Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 48 of 210
Found at i:16863656 original size:30 final size:31
Alignment explanation
Indices: 16863617--16863676 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
16863607 AGAGGTGAGA
*
16863617 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
16863648 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
16863677 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:16863908 original size:9 final size:9
Alignment explanation
Indices: 16863890--16863926 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
16863880 TATATTTTGA
*
16863890 TATTCTAAT
1 TATTCGAAT
16863899 TATTCGAAT
1 TATTCGAAT
*
16863908 TATTCGAGT
1 TATTCGAAT
16863917 TATTCGAAT
1 TATTCGAAT
16863926 T
1 T
16863927 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16863974 original size:59 final size:60
Alignment explanation
Indices: 16863909--16864023 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 60
16863899 TATTCGAATT
16863909 ATTCGAGTT-ATTCGAAT-TCGAA-AACTCAACTCGATTCGAACTCGAAATTCGAAAAAAAA
1 ATTCGAGTTGATTCGAATATCGAATAACTCAACTCG-TT-GAACTCGAAATTCGAAAAAAAA
* *
16863968 ATTCGAGTTGATTCGAATAACTCGAATAACTCAATTCGTTTAACTCGAAATTCGAA
1 ATTCGAGTTGATTCGAAT-A-TCGAATAACTCAACTCGTTGAACTCGAAATTCGAA
16864024 TTTTTTTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
59 9 0.18
60 8 0.16
62 15 0.31
63 7 0.14
64 10 0.20
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (60 bp):
ATTCGAGTTGATTCGAATATCGAATAACTCAACTCGTTGAACTCGAAATTCGAAAAAAAA
Found at i:16871501 original size:40 final size:40
Alignment explanation
Indices: 16871425--16871503 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
16871415 ATGTTACGTT
* *
16871425 TGGTTATATGAATCGATTATATGAAAATATAAATATGAAA
1 TGGTTATATGAATAGATTATATGAAAATAGAAATATGAAA
* *
16871465 TGGTTATATGAATA-AGTTATATGAAAATCGATATATGAA
1 TGGTTATATGAATAGA-TTATATGAAAATAGAAATATGAA
16871504 TGGAACTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (40 bp):
TGGTTATATGAATAGATTATATGAAAATAGAAATATGAAA
Found at i:16874719 original size:50 final size:50
Alignment explanation
Indices: 16874590--16874784 Score: 198
Period size: 50 Copynumber: 3.9 Consensus size: 50
16874580 GATAATAACA
* * * ** * * *
16874590 TGCCAAAGCCATATCCCAGATATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * ** *
16874639 TGTCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
16874689 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATATCGG
*
16874739 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
16874785 AGTAAACTTA
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
49 41 0.33
50 81 0.66
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:16901359 original size:14 final size:14
Alignment explanation
Indices: 16901340--16901366 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16901330 TGAAACTTGC
16901340 TTAAGTGTTTTTAT
1 TTAAGTGTTTTTAT
16901354 TTAAGTGTTTTTA
1 TTAAGTGTTTTTA
16901367 CCTTCATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (14 bp):
TTAAGTGTTTTTAT
Found at i:16902380 original size:17 final size:17
Alignment explanation
Indices: 16902358--16902390 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16902348 TTCAGCCATA
16902358 TTTGGAGGTTTAATTTC
1 TTTGGAGGTTTAATTTC
16902375 TTTGGAGGTTTAATTT
1 TTTGGAGGTTTAATTT
16902391 TTTTCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.24, T:0.55
Consensus pattern (17 bp):
TTTGGAGGTTTAATTTC
Found at i:16905009 original size:24 final size:24
Alignment explanation
Indices: 16904959--16905010 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16904949 AATCAAAGTC
* **
16904959 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATAAT
*
16904983 AAATATATTATACTTATAAATAAT
1 AAATATATTATACTAATAAATAAT
16905007 AAAT
1 AAAT
16905011 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATAAT
Found at i:16910835 original size:259 final size:259
Alignment explanation
Indices: 16910376--16910895 Score: 848
Period size: 259 Copynumber: 2.0 Consensus size: 259
16910366 CTAACTATAA
*
16910376 AACTTGCAAAACATAATTACATGCCATTAACAAATTCTACTTAACATCACAATATAGAAAAATAT
1 AACTTGCAAAACATAATTACATGCCATTAACAAATTCTACTCAACATCACAATATAGAAAAATAT
* *
16910441 AAAGGACTCCACTAAGTACTTGCCAATTAACTAACACAATAATTTCACCAACTTTATTGAGTCCT
66 AAAGGACTCCACTAAGTACATGCCAATTAACTAACACAATAATTTCACCAACTTTATTGAGTCCC
* ** *
16910506 AGATTATGCCTGGATGCTGATGTTGATATCCAGGATCACCTATTAACCTAACTTGCTTATAGAAA
131 AAATTATGCCTGGATGCTGATGTTGATATCCAGGATCACCTATTAACCTAACTTGCGCAGAGAAA
* *
16910571 ACAAAA-TCGTAACATGAGTAATAAACTCAGTTGTATTTTAACAATTCAAAGATCAATGCAAATT
196 ACAAAACT-GTAACATAAGTAATAAACTCAGTTGTATTTCAACAATTCAAAGATCAATGCAAATT
*
16910635 AACTTGCAAAACATAATTACATGTCATTAACAAATTCTACTCAACATCACAATATAGAAAAATAT
1 AACTTGCAAAACATAATTACATGCCATTAACAAATTCTACTCAACATCACAATATAGAAAAATAT
* *
16910700 AAAGGACTCCACTAGGTGCATGCCAATTAACTAACACAATAATTTCACCAACTTTATTGAGTCCC
66 AAAGGACTCCACTAAGTACATGCCAATTAACTAACACAATAATTTCACCAACTTTATTGAGTCCC
* * *
16910765 AAATTATGCCTGGATGCTGATGTTGTTATTCAGGATCACGTATTAACCTAA-TCTGCGCACGA-A
131 AAATTATGCCTGGATGCTGATGTTGATATCCAGGATCACCTATTAACCTAACT-TGCGCA-GAGA
*
16910828 AAACAAAACTGTAACCTAAGTAATAAACTCAGTTGTATTTCAACAATTCAAAGATCAATGCAAAT
194 AAACAAAACTGTAACATAAGTAATAAACTCAGTTGTATTTCAACAATTCAAAGATCAATGCAAAT
16910893 T
259 T
16910894 AA
1 AA
16910896 GCTAAAATAT
Statistics
Matches: 242, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
258 1 0.00
259 239 0.99
260 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (259 bp):
AACTTGCAAAACATAATTACATGCCATTAACAAATTCTACTCAACATCACAATATAGAAAAATAT
