Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 103 of 253
Found at i:32007853 original size:22 final size:22
Alignment explanation
Indices: 32007823--32007866 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32007813 TTTGGTGTTT
32007823 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
32007845 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
32007867 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:32009747 original size:10 final size:10
Alignment explanation
Indices: 32009731--32009788 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
32009721 CAACTCCGAC
32009731 CAGCTCAATT
1 CAGCTCAATT
* *
32009741 GAGCTCATTT
1 CAGCTCAATT
32009751 CAGCTCAA-T
1 CAGCTCAATT
32009760 CGAGCTCAATT
1 C-AGCTCAATT
*
32009771 TAGCTACAATT
1 CAGCT-CAATT
32009782 CAGCTCA
1 CAGCTCA
32009789 TTTATTCTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:32009754 original size:20 final size:20
Alignment explanation
Indices: 32009731--32009791 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32009721 CAACTCCGAC
32009731 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
32009751 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
32009772 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
32009792 ATTCTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:32014872 original size:15 final size:14
Alignment explanation
Indices: 32014837--32014890 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
32014827 CTATTGATCA
32014837 AGAAAAAGAAAAAG
1 AGAAAAAGAAAAAG
*
32014851 AGAAAAACAAAAAG
1 AGAAAAAGAAAAAG
*
32014865 AGTGAAAAGAAAAAG
1 AG-AAAAAGAAAAAG
*
32014880 AAAGAAAAGAA
1 AGA-AAAAGAA
32014891 TGAGGAGAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 15 0.45
15 18 0.55
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (14 bp):
AGAAAAAGAAAAAG
Found at i:32017266 original size:23 final size:22
Alignment explanation
Indices: 32017215--32017266 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
32017205 CCTCGTCTTT
*
32017215 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
32017237 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
32017260 TTCTTTT
1 TTCTTTT
32017267 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:32017275 original size:12 final size:12
Alignment explanation
Indices: 32017224--32017279 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
32017214 TTTCTTTTGT
32017224 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
32017237 -TCATTTTC-TC
1 TTCTTTTTCAAC
32017247 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
32017260 TTCTTTTTCAAT
1 TTCTTTTTCAAC
32017272 TTCTTTTT
1 TTCTTTTT
32017280 GTTTCACATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.11
12 23 0.66
13 7 0.20
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:32022451 original size:20 final size:20
Alignment explanation
Indices: 32022405--32022451 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
32022395 AGCTCGTTTC
*
32022405 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
32022425 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
32022445 CAGCTCA
1 CAGCTCA
32022452 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:32054857 original size:22 final size:20
Alignment explanation
Indices: 32054825--32054873 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
32054815 GCCGAATTTA
32054825 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
32054848 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
32054868 TGAACA
1 TGAACA
32054874 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:32058156 original size:6 final size:6
Alignment explanation
Indices: 32058126--32058225 Score: 71
Period size: 6 Copynumber: 16.3 Consensus size: 6
32058116 AAGAAACATT
* * *
32058126 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
32058175 ATTAGA ATTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
32058224 AT
1 AT
32058226 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
5 3 0.04
6 63 0.85
7 6 0.08
8 2 0.03
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:32058188 original size:37 final size:37
Alignment explanation
Indices: 32058135--32058225 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
32058125 TATCAGAACT
* *
32058135 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
32058172 AGAATTAGAATTAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
32058209 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
32058226 GTGAATGCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:32058397 original size:28 final size:26
Alignment explanation
Indices: 32058341--32058422 Score: 76
Period size: 28 Copynumber: 3.0 Consensus size: 26
32058331 AGCATGGCTG
*
32058341 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
32058367 CCAGATACAGATATTTGTTG-CATAGCCA
1 CCAGA-ACAGATA-TTG-TGACAGAGCCA
* * *
32058395 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGACAGAGCCA
32058422 C
1 C
32058423 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 7 0.15
27 17 0.36
28 20 0.43
29 3 0.06
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:32058609 original size:22 final size:22
Alignment explanation
Indices: 32058581--32058645 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
32058571 GCAAGTACGT
*
32058581 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
32058603 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
32058625 TTTGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
32058646 AATAATTGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:32059219 original size:26 final size:27
Alignment explanation
Indices: 32059160--32059298 Score: 131
Period size: 27 Copynumber: 5.2 Consensus size: 27
32059150 GGGCAAAATG
* * * *
32059160 GTAATTTTACCC-CCAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
32059186 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
32059213 GT-TTTCTACCTTACAAGTGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
32059238 GATAATTCTACCTTATAGGGGTATTTTA
1 G-TAATTCTACCCTACAAGGGTATTTCA
*
32059266 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
32059293 ATAATT
1 GTAATT
32059299 TTGTAAATCG
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.01
26 32 0.34
27 59 0.63
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:32059249 original size:53 final size:54
Alignment explanation
Indices: 32059160--32059298 Score: 147
Period size: 53 Copynumber: 2.6 Consensus size: 54
32059150 GGGCAAAATG
* * * *
32059160 GTAATTTTACCC-CCAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* * * * * * *
32059213 GT-TTTCTACCTTACAAGTGTATTTCGATAATTCTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* *
32059266 GTAATTCTACCCTACAGGGGTATTTCAATAATT
1 GTAATTCTACCCTACAAGGGTATTTCGATAATT
32059299 TTGTAAATCG
Statistics
Matches: 68, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
52 6 0.09
53 37 0.54
54 25 0.37
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
Found at i:32064350 original size:35 final size:35
Alignment explanation
Indices: 32064295--32064453 Score: 174
Period size: 35 Copynumber: 4.5 Consensus size: 35
32064285 GTATGTACAT
* *
32064295 ATGTGATGACATGTTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
32064330 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
32064365 ATGTGATGTTTTATTGAGCTTGTATATTTGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
32064400 ATATGATGATATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
32064435 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
32064454 CTTGAGTATT
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:32066337 original size:27 final size:26
Alignment explanation
Indices: 32066289--32066348 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
32066279 GCGAGGCTGC
*
32066289 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
32066316 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
32066342 CAGATAT
1 CAGATAT
32066349 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:32078303 original size:27 final size:26
Alignment explanation
Indices: 32078255--32078314 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
32078245 GCGAGGCTGC
