG-AGCTAGAATG
*
59477395 ATAAGAT
65 ATGAGAT
59477402 T
1 T
59477403 ATGCGGATTG
Statistics
Matches: 140, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
70 1 0.01
71 139 0.99
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (71 bp):
TTAACTTTGCACGATGCTGTTGTGAACTGCAAGAGAAAGACTATTGATTTACAGAGCTAGAATGA
TGAGAT
Found at i:59477759 original size:33 final size:33
Alignment explanation
Indices: 59477717--59477782 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
59477707 AGTTTCAAGA
*
59477717 ATTGATAGATAGAGGTTTCGCATGACTGAGTTT
1 ATTGATAGATAGAGGTTTCGCACGACTGAGTTT
59477750 ATTGATAGATAGAGGTTTCGCACGACTGAGTTT
1 ATTGATAGATAGAGGTTTCGCACGACTGAGTTT
59477783 TATCTCCATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (33 bp):
ATTGATAGATAGAGGTTTCGCACGACTGAGTTT
Found at i:59482187 original size:55 final size:53
Alignment explanation
Indices: 59482100--59482333 Score: 196
Period size: 55 Copynumber: 4.4 Consensus size: 53
59482090 ATTAGGGTTT
*
59482100 AAGGATACCGTGTAAGACCATGCCAA-AGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * *
59482155 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
59482210 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* * *
59482263 AAGGATACCATGTAAGACCATGTCAGGACAT-GACAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGA-ATTGGTAAGTTTCTAAGGC
* *
59482312 AAGGATATCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
59482334 AAAAGTTATG
Statistics
Matches: 147, Mismatches: 24, Indels: 22
0.76 0.12 0.11
Matches are distributed among these distances:
49 20 0.14
52 8 0.05
53 38 0.26
54 11 0.07
55 65 0.44
56 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:59482306 original size:108 final size:110
Alignment explanation
Indices: 59482110--59482307 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 110
59482100 AAGGATACCG
*
59482110 TGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
* *
59482175 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTCCCA
* * * *
59482220 TGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACC
1 TGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
* *
59482282 ATGTCAGGACATGACAATGGTAAGTT
65 ATGTCAAGACATGACAATGATAAGTT
59482308 TCAAAAGGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.59
109 7 0.09
110 22 0.28
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:59482567 original size:16 final size:16
Alignment explanation
Indices: 59482546--59482576 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59482536 ATAAATTTGA
59482546 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
59482562 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
59482577 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:59487564 original size:40 final size:40
Alignment explanation
Indices: 59487511--59487643 Score: 248
Period size: 40 Copynumber: 3.3 Consensus size: 40
59487501 TTGAGAGTTA
59487511 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
59487551 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
59487591 TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
59487631 TACATCCGGGCTA
1 TATATCCGGGCTA
59487644 GTGATATATC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:59487756 original size:29 final size:28
Alignment explanation
Indices: 59487721--59487849 Score: 127
Period size: 29 Copynumber: 4.5 Consensus size: 28
59487711 CTTCAACCGA
* *
59487721 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATC-GTAATTGAG
* * *
59487750 GCACTATGTGTGCGAGTTCTTCAATCGA-
1 GCACTATGTGTGCGAGATCGT-AATTGAG
*
59487778 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGA-TCGTAATTGAG
* * *
59487807 GCACTATGTGTGCGAGTTCTTTAATCGA-
1 GCACTATGTGTGCGAGATC-GTAATTGAG
59487835 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
59487850 AATCAGTCAG
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
28 38 0.46
29 45 0.54
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGTAATTGAG
Found at i:59487779 original size:57 final size:57
Alignment explanation
Indices: 59487689--59487856 Score: 246
Period size: 57 Copynumber: 2.9 Consensus size: 57
59487679 GCTGGAATTA
* * * * * *
59487689 TGAGGCACTGTGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
**
59487746 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* *
59487803 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCACTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
59487857 CAGTGGGCAT
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 99 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:59487790 original size:28 final size:27
Alignment explanation
Indices: 59487693--59487849 Score: 143
Period size: 28 Copynumber: 5.6 Consensus size: 27
59487683 GAATTATGAG
* * * *
59487693 GCACTGTGTGTGCAAGCTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
* * * * *
59487721 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAATCGA
59487749 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTT-AATCGA
** *
59487778 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
59487806 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
59487835 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
59487850 AATCAGTCAG
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
28 58 0.55
29 47 0.45
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:59493500 original size:39 final size:40
Alignment explanation
Indices: 59493400--59493531 Score: 239
Period size: 40 Copynumber: 3.3 Consensus size: 40
59493390 TTGAGAGTTA
59493400 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
59493440 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
59493480 TATAT-CGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
59493519 TACATCCGGGCTA
1 TATATCCGGGCTA
59493532 GTGATATATC
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
39 37 0.42
40 52 0.58
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:59493643 original size:29 final size:28
Alignment explanation
Indices: 59493608--59493736 Score: 127
Period size: 29 Copynumber: 4.5 Consensus size: 28
59493598 CTTCAACCGA
* *
59493608 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATC-GTAATTGAG
* * *
59493637 GCACTATGTGTGCGAGTTCTTCAATCGA-
1 GCACTATGTGTGCGAGATCGT-AATTGAG
*
59493665 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGA-TCGTAATTGAG
* * *
59493694 GCACTATGTGTGCGAGTTCTTTAATCGA-
1 GCACTATGTGTGCGAGATC-GTAATTGAG
59493722 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
59493737 AATCAGTCAG
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
28 38 0.46
29 45 0.54
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGTAATTGAG
Found at i:59493666 original size:57 final size:57
Alignment explanation
Indices: 59493576--59493743 Score: 246
Period size: 57 Copynumber: 2.9 Consensus size: 57
59493566 GCTGGAATTA
* * * * * *
59493576 TGAGGCACTGTGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
**
59493633 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* *
59493690 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCACTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
59493744 CAGTGGGCGC
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 99 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:59493677 original size:28 final size:27
Alignment explanation
Indices: 59493580--59493736 Score: 143
Period size: 28 Copynumber: 5.6 Consensus size: 27
59493570 GAATTATGAG
* * * *
59493580 GCACTGTGTGTGCAAGCTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
* * * * *
59493608 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAATCGA
59493636 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTT-AATCGA
** *
59493665 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
59493693 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
59493722 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
59493737 AATCAGTCAG
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
28 58 0.55
29 47 0.45
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:59497909 original size:27 final size:28
Alignment explanation
Indices: 59497849--59497918 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
59497839 AAATTTGTAC
*
59497849 AGCACTAACTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