AAAGGACTCCACTAAGTACATGCCAATTAACTAACACAATAATTTCACCAACTTTATTGAGTCCC
AAATTATGCCTGGATGCTGATGTTGATATCCAGGATCACCTATTAACCTAACTTGCGCAGAGAAA
ACAAAACTGTAACATAAGTAATAAACTCAGTTGTATTTCAACAATTCAAAGATCAATGCAAATT
Found at i:16913251 original size:16 final size:17
Alignment explanation
Indices: 16913227--16913261 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16913217 TTATTTTTAC
16913227 TATACTAA-TAATTTTT
1 TATACTAATTAATTTTT
*
16913243 TATAGTAATTAATTTTT
1 TATACTAATTAATTTTT
16913260 TA
1 TA
16913262 ATATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (17 bp):
TATACTAATTAATTTTT
Found at i:16914071 original size:31 final size:31
Alignment explanation
Indices: 16914031--16914096 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
16914021 TATATCTGAC
* * * *
16914031 CATGTTTGCTAAAAATTTACTCCTTTTGCGA
1 CATGCTTGCTAAAAAATTACTCCATTTGCCA
*
16914062 CATGCTTGCTAAAAAATTGCTCCATTTGCCA
1 CATGCTTGCTAAAAAATTACTCCATTTGCCA
16914093 CATG
1 CATG
16914097 TATCTATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
CATGCTTGCTAAAAAATTACTCCATTTGCCA
Found at i:16914616 original size:13 final size:13
Alignment explanation
Indices: 16914577--16914623 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
16914567 ATTAAATAAA
16914577 CAGTTAATAGAAT
1 CAGTTAATAGAAT
* **
16914590 CAATTGGTCA-AAT
1 CAGTTAAT-AGAAT
16914603 CAGTTAATAGAAT
1 CAGTTAATAGAAT
16914616 CAGTTAAT
1 CAGTTAAT
16914624 CAAACCAACC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (13 bp):
CAGTTAATAGAAT
Found at i:16914626 original size:26 final size:26
Alignment explanation
Indices: 16914577--16914627 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
16914567 ATTAAATAAA
**
16914577 CAGTTAATAGAATCAATTGGTCAAAT
1 CAGTTAATAGAATCAATTAATCAAAT
*
16914603 CAGTTAATAGAATCAGTTAATCAAA
1 CAGTTAATAGAATCAATTAATCAAA
16914628 CCAACCACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (26 bp):
CAGTTAATAGAATCAATTAATCAAAT
Found at i:16920694 original size:18 final size:18
Alignment explanation
Indices: 16920668--16920702 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16920658 TGACGTGGAA
* *
16920668 GAGAGAAGTTGTAAGGGT
1 GAGAAAAGTAGTAAGGGT
16920686 GAGAAAAGTAGTAAGGG
1 GAGAAAAGTAGTAAGGG
16920703 CAAGAAGCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (18 bp):
GAGAAAAGTAGTAAGGGT
Found at i:16923002 original size:21 final size:19
Alignment explanation
Indices: 16922977--16923018 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
16922967 TAATTTAAGG
16922977 TTAAAGATAAGTATTTTTAAT
1 TTAAAG-TAAG-ATTTTTAAT
*
16922998 TTAAAGTTAGATTTTTAAT
1 TTAAAGTAAGATTTTTAAT
16923017 TT
1 TT
16923019 TAAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 3 0.15
21 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (19 bp):
TTAAAGTAAGATTTTTAAT
Found at i:16924295 original size:27 final size:27
Alignment explanation
Indices: 16924272--16924449 Score: 137
Period size: 28 Copynumber: 6.5 Consensus size: 27
16924262 TCCGCCATAT
*
16924272 AGGCTTCCATTTCATAGATTGCCACAA
1 AGGCTTCCATTTCATAGATAGCCACAA
* * * *
16924299 AGGGTTCCCTTTTCACAAATCA-CCACAA
1 AGGCTT-CCATTTCATAGAT-AGCCACAA
* * *
16924327 AGGCTTCCCTTTTCATATATCA-CCATAA
1 AGGCTT-CCATTTCATAGAT-AGCCACAA
*
16924355 AAGCTT-CATTTCCATAGATAGCCACAA
1 AGGCTTCCATTT-CATAGATAGCCACAA
* * * *
16924382 AAGCTCCCCTTTTCATAGATAGACACAA
1 AGGCT-TCCATTTCATAGATAGCCACAA
* * *
16924410 AGGCTTCCATTTCATAAATTGCCATAA
1 AGGCTTCCATTTCATAGATAGCCACAA
16924437 AGGCTTCCATTTC
1 AGGCTTCCATTTC
16924450 TCTGGCATGT
Statistics
Matches: 122, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
26 5 0.04
27 50 0.41
28 63 0.52
29 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (27 bp):
AGGCTTCCATTTCATAGATAGCCACAA
Found at i:16929258 original size:12 final size:12
Alignment explanation
Indices: 16929241--16929267 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16929231 TTAGTGTTCT
16929241 GATACATGCATG
1 GATACATGCATG
16929253 GATACATGCATG
1 GATACATGCATG
16929265 GAT
1 GAT
16929268 GGGATGAAAT
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:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (12 bp):
GATACATGCATG
Found at i:16929674 original size:20 final size:20
Alignment explanation
Indices: 16929641--16929679 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16929631 ATTCCAAATT
16929641 TTTTATAGTTTTTAAAAGTA
1 TTTTATAGTTTTTAAAAGTA
*
16929661 TTTTA-AGTTATTTATAAGT
1 TTTTATAGTT-TTTAAAAGT
16929680 TTTATATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTTATAGTTTTTAAAAGTA
Found at i:16930124 original size:23 final size:22
Alignment explanation
Indices: 16930098--16930144 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
16930088 CTTCCACTTT
16930098 TTATTCT-ATAATTTATTTATTTA
1 TTATTCTGAT-ATTTATTT-TTTA
*
16930121 TTATTTTGATATTTATTTTTTA
1 TTATTCTGATATTTATTTTTTA
16930143 TT
1 TT
16930145 CTAAAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 14 0.64
24 2 0.09
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
TTATTCTGATATTTATTTTTTA
Found at i:16932253 original size:29 final size:29
Alignment explanation
Indices: 16932088--16932265 Score: 206
Period size: 29 Copynumber: 6.3 Consensus size: 29
16932078 CAAAGTCTCA
* *
16932088 CCACAAAGG-TGTCCTTTTAATAGAGATTG
1 CCACAAAGGCT-TCCTTTTAAAAGAGATAG
*
16932117 CCAC-AAGGCTTCCTTTTAATAGAGATAG
1 CCACAAAGGCTTCCTTTTAAAAGAGATAG
16932145 CCACAAAGGCTTCCTTTTAACAAG-GATAG
1 CCACAAAGGCTTCCTTTTAA-AAGAGATAG
* * *
16932174 CCACAAAGGCTTCATTTTAACAGAGATAA
1 CCACAAAGGCTTCCTTTTAAAAGAGATAG
*
16932203 CCACTAAGGCTTCCTTTTAAAAGAGATAG