*
32078255 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
32078282 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
32078308 CAGATAT
1 CAGATAT
32078315 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:32078359 original size:71 final size:67
Alignment explanation
Indices: 32078282--32078423 Score: 196
Period size: 67 Copynumber: 2.1 Consensus size: 67
32078272 TCACCAGATA
* * *
32078282 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAA-GCCACCAGATTGCAGCG
1 CAGATATTGTGACAAAGCCACCAGAAC--A-A-ATATATGTGGC-AAGGCCACCAGATTGCAGCG
32078346 AGGCTGC
61 AGGCTGC
*
32078353 CAGATATTGTGACAAAGTCACCAGAACAAATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACAAAGCCACCAGAACAAATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCT
32078418 GC
66 GC
32078420 CAGA
1 CAGA
32078424 ACGCTTCCGC
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
66 2 0.03
67 39 0.59
68 1 0.02
69 1 0.02
71 23 0.35
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACAAAGCCACCAGAACAAATATATGTGGCAAGGCCACCAGATTGCAGCGAGGCT
GC
Found at i:32080961 original size:17 final size:17
Alignment explanation
Indices: 32080935--32080968 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32080925 TATATAATTG
*
32080935 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
32080952 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
32080969 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:32082174 original size:24 final size:24
Alignment explanation
Indices: 32082147--32082282 Score: 150
Period size: 24 Copynumber: 5.7 Consensus size: 24
32082137 GAAATGATTT
32082147 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
32082171 TGGCACTATGTGTGTGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
32082195 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
32082219 TGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
32082243 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
32082268 -GGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
32082283 GGTTAACATG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 92 0.98
25 2 0.02
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:32082233 original size:72 final size:72
Alignment explanation
Indices: 32082147--32082283 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
32082137 GAAATGATTT
* * * ** *
32082147 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGTGAATTTGTATGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
32082212 ATTTGTA
66 ATTTGTA
* *
32082219 TGGCACTATGTGTGCGGATTGGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
32082284 GTTAACATGG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.35
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
ATTTGTA
Found at i:32082299 original size:72 final size:72
Alignment explanation
Indices: 32082147--32082300 Score: 191
Period size: 72 Copynumber: 2.1 Consensus size: 72
32082137 GAAATGATTT
* * * ** *
32082147 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGTGAATTTGTATGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
***
32082212 ATTTGTA
66 ATTAACA
* *
32082219 TGGCACTATGTGTGCGGATTGGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
*
32082284 GTTAACA
66 ATTAACA
*
32082291 TGGTACTATG
1 TGGCACTATG
32082301 GATATGAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTGGAATGGCAATATGTATGTGAATTACTAAGGCACTATGTGTGCGG
ATTAACA
Found at i:32091311 original size:11 final size:10
Alignment explanation
Indices: 32091286--32091346 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32091276 ACCAATAAAA
32091286 TAAA-TGAGC
1 TAAATTGAGC
*
32091295 TGAATTGTAGC
1 TAAATTG-AGC
32091306 TAAATTGAGC
1 TAAATTGAGC
**
32091316 TCGATTGAGC
1 TAAATTGAGC
32091326 TGAAA-TGAGC
1 T-AAATTGAGC
*
32091336 TCAATTGAGC
1 TAAATTGAGC
32091346 T
1 T
32091347 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32091347 original size:20 final size:20
Alignment explanation
Indices: 32091287--32091347 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32091277 CCAATAAAAT
*
32091287 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32091307 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32091328 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32091348 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32093439 original size:18 final size:18
Alignment explanation
Indices: 32093418--32093452 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
32093408 TTTTTCTTTT
32093418 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
32093436 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
32093453 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:32094367 original size:14 final size:13
Alignment explanation
Indices: 32094349--32094397 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
32094339 TTTTAACTTG
32094349 ATTTTTTTTGCTC
1 ATTTTTTTTGCTC
32094362 ACTTTTTTTT-CTC
1 A-TTTTTTTTGCTC
*
32094375 TTTTTTTTTTGCTC
1 -ATTTTTTTTGCTC
32094389 GATTTTTTT
1 -ATTTTTTT
32094398 CACTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.73
Consensus pattern (13 bp):
ATTTTTTTTGCTC
Found at i:32094380 original size:27 final size:27
Alignment explanation
Indices: 32094331--32094409 Score: 99
Period size: 26 Copynumber: 2.9 Consensus size: 27
32094321 GCAAGACTTT
*
32094331 TCACTTTTTTTTAACTTGATTTTTTTTGC
1 TCACTTTTTTTTCACTT--TTTTTTTTGC
*
32094360 TCACTTTTTTTTCTCTTTTTTTTTTGC
1 TCACTTTTTTTTCACTTTTTTTTTTGC
32094387 TCGA--TTTTTTTCACTTTTTTTTT
1 TC-ACTTTTTTTTCACTTTTTTTTT
32094410 GAATTTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 18 0.39
27 12 0.26
28 1 0.02
29 15 0.33
ACGTcount: A:0.09, C:0.15, G:0.05, T:0.71
Consensus pattern (27 bp):
TCACTTTTTTTTCACTTTTTTTTTTGC
Found at i:32094416 original size:12 final size:12
Alignment explanation
Indices: 32094391--32094427 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
32094381 TTTTGCTCGA
* *
32094391 TTTTTTTCACTT
1 TTTTTTTGAATT
32094403 TTTTTTTGAATT
1 TTTTTTTGAATT
32094415 TTTTTTTGAATT
1 TTTTTTTGAATT
32094427 T
1 T
32094428 CGATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:32095802 original size:11 final size:10
Alignment explanation
Indices: 32095777--32095837 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
32095767 ACCAATAAAA
32095777 TAAA-TGAGC
1 TAAATTGAGC
*
32095786 TGAATTGTAGC
1 TAAATTG-AGC
32095797 TAAATTGAGC
1 TAAATTGAGC
**
32095807 TCGATTGAGC
1 TAAATTGAGC
32095817 TGAAA-TGAGC
1 T-AAATTGAGC
*
32095827 TCAATTGAGC
1 TAAATTGAGC
32095837 T
1 T
32095838 GGTCGAAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:32095838 original size:20 final size:20
Alignment explanation
Indices: 32095778--32095838 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
32095768 CCAATAAAAT
*
32095778 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
32095798 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
32095819 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
32095839 GTCGAAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:32096929 original size:12 final size:12
Alignment explanation
Indices: 32096899--32096959 Score: 77
Period size: 12 Copynumber: 4.8 Consensus size: 12
32096889 AGACCGTATG
32096899 CAATTTTTTTTT
1 CAATTTTTTTTT
32096911 CAAAATTTTTTTTT
1 C--AATTTTTTTTT
32096925 CAATTTTTTTTCT
1 CAATTTTTTTT-T
*
32096938 CGATTTTTTTTT
1 CAATTTTTTTTT
*
32096950 CGATTTTTTT
1 CAATTTTTTT
32096960 GAATCTACAA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
12 22 0.49
13 11 0.24
14 12 0.27
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.70
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:32106651 original size:27 final size:26
Alignment explanation
Indices: 32106604--32106659 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
32106594 GCAGCAACTA
32106604 ATTAAATTTGTCTCTAAACTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
32106630 ATTAAATTGATGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
32106657 ATT
1 ATT
32106660 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:32111884 original size:30 final size:30
Alignment explanation
Indices: 32111801--32111895 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 30