59497877 AACACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
59497904 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59497919 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:59497929 original size:27 final size:27
Alignment explanation
Indices: 59497873--59497930 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
59497863 GAGTTTGATC
* * *
59497873 ATATAACACTAAGTGTGCGAGTTGATT
1 ATATAACACTAAGTGTGCGAGCTCACT
*
59497900 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAACACTAAGTGTGCGAG-CTCACT
59497927 ATAT
1 ATAT
59497931 GCTTTTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (27 bp):
ATATAACACTAAGTGTGCGAGCTCACT
Found at i:59502361 original size:26 final size:26
Alignment explanation
Indices: 59502332--59502472 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
59502322 ATCCCTATTT
* *
59502332 AAAATACTTTGGTTTACAAAATTACC
1 AAAATACCTTGGTTTATAAAATTACC
* * * *
59502358 AAAATACCCTGCTTTGTAAAATTACT
1 AAAATACCTTGGTTTATAAAATTACC
59502384 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * * *
59502411 AAAATACCCCTAGTTTGTAAAATTATC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * *
59502438 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
59502465 AAAATACC
1 AAAATACC
59502473 CCTAATTTGT
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 28 0.28
27 71 0.72
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (26 bp):
AAAATACCTTGGTTTATAAAATTACC
Found at i:59502414 original size:27 final size:27
Alignment explanation
Indices: 59502349--59502500 Score: 189
Period size: 27 Copynumber: 5.7 Consensus size: 27
59502339 TTTGGTTTAC
*
59502349 AAAATTACCAAAATA-CCCTGCTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
59502375 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
59502402 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
59502429 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
59502456 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
59502483 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
59502501 TCGACCTGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 14 0.13
27 97 0.87
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:59502459 original size:54 final size:54
Alignment explanation
Indices: 59502343--59502500 Score: 214
Period size: 54 Copynumber: 2.9 Consensus size: 54
59502333 AAATACTTTG
* * *
59502343 GTTTACAAAATTACCAAAATA-CCCT-GCTTTGTAAAATTACTAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCCTA
59502396 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTA
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCCCTA
* * * *
59502450 GTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC
59502501 TCGACCTGTA
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
53 21 0.22
54 71 0.76
55 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTA
Found at i:59502469 original size:81 final size:80
Alignment explanation
Indices: 59502349--59502572 Score: 227
Period size: 81 Copynumber: 2.8 Consensus size: 80
59502339 TTTGGTTTAC
* * * *
59502349 AAAATTACCAAAATACCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
1 AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAA
**
59502414 ATACCCCTAG-TTTGT
66 ATA-CCCTAGACCTGT
* * * * **
59502429 AAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTG
1 AAAATTATCAAAATA-CCCTGA-TTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCA
*
59502493 AAATACCCTCGACCTGT
64 AAATACCCTAGACCTGT
** * * * *
59502510 AAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACC
1 AAAATTATCAAAATACCCT-GATTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACC
59502573 GTTTTACCCT
Statistics
Matches: 115, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
80 23 0.20
81 91 0.79
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (80 bp):
AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAA
ATACCCTAGACCTGT
Found at i:59502511 original size:54 final size:54
Alignment explanation
Indices: 59502349--59502572 Score: 213
Period size: 54 Copynumber: 4.2 Consensus size: 54
59502339 TTTGGTTTAC
** * * *
59502349 AAAATTACCAAAATA-CCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
* *
59502402 AAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACT-AAAATACCCTCGA-TTTGT
* * **
59502456 AAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
*** * * * * *
59502510 AAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACTAAAATACCCTCGATTTGT
*
59502564 AGAATTACC
1 AAAATTACC
59502573 GTTTTACCCT
Statistics
Matches: 138, Mismatches: 27, Indels: 11
0.78 0.15 0.06
Matches are distributed among these distances:
53 20 0.14
54 115 0.83
55 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
Found at i:59502514 original size:27 final size:27
Alignment explanation
Indices: 59502484--59502558 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
59502474 CTAATTTGTG
59502484 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
59502511 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
59502538 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
59502559 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:59502914 original size:27 final size:27
Alignment explanation
Indices: 59502550--59502921 Score: 460
Period size: 27 Copynumber: 13.8 Consensus size: 27
59502540 ATTACCAAAG
*
59502550 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
59502577 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
59502604 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
59502631 TACCCT-TAGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
* *
59502658 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* ** * *
59502685 CACCCTTAATTTACATAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
59502712 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
59502739 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
59502766 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
59502793 TACCCTCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
59502820 TACCCTCTATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
59502847 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
59502874 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
59502901 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
59502922 TTAAAATACC
Statistics
Matches: 296, Mismatches: 45, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.00
27 293 0.99
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:59502931 original size:27 final size:27
Alignment explanation
Indices: 59502848--59502933 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 27
59502838 TTACCGTTTC
* * ***
59502848 ACCCTCGATTTACAGAATTACCATTTT
1 ACCCTCGATTTACAAAATTACTAAAAT
* ****
59502875 ACCCTTGATTTACAAAATTACTGTTTT
1 ACCCTCGATTTACAAAATTACTAAAAT
*
59502902 ACCCTCGATTTACAAAATTATTAAAAT
1 ACCCTCGATTTACAAAATTACTAAAAT
59502929 ACCCT
1 ACCCT
59502934 TGGTTTGTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (27 bp):
ACCCTCGATTTACAAAATTACTAAAAT
Found at i:59504136 original size:25 final size:25
Alignment explanation
Indices: 59504108--59504155 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59504098 TTATACCATG
* * *
59504108 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
59504133 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59504156 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59504224 original size:20 final size:20
Alignment explanation
Indices: 59504199--59504257 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
59504189 TAAATATGGT
*
59504199 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
59504219 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
59504239 AGGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
59504258 TGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:59504362 original size:23 final size:24
Alignment explanation
Indices: 59504308--59504412 Score: 167
Period size: 24 Copynumber: 4.4 Consensus size: 24
59504298 GAGGAAGTGA
*
59504308 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
59504332 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
59504355 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
59504379 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