1 CCACAAAGGCTTCCTTTTAAAAGAGATAG
* *
16932232 CCACAAAGGCAT-CTTTTCAAA-A-ATAG
1 CCACAAAGGCTTCCTTTTAAAAGAGATAG
*
16932258 CTACAAAG
1 CCACAAAG
16932266 AAATGCTTTC
Statistics
Matches: 132, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
26 11 0.08
27 1 0.01
28 35 0.27
29 83 0.63
30 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (29 bp):
CCACAAAGGCTTCCTTTTAAAAGAGATAG
Found at i:16932264 original size:26 final size:26
Alignment explanation
Indices: 16932228--16932292 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
16932218 TTTAAAAGAG
* *
16932228 ATAGCCACAAAGGCAT-CTTTTCAAAA
1 ATAGCTACAAAGGAATGC-TTTCAAAA
* *
16932254 ATAGCTACAAAGAAATGCTTTCAGAA
1 ATAGCTACAAAGGAATGCTTTCAAAA
16932280 ATAGCTACAAAGG
1 ATAGCTACAAAGG
16932293 TTCACTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (26 bp):
ATAGCTACAAAGGAATGCTTTCAAAA
Found at i:16938688 original size:20 final size:20
Alignment explanation
Indices: 16938663--16938702 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16938653 TCCATACATT
*
16938663 ATTAATTTTTCAATAAAACC
1 ATTAATTTCTCAATAAAACC
16938683 ATTAATTTCTCAATAAAACC
1 ATTAATTTCTCAATAAAACC
16938703 TATCCATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTAATTTCTCAATAAAACC
Found at i:16941731 original size:19 final size:17
Alignment explanation
Indices: 16941684--16941734 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
16941674 TACCATTAGC
16941684 TTAAGTTAATTAA-AGA
1 TTAAGTTAATTAATAGA
16941700 TTAAGGTTTAATTAATCATGA
1 TTAA-G-TTAATTAAT-A-GA
16941721 TTAAGTTAATTAAT
1 TTAAGTTAATTAAT
16941735 TAAGCTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.13
17 1 0.03
18 8 0.27
19 9 0.30
20 2 0.07
21 6 0.20
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (17 bp):
TTAAGTTAATTAATAGA
Found at i:16942846 original size:19 final size:19
Alignment explanation
Indices: 16942816--16942943 Score: 94
Period size: 19 Copynumber: 6.7 Consensus size: 19
16942806 GCACTTATAC
*
16942816 GCCAGAATGCACTTCGTGT
1 GCCAGGATGCACTTCGTGT
** **
16942835 GTTAGGATGCACTTCGTAC
1 GCCAGGATGCACTTCGTGT
* * *
16942854 GCTAGTATGCACTTTGTGT
1 GCCAGGATGCACTTCGTGT
* ** *
16942873 GCCAGGATACGTTTTGTGT
1 GCCAGGATGCACTTCGTGT
* *
16942892 GCCACGATGCACTTCATGT
1 GCCAGGATGCACTTCGTGT
* *
16942911 GTCAGGATGCACTTAGTGT
1 GCCAGGATGCACTTCGTGT
* *
16942930 GCTAGTATGCACTT
1 GCCAGGATGCACTT
16942944 TGCACAGTAG
Statistics
Matches: 81, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.33
Consensus pattern (19 bp):
GCCAGGATGCACTTCGTGT
Found at i:16942880 original size:38 final size:37
Alignment explanation
Indices: 16942804--16942880 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 37
16942794 GTATGGAATT
**
16942804 ATGCACTTATACGCCAGAATGCACTTCGTGTGTTAGG
1 ATGCACTTATACGCCAGAATGCACTTCGTGTGCCAGG
* * * *
16942841 ATGCACTTCGTACGCTAGTATGCACTTTGTGTGCCAGG
1 ATGCACTT-ATACGCCAGAATGCACTTCGTGTGCCAGG
16942879 AT
1 AT
16942881 ACGTTTTGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
37 8 0.24
38 25 0.76
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (37 bp):
ATGCACTTATACGCCAGAATGCACTTCGTGTGCCAGG
Found at i:16942940 original size:38 final size:38
Alignment explanation
Indices: 16942822--16942943 Score: 120
Period size: 38 Copynumber: 3.2 Consensus size: 38
16942812 ATACGCCAGA
* * **
16942822 ATGCACTTCGTGTGTTAGGATGCACTTCGTACGCTAGT
1 ATGCACTTCGTGTGTCAGGATGCACTTAGTGTGCTAGT
* * * ** * *
16942860 ATGCACTTTGTGTGCCAGGATACGTTTTGTGTGCCACG-
1 ATGCACTTCGTGTGTCAGGATGCACTTAGTGTGCTA-GT
*
16942898 ATGCACTTCATGTGTCAGGATGCACTTAGTGTGCTAGT
1 ATGCACTTCGTGTGTCAGGATGCACTTAGTGTGCTAGT
16942936 ATGCACTT
1 ATGCACTT
16942944 TGCACAGTAG
Statistics
Matches: 64, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
37 1 0.02
38 62 0.97
39 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
ATGCACTTCGTGTGTCAGGATGCACTTAGTGTGCTAGT
Found at i:16946151 original size:45 final size:45
Alignment explanation
Indices: 16946102--16946274 Score: 229
Period size: 45 Copynumber: 3.8 Consensus size: 45
16946092 ACCATATTAA
* * ** ** **
16946102 GTGGAATTAGCATATAGCAACCACCTTTATTTTCAATAATTTCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
** * * *
16946147 GTGGAGCCAACCCATAGCAACCACATTTATAATCAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
16946192 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
16946237 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATG
16946275 ATACTCAGTA
Statistics
Matches: 110, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 110 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
Found at i:16951467 original size:31 final size:30
Alignment explanation
Indices: 16951432--16951522 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 30
16951422 GGCGCAACCT
*
16951432 AAAGAAGTGCATTTGTGGCTATCTCTGTTAA
1 AAAGAAG-GCATTTGTGGCTATCTCTATTAA
* *
16951463 AAAGAA-GCCTTTTTGGCTATCTCTATTAA
1 AAAGAAGGCATTTGTGGCTATCTCTATTAA
* * *
16951492 AAGGAA-GCCTTTATGG-TGATCTCTATTAA
1 AAAGAAGGCATTTGTGGCT-ATCTCTATTAA
16951521 AA
1 AA
16951523 GGAAACTTGT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.02
29 47 0.87
31 6 0.11
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (30 bp):
AAAGAAGGCATTTGTGGCTATCTCTATTAA
Found at i:16951479 original size:29 final size:29
Alignment explanation
Indices: 16951443--16951604 Score: 159
Period size: 29 Copynumber: 5.6 Consensus size: 29
16951433 AAGAAGTGCA
* *
16951443 TTTGTGGCTATCTCTGTTAAAAAGAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGAC
* * *