32111791 AACTAAAATA
* ** *
32111801 AGCTAAGCTTTAGCTCGTGAGCAAAAGTTG
1 AGCTAAGATTTAGCTCGTGAGCTGAAGATG
* * * * * *
32111831 AGCTGAGATTAAACTCCTAAGCTGAAGCTG
1 AGCTAAGATTTAGCTCGTGAGCTGAAGATG
* *
32111861 AGCTAAGGTTTAGCTCGTGAGCTGAATATG
1 AGCTAAGATTTAGCTCGTGAGCTGAAGATG
32111891 AGCTA
1 AGCTA
32111896 GGAGTGAGCT
Statistics
Matches: 48, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (30 bp):
AGCTAAGATTTAGCTCGTGAGCTGAAGATG
Found at i:32112354 original size:12 final size:12
Alignment explanation
Indices: 32112337--32112404 Score: 75
Period size: 12 Copynumber: 5.6 Consensus size: 12
32112327 ATACAAGTAT
32112337 AAAAAAATTC-A
1 AAAAAAATTCAA
**
32112348 AAAAAAATTCGG
1 AAAAAAATTCAA
*
32112360 AAAAAAATTCGA
1 AAAAAAATTCAA
*
32112372 AAAAAAGTTCAA
1 AAAAAAATTCAA
32112384 AAAAAAAGTTTCAA
1 AAAAAAA--TTCAA
32112398 AAAAAAA
1 AAAAAAA
32112405 AGATTTGTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.20
12 27 0.55
14 12 0.24
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.16
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:32112388 original size:14 final size:14
Alignment explanation
Indices: 32112371--32112404 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
32112361 AAAAAATTCG
32112371 AAAAAAAG-TTCAA
1 AAAAAAAGTTTCAA
32112384 AAAAAAAGTTTCAA
1 AAAAAAAGTTTCAA
32112398 AAAAAAA
1 AAAAAAA
32112405 AGATTTGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.15
Consensus pattern (14 bp):
AAAAAAAGTTTCAA
Found at i:32113270 original size:5 final size:5
Alignment explanation
Indices: 32113260--32113316 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
32113250 AATAGAAAAC
*
32113260 AAAGA AAAGA AAAGAA AAAGA AAA-A GAAGAA AAAGAA AAAGA AATA-A
1 AAAGA AAAGA AAAG-A AAAGA AAAGA AAAG-A AAAG-A AAAGA AA-AGA
32113307 AAAGA AAAGA
1 AAAGA AAAGA
32113317 GAGGCAAGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.56
6 16 0.36
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:32113289 original size:25 final size:25
Alignment explanation
Indices: 32113264--32113312 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
32113254 GAAAACAAAG
32113264 AAAAGAAAAGAAAAAGAAAAAGAAGA
1 AAAAGAAAA-AAAAAGAAAAAGAAGA
* *
32113290 AAAAGAAAAAGAAATAAAAAGAA
1 AAAAGAAAAAAAAAGAAAAAGAA
32113313 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAAAAAAGAAAAAGAAGA
Found at i:32113291 original size:15 final size:15
Alignment explanation
Indices: 32113260--32113314 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
32113250 AATAGAAAAC
*
32113260 AAAGAAAAGAAAAGAA
1 AAAGAAAA-AGAAGAA
32113276 AAAGAAAAAGAAGAA
1 AAAGAAAAAGAAGAA
*
32113291 AAAGAAAAAGAAATAA
1 AAAGAAAAAG-AAGAA
32113307 AAAGAAAA
1 AAAGAAAA
32113315 GAGAGGCAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 16 0.44
16 20 0.56
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAGAAGAA
Found at i:32113314 original size:6 final size:6
Alignment explanation
Indices: 32113260--32113303 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
32113250 AATAGAAAAC
32113260 AAAG-A AAAG-A AAAGAA AAAGAA AAAG-- -AAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
32113303 A
1 A
32113304 TAAAAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.09
5 9 0.26
6 23 0.66
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:32113315 original size:21 final size:20
Alignment explanation
Indices: 32113264--32113316 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 20
32113254 GAAAACAAAG
32113264 AAAAGAAAAGAAAAAGAAAA
1 AAAAGAAAAGAAAAAGAAAA
*
32113284 AGAAGAAAAAGAAAAAGAAATA
1 AAAAG-AAAAGAAAAAGAAA-A
32113306 AAAAGAAAAGA
1 AAAAGAAAAGA
32113317 GAGGCAAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 4 0.14
21 20 0.69
22 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAGAAAAAGAAAA
Found at i:32113424 original size:24 final size:24
Alignment explanation
Indices: 32113397--32113459 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
32113387 AAAACAAAAA
*
32113397 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAAAGAGATT
* * *
32113421 GAAAAAGAGAATGAAAAAGAGTTT
1 GAAAAAGAAAAAGAAAAAGAGATT
* *
32113445 GAGAGAGAAAAAGAA
1 GAAAAAGAAAAAGAA
32113460 TGTGAACAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.63, C:0.00, G:0.25, T:0.11
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAAAGAGATT
Found at i:32113426 original size:13 final size:12
Alignment explanation
Indices: 32113397--32113441 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
32113387 AAAACAAAAA
* *
32113397 GAAAAAGAAAAA
1 GAAAAAGAGAAT
* *
32113409 GAAAATGAGATT
1 GAAAAAGAGAAT
32113421 GAAAAAGAGAAT
1 GAAAAAGAGAAT
32113433 GAAAAAGAG
1 GAAAAAGAG
32113442 TTTGAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (12 bp):
GAAAAAGAGAAT
Found at i:32115700 original size:20 final size:20
Alignment explanation
Indices: 32115654--32115700 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
32115644 AGCTCGTTTC
*
32115654 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
32115674 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
32115694 CAGCTCA
1 CAGCTCA
32115701 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:32120480 original size:17 final size:18
Alignment explanation
Indices: 32120458--32120498 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
32120448 CGTTTCTTTT
32120458 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
32120475 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
32120493 T-TTTTG
1 TCTTTTG
32120499 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:32120482 original size:24 final size:25
Alignment explanation
Indices: 32120429--32120482 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
32120419 AACAAATTCT
* *
32120429 TTTTTTCATTTTCATCACTCGTTTC
1 TTTTTTCATTTTAATCACTCGTCTC
32120454 -TTTTTC-TTTTGAATCACTC-TCTC
1 TTTTTTCATTTT-AATCACTCGTCTC
32120477 TTTTTT
1 TTTTTT
32120483 ATCACTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTCATTTTAATCACTCGTCTC
Found at i:32122749 original size:15 final size:15
Alignment explanation
Indices: 32122731--32122759 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32122721 CTAGACCGTA
32122731 TGCAATTTTTTTTTT
1 TGCAATTTTTTTTTT
32122746 TGCAATTTTTTTTT
1 TGCAATTTTTTTTT
32122760 AAAACTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
TGCAATTTTTTTTTT
Found at i:32122756 original size:13 final size:14
Alignment explanation
Indices: 32122738--32122784 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 14
32122728 GTATGCAATT
**
32122738 TTTTTTTTTGCAA-
1 TTTTTTTTTAAAAC
32122751 TTTTTTTTTAAAAC
1 TTTTTTTTTAAAAC
32122765 TTTTTTTTT--AAC
1 TTTTTTTTTAAAAC
32122777 TTTTTTTT
1 TTTTTTTT
32122785 AAGCTACGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
12 11 0.35
13 11 0.35
14 9 0.29
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTTTTTTTAAAAC
Found at i:32125884 original size:39 final size:40
Alignment explanation
Indices: 32125839--32126100 Score: 281
Period size: 39 Copynumber: 6.7 Consensus size: 40
32125829 AGCTCTCGTT
* *
32125839 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
32125879 C-AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
32125918 CAAATGCCTTCGGG-CTTAGCTCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
32125957 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* *
32125996 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
32126035 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
32126076 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32126101 CATCATTCAA
Statistics
Matches: 198, Mismatches: 16, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 142 0.72
40 42 0.21
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:32134561 original size:15 final size:17
Alignment explanation
Indices: 32134543--32134574 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
32134533 TACAGCTTAA
32134543 TTAATAT-GT-TTTATT
1 TTAATATAGTGTTTATT
32134558 TTAATATAGTGTTTATT
1 TTAATATAGTGTTTATT
32134575 GTCTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTAATATAGTGTTTATT
Found at i:32147290 original size:12 final size:12
Alignment explanation