59504403 AAAAGAGGCT
1 AAAAG-GGCT
59504413 AGGCCTCCGG
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 22 0.29
24 49 0.65
25 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:59504377 original size:47 final size:48
Alignment explanation
Indices: 59504308--59504412 Score: 167
Period size: 47 Copynumber: 2.2 Consensus size: 48
59504298 GAGGAAGTGA
59504308 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
59504355 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
59504403 AAAAGAGGCT
1 AAAAG-GGCT
59504413 AGGCCTCCGG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
47 43 0.81
48 6 0.11
49 4 0.08
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:59504653 original size:31 final size:31
Alignment explanation
Indices: 59504618--59504681 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
59504608 CGTTTACAGT
59504618 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
59504649 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59504680 AA
1 AA
59504682 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59509835 original size:40 final size:40
Alignment explanation
Indices: 59509791--59509938 Score: 212
Period size: 40 Copynumber: 3.7 Consensus size: 40
59509781 GAAATTATAA
* * *
59509791 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGT--CATTCTAT
59509831 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
59509871 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
*
59509911 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCATTCGTGC
59509939 AAATCGTGAT
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 95 0.94
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
Found at i:59509952 original size:40 final size:39
Alignment explanation
Indices: 59509747--59509970 Score: 175
Period size: 40 Copynumber: 5.6 Consensus size: 39
59509737 AAATTGAATG
* * * *
59509747 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAGTCAT
* * * *
59509787 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT--CAT
* * *
59509827 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA-T
* * *
59509867 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA-T
* * *
59509907 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCAT
* * *
59509946 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
59509971 CTTGGTGCGG
Statistics
Matches: 154, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
37 4 0.03
38 3 0.02
39 3 0.02
40 144 0.94
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCAT
Found at i:59509952 original size:80 final size:77
Alignment explanation
Indices: 59509748--59509979 Score: 209
Period size: 80 Copynumber: 2.9 Consensus size: 77
59509738 AATTGAATGA
* * * *
59509748 TATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT-TATAACCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCTATATCCGGGTTAAGACCCGAAGGC-
*
59509812 ATTGTGCTAGTGGCTAC
62 ATTGTGCGAGT-GCTAC
* * * * *
59509829 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC--TATATCCGGGTTAAGACCCGAAGGCAT
*
59509893 TCGTGCGAGT-CATTC
64 T-GTGCGAGTGC-TAC
* * *
59509908 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATATCCGGGTTAAGTCCCGTAGGCCT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-T-ATATCCGGGTTAAGACCCGAAGGCAT
59509973 TGGTGCG
64 T-GTGCG
59509980 GGTTACCATA
Statistics
Matches: 123, Mismatches: 21, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
77 4 0.03
78 2 0.02
79 9 0.07
80 108 0.88
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (77 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCTATATCCGGGTTAAGACCCGAAGGCATTG
TGCGAGTGCTAC
Found at i:59509995 original size:80 final size:80
Alignment explanation
Indices: 59509831--59510010 Score: 191
Period size: 80 Copynumber: 2.2 Consensus size: 80
59509821 GTGGCTACAT
* * **
59509831 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATATCCGGGCTAAGACCCGAAGGCATTCG
* *
59509896 TGCGAGTCATTCTAT
66 TGCGAGTCATCCTAA
* * * * * * *
59509911 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATATCCGGGTTAAGTCCCGTAGGCCTTGG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATATCCGGGCTAAGACCCGAAGGCATTCG
* *
59509976 TGCGGGTTA-CCATAA
66 TGCGAGTCATCC-TAA
* *
59509991 CCGGGCTATGTCCCGAAGGC
1 CCGGGCTAAGACCCGAAGGC
59510011 GATTGATCGA
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
79 1 0.01
80 81 0.99
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATCCTAA
Found at i:59514385 original size:12 final size:12
Alignment explanation
Indices: 59514368--59514430 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
59514358 CACATTCCCA
*
59514368 TGTGCTATGCCG
1 TGTGCTAGGCCG
** *
59514380 TGTGCTAAACAG
1 TGTGCTAGGCCG
*
59514392 TGTGCTAGGCCC
1 TGTGCTAGGCCG
*
59514404 TGTGCTAGGCCA
1 TGTGCTAGGCCG
*
59514416 TGTGCTAGGTCG
1 TGTGCTAGGCCG
59514428 TGT
1 TGT
59514431 AACTACCTGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.14, C:0.22, G:0.33, T:0.30
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:59517070 original size:27 final size:28
Alignment explanation
Indices: 59517013--59517082 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
59517003 AAACTTGTAC
*
59517013 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
59517041 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
59517068 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59517083 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:59517093 original size:27 final size:27
Alignment explanation
Indices: 59517013--59517094 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
59517003 AAACTTGTAC
* * *
59517013 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
59517041 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
59517068 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
59517095 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:59525012 original size:24 final size:27
Alignment explanation
Indices: 59524950--59525016 Score: 86
Period size: 24 Copynumber: 2.6 Consensus size: 27
59524940 AAACTTGTAC
59524950 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAG-TTGATCATGT
*
59524978 AGCACTAAGTGTGCGAG-T-AT-ATTT
1 AGCACTAAGTGTGCGAGTTGATCATGT
*
59525002 ATCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59525017 GACTCACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 17 0.46
25 2 0.05
26 1 0.03
28 17 0.46
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATCATGT
Found at i:59527240 original size:41 final size:41
Alignment explanation
Indices: 59527140--59527326 Score: 224
Period size: 41 Copynumber: 4.7 Consensus size: 41
59527130 AATACTCGAT
*
59527140 ATCTCGCACACTAAGTG---TACATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
*
59527178 A-ATCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* * **
59527218 ATCTCACACACTAAGTGCCATATGTAGCCGAAGCTATCTTG
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* * *
59527259 ATCTAGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTC-A
* *
59527301 A--TCGCACATTAAGTGCCACATATAGC
1 ATCTCGCACACTAAGTGCCATATATAGC
59527327 TGATTTGTCG
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
37 14 0.11
38 1 0.01
40 43 0.34
41 68 0.54
42 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
Found at i:59529746 original size:40 final size:40
Alignment explanation
Indices: 59529563--59529746 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
59529553 CTACTCGTTC
* * * *
59529563 AAACGCCTTCAGGACATAGCCCGGTTATAGCAACTCGCAT
1 AAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAT
* * *
59529603 AAACGCCTTCGGGATTTAACCCGGATTTAGTAACTCGCAT
1 AAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAT
* * * * *
59529643 AAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGTAT
1 AAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAT
* * * * * *
59529683 -AATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 AAACGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCAT
59529723 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAACGCCTTCGGGACTTAGCCCGGA
59529747 CATCATTTGA
Statistics
Matches: 118, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
38 3 0.03
39 23 0.19
40 87 0.74
41 5 0.04
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
AAACGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAT
Found at i:59532497 original size:40 final size:40
Alignment explanation
Indices: 59532438--59532579 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
59532428 AAATTGAATG
* * *
59532438 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
59532478 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
59532518 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
59532558 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
59532580 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:59532580 original size:40 final size:39
Alignment explanation
Indices: 59532477--59532605 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
59532467 TGCTGGAAAT
* * *
59532477 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
59532517 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
59532557 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
59532597 TATATCCGG
1 TATATCCGG
59532606 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:59540906 original size:40 final size:40
Alignment explanation
Indices: 59540831--59541015 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
59540821 CTACTCGTTC
* * *
59540831 AAACGCCTTCGGGACATAGCCTGG-TTATAGCAACTCGCAT
1 AAACGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAT
*
59540871 AAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAT
1 AAACGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAT
* *
59540911 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAT
1 AAACGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAT
* * * * * * *
59540951 AAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 AAACGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAT
59540992 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAACGCCTTCGGGACTTAGCCCGGA
59541016 CATCATTTGA
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 12 0.09
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AAACGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAT
Found at i:59543796 original size:49 final size:49
Alignment explanation
Indices: 59543742--59543966 Score: 306
Period size: 49 Copynumber: 4.5 Consensus size: 49
59543732 CTGGTACGCA
* *
59543742 TAGTAGCCTGCACATAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
59543791 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATGATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
59543840 CAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
59543890 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
59543941 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59543967 TACGACCTCA
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 78 0.50
50 42 0.27
51 35 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:59543918 original size:99 final size:100
Alignment explanation
Indices: 59543734--59543966 Score: 308
Period size: 99 Copynumber: 2.3 Consensus size: 100
59543724 AAAGCTATCT
* * * * ** *
59543734 GGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACACACAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACGTAGTAGCC
59543799 TGCACTTAGTACTACACACGTGA-C-CAATGATCC
66 TGCACTTAGTACTACACACGTGATCACAATGATCC
* *
59543832 GGTACACGCAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGC
1 GGTACACACAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACGTAGTAGC
* ** *
59543897 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
65 CTGCACTTAGTACTACACACGTGATCACAATGATCC
* *
59543933 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 GGTACACACAGTAGCCTGCACTTAGTACTACACA
59543967 TACGACCTCA
Statistics
Matches: 116, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 36 0.31
99 43 0.37
100 1 0.01
101 36 0.31
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (100 bp):
GGTACACACAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAATGATCC
Found at i:59548786 original size:29 final size:29
Alignment explanation
Indices: 59548747--59548826 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
59548737 CTTAATAATC
*
59548747 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
59548777 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
59548806 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
59548827 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:59551591 original size:55 final size:55
Alignment explanation
Indices: 59551507--59551615 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
59551497 CTATGGCTTC
* * *
59551507 TTCTTCTTTGTATTTTCGGCTAGTGATGAAGATGATAGTATAAAAATTGTATTTG
1 TTCTTCTTTGTATTTTCAGCTAGTGATGAAGATGATAGCATAAAAATTATATTTG
59551562 TTCTTCTTTGTATTTTCAGCTAGTGATGAAGATGATAGCATAAAAATTATATTT
1 TTCTTCTTTGTATTTTCAGCTAGTGATGAAGATGATAGCATAAAAATTATATTT
59551616 TTTTATTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.45
Consensus pattern (55 bp):
TTCTTCTTTGTATTTTCAGCTAGTGATGAAGATGATAGCATAAAAATTATATTTG
Found at i:59554483 original size:101 final size:100
Alignment explanation
Indices: 59554352--59554540 Score: 279
Period size: 101 Copynumber: 1.9 Consensus size: 100
59554342 TGGTTTTAGG
*
59554352 TCACGTGTGTAATACAAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGTATGTGTAGCAC
1 TCACGTGTGTAATACAAAGTGCAGGCTACTACGTGTACCAGATAGTT-GGTCGCATGTGTAGCAC
*
59554417 AAAGTGCAGGCTATTATGCGTACCTGACAGTTTCAA
65 AAAGTGCAGGCTACTATGCGTACCTGACAGTTTCAA
* * ** * * *
59554453 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAATACAAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCGCATGTGTAGCACA
*
59554518 AAGTGCAGGCTACTATGTGTACC
66 AAGTGCAGGCTACTATGCGTACC
59554541 AGATAGCTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 36 0.46
101 42 0.54
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAATACAAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCGCATGTGTAGCACA
AAGTGCAGGCTACTATGCGTACCTGACAGTTTCAA
Found at i:59554518 original size:49 final size:49
Alignment explanation
Indices: 59554357--59554539 Score: 161
Period size: 49 Copynumber: 3.7 Consensus size: 49
59554347 TTAGGTCACG
* ** * *
59554357 TGTGTAATACAAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGTA
1 TGTGTAGTACAAAGTGCAGGCTACTACGTGTACTGGATTGTT-GGTCGCA
* * * * * *** * *
59554407 TGTGTAGCACAAAGTGCAGGCTATTATGCGTACCTGACAGTT-TCAATCACG
1 TGTGTAGTACAAAGTGCAGGCTACTACGTGTA-CTG-GA-TTGTTGGTCGCA
*
59554458 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATTGTTGGTCGCA
1 TGTGTAGTACAAAGTGCAGGCTACTACGTGTACTGGATTGTTGGTCGCA
* *
59554507 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
1 TGTGTAGTACAAAGTGCAGGCTACTACGTGTAC
59554540 CAGATAGCTT
Statistics
Matches: 102, Mismatches: 27, Indels: 9
0.74 0.20 0.07
Matches are distributed among these distances:
48 2 0.02
49 37 0.36
50 30 0.29
51 30 0.29
52 2 0.02
53 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACAAAGTGCAGGCTACTACGTGTACTGGATTGTTGGTCGCA
Found at i:59554764 original size:16 final size:15
Alignment explanation
Indices: 59554743--59554772 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59554733 AAATGTAGTA
59554743 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
59554759 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
59554773 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:59556714 original size:2 final size:2
Alignment explanation
Indices: 59556707--59556747 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
59556697 AATGAGCACG
59556707 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
59556748 GTCCGTATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:59559647 original size:49 final size:49
Alignment explanation
Indices: 59559518--59559647 Score: 125
Period size: 49 Copynumber: 2.7 Consensus size: 49
59559508 CTTGTTGTGT
* * * * * *
59559518 GTCAGTATAAGATCTGTCTGGGATATGGCATTGACATCGATAAATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAAACGAAA
* * * * * * *
59559567 GCCAGTGTAAAACCTATCTTGGACATGGCATCGACCTTGATATACGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAAACGAAA
* *
59559616 GTCAGTGTAAGACCTGTCTGGGAGACGGCATC
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATC
59559648 AACTTTAATG
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAAACGAAA
Found at i:59566451 original size:41 final size:41
Alignment explanation
Indices: 59566269--59566453 Score: 207