16951472 TTTTTGGCTATCTCTATTAAAAGGAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGAC
* *
16951501 TTTATGG-TGATCTCTATTAAAAGGAA-AC
1 TTTGTGGCT-ATCTCTGTTAAAAGGAAGAC
* *
16951529 TTGTGTGGCGATCTTTGTTAAAAGGAA-AC
1 TT-TGTGGCTATCTCTGTTAAAAGGAAGAC
* * *
16951558 TTGTGTGGCGATCTTTGTTAAAAGGAAGTC
1 TT-TGTGGCTATCTCTGTTAAAAGGAAGAC
*
16951588 TTTGTGGCAATCTCTGT
1 TTTGTGGCTATCTCTGT
16951605 CAAAGGACAC
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
28 4 0.03
29 110 0.94
30 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (29 bp):
TTTGTGGCTATCTCTGTTAAAAGGAAGAC
Found at i:16951594 original size:58 final size:57
Alignment explanation
Indices: 16951443--16951625 Score: 181
Period size: 58 Copynumber: 3.2 Consensus size: 57
16951433 AAGAAGTGCA
* * * * * *
16951443 TTTGTGGCTATCTCTGTTAAAAAGAAGCCTTTTTGGCTATCTCTATTAAAAGGAAGCC
1 TTTGTGGCGATCTCTGTTAAAAGGAAGACTTTGTGGCAATCTCTGTTAAAAGGAA-CC
* * * * * *
16951501 TTTATGGTGATCTCTATTAAAAGGAA-ACTTGTGTGGCGATCTTTGTTAAAAGGAAAC
1 TTTGTGGCGATCTCTGTTAAAAGGAAGACTT-TGTGGCAATCTCTGTTAAAAGGAACC
* * *
16951558 TTGTGTGGCGATCTTTGTTAAAAGGAAGTCTTTGTGGCAATCTCTG-TCAAAGGACACC
1 TT-TGTGGCGATCTCTGTTAAAAGGAAGACTTTGTGGCAATCTCTGTTAAAAGGA-ACC
16951616 TTTGTGGCGA
1 TTTGTGGCGA
16951626 GACTCTGAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
57 21 0.21
58 77 0.76
59 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (57 bp):
TTTGTGGCGATCTCTGTTAAAAGGAAGACTTTGTGGCAATCTCTGTTAAAAGGAACC
Found at i:16953789 original size:11 final size:11
Alignment explanation
Indices: 16953772--16953816 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
16953762 GTTCAACTAG
16953772 AATAATAATAT
1 AATAATAATAT
*
16953783 CATAATAA-AT
1 AATAATAATAT
16953793 AATAAATAATA-
1 AAT-AATAATAT
16953804 AATAATAA-AT
1 AATAATAATAT
16953814 AAT
1 AAT
16953817 TAATTCAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
9 1 0.03
10 12 0.41
11 15 0.52
12 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
AATAATAATAT
Found at i:16953796 original size:7 final size:7
Alignment explanation
Indices: 16953784--16953816 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
16953774 TAATAATATC
16953784 ATAATAA
1 ATAATAA
16953791 ATAATAA
1 ATAATAA
16953798 ATAATAA
1 ATAATAA
16953805 ATAATAA
1 ATAATAA
16953812 ATAAT
1 ATAAT
16953817 TAATTCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATAATAA
Found at i:16960469 original size:23 final size:21
Alignment explanation
Indices: 16960430--16960471 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
16960420 TCATATAGAA
*
16960430 TTATATAACATTCCAATTCAC
1 TTATATAACATTACAATTCAC
16960451 TTATAATAATCATTACAATTC
1 TTAT-ATAA-CATTACAATTC
16960472 CATTCACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (21 bp):
TTATATAACATTACAATTCAC
Found at i:16962164 original size:15 final size:15
Alignment explanation
Indices: 16962131--16962164 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16962121 TTTGGATTCA
*
16962131 ATTTTTATTATTTAC
1 ATTTTTATTATGTAC
*
16962146 ATTTTTATTATGTAT
1 ATTTTTATTATGTAC
16962161 ATTT
1 ATTT
16962165 ATTTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
ATTTTTATTATGTAC
Found at i:16962950 original size:3 final size:3
Alignment explanation
Indices: 16962942--16962970 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16962932 ATACTATCAT
16962942 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
16962971 TTTTCCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:16968202 original size:2 final size:2
Alignment explanation
Indices: 16968195--16968219 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16968185 ACGGAATGTG
16968195 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16968220 AAATGCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16968608 original size:22 final size:22
Alignment explanation
Indices: 16968581--16968630 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
16968571 AATAACGGAA
16968581 TATATAGAATAA-CAAAAAAATG
1 TATATA-AATAATCAAAAAAATG
*
16968603 TTTAT-AATAATTCAAAAAAATG
1 TATATAAATAA-TCAAAAAAATG
16968625 TATATA
1 TATATA
16968631 TATATGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 5 0.22
22 18 0.78
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (22 bp):
TATATAAATAATCAAAAAAATG
Found at i:16968876 original size:3 final size:3
Alignment explanation
Indices: 16968868--16968926 Score: 75
Period size: 3 Copynumber: 19.3 Consensus size: 3
16968858 GAATGTAGAG
* *
16968868 ATA ATA ATA GTA ATA ATG ATA ATA TATA AT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
16968913 ATAA ATA ATA ATA A
1 AT-A ATA ATA ATA A
16968927 AAATTTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 41 0.84
4 6 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16970483 original size:79 final size:79
Alignment explanation
Indices: 16970352--16970510 Score: 273
Period size: 79 Copynumber: 2.0 Consensus size: 79
16970342 TGTCTATTCC
*
16970352 ACTGTTGCCCCGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAA
1 ACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAA
* *
16970417 ATCTGCCGTTTACG
66 ATCTACCGTCTACG
**
16970431 ACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCTTTGCAACTTCAGGGAGGTAAA
1 ACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAA
16970496 ATCTACCGTCTACG
66 ATCTACCGTCTACG
16970510 A
1 A
16970511 TCTGCTTCGC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (79 bp):
ACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAA
ATCTACCGTCTACG
Found at i:16971005 original size:101 final size:100
Alignment explanation