Indices: 32147275--32147308 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
32147265 TCTTTTCGAA
*
32147275 AATTTTTTTTTG
1 AATTTTTTTTTC
32147287 AA-TTTTTTTTC
1 AATTTTTTTTTC
32147298 AATTTTTTTTT
1 AATTTTTTTTT
32147309 TACTTGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (12 bp):
AATTTTTTTTTC
Found at i:32149101 original size:30 final size:30
Alignment explanation
Indices: 32149067--32149162 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
32149057 TAAACTAAAA
32149067 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
32149097 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
32149127 TGAGCTAAG-TTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
32149156 TGAGCTA
1 TGAGCTA
32149163 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
29 18 0.36
30 29 0.58
31 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:32157174 original size:30 final size:30
Alignment explanation
Indices: 32157140--32157221 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
32157130 TAAACTAAAA
32157140 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
32157170 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
32157200 TGAGCTAAGGTTTAGCTCGTGA
1 TGAGCTAAGCTTTAGCTCGTGA
32157222 CTTGAAAGTG
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 33 0.87
31 3 0.08
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:32161011 original size:47 final size:47
Alignment explanation
Indices: 32160960--32161604 Score: 1105
Period size: 47 Copynumber: 13.7 Consensus size: 47
32160950 TTAGGATTCT
* * *
32160960 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
32161007 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
32161054 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
32161101 ATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
32161148 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
32161195 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
32161242 ATGTGATAAATGTGAAAGTATA-ATATGTGATAAGGCCTAATAGTCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
32161288 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
32161335 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
32161382 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
32161429 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
32161476 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
32161523 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
32161570 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
32161605 TCCCGAAGGG
Statistics
Matches: 571, Mismatches: 25, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 44 0.08
47 527 0.92
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:32161779 original size:37 final size:37
Alignment explanation
Indices: 32161723--32161801 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
32161713 CCGAGCTCTA
* * *
32161723 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
32161760 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
32161797 AAGAC
1 AAGAC
32161802 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:32164732 original size:30 final size:30
Alignment explanation
Indices: 32164698--32164793 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
32164688 TAAACTAAAA
32164698 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
32164728 TGAGCTGAGGC-TAAACTCCTAAGCT-GAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
32164757 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
32164787 TGAGCTA
1 TGAGCTA
32164794 GGAGTGAGCT
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
28 2 0.04
29 18 0.38
30 23 0.48
31 5 0.10
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:32165362 original size:16 final size:16
Alignment explanation
Indices: 32165341--32165408 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
32165331 TTTGGTTCGC
32165341 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
32165357 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
32165373 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32165389 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32165405 TGTA
1 TGTA
32165409 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:32165661 original size:16 final size:16
Alignment explanation
Indices: 32165624--32165665 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
32165614 TTAATCATAT
*
32165624 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
32165640 TT-AAATATATTATAA
1 TTAAAATATATTATAA
32165655 TTAAAATATAT
1 TTAAAATATAT
32165666 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:32165672 original size:14 final size:15
Alignment explanation
Indices: 32165633--32165674 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32165623 TTTAAACATA
*
32165633 ATTATTATTAAATAT
1 ATTATAATTAAATAT
32165648 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
32165662 A-TATAATTTAATA
1 ATTATAATTAAATA
32165675 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:32165869 original size:26 final size:28
Alignment explanation
Indices: 32165840--32165900 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
32165830 CATGAATTTG
*
32165840 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
32165866 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
32165894 TAAAATT
1 TATAATT
32165901 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:32183545 original size:14 final size:14
Alignment explanation
Indices: 32183523--32183570 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
32183513 ACCTAAATCG
* *
32183523 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
32183537 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
32183551 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
32183565 ACCATT
1 ACCATT
32183571 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:32184105 original size:71 final size:71
Alignment explanation
Indices: 32183965--32184106 Score: 225
Period size: 71 Copynumber: 2.0 Consensus size: 71
32183955 AGAAAAAAAT
* *
32183965 TTTACTTCGTGAAATTCAAGTATTATATTGTAATTATCATTTTAGTACTTTATTAAATATATATA
1 TTTACTTCGTGAAATTCAAGTATTATATTGTAATTATCATTTTAGTACTTTATAAAAAATATATA
32184030 TATAAA
66 TATAAA
*
32184036 TTTACTTCGTGAAATTCAAGTATTATATTGTAATTATCATTTTAGTA-GTTATAAAAAA-AGTAT
1 TTTACTTCGTGAAATTCAAGTATTATATTGTAATTATCATTTTAGTACTTTATAAAAAATA-TAT
32184099 ATTATAAA
65 A-TATAAA
32184107 AAAAATTTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
69 1 0.02
70 12 0.18
71 53 0.80
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.46
Consensus pattern (71 bp):
TTTACTTCGTGAAATTCAAGTATTATATTGTAATTATCATTTTAGTACTTTATAAAAAATATATA
TATAAA
Found at i:32184121 original size:12 final size:12
Alignment explanation
Indices: 32184104--32184146 Score: 63
Period size: 11 Copynumber: 3.8 Consensus size: 12
32184094 AGTATATTAT
32184104 AAAAAAAATTTG
1 AAAAAAAATTTG
32184116 -AAAAAAATTTG
1 AAAAAAAATTTG
*
32184127 AAAAAAAA-TTC
1 AAAAAAAATTTG
32184138 AAAAAAAAT
1 AAAAAAAAT
32184147 AGAGGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 21 0.75
12 7 0.25
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:32192522 original size:32 final size:32
Alignment explanation
Indices: 32192481--32192542 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
32192471 CATCTATTTT
32192481 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
32192513 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
32192543 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:32206742 original size:54 final size:53
Alignment explanation
Indices: 32206566--32206763 Score: 238
Period size: 54 Copynumber: 3.7 Consensus size: 53
32206556 AAATTGTACA
*
32206566 GCACTAAGTGTGCGA-TTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATG-T
** ** * *
32206619 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGC
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGT
**
32206672 GACACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 G-CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGT
* * *
32206727 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTG
32206764 CGGACTTAAT
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