Period size: 41 Copynumber: 4.6 Consensus size: 41
59566259 CGATTCTTAA
* * * *
59566269 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTC--TGATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
59566308 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
59566349 CACTGGCTCAAAAGCCCTTCAAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* * *
59566390 CACTGGCTCAAAAACCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
59566431 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
59566454 CCCAAGCTCA
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
40 43 0.36
41 74 0.61
43 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:59570330 original size:28 final size:28
Alignment explanation
Indices: 59570298--59570391 Score: 134
Period size: 28 Copynumber: 3.4 Consensus size: 28
59570288 GTACTCAGTA
59570298 TACGAAATATTGAGAATGGCACTTAGTG
1 TACGAAATATTGAGAATGGCACTTAGTG
59570326 TACGAAATATTGAGAATGGCACTTAGTG
1 TACGAAATATTGAGAATGGCACTTAGTG
* * * *
59570354 TGCGAGATATTGAGAATGACACTTCGTG
1 TACGAAATATTGAGAATGGCACTTAGTG
* *
59570382 TGCAAAATAT
1 TACGAAATAT
59570392 CGAATGATTC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (28 bp):
TACGAAATATTGAGAATGGCACTTAGTG
Found at i:59570604 original size:43 final size:43
Alignment explanation
Indices: 59570503--59570631 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 43
59570493 TTTATAATGG
* * * *
59570503 TGATATTCGGGCTTTGAGCCTAGCAAGCTTTAA-GCTGGTGAATAA
1 TGATA-TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTG-A-AA
*
59570548 T-ATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
59570591 TGATATCGGGCTTCAAGCCTAGCAGG-TAAAATACCGGTGAA
1 TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
59570632 TGAGTTCAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 13 0.18
43 24 0.33
44 26 0.36
45 9 0.12
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
TGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:59574414 original size:12 final size:12
Alignment explanation
Indices: 59574397--59574423 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59574387 CACACATGCT
59574397 CGTGTGCTAGGC
1 CGTGTGCTAGGC
59574409 CGTGTGCTAGGC
1 CGTGTGCTAGGC
59574421 CGT
1 CGT
59574424 ACCAAACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.26, G:0.41, T:0.26
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:59575497 original size:41 final size:41
Alignment explanation
Indices: 59575436--59575585 Score: 196
Period size: 41 Copynumber: 3.7 Consensus size: 41
59575426 AATACTCGAT
* *
59575436 ATCTTGCACACTATGTGCCATATATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* * **
59575477 ATCTCACACACTAAGTGCCATATGTAGCCGAAGCTATCTTG
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* *
59575518 ATCTCGCACACTAAGTGCCATATATAGCCGAAGTTATGTCGA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTC-A
*
59575560 A--TCGCACACTAAGTGCCACATATAGC
1 ATCTCGCACACTAAGTGCCATATATAGC
59575586 TGATTTGTCG
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
40 24 0.25
41 70 0.74
42 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
Found at i:59581403 original size:71 final size:71
Alignment explanation
Indices: 59581317--59581480 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59581307 CGATTTGTCT
59581317 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59581382 CTTTCA
66 CTTTCA
59581388 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59581453 CTTTCA
66 CTTTCA
59581459 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
59581481 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:59581518 original size:71 final size:70
Alignment explanation
Indices: 59581317--59581514 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
59581307 CGATTTGTCT
* * *
59581317 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
59581382 CTTTCA
65 CTTTCA
* * *
59581388 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
59581453 CTTTCA
65 CTTTCA
* *
59581459 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
59581515 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:59588973 original size:71 final size:71
Alignment explanation
Indices: 59588887--59589050 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59588877 CGATTTGTCT
59588887 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59588952 CTTTCA
66 CTTTCA
59588958 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59589023 CTTTCA
66 CTTTCA
59589029 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
59589051 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:59589088 original size:71 final size:70
Alignment explanation
Indices: 59588887--59589084 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
59588877 CGATTTGTCT
* * *
59588887 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
59588952 CTTTCA
65 CTTTCA
* * *
59588958 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
59589023 CTTTCA
65 CTTTCA
* *
59589029 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
59589085 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:59595462 original size:53 final size:54
Alignment explanation
Indices: 59595268--59595473 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
59595258 ATTAGGGTTT
* * *
59595268 AAGGATACCAAGTAAGACCATGCCAAGGCAT-GAAATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAA-TGGTAAGTTCTATAAGGC
* * * * * * * * *
59595322 AAGAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATGGT-AAGTTCTATAAGGC
* * * *
59595377 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCTATAAGGC
* * *
59595430 AAGGATACCACGTAATACCATGTCAAGACATGGAAATGGTAAGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGT
59595474 ATATAAAGGA
Statistics
Matches: 120, Mismatches: 30, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
53 44 0.37
54 32 0.27
55 44 0.37
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCTATAAGGC
Found at i:59598542 original size:32 final size:32
Alignment explanation
Indices: 59598506--59598589 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
59598496 CAGTAGCGGC
* *
59598506 ATTATAATTGGCACAAAGCCATCTGCAACTGT
1 ATTATAATTGGCACAAAGCCATCAGCAACGGT
** *
59598538 ATTATGTTTGGCACATAGCCATCAGCAACGGT
1 ATTATAATTGGCACAAAGCCATCAGCAACGGT
* * *
59598570 AATATCATTGGCACACAGCC
1 ATTATAATTGGCACAAAGCC
59598590 TTGGGTAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (32 bp):
ATTATAATTGGCACAAAGCCATCAGCAACGGT
Found at i:59599056 original size:27 final size:27
Alignment explanation
Indices: 59599026--59599114 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
59599016 CAAAACAATC
* *
59599026 ATTTTATC-CTACAGGGGTATTTTGATA
1 ATTTTA-CACTACAAGGGTATTTCGATA
*
59599053 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
* * *
59599080 ATTTTACAAT-CTAGGGGTATTTCGGTA
1 ATTTTACACTAC-AAGGGTATTTCGATA
*
59599107 GTTTTACA
1 ATTTTACA
59599115 AATCGGGGTC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.96
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:59604720 original size:29 final size:29
Alignment explanation
Indices: 59604686--59604758 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
59604676 TACTCAATCA
* *
59604686 CGCACACTTAGTGCCACAT-GATTCAAGCC
1 CGCACACTTAGTGCCACATAG-TACAAACC
* * *
59604715 CGCACACATAGTGCCATATAGTACAAACT
1 CGCACACTTAGTGCCACATAGTACAAACC
59604744 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
59604759 GTACATTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 36 0.97
30 1 0.03
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCACATAGTACAAACC
Found at i:59604768 original size:29 final size:29
Alignment explanation
Indices: 59604715--59604788 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
59604705 GATTCAAGCC
* *
59604715 CGCACACATAGTGCCATATAGTACAAACT
1 CGCACACTTAGTGCCATACAGTACAAACT
* * *
59604744 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACAGTACAAACT
* *
59604773 CACACACTCAGTGCCA
1 CGCACACTTAGTGCCA
59604789 ATCTCGTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.20
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACAGTACAAACT
Found at i:59619100 original size:80 final size:80
Alignment explanation
Indices: 59618937--59619121 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
59618927 AATTGAATGA
* * * *