Indices: 16970698--16971540 Score: 1162
Period size: 101 Copynumber: 8.5 Consensus size: 100
16970688 TTTGTTCAAC
*
16970698 TGCAATGTCGGGGAAACCAGATCC-TCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGGGA
1 TGCAATGTCAGGGAAACCAGATCCGT-CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGGG-
16970762 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT-AAT
64 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAAT
* * *
16970798 TGCAATATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAA-CATGTTCCACTGCACTGCTA---A
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATC-TGTTCCACTGCACTGCTAGGGA
*
16970859 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATT
65 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAAT
* *
16970895 TGCAATGTCAGGGAAACCTGATCCGTCGTCGT-GACTTCAATCTGTTCCACTACACTGCTAGGGG
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAG-CTTCAATCTGTTCCACTGCACTGCTA-GGG
* *
16970959 AGTAAGATCCGCCTTTGTGGCTTCAATATTTTTAAAT
64 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAAT
* * * *
16970996 TGCAGTGTCAGGGAAACCAGATCCGCCGTAGTAGCTTCAACCTGTTCCACTGCACTGCTA---AG
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGGGAG
* *
16971058 TAAGATCCGTCGTTGTGGCTTCAATCTTTTTAATT
66 TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAAT
* *
16971093 TGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACTGCTAGGGGA
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTA-GGGA
*
16971158 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAAAT
65 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAAT
* *
16971194 TGCAGTGTCAGGGAAACCAGATCCGTCGTCGT-GACTTCAATCTGTTCCACTGTACTGCTA---A
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAG-CTTCAATCTGTTCCACTGCACTGCTAGGGA
* *
16971255 GTAAGATCCGCCATTGTGGCTTCAATCTTTTTAATT
65 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAAT
* *
16971291 TGCAATGTCAGGGAAACTAGATCCGTCGTCGT-GACTTCAATCTGTTCCACTACACTGCTAGGGG
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAG-CTTCAATCTGTTCCACTGCACTGCTA-GGG
16971355 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAAT
64 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAAT
* * *
16971392 TGCAGTGTCAGGGAAACCAGATCCGTCGTCGT-GACTTCAATCTATTCCACTGCACTGCTAAGGA
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAG-CTTCAATCTGTTCCACTGCACTGCT-AGGG
* * *
16971456 AGTAAGATCTGCCGTTGTGACTTCAATCTCTTT-AAT
64 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAAT
* * * *
16971492 TGTAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCA
16971541 AGCTTTAATC
Statistics
Matches: 665, Mismatches: 57, Indels: 42
0.87 0.07 0.05
Matches are distributed among these distances:
96 34 0.05
97 232 0.35
98 1 0.00
99 1 0.00
100 98 0.15
101 297 0.45
102 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (100 bp):
TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGGGAG
TAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAAT
Found at i:16971082 original size:198 final size:198
Alignment explanation
Indices: 16970698--16971540 Score: 1295
Period size: 198 Copynumber: 4.2 Consensus size: 198
16970688 TTTGTTCAAC
* * *
16970698 TGCAATGTCGGGGAAACCAGATCC-TCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAGGGA
1 TGCAATGTCAGGGAAACCAGATCCGT-CGTCGTAGCTTCAATCTGTTCCACTACACTGCTAGGGG
* * *
16970762 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT-AATTGCAATATCAGGGAAACCAGATCTGCCG
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAATTGCAGTGTCAGGGAAACCAGATCCGCCG
*
16970826 TCGT-AGCTTCAACATGTTCCACTGCACTGCTAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTT
130 TCGTGA-CTTCAACCTGTTCCACTGCACTGCTAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTT
16970890 TAATT
194 TAATT
*
16970895 TGCAATGTCAGGGAAACCTGATCCGTCGTCGT-GACTTCAATCTGTTCCACTACACTGCTAGGGG
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAG-CTTCAATCTGTTCCACTACACTGCTAGGGG
* *
16970959 AGTAAGATCCGCCTTTGTGGCTTCAATATTTTTAAATTGCAGTGTCAGGGAAACCAGATCCGCCG
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAATTGCAGTGTCAGGGAAACCAGATCCGCCG
* *
16971024 TAGT-AGCTTCAACCTGTTCCACTGCACTGCTAAGTAAGATCCGTCGTTGTGGCTTCAATCTTTT
130 TCGTGA-CTTCAACCTGTTCCACTGCACTGCTAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTT
16971088 TAATT
194 TAATT
*
16971093 TGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACTGCTAGGGGA
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTACACTGCTAGGGGA
* *
16971158 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAAATTGCAGTGTCAGGGAAACCAGATCCGTCGT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAATTGCAGTGTCAGGGAAACCAGATCCGCCGT
* * *
16971223 CGTGACTTCAATCTGTTCCACTGTACTGCTAAGTAAGATCCGCCATTGTGGCTTCAATCTTTTTA
131 CGTGACTTCAACCTGTTCCACTGCACTGCTAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
16971288 ATT
196 ATT
*
16971291 TGCAATGTCAGGGAAACTAGATCCGTCGTCGT-GACTTCAATCTGTTCCACTACACTGCTAGGGG
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAG-CTTCAATCTGTTCCACTACACTGCTAGGGG
*
16971355 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAATTGCAGTGTCAGGGAAACCAGATCCGTCG
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAATTGCAGTGTCAGGGAAACCAGATCCGCCG
* * * *
16971420 TCGTGACTTCAATCTATTCCACTGCACTGCTAAGGAAGTAAGATCTGCCGTTGTGACTTCAATCT
130 TCGTGACTTCAACCTGTTCCACTGCACTGCT----AAGTAAGATCCGCCGTTGTGGCTTCAATCT
*
16971485 CTTTAA-T
191 TTTTAATT
* * * *
16971492 TGTAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
1 TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCA
16971541 AGCTTTAATC
Statistics
Matches: 598, Mismatches: 37, Indels: 18