53 17 0.14
54 97 0.79
55 9 0.07
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGT
Found at i:32206757 original size:27 final size:27
Alignment explanation
Indices: 32206565--32206763 Score: 208
Period size: 27 Copynumber: 7.4 Consensus size: 27
32206555 TAAATTGTAC
*
32206565 AGCACTAAGTGTGCGA-TTGGCTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
32206591 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* ** **
32206618 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
32206644 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGAGTTGACTATGT
*
32206671 CGACACTAAGTGTGCGAGTTGACTATGT
1 AG-CACTAAGTGTGCGAGTTGACTATGT
*
32206699 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
32206727 -GCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
32206753 AGCACTGAGTG
1 AGCACTAAGTG
32206764 CGGACTTAAT
Statistics
Matches: 149, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
26 26 0.17
27 113 0.76
28 10 0.07
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:32214718 original size:27 final size:27
Alignment explanation
Indices: 32214681--32214885 Score: 216
Period size: 27 Copynumber: 7.6 Consensus size: 27
32214671 TAAATTGTAC
*
32214681 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32214708 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
32214735 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
32214761 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
32214788 CGACACTAAGTGTGCGAGTTGACTATGT
1 AG-CACTAAGTGTGCGATTTGACTATGT
*
32214816 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
32214844 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32214871 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32214886 GACTTAATAT
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 126 0.83
28 25 0.16
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:32214742 original size:54 final size:54
Alignment explanation
Indices: 32214682--32214885 Score: 241
Period size: 54 Copynumber: 3.8 Consensus size: 54
32214672 AAATTGTACA
* * *
32214682 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTC
** ** *
32214736 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATG-C
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTC
** *
32214789 GACACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 G-CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTC
* * *
32214845 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
32214886 GACTTAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.02
54 79 0.62
55 45 0.35
56 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTC
Found at i:32221314 original size:14 final size:14
Alignment explanation
Indices: 32221280--32221327 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
32221270 GTACGAATGG
* *
32221280 AATGGTCGGAACGA
1 AATGGTAGGAACAA
*
32221294 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
32221308 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
32221322 ATTGGT
1 AATGGT
32221328 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:32227815 original size:11 final size:10
Alignment explanation
Indices: 32227799--32227847 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
32227789 TAAATCACTC
*
32227799 TTTTTTTCGA
1 TTTTTTTTGA
32227809 TTTTTTTT-A
1 TTTTTTTTGA
32227818 TTTTTTTTTGAA
1 -TTTTTTTTG-A
32227830 TTTTTTTTGA
1 TTTTTTTTGA
32227840 TTTTTTTT
1 TTTTTTTT
32227848 AACTTGTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
9 1 0.03
10 24 0.69
11 9 0.26
12 1 0.03
ACGTcount: A:0.10, C:0.02, G:0.06, T:0.82
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:32227825 original size:21 final size:22
Alignment explanation
Indices: 32227799--32227847 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
32227789 TAAATCACTC
*
32227799 TTTTTTTCG-ATTTTTTTT-AT
1 TTTTTTTTGAATTTTTTTTGAT
32227819 TTTTTTTTGAATTTTTTTTGAT
1 TTTTTTTTGAATTTTTTTTGAT
32227841 TTTTTTT
1 TTTTTTT
32227848 AACTTGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.31
21 9 0.35
22 9 0.35
ACGTcount: A:0.10, C:0.02, G:0.06, T:0.82
Consensus pattern (22 bp):
TTTTTTTTGAATTTTTTTTGAT
Found at i:32228233 original size:14 final size:14
Alignment explanation
Indices: 32228199--32228246 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
32228189 GTACGAATGG
**
32228199 AATGGTAGGAATGA
1 AATGGTAGGAACAA
*
32228213 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
32228227 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
32228241 ATTGGT
1 AATGGT
32228247 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.31, T:0.21
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:32230075 original size:20 final size:20
Alignment explanation
Indices: 32230028--32230075 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
32230018 AGTAAGCTCG
32230028 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
32230048 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
32230068 GTTGAGCT
1 GTTGAGCT
32230076 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:32239158 original size:11 final size:11
Alignment explanation
Indices: 32239142--32239175 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
32239132 GTAAAAAAAC
32239142 AAAATAAGAAA
1 AAAATAAGAAA
32239153 AAAATAAGAAA
1 AAAATAAGAAA
32239164 AAGAA-AAGAAA
1 AA-AATAAGAAA
32239175 A
1 A
32239176 GGAAGATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 20 0.91
12 2 0.09
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (11 bp):
AAAATAAGAAA
Found at i:32239189 original size:52 final size:52
Alignment explanation
Indices: 32239116--32239227 Score: 197
Period size: 52 Copynumber: 2.2 Consensus size: 52
32239106 AATGAGAATG
* * *
32239116 AAAGAACATGAAGATTGTAAAAAAACAAAATAAGAAAAAAATAAGAAAAAGA
1 AAAGAAAAGGAAGATTGTAAAAAAACAAAAGAAGAAAAAAATAAGAAAAAGA
32239168 AAAGAAAAGGAAGATTGTAAAAAAACAAAAGAAGAAAAAAATAAGAAAAAGA
1 AAAGAAAAGGAAGATTGTAAAAAAACAAAAGAAGAAAAAAATAAGAAAAAGA
32239220 AAAGAAAA
1 AAAGAAAA
32239228 TCGAGAAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.73, C:0.03, G:0.15, T:0.09
Consensus pattern (52 bp):
AAAGAAAAGGAAGATTGTAAAAAAACAAAAGAAGAAAAAAATAAGAAAAAGA
Found at i:32239219 original size:17 final size:17
Alignment explanation
Indices: 32239134--32239222 Score: 67
Period size: 17 Copynumber: 5.2 Consensus size: 17
32239124 TGAAGATTGT
*
32239134 AAAAAAACAA-AATAAG
1 AAAAAAACAAGAAAAAG
*
32239150 AAAAAAATAAGAAAAAG
1 AAAAAAACAAGAAAAAG
* **
32239167 AAAAGAAA-AGGAAGATTG
1 AAAA-AAACAAGAA-AAAG
*
32239185 TAAAAAAACAA-AAGAAG
1 -AAAAAAACAAGAAAAAG
*
32239202 AAAAAAATAAGAAAAAG
1 AAAAAAACAAGAAAAAG
32239219 AAAA
1 AAAA
32239223 GAAAATCGAG
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
16 18 0.32
17 23 0.41
18 10 0.18
19 5 0.09
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (17 bp):
AAAAAAACAAGAAAAAG
Found at i:32245379 original size:47 final size:47
Alignment explanation
Indices: 32245263--32245607 Score: 491
Period size: 47 Copynumber: 7.3 Consensus size: 47
32245253 CCCTTCGGGA
* * *
32245263 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTC-GC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
32245309 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
32245356 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
32245403 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
32245450 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
32245497 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
32245544 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
32245593 CCTATCACATATATA
1 CTTATCACATATATA
32245608 TACTTGTACA
Statistics
Matches: 280, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
46 42 0.15
47 197 0.70
49 40 0.14
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:32255154 original size:19 final size:19
Alignment explanation
Indices: 32255130--32255169 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
32255120 ATCTAGAACC
32255130 TGTCCCTTGTTGTTCTCTA
1 TGTCCCTTGTTGTTCTCTA
32255149 TGTCCCTTGTTGTTCTCTA
1 TGTCCCTTGTTGTTCTCTA
32255168 TG
1 TG
32255170 CACAAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.05, C:0.25, G:0.17, T:0.53