59618937 TATCCGGGCTAAGTCCCGA--AGATTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
59619000 TTGTGCTAGTGGCTAC
66 TTGTGCGAGT-GCTAC
*
59619016 -ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-A
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
59619079 TTCGTGCGAGT-CATTC
66 TT-GTGCGAGTGC-TAC
*
59619095 TATCCGGGCTAAGACCCGAAGG-CATTT
1 TATCCGGGCTAAGTCCCG-AGGACATTT
59619122 GTGCAAATCG
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 19 0.21
79 5 0.05
80 65 0.71
81 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTGCTAC
Found at i:59619138 original size:80 final size:79
Alignment explanation
Indices: 59618974--59619140 Score: 178
Period size: 80 Copynumber: 2.1 Consensus size: 79
59618964 GCTGGAAATT
* * *
59618974 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGTCCCGAGGACA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GCTACATCCGGGCTAAGACCCGAGGACA
* * *
59619039 TTTATGCTAGTAATT
65 TTTATGCAAATAATG
*
59619054 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGT-CATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGC-TAC-ATCCGGGCTAAGACCCG-AGG
* **
59619117 -CATTTGTGCAAATCGTG
62 ACATTTATGCAAATAATG
59619134 ATATCCG
1 ATATCCG
59619141 AGTTAAGTCC
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 5 0.07
80 64 0.88
81 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGCTACATCCGGGCTAAGACCCGAGGACAT
TTATGCAAATAATG
Found at i:59619140 original size:40 final size:39
Alignment explanation
Indices: 59618973--59619127 Score: 152
Period size: 40 Copynumber: 3.9 Consensus size: 39
59618963 TGCTGGAAAT
* * *
59618973 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGT--CA
* * * * *
59619013 TACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAA
1 TATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTCA
* *
59619052 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA
*
59619092 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
59619128 ATCGTGATAT
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 90 0.94
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCA
Found at i:59627203 original size:40 final size:40
Alignment explanation
Indices: 59627122--59627205 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
59627112 TATGCTAGTA
* * **
59627122 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATAT
* *
59627162 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATAT
59627202 CCGG
1 CCGG
59627206 TTAAGTCCCG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATAT
Found at i:59634414 original size:19 final size:19
Alignment explanation
Indices: 59634392--59634434 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
59634382 CTTTCTTTTC
59634392 CATT-CATTCCATACATTTG
1 CATTACATTCCA-ACATTTG
*
59634411 CATTACATTGCAACATTTG
1 CATTACATTCCAACATTTG
59634430 CATTA
1 CATTA
59634435 AACTTTCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (19 bp):
CATTACATTCCAACATTTG
Found at i:59639192 original size:80 final size:80
Alignment explanation
Indices: 59639027--59639213 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
59639017 AATTGAATGA
* ** * * *
59639027 TATCCGGGCTAAGTCCCGAAGATGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
59639092 TTGTGCTAGTGGCTAC
66 TTGTGCGAGT-GCTAC
*
59639108 -ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-A
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
59639171 TTCGTGCGAGT-CATTC
66 TT-GTGCGAGTGC-TAC
*
59639187 TATCCGGGCTAAGACCCGAAGG-CATTT
1 TATCCGGGCTAAGTCCCG-AGGACATTT
59639214 GTGCAAATCG
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 83 0.90
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTGCTAC
Found at i:59639232 original size:40 final size:40
Alignment explanation
Indices: 59639063--59639217 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
59639053 AATGCTGGAA
* * *
59639063 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
** * * * *
59639103 GCTACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTA
1 ATTATATCCGGGCTAAGACCCGAAGG-CATTTGTGCTAGTC
* *
59639143 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
*
59639183 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
59639218 AAATCGTGAT
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
39 3 0.03
40 89 0.94
41 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
Found at i:59647296 original size:80 final size:80
Alignment explanation
Indices: 59647131--59647317 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
59647121 AATTGAATGA
* ** * * *
59647131 TATCCGGGCTAAGTCCCGAAGATGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
59647196 TTGTGCTAGTGGCTAC
66 TTGTGCGAGT-GCTAC
*
59647212 -ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-A
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
59647275 TTCGTGCGAGT-CATTC
66 TT-GTGCGAGTGC-TAC
*
59647291 TATCCGGGCTAAGACCCGAAGG-CATTT
1 TATCCGGGCTAAGTCCCG-AGGACATTT
59647318 GTGCAAATCG
Statistics
Matches: 92, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 83 0.90
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTGCTAC
Found at i:59647336 original size:40 final size:40
Alignment explanation
Indices: 59647167--59647321 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
59647157 AATGCTGGAA
* * *
59647167 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
** * * * *
59647207 GCTACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTA
1 ATTATATCCGGGCTAAGACCCGAAGG-CATTTGTGCTAGTC
* *
59647247 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
*
59647287 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
59647322 AAATCGTGAT
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
39 3 0.03
40 89 0.94
41 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
Found at i:59649117 original size:14 final size:14
Alignment explanation
Indices: 59649098--59649131 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
59649088 AGAGAGCCCT
*
59649098 AAAAAAAC-ACACA
1 AAAAAAACAAAACA
59649111 AAAAAAACAAAACA
1 AAAAAAACAAAACA
59649125 AAAAAAA
1 AAAAAAA
59649132 ATTCTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAACA
Found at i:59650371 original size:65 final size:60
Alignment explanation
Indices: 59650261--59650385 Score: 187
Period size: 61 Copynumber: 2.0 Consensus size: 60
59650251 TCTACAATAA
59650261 CACATCTAGTTAGGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACATAAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACAT-AAGCAT
* *
59650322 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTC-AT-A-A-CATCCTAATTATTTGACATAAGCAT
59650386 GGATACATGA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 30 0.52
62 2 0.03
63 1 0.02
64 7 0.12
65 18 0.31
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (60 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACATAAGCAT
Found at i:59650894 original size:205 final size:205
Alignment explanation
Indices: 59650536--59651018 Score: 777
Period size: 205 Copynumber: 2.4 Consensus size: 205
59650526 CGGAGGGTAG
*
59650536 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTTGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
* *
59650601 TCTTTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTACATTTCGACGGAAGGCAGACACATA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTACACTTCGACGGAAGGCAGACACATA
* *
59650666 GCAGATCCAACCTTCAGATGTTTATACTGAAATAGATCCAAGATGGTTTGGCATCCTTGTGCTTA
131 GCAGATCCAACCTTCAAATGTTTATACTGAAACAGATCCAAGATGGTTTGGCATCCTTGTGCTTA
59650731 CAAGGAGCAA
196 CAAGGAGCAA
* * * *
59650741 ATCGAAGACATAGCTAATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAAATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
* * * * * *
59650806 TCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCGATGGAGGGTAGACACATA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTACACTTCGACGGAAGGCAGACACATA
*
59650871 GCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTA
131 GCAGATCCAACCTTCAAATGTTTATACTGAAACAGATCCAAGATGGTTTGGCATCCTTGTGCTTA
59650936 CAAGGAGCAA
196 CAAGGAGCAA
* * * * *
59650946 ATCAAAGACATAGCTGATTTGGCTTTCATGTGTTTACGTTGAAGCAAATCCAAGATAATTTGGCC
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
59651011 TCTCTGTA
66 TCTCTGTA
59651019 GCGGCGGAGA
Statistics