0.92 0.06 0.03
Matches are distributed among these distances:
196 1 0.00
197 88 0.15
198 431 0.72
199 2 0.00
201 43 0.07
202 33 0.06
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (198 bp):
TGCAATGTCAGGGAAACCAGATCCGTCGTCGTAGCTTCAATCTGTTCCACTACACTGCTAGGGGA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAATTGCAGTGTCAGGGAAACCAGATCCGCCGT
CGTGACTTCAACCTGTTCCACTGCACTGCTAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
ATT
Found at i:16976288 original size:21 final size:21
Alignment explanation
Indices: 16976263--16976325 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
16976253 AAATATATAT
16976263 TTAAAAAATTATAAAATAAAA
1 TTAAAAAATTATAAAATAAAA
* *
16976284 TTAAACCAA-TATAAAACATAAA
1 TTAAA-AAATTATAAAATA-AAA
*
16976306 TAAAAAAATT-T-AAATAAAA
1 TTAAAAAATTATAAAATAAAA
16976325 T
1 T
16976326 AATTAGCAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 16 0.47
22 10 0.29
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
TTAAAAAATTATAAAATAAAA
Found at i:16976775 original size:3 final size:3
Alignment explanation
Indices: 16976767--16976825 Score: 75
Period size: 3 Copynumber: 19.3 Consensus size: 3
16976757 GAATGTAGAG
* *
16976767 ATA ATA ATA GTA ATA ATG ATA ATA TATA AT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
16976812 ATAA ATA ATA ATA A
1 AT-A ATA ATA ATA A
16976826 AAATTTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 41 0.84
4 6 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16977890 original size:21 final size:21
Alignment explanation
Indices: 16977865--16977927 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
16977855 AAATATATAT
16977865 TTAAAAAATTATAAAATAAAA
1 TTAAAAAATTATAAAATAAAA
* *
16977886 TTAAACCAA-TATAAAACATAAA
1 TTAAA-AAATTATAAAATA-AAA
*
16977908 TAAAAAAATT-T-AAATAAAA
1 TTAAAAAATTATAAAATAAAA
16977927 T
1 T
16977928 AATTAGCAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 16 0.47
22 10 0.29
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
TTAAAAAATTATAAAATAAAA
Found at i:16979255 original size:22 final size:23
Alignment explanation
Indices: 16979214--16979256 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
16979204 GGAAAGATTT
*
16979214 AATTACAATGAAGAGTAAAAAAG
1 AATTACAATGAAAAGTAAAAAAG
16979237 AATTACAAT-AAAAGTAAAAA
1 AATTACAATGAAAAGTAAAAA
16979257 GATTAATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.19
Consensus pattern (23 bp):
AATTACAATGAAAAGTAAAAAAG
Found at i:16979493 original size:22 final size:22
Alignment explanation
Indices: 16979433--16979490 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
16979423 AATCTTCAAG
16979433 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
16979452 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
16979474 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
16979491 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:16982420 original size:19 final size:20
Alignment explanation
Indices: 16982392--16982429 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16982382 TATATACCTA
*
16982392 TCTTT-TTTTTATTTTTTTC
1 TCTTTCTTTTAATTTTTTTC
16982411 TCTTTCTTTTAATTTTTTT
1 TCTTTCTTTTAATTTTTTT
16982430 TCATAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.82
Consensus pattern (20 bp):
TCTTTCTTTTAATTTTTTTC
Found at i:16982986 original size:70 final size:70
Alignment explanation
Indices: 16982873--16983005 Score: 221
Period size: 70 Copynumber: 1.9 Consensus size: 70
16982863 TCCTTTCAAA
**
16982873 CTCAAGTTTTAAAAGATCTCGGGAATTAAGAGGAGATCGTGTCCTAACTTACTGGGCATGATCTT
1 CTCAAGTTTTAAAAGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTT
16982938 TTTTT
66 TTTTT
* * *
16982943 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTATTGGGCATGATC
1 CTCAAGTTTTAAAAGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATC
16983006 CCCTTTTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (70 bp):
CTCAAGTTTTAAAAGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTT
TTTTT
Found at i:16988677 original size:24 final size:24
Alignment explanation
Indices: 16988645--16988700 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
16988635 GTCCCAAAAG
*
16988645 TACAGTGGATTGAACCTTGAAGAT
1 TACAGTGGATTAAACCTTGAAGAT
16988669 TACAGTGGATTAAACCTTGAAGAT
1 TACAGTGGATTAAACCTTGAAGAT
16988693 TACAGTGG
1 TACAGTGG
16988701 GGGAAATCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (24 bp):
TACAGTGGATTAAACCTTGAAGAT
Found at i:16988909 original size:62 final size:62
Alignment explanation
Indices: 16988835--16989012 Score: 320
Period size: 62 Copynumber: 2.9 Consensus size: 62
16988825 ATTTCGCATT
* *
16988835 CATTCATACACATTTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTAATCACTAG
1 CATTCACACACATCTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTAATCACTAG
* *
16988897 CATTCACACACATCTAGTTAGGAGATTTTGGTTCATTCCGATCATAATATCCTAATCACTAG
1 CATTCACACACATCTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTAATCACTAG
16988959 CATTCACACACATCTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTA
1 CATTCACACACATCTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTA
16989013 GTCATTAGGC
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 110 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (62 bp):
CATTCACACACATCTAGTTAGGAGATTTTGATTCATTCCGATCATAACATCCTAATCACTAG
Found at i:16989276 original size:44 final size:44
Alignment explanation
Indices: 16989137--16990182 Score: 520
Period size: 44 Copynumber: 23.8 Consensus size: 44
16989127 GAAGATGGCA
* *