Consensus pattern (19 bp):
TGTCCCTTGTTGTTCTCTA
Found at i:32263025 original size:46 final size:45
Alignment explanation
Indices: 32262975--32263141 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 45
32262965 TCCGAGCTCG
32262975 TTGAGTTGAGTCTGAGTTCACTTATGGATGTTAATGTCTGAGCTTA
1 TTGAGTTGAGTCTGAGTTCACTTATGGATG-TAATGTCTGAGCTTA
* * * * *
32263021 TTGAGTTGAGT-TCGAGTTC-GTGA--AATGTAACTAGGCATCCGAGCTTG
1 TTGAGTTGAGTCT-GAGTTCACTTATGGATGTAA-T--G--TCTGAGCTTA
* * * *
32263068 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCA
1 TTGAGTTGAGTCTGAGTTCACTTATGGATG-TAATGTCTGAGCTTA
*
32263114 TTGAGTTGAGTCTGAGTTCGCTTATGGA
1 TTGAGTTGAGTCTGAGTTCACTTATGGA
32263142 CGGGTTACAT
Statistics
Matches: 94, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 49 0.52
47 25 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (45 bp):
TTGAGTTGAGTCTGAGTTCACTTATGGATGTAATGTCTGAGCTTA
Found at i:32263120 original size:93 final size:93
Alignment explanation
Indices: 32262961--32263133 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
32262951 AGGATATTTG
* ** * *
32262961 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTTAATGTCTGAGCTTATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCATTGAG
32263026 TTGAGT-TCGAGTTCGTGAAATGTAACTA
66 TTGAGTCT-GAGTTCGTGAAATGTAACTA
*
32263054 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCATTGAG
32263119 TTGAGTCTGAGTTCG
66 TTGAGTCTGAGTTCG
32263134 CTTATGGACG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAGCTCATTGAG
TTGAGTCTGAGTTCGTGAAATGTAACTA
Found at i:32265150 original size:24 final size:23
Alignment explanation
Indices: 32265107--32265151 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
32265097 TACATCAGTG
*
32265107 AAAGATTTGTTGATTAGAAGCGT
1 AAAGATTTCTTGATTAGAAGCGT
32265130 AAAGAGTTTCTTGAGTT-GAAGC
1 AAAGA-TTTCTTGA-TTAGAAGC
32265152 AGAGCAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (23 bp):
AAAGATTTCTTGATTAGAAGCGT
Found at i:32275922 original size:23 final size:22
Alignment explanation
Indices: 32275871--32275922 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
32275861 CCTCGTCTTT
*
32275871 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
32275893 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
32275916 TTCTTTT
1 TTCTTTT
32275923 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:32283963 original size:18 final size:19
Alignment explanation
Indices: 32283927--32283963 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
32283917 TGAATTATAC
32283927 TCACAAAGATATAAAAAGT
1 TCACAAAGATATAAAAAGT
*
32283946 TCACAAAG-TATCAAAAGT
1 TCACAAAGATATAAAAAGT
32283964 CTGAAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.22
Consensus pattern (19 bp):
TCACAAAGATATAAAAAGT
Found at i:32295493 original size:30 final size:30
Alignment explanation
Indices: 32295459--32295556 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 30
32295449 AGCTCTCTCC
32295459 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * * * *
32295489 TAGCTCA-ATTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
* * * *
32295519 CAGCTCAAATTTAGCTCACGAGCTAAAGCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
32295549 TAGCTCAT
1 TAGCTCAT
32295557 TTTAGTTTAA
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
29 1 0.02
30 49 0.96
31 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:32296703 original size:10 final size:10
Alignment explanation
Indices: 32296688--32296714 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
32296678 TACTCCTTCA
32296688 AGCTCAAATC
1 AGCTCAAATC
32296698 AGCTCAAATC
1 AGCTCAAATC
32296708 AGCTCAA
1 AGCTCAA
32296715 CTTCAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:32296736 original size:10 final size:10
Alignment explanation
Indices: 32296688--32296736 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
32296678 TACTCCTTCA
*
32296688 AGCTCAAATC
1 AGCTCAACTC
*
32296698 AGCTCAAATC
1 AGCTCAACTC
32296708 AGCTCAACTTC
1 AGCTCAAC-TC
* *
32296719 AACTCAACTT
1 AGCTCAACTC
32296729 AGCTCAAC
1 AGCTCAAC
32296737 GAGCTCGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.37, C:0.33, G:0.08, T:0.22
Consensus pattern (10 bp):
AGCTCAACTC
Found at i:32304846 original size:44 final size:44
Alignment explanation
Indices: 32304783--32304871 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
32304773 TTCGAAGAGA
32304783 AAGACATACTCCTACTAGATCTTCAAAGAAATCTTACTCGGAGT
1 AAGACATACTCCTACTAGATCTTCAAAGAAATCTTACTCGGAGT
32304827 AAGACATACTCCTACTAGATCTTCAAAGAAATCTTACTCGGAGT
1 AAGACATACTCCTACTAGATCTTCAAAGAAATCTTACTCGGAGT
32304871 A
1 A
32304872 TTCTTCATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (44 bp):
AAGACATACTCCTACTAGATCTTCAAAGAAATCTTACTCGGAGT
Found at i:32304855 original size:25 final size:25
Alignment explanation
Indices: 32304782--32304855 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 25
32304772 GTTCGAAGAG
32304782 AAAGACATACTCCTACTAGATCTTC
1 AAAGACATACTCCTACTAGATCTTC
* * *
32304807 AAAGA-A-A-TCTTACTCGGA--GT-
1 AAAGACATACTCCTACT-AGATCTTC
32304827 -AAGACATACTCCTACTAGATCTTC
1 AAAGACATACTCCTACTAGATCTTC
32304851 AAAGA
1 AAAGA
32304856 AATCTTACTC
Statistics
Matches: 35, Mismatches: 6, Indels: 16
0.61 0.11 0.28
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 4 0.11
22 12 0.34
23 4 0.11
24 1 0.03
25 9 0.26
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (25 bp):
AAAGACATACTCCTACTAGATCTTC
Found at i:32305000 original size:21 final size:20
Alignment explanation
Indices: 32304966--32305033 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
32304956 ACATTCTTGT
32304966 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
32304987 AAAGAAAAAGCAAAATAAGA
1 AAAGAAAAAGCAAAAAAAGA
* *
32305007 AAATGAAAATGAAATAAAAAGA
1 AAA-GAAAAAGCAA-AAAAAGA
32305029 AAAGA
1 AAAGA
32305034 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 12 0.30
21 19 0.47
22 9 0.22
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.06
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:32305113 original size:11 final size:12
Alignment explanation
Indices: 32305081--32305111 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
32305071 TTGAGAGAAC
32305081 TTGAAAAAGCCT
1 TTGAAAAAGCCT
32305093 TTGAAAAAGCCT
1 TTGAAAAAGCCT
32305105 TTGAAAA
1 TTGAAAA
32305112 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:32305148 original size:30 final size:30
Alignment explanation
Indices: 32305114--32305194 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
32305104 TTTGAAAAGC
*
32305114 AAAAAGAAAAAGAAAAAGAAAATGAGATTG
1 AAAAAGAAAAAGAAAAAGAAAATGAGAGTG
* * **
32305144 AAAAAGAGAACGAAAATA-AATTTGAGAGTG
1 AAAAAGAAAAAGAAAA-AGAAAATGAGAGTG
* *
32305174 AAAAAGAAGATGAAAAAGAAA
1 AAAAAGAAAAAGAAAAAGAAA
32305195 TTGAAACAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
29 1 0.03
30 38 0.95
31 1 0.03
ACGTcount: A:0.67, C:0.01, G:0.21, T:0.11
Consensus pattern (30 bp):
AAAAAGAAAAAGAAAAAGAAAATGAGAGTG
Found at i:32305168 original size:24 final size:24
Alignment explanation
Indices: 32305119--32305188 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
32305109 AAAGCAAAAA
*
32305119 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAATGAAATT
* *
32305143 GAAAAAGAGAACGAAAAT-AAATTT
1 GAAAAAGAAAAAGAAAATGAAA-TT
* ** *
32305167 GAGAGTGAAAAAGAAGATGAAA
1 GAAAAAGAAAAAGAAAATGAAA
32305189 AAGAAATTGA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
23 2 0.06
24 30 0.86
25 3 0.09
ACGTcount: A:0.63, C:0.01, G:0.23, T:0.13
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAATGAAATT
Found at i:32307330 original size:30 final size:30
Alignment explanation
Indices: 32307296--32307392 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
32307286 ACCGAGCTCC
32307296 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
32307326 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
32307356 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
32307386 TAGCTCA
1 TAGCTCA
32307393 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:32309404 original size:30 final size:30
Alignment explanation