Matches: 253, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
205 253 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (205 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTACACTTCGACGGAAGGCAGACACATA
GCAGATCCAACCTTCAAATGTTTATACTGAAACAGATCCAAGATGGTTTGGCATCCTTGTGCTTA
CAAGGAGCAA
Found at i:59651078 original size:44 final size:44
Alignment explanation
Indices: 59651030--59652987 Score: 1508
Period size: 44 Copynumber: 44.5 Consensus size: 44
59651020 CGGCGGAGAG
* * *
59651030 CAGATCGAAGGTTGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
59651074 CAGATCGAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
*** * *
59651118 GCAGATCGAAGATTTTAGCA--TGGCATCCCTGTACTTATAGAGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * **
59651162 TA-AGTTGAAAACAGTAGATTTGGCATCCCTGTGCTTGCAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * ** * * * * *
59651206 TAGATCAAAGATAATAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
** * *
59651250 GCAGATCGAAGATTTCAGCA--TGGCATCCTTGTACTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
59651294 CA-AGTTGAAAACAGCAGATTTGGCATCCCCGAGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
59651338 CAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* **
59651382 GTAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
59651426 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * *
59651470 CA-AGTTGAAAACAGTAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
59651514 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* ** *
59651558 GTAGATCGAAGATTTCAGCA--TGACATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * * *
59651602 CA-AGTTGAAAACAGCAGATTTGGCATCCCCGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
59651646 CAGATCGAAGATAGCAGATCTGACA-CTCCTATGCTTA-CGATGAA
1 CAGATCGAAGATAGCAGATTTGGCATC-CCTGTGCTTATAG-GGAA
* ** *
59651690 GTAGATCGAAGATTTCAGCA--TGGCATCCCTGTACTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
*
59651734 CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
59651778 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* ** *
59651822 GTAGATCGAAGATTTCAGCA--TGCCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
59651866 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
59651910 CAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
**
59651954 GCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
*
59651998 CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
59652042 CAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
**
59652086 GCAGATCGAAGATTTCAGCA--TGGCATCCC-GTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * * *
59652129 CA-AGTTGAAGATCGCAGATTTCGCATCCCTGTGTTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * *
59652173 CAGATCGAAGGTAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
** *
59652217 GCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTTTAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
59652261 CA-AGTTGAAGATCGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * * * *
59652305 CAGATCGAAGATAACATATATGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
**
59652349 GCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* *
59652393 CA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
59652437 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * ** * *
59652481 GCAGGTCGAAAATTTCAGCA--TGGCATCCTTATGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
59652525 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * **
59652569 CAGATCG-AGATAGCAGATCTGACATTCCTGTGCTTACAATGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
** *
59652612 GCAGATCGAAGATTTCAGCA--TGGCATCCTTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
59652656 CA-AGTTGAAAATAGCAGATTTGGCATCCCTATGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
59652700 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
*** *
59652744 GCAGATCGAAGATTTTAGCA--TGGCATCCCTGTGTTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
59652788 CA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCATATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * * * *
59652832 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
** *
59652876 GCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAA
1 -CAGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAA
* * *
59652920 CA-AGTTGAAAATAGTAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
* * *
59652964 CAGCTCGAAGATAACGGATTTGGC
1 CAGATCGAAGATAGCAGATTTGGC
59652988 GTCTCTGTAT
Statistics
Matches: 1498, Mismatches: 326, Indels: 180
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.00
42 37 0.02
43 183 0.12
44 1059 0.71
45 203 0.14
46 14 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
CAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
Found at i:59651545 original size:132 final size:132
Alignment explanation
Indices: 59651446--59652976 Score: 2645
Period size: 132 Copynumber: 11.6 Consensus size: 132
59651436 ACAGCAGATT
* *
59651446 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59651511 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
59651576 CA
131 CA
* * *
59651578 TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCCGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * *
59651643 GAACAGATCGAAGATAGCAGATCTGACACTCCTATGCTTAC-GATGAAGTAGATCGAAGATTTCA
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG-TGAAGCAGATCGAAGATTTCA
59651707 GCA
130 GCA
* *
59651710 TGGCATCCCTGTACTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59651775 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
59651840 CA
131 CA
* *
59651842 TGCCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59651907 GAACAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
59651972 CA
131 CA
*
59651974 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59652039 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
59652104 CA
131 CA
* * * *
59652106 TGGCATCCC-GTGCTTATAGGGAACAAGTTGAAGATCGCAGATTTCGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59652170 GAACAGATCGAAGGTAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
59652235 CA
131 CA
* * * *
59652237 TGGCATCCCTGTGCTTTTAGGGAACAAGTTGAAGATCGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* * *
59652302 GAACAGATCGAAGATAACATATATGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
59652367 CA
131 CA
59652369 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
* *
59652434 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGGTCGAAAATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
59652499 CA
131 CA
* * *
59652501 TGGCATCCTTATGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59652566 GAACAGATCG-AGATAGCAGATCTGACATTCCTGTGCTTACAATGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
59652630 CA
131 CA
* *
59652632 TGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTATGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59652697 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTTAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
59652762 CA
131 CA
* *
59652764 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCATATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
59652829 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
59652894 CA
131 CA
* *
59652896 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGTAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59652961 GAACAGCTCGAAGATA
66 GAACAGATCGAAGATA
59652977 ACGGATTTGG
Statistics
Matches: 1333, Mismatches: 62, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
131 252 0.19
132 1080 0.81
133 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGG
GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
CA
Found at i:59652292 original size:527 final size:526
Alignment explanation
Indices: 59651446--59652976 Score: 2627
Period size: 527 Copynumber: 2.9 Consensus size: 526
59651436 ACAGCAGATT
*
59651446 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59651511 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
* * *
59651576 CATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCCGTGCTTATA
131 CATGGCATCCC-GTGCTTATAGGGAACAAGTTGAAATC-GCAGATTTGGCATCCCTGTGCTTATA
* * *
59651641 GGGAACAGATCGAAGATAGCAGATCTGACACTCCTATGCTTAC-GATGAAGTAGATCGAAGATTT