16989137 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAAT-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--AAAATC
* * * * ***
16989182 AAACCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGTTA-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* * *
16989225 AAGTCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATC
1 AA-TCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* *
16989270 AATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTAAAGAAAAT-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-AAAATC
* *
16989314 AGA-CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAT-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--AAAATC
* * * * ***
16989359 AAACCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGTTA-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* * *
16989402 AAGTCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATC
1 AA-TCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* *
16989447 AATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGAAAAT-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-AAAATC
* * * * *
16989491 AGA-CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGAAAGC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* * * *** *
16989535 AAGTCTTATC-CCTCTGAAGTTGCAGTGG-GCCAAACTGAAGTTATG
1 AA-TCTTATCTCC-CTGAAGTTGCAGTGGAG-CAGATTAAAAAAATC
* * * **
16989580 AATCTTATCTCCTTGAAGCTGCATTGGAGCAGATTAAAGCCAAT-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-AAAATC
* * * * *** *
16989624 AACCTTATCTCCCTGGAGTTGCAGCGGAGCAGGTTAAAGCCACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* * ** *** *
16989668 AATCCTATCTCACTGAAGTTGCAGTGGAGTGGATTAAATTGATG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* * ** * ****
16989712 GATATTATCTCTTTGAAGTTGTAGT--AG-A-A-TAGATCGCATC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAAAAATC
* * * * * * *** *
16989752 AGATCTTATCCCCCGGAAGTTACAGTGGGGCAAATTGAAGTTATA
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* * * * * * ** *
16989797 AATCCTATCTCCCTAAAGCTGCAATAGAGCGGATTAAAATGATG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
** * * * * * * *
16989841 GGTCTTATCTCCCTAAAGTTACAGTGGAGTAGACTGAATAAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* * * *
16989885 AACCTTATCTCCCTGAAGTTGCAGTGAAGCTGATTAAAGTTAAA--
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--AAAATC
* * * ***
16989929 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGTTA-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* * * *
16989972 AAGTCTTAT-TCCCCTGAAGTCGCAGTGGGGCAGATTGAATAAATC
1 AA-TCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* * ***
16990017 AATCTTATCTCCCTAAAGTTGCAGTGGAGCATATTAAAGCCGAT-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-AAAATC
* * * ***
16990061 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAGAGTTA-C
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
** * * *
16990104 AAGTCTTATCTCATTGAAGTTGCAGTGGAGCAGACTGAAAAAAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
* * *
16990149 AAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
16990183 CTGAAGATAG
Statistics
Matches: 750, Mismatches: 208, Indels: 86
0.72 0.20 0.08
Matches are distributed among these distances:
39 2 0.00
40 4 0.01
41 17 0.02
42 3 0.00
43 21 0.03
44 532 0.71
45 166 0.22
46 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAAATC
Found at i:16989373 original size:133 final size:133
Alignment explanation
Indices: 16989139--16989705 Score: 473
Period size: 133 Copynumber: 4.3 Consensus size: 133
16989129 AGATGGCAAA
* * * *
16989139 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATA-AACCTATCTCCCTGAAGTTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--AAATAGATCTTATCTCCCTGAAGTTG
* ** ** * *
16989203 CAGTGGAGCGGATTAAAGTTACA-AGTCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGATTGAATA
64 CAGTGGAGCAGATTAAAGCCACATAAACCTATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAA-A
16989266 AATCAA-
127 AATCAAG
* *
16989272 TCTTATCTCCCTAAAGTTGCACTGGAGCAGATTAAAGAAAATAGA-CTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-AAATAGATCTTATCTCCCTGAAGTTGC
* * **
16989336 AGTGGAGCAGATTAAAGCCACATAAACCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAGTT
65 AGTGGAGCAGATTAAAGCCACATAAACCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAAT
16989400 ACAAG
130 -CAAG
* * * *
16989405 TCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATCA-ATCTTATCTCCCTAAAGTTG
1 TCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTAAAGAAAT-AGATCTTATCTCCCTGAAGTTG
* * * * * * *
16989468 CAATGGAGCAGATTAAAG-AAAATAGACTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGAA
64 CAGTGGAGCAGATTAAAGCCACATAAACCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AA
*
16989532 AGCAAG
128 ATCAAG
* * * ** * *
16989538 TCTTATC-CCTCTGAAGTTGCAGTGG-GCCAAACTGAAGTTAT-GAATCTTATCTCCTTGAAGCT
1 TCTTATCTCC-CTGAAGTTGCAGTGGAG-CAGATTAAAGAAATAG-ATCTTATCTCCCTGAAGTT
* * * *
16989600 GCATTGGAGCAGATTAAAGCCA-AT-AACCTTATCTCCCTGGAGTTGCAGCGGAGCAGGTT-AAA
63 GCAGTGGAGCAGATTAAAGCCACATAAACC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA
* *
16989662 GCCACCAA-
127 --AATCAAG
* * **
16989670 TCCTATCTCACTGAAGTTGCAGTGGAGTGGATTAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
16989706 TTGATGGATA
Statistics
Matches: 352, Mismatches: 61, Indels: 43
0.77 0.13 0.09
Matches are distributed among these distances:
131 3 0.01
132 116 0.33
133 230 0.65