Indices: 32309370--32309426 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
32309360 TCCTTAACTC
32309370 AAACTTTGGCAAATTTACAATTTTGCCCCT
1 AAACTTTGGCAAATTTACAATTTTGCCCCT
* * *
32309400 AAACTTTTGCATATTTACACTTTTGCC
1 AAACTTTGGCAAATTTACAATTTTGCC
32309427 TCTAGACTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (30 bp):
AAACTTTGGCAAATTTACAATTTTGCCCCT
Found at i:32327774 original size:22 final size:22
Alignment explanation
Indices: 32327746--32327794 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
32327736 CCTTTAGCCG
32327746 TCCTATCTACAACGTTGAGTCA
1 TCCTATCTACAACGTTGAGTCA
** *
32327768 TCCTATCTACGGCGTTGGGTCA
1 TCCTATCTACAACGTTGAGTCA
32327790 TCCTA
1 TCCTA
32327795 GTGACTGCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (22 bp):
TCCTATCTACAACGTTGAGTCA
Found at i:32327964 original size:27 final size:27
Alignment explanation
Indices: 32327933--32327984 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
32327923 CATCTGATAT
*
32327933 TGATTCTG-TATTGGGCTTAGGCCCACC
1 TGATTCTGTTAATGGGC-TAGGCCCACC
32327960 TGATTCTGTTAATGGGCTAGGCCCA
1 TGATTCTGTTAATGGGCTAGGCCCA
32327985 ACTGTTACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (27 bp):
TGATTCTGTTAATGGGCTAGGCCCACC
Found at i:32331761 original size:43 final size:43
Alignment explanation
Indices: 32331712--32331798 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
32331702 TTTTTTGTTT
32331712 TCCTCACAACTCGATTCATTTTCTTTCAATTTCTTTTCTTTTC
1 TCCTCACAACTCGATTCATTTTCTTTCAATTTCTTTTCTTTTC
32331755 TCCTCACAACTCGATTCATTTTCTTTCAATTTCTTTTCTTTTC
1 TCCTCACAACTCGATTCATTTTCTTTCAATTTCTTTTCTTTTC
32331798 T
1 T
32331799 TTCTTTTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.16, C:0.28, G:0.02, T:0.54
Consensus pattern (43 bp):
TCCTCACAACTCGATTCATTTTCTTTCAATTTCTTTTCTTTTC
Found at i:32334010 original size:16 final size:16
Alignment explanation
Indices: 32333992--32334022 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
32333982 TTGATAGAAT
32333992 TTTTTTTAAT-TCAAA
1 TTTTTTTAATATCAAA
32334007 TTTTTTTAATATCAAA
1 TTTTTTTAATATCAAA
32334023 CCTACTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTTTAATATCAAA
Found at i:32336912 original size:40 final size:41
Alignment explanation
Indices: 32336777--32336962 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
32336767 TACTCGAATG
*
32336777 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
32336818 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
32336859 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
32336899 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
32336939 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
32336963 CTTGTGCGAG
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 62 0.47
41 69 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:32336919 original size:81 final size:82
Alignment explanation
Indices: 32336779--32336932 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
32336769 CTCGAATGAT
* * *
32336779 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
32336844 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
32336861 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
32336924 TTTATGCTA
65 TTTATGCTA
32336933 GTGACCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 39 0.58
82 27 0.40
83 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:32340931 original size:49 final size:49
Alignment explanation
Indices: 32340839--32340965 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 49
32340829 CATCAAAGTT
* * * * *
32340839 GATGCCATGTCCCAGACAGGTCTTACATTGACTTTGATATATCGAGGTC
1 GATGCCATATCCCAGACAGGTCTTACACTGACTCTCATATATCGAGCTC
* * * * *
32340888 GATGCCGTATCCTAGACAGGTCTTACACTGGCTCTCATCTATCGATCTC
1 GATGCCATATCCCAGACAGGTCTTACACTGACTCTCATATATCGAGCTC
* * *
32340937 GATGCTATGTCCCAAACAGGTCTTACACT
1 GATGCCATATCCCAGACAGGTCTTACACT
32340966 AACACACAAC
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
GATGCCATATCCCAGACAGGTCTTACACTGACTCTCATATATCGAGCTC
Found at i:32346142 original size:17 final size:18
Alignment explanation
Indices: 32346120--32346154 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32346110 TTTTGGGCCT
32346120 TGTGGG-CCACACGGGCA
1 TGTGGGCCCACACGGGCA
*
32346137 TGTGGGCCCACATGGGCA
1 TGTGGGCCCACACGGGCA
32346155 AATGGCATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.17, C:0.29, G:0.40, T:0.14
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCA
Found at i:32348213 original size:18 final size:18
Alignment explanation
Indices: 32348190--32348225 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
32348180 AATATGAGGC
32348190 TGAATTTTTGTGACTAAG
1 TGAATTTTTGTGACTAAG
32348208 TGAATTTTTGTGACTAAG
1 TGAATTTTTGTGACTAAG
32348226 CCGCTATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (18 bp):
TGAATTTTTGTGACTAAG
Found at i:32353747 original size:18 final size:17
Alignment explanation
Indices: 32353714--32353747 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
32353704 TTTTGTGCCT
*
32353714 TGTGGGCCATATGGGCG
1 TGTGGGCCACATGGGCG
32353731 TGTGGGCCCACATGGGC
1 TGTGGG-CCACATGGGC
32353748 AAATGACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.24, G:0.44, T:0.21
Consensus pattern (17 bp):
TGTGGGCCACATGGGCG
Found at i:32355569 original size:48 final size:49
Alignment explanation
Indices: 32355513--32355636 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 49
32355503 TCATATCAAC
*
32355513 GCCATATCCTAGACATGATCTTACA-TGAAATCACATACCGATGCCGAT
1 GCCATATCCCAGACATGATCTTACACTGAAATCACATACCGATGCCGAT
* * * * * *
32355561 GCCATATCCCAGATATGACCTTACACTGACA-CACATATCAACGCCGAT
1 GCCATATCCCAGACATGATCTTACACTGAAATCACATACCGATGCCGAT
* * *
32355609 GCCATGTCCCAGATATGGTCTTACACTG
1 GCCATATCCCAGACATGATCTTACACTG
32355637 GCTCTCATCT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 61 0.94
49 4 0.06
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (49 bp):
GCCATATCCCAGACATGATCTTACACTGAAATCACATACCGATGCCGAT
Found at i:32357225 original size:24 final size:24
Alignment explanation
Indices: 32357126--32357226 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
32357116 AAGTCTGTCA
32357126 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
*
32357150 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
* * *
32357174 GGATAGGACTTAGGAGATGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
* *
32357198 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGTTGATAAG
32357222 GGAGA
1 GGAGA
32357227 ACAGTGTTGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.34, C:0.02, G:0.41, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGTTGATAAG
Found at i:32362828 original size:19 final size:19
Alignment explanation
Indices: 32362804--32362849 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
32362794 TTCTTCCAAA
32362804 TCAATGTAAGTTTGTAGCC
1 TCAATGTAAGTTTGTAGCC
32362823 TCAATGTAAGTTTGTAGCC
1 TCAATGTAAGTTTGTAGCC
32362842 TCAATGTA
1 TCAATGTA
32362850 TTAGCTATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (19 bp):
TCAATGTAAGTTTGTAGCC
Found at i:32367159 original size:26 final size:26
Alignment explanation
Indices: 32367083--32367192 Score: 114
Period size: 27 Copynumber: 4.2 Consensus size: 26
32367073 AGGAAGCGTC
* *
32367083 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACA-TTATCTGTT
*
32367110 CTGGTGGCTCTGCCACATACATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
32367137 CTGGTGGCTCT-CCACAATTATCTATT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * **
32367163 CTGGTGACTTTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
32367189 CTGG
1 CTGG
32367193 CAGCAATGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 33 0.46
27 38 0.54
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:32367180 original size:53 final size:53
Alignment explanation
Indices: 32367083--32367192 Score: 125
Period size: 53 Copynumber: 2.1 Consensus size: 53
32367073 AGGAAGCGTC
* * *
32367083 CTGGTGGCTATGCCACATTTATCTGATCTGGTGGCTCTGCCACATACATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACAT-CATCTGTT
* * * *
32367137 CTGGTGGCTCT-CCACAATTATCT-ATTCTGGTGACTTTATCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGA-TCTGGTGACTCTACCACATCATCTGTT