194 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG-TGAAGCAGATCGAAGATTT
* *
59651705 CAGCATGGCATCCCTGTACTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTT
258 CAGCATGGCATCCCTGTGCTTTTAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTT
*
59651770 ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGAT
323 ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
* *
59651835 TTCAGCATGCCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGC
388 TTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGC
*
59651900 TTATAGGGAACAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAG
453 TTATAGGGAACAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAA
59651965 ATTTCAGCA
518 ATTTCAGCA
* *
59651974 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59652039 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
* *
59652104 CATGGCATCCCGTGCTTATAGGGAACAAGTTGAAGATCGCAGATTTCGCATCCCTGTGTTTATAG
131 CATGGCATCCCGTGCTTATAGGGAACAAGTTGAA-ATCGCAGATTTGGCATCCCTGTGCTTATAG
*
59652169 GGAACAGATCGAAGGTAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCA
195 GGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCA
* *
59652234 GCATGGCATCCCTGTGCTTTTAGGGAACAAGTTGAAGATCGCAGATTTGGCATCCCTGTGTTTAT
260 GCATGGCATCCCTGTGCTTTTAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTAT
* * *
59652299 AGGGAACAGATCGAAGATAACATATATGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTT
325 AGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTT
59652364 CAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTT
390 CAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTT
* *
59652429 ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGGTCGAAAAT
455 ATAGGGAACAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAAAT
59652494 TTCAGCA
520 TTCAGCA
* *
59652501 TGGCATCCTTATGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59652566 GAACAGATCG-AGATAGCAGATCTGACATTCCTGTGCTTACAATGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
* * *
59652630 CATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTATGCTTATA
131 CATGGCATCC-CGTGCTTATAGGGAACAAGTTG-AAATCGCAGATTTGGCATCCCTGTGCTTATA
*
59652695 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTT
194 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTC
* *
59652760 AGCATGGCATCCCTGTG-TTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCAT
259 AGCATGGCATCCCTGTGCTTT-TAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTT
59652824 ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
323 ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
* *
59652889 TTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGTAGATTTGGCATCCCTGTGC
388 TTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGC
*
59652954 TTATAGGGAACAGCTCGAAGATA
453 TTATAGGGAACAGATCGAAGATA
59652977 ACGGATTTGG
Statistics
Matches: 948, Mismatches: 50, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
526 65 0.07
527 743 0.78
528 140 0.15
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (526 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
CATGGCATCCCGTGCTTATAGGGAACAAGTTGAAATCGCAGATTTGGCATCCCTGTGCTTATAGG
GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
CATGGCATCCCTGTGCTTTTAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATA
GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTC
AGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTA
TAGGGAACAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAAATT
TCAGCA
Found at i:59652331 original size:395 final size:396
Alignment explanation
Indices: 59651446--59652976 Score: 2647
Period size: 395 Copynumber: 3.9 Consensus size: 396
59651436 ACAGCAGATT
*
59651446 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGTAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59651511 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
* * *
59651576 CATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCCGTGCTTATA
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATA
* * *
59651641 GGGAACAGATCGAAGATAGCAGATCTGACACTCCTATGCTTAC-GATGAAGTAGATCGAAGATTT
196 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG-TGAAGCAGATCGAAGATTT
*
59651705 CAGCATGGCATCCCTGTACTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTT
260 CAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTT
*
59651770 ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGAT
325 ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
59651835 TTCAGCA
390 TTCAGCA
*
59651842 TGCCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59651907 GAACAGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
*
59651972 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATA
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATA
*
59652037 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAAGCAGATCGAAGATTTC
196 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTC
* * *
59652102 AGCATGGCATCCC-GTGCTTATAGGGAACAAGTTGAAGATCGCAGATTTCGCATCCCTGTGTTTA
261 AGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTA
*
59652166 TAGGGAACAGATCGAAGGTAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATT
326 TAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATT
59652231 TCAGCA
391 TCAGCA
* * *
59652237 TGGCATCCCTGTGCTTTTAGGGAACAAGTTGAAGATC-GCAGATTTGGCATCCCTGTGTTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAA-AACAGCAGATTTGGCATCCCTGTGCTTATAG
* * *
59652301 GGAACAGATCGAAGATAACATATATGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCA
65 GGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCA
59652366 GCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTAT
130 GCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTAT
* *
59652431 AGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGGTCGAAAATTT
195 AGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTT
* * * *
59652496 CAGCATGGCATCCTTATGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTT
260 CAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTT
*
59652561 ATAGGGAACAGATCG-AGATAGCAGATCTGACATTCCTGTGCTTACAATGAAGCAGATCGAAGAT
325 ATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
59652625 TTCAGCA
390 TTCAGCA
* * *
59652632 TGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTATGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
*
59652697 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTTAG
66 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
* *
59652762 CATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCATATA
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATA
59652827 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTC
196 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTC
* * *
59652892 AGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGTAGATTTGGCATCCCTGTGCTTA
261 AGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTA
*
59652957 TAGGGAACAGCTCGAAGATA
326 TAGGGAACAGATCGAAGATA
59652977 ACGGATTTGG
Statistics
Matches: 1072, Mismatches: 58, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
394 1 0.00
395 745 0.69
396 325 0.30
397 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (396 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATA
GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTC
AGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTA
TAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATT
TCAGCA
Found at i:59653284 original size:15 final size:16
Alignment explanation
Indices: 59653258--59653287 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59653248 TTTGCCCGGG
59653258 CTAAAAAGCCCAACAT
1 CTAAAAAGCCCAACAT
59653274 CTAAAAA-CCCAACA
1 CTAAAAAGCCCAACA
59653288 GCCCAACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.10
Consensus pattern (16 bp):
CTAAAAAGCCCAACAT
Found at i:59653388 original size:13 final size:13
Alignment explanation
Indices: 59653370--59653405 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
59653360 TCTTCACTCC
59653370 AACCACCCCACTA
1 AACCACCCCACTA
*
59653383 AACCACTCCACTA
1 AACCACCCCACTA
*
59653396 AACCATCCCA
1 AACCACCCCA
59653406 ACCACTCCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.50, G:0.00, T:0.11
Consensus pattern (13 bp):
AACCACCCCACTA
Done.