32367189 CTGG
1 CTGG
32367193 CAGCAATGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
52 12 0.25
53 26 0.54
54 10 0.21
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATCATCTGTT
Found at i:32374786 original size:49 final size:49
Alignment explanation
Indices: 32374705--32374798 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
32374695 TCTCCAGGCC
* *
32374705 GTGTAACTCTCTATTTATGATGTCAGCGTCAATTTAAGTTCACACGGGT
1 GTGTAACTCTCTATTTATGACGTCAGCATCAATTTAAGTTCACACGGGT
* *
32374754 GTGTGACTCTCTATTTATGACGTTAGCATCAATTTAAGTTCACAC
1 GTGTAACTCTCTATTTATGACGTCAGCATCAATTTAAGTTCACAC
32374799 AACCAAGTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (49 bp):
GTGTAACTCTCTATTTATGACGTCAGCATCAATTTAAGTTCACACGGGT
Found at i:32376714 original size:50 final size:50
Alignment explanation
Indices: 32376631--32376880 Score: 279
Period size: 50 Copynumber: 5.0 Consensus size: 50
32376621 TAAGATGGTT
**
32376631 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
* * * * ** * *
32376681 TTAGCTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA-TAG
* * * * *
32376732 TTCGATCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAG
* *
32376782 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
* * * *
32376832 TT-GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACTAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
32376881 CTTCAGTTAC
Statistics
Matches: 163, Mismatches: 34, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
49 41 0.25
50 84 0.52
51 38 0.23
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
Found at i:32376771 original size:28 final size:28
Alignment explanation
Indices: 32376739--32376823 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
32376729 AACTTCGATC
32376739 ACGTGTATAGTACTAAGTGCAGGCTACT
1 ACGTGTATAGTACTAAGTGCAGGCTACT
* *
32376767 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTAT-AGTACTAAGTGCAGGCTACT
* *
32376789 ACATGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTATAGTACTAAGTGCAGGCTACT
32376817 ACGTGTA
1 ACGTGTA
32376824 CCAGATTGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 16
0.63 0.12 0.25
Matches are distributed among these distances:
21 2 0.05
22 7 0.17
23 2 0.05
24 3 0.07
25 6 0.15
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
ACGTGTATAGTACTAAGTGCAGGCTACT
Found at i:32376825 original size:101 final size:101
Alignment explanation
Indices: 32376640--32376825 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 101
32376630 TTTAGGTCAT
* *
32376640 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGCTCGCATGTGTAGTACTAAG
1 GTGTATAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGCTCACATGTGTAGTACTAAG
*
32376705 TGCAGGCTACTATGCGTACCCGACAACTTCGATCAC
66 TGCAGGCTACTACGCGTACCCGACAACTTCGATCAC
* *
32376741 GTGTATAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACATGTGTAGTACTAA
1 GTGTATAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGCTCACATGTGTAGTACTAA
*
32376805 GTGCAGGCTACTACGTGTACC
65 GTGCAGGCTACTACGCGTACC
32376826 AGATTGTTGG
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 77 0.99
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (101 bp):
GTGTATAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGCTCACATGTGTAGTACTAAG
TGCAGGCTACTACGCGTACCCGACAACTTCGATCAC
Found at i:32376846 original size:101 final size:99
Alignment explanation
Indices: 32376637--32376880 Score: 287
Period size: 101 Copynumber: 2.4 Consensus size: 99
32376627 GGTTTTAGGT
*
32376637 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGCTCGCATGTGTAGTACT
1 CATGTGT-TAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGCTCACATGTGTAGTACT
* *
32376702 AAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
65 AAGTGCAGGCTACTACGCGTACCAGACAACTTCGA
* * *
32376737 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACATGTGTAGTA
1 -CATGTGT-TAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGCTCACATGTGTAGTA
* ****
32376801 CTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCG-
63 CTAAGTGCAGGCTACTACGCGTACCAGACAACT--TCGA
* * *
32376839 CATGTG-TAGTACTAAGTGTAGGCTACTATGCGTACTAGATAG
1 CATGTGTTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAG
32376881 CTTCAGTTAC
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
99 30 0.25
100 2 0.02
101 87 0.71
103 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
CATGTGTTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGCTCACATGTGTAGTACTA
AGTGCAGGCTACTACGCGTACCAGACAACTTCGA
Found at i:32379494 original size:42 final size:42
Alignment explanation
Indices: 32379415--32379530 Score: 106
Period size: 42 Copynumber: 2.8 Consensus size: 42
32379405 TGTCGGTGCC
* **
32379415 ATGCCATGTCCTAGACATGGTCTTACACGGGACCTCATAGCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATAGCG
* * * * * *
32379457 ATGCCATGTCCCATACATGGTCTTCCTCGAAATCTCATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATAGCG
* * * * *
32379499 ACGCCATATCCCAGGCATGGTTTTACATGAAA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAA
32379531 TCACATACTG
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATAGCG
Found at i:32379619 original size:48 final size:49
Alignment explanation
Indices: 32379563--32379671 Score: 130
Period size: 49 Copynumber: 2.2 Consensus size: 49
32379553 TATCCTAGAT
*
32379563 ATGGTCTTACACTGGCACACATATCA-ACGCTGATGCCATGTCCCAAAC
1 ATGGTCTTACACTGGCACACATATCAGACGATGATGCCATGTCCCAAAC
* * * * * * *
32379611 ATGTTCTTACATTGGCTCTCATCTCAGATGATGATGCCATGTCCCAGAC
1 ATGGTCTTACACTGGCACACATATCAGACGATGATGCCATGTCCCAAAC
*
32379660 ATGGTCTCACAC
1 ATGGTCTTACAC
32379672 GAGATCTCAT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
48 21 0.43
49 28 0.57
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (49 bp):
ATGGTCTTACACTGGCACACATATCAGACGATGATGCCATGTCCCAAAC
Found at i:32384359 original size:30 final size:29
Alignment explanation
Indices: 32384325--32384384 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
32384315 ATCGAAAGCA
*
32384325 TTGGCACTAAGTGTGTGATTTAAACTAGCT
1 TTGGCACTAAGTGTGCGATTT-AACTAGCT
32384355 TTGGCACTAAGTGTGCGATTTAACTAGCT
1 TTGGCACTAAGTGTGCGATTTAACTAGCT
32384384 T
1 T
32384385 CAGTTACTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (29 bp):
TTGGCACTAAGTGTGCGATTTAACTAGCT
Found at i:32384451 original size:44 final size:40
Alignment explanation
Indices: 32384356--32384454 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 40
32384346 AAACTAGCTT
*
32384356 TGGCACTAAGTGTGCGATTTAACTAGCTTCAGTTACTTGA
1 TGGCACTAAGTGTGCGATCTAACTAGCTTCAGTTACTTGA
* *
32384396 -GGCACTAAGTGTGCGATACTGACTTAG-TCTCAGTTATTTGAGA
1 TGGCACTAAGTGTGCGAT-CTAAC-TAGCT-TCAGTTACTT--GA
32384439 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
32384455 GAAATATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
39 17 0.34
40 4 0.08
41 12 0.24
43 2 0.04
44 15 0.30
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGATCTAACTAGCTTCAGTTACTTGA
Found at i:32388613 original size:15 final size:15
Alignment explanation
Indices: 32388593--32388640 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
32388583 TCAAAGATGG
32388593 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
32388608 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
32388622 GTTTATGGATATAAA
1 GTTTATGGATATGAA
32388637 GTTT
1 GTTT
32388641 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:32388627 original size:14 final size:14
Alignment explanation
Indices: 32388587--32388630 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
32388577 AAGGATTCAA
32388587 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
32388601 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
32388616 AGATGGGTTTATGG
1 AGATGGGTTTATGG
32388630 A
1 A
32388631 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:32388656 original size:29 final size:29
Alignment explanation
Indices: 32388587--32388646 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
32388577 AAGGATTCAA
*
32388587 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
32388616 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
32388645 AG
1 AG
32388647 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Done.