134 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAATAGATCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAGCCACATAAACCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAAATC
AAG
Found at i:16989436 original size:177 final size:177
Alignment explanation
Indices: 16989140--16990170 Score: 735
Period size: 177 Copynumber: 5.9 Consensus size: 177
16989130 GATGGCAAAT
*
16989140 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATAAACCTATCTCCCTGAAGTTACA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATAAACCTATCTCCCTGAAGTTACA
16989205 GTGGAGCGGATTAAAGTTACAAGTCTTATTCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATC
66 GTGGAGCGGATTAAAGTTACAAGTCTTATTCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATC
*
16989270 AATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTAAAGAAAATAGA
131 AATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGAAAATAGA
*
16989317 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACATAAACCTATCTCCCTGAAGTTACA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATAAACCTATCTCCCTGAAGTTACA
16989382 GTGGAGCGGATTAAAGTTACAAGTCTTATTCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATC
66 GTGGAGCGGATTAAAGTTACAAGTCTTATTCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATC
16989447 AATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGAAAATAGA
131 AATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGAAAATAGA
* * * * * *
16989494 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAG--AAAGCAAGTCTTATC-CCTCTGAAGTT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAA-TAA-ACCTATCTCC-CTGAAGTT
* ** * * * * * * * *
16989556 GCAGTGG-GCCAAACTGAAGTTATGAA-TCTTA-TCTCCTTGAAGCTGCATTGGAGCAGATTAAA
63 ACAGTGGAG-CGGATTAAAGTTA-CAAGTCTTATTC-CCCTGAAGTTGCAGTGGGGCAGATTGAA
** * ** ** * ** **
16989618 GCCAAT-AACCTTATCTCCCTGGAGTTGCAGCGGAGCAGGTTAAAGCCACCA-A
125 -TAAATCAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGAAAATAGA
* * ** *** *** * * ** **
16989670 TCCTATCTCACTGAAGTTGCAGTGGAGTGGATTAAATTGATGGATA-TTATCTCTTTGAAGTTGT
1 -CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATAAACCTATCTCCCTGAAGTTAC
* *** *** * * * * *
16989734 AGTAGAATAGATCGCA--T-C-AGATCTTATCCCCCGGAAGTTACAGTGGGGCAAATTGAAGT-T
65 AGTGGAGCGGATTAAAGTTACAAG-TCTTATTCCCCTGAAGTTGCAGTGGGGCAGATTGAA-TAA
* * * * * ** * *
16989794 ATAAATCCTATCTCCCTAAAGCTGCAATAGAGCGGATTAAA-ATGATGGGT
128 ATCAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGAAAAT-AGA
* * * * * * ** *
16989844 CTTATCTCCCTAAAGTTACAGTGGAGTAGACTGAA--TAAACCAACCTTATCTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATAAACC-TATCTCCCTGAAGTTAC
* * * * * * * * **
16989907 AGTGAAGCTGATTAAAGTTAAAAATCCTA-TCTCCCTGAAGTTGCAGTAGAGCGGATT-AA-AGT
65 AGTGGAGCGGATTAAAGTTACAAGTCTTATTC-CCCTGAAGTTGCAGTGGGGCAGATTGAATAAA
* * * * * *
16989969 TACAAGTCTTAT-TCCCCTGAAGTCGCAGTGGGGCAGATTGAA-TAAATCA-A
129 T-CAA-TCTTATCT-CCCTAAAGTTGCAATGGAGCAGATTAAAGAAAAT-AGA
* * * * *
16990019 TCTTATCTCCCTAAAGTTGCAGTGGAGCATATTAAAGCC-GATAATCCTATCTCCCTGAAGTTGC
1 -CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATAAACCTATCTCCCTGAAGTTAC
* ** * * *
16990083 AGTGGAGCGGATTAGAGTTACAAGTCTTA-TCTCATTGAAGTTGCAGTGGAGCAGACTGAAAAAA
65 AGTGGAGCGGATTAAAGTTACAAGTCTTATTC-CCCTGAAGTTGCAGTGGGGCAGATTGAATAAA
* * *
16990147 GCAAGTCTTATCCCCCTGAAGTTG
129 TCAA-TCTTATCTCCCTAAAGTTG
16990171 TAGTGGGGCA
Statistics
Matches: 655, Mismatches: 164, Indels: 70
0.74 0.18 0.08
Matches are distributed among these distances:
171 3 0.00
172 2 0.00
173 104 0.16
174 3 0.00
175 9 0.01
176 172 0.26
177 354 0.54
178 7 0.01
179 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (177 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATAAACCTATCTCCCTGAAGTTACA
GTGGAGCGGATTAAAGTTACAAGTCTTATTCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATC
AATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAGAAAATAGA
Found at i:16989980 original size:88 final size:88
Alignment explanation
Indices: 16989136--16990182 Score: 601
Period size: 88 Copynumber: 11.9 Consensus size: 88
16989126 AGAAGATGGC
* * * *
16989136 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAATAA-ACCTATCTCCCTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--AAACAAGTCTTATCTCCCTGAAG
* * *
16989200 TTACAGTGGAGCGGATTAAAGTTAC
64 TTGCAGTGGAGCAGATTAAAGTTAA
* * * * *
16989225 AAGTCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATCAA-TCTTATCTCCCTAAAG
1 AAATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTAAAGAAA-CAAGTCTTATCTCCCTGAAG
*
16989288 TTGCACTGGAGCAGATTAAAG--AA
64 TTGCAGTGGAGCAGATTAAAGTTAA
* ** ** *
16989311 AATAGACTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACATAAACCTATCTCCCTGAA
1 AA-A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAACA-AGTCTTATCTCCCTGAA
* * *
16989376 GTTACAGTGGAGCGGATTAAAGTTAC
63 GTTGCAGTGGAGCAGATTAAAGTTAA
* * * * *
16989402 AAGTCTTAT-TCCCCTGAAGTTGCAGTGGGGCAGATTGAATAAATCAA-TCTTATCTCCCTAAAG
1 AAATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTAAAGAAA-CAAGTCTTATCTCCCTGAAG
*
16989465 TTGCAATGGAGCAGATTAAAG--AA
64 TTGCAGTGGAGCAGATTAAAGTTAA
* * * *
16989488 AATAGACTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGAAAGCAAGTCTTATC-CCTCTGA
1 AA-A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAA-CAAGTCTTATCTCC-CTGA
* * * *
16989552 AGTTGCAGTGG-GCCAAACTGAAGTTAT
62 AGTTGCAGTGGAG-CAGATTAAAGTTAA
* * * * * * * *
16989579 GAATCTTATCTCCTTGAAGCTGCATTGGAGCAGATTAAAGCCAATAA-CCTTATCTCCCTGGAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-AAACAAGTCTTATCTCCCTGAAGT
* * ** *
16989643 TGCAGCGGAGCAGGTTAAAGCCAC
65 TGCAGTGGAGCAGATTAAAGTTAA
* * * ** *** * **
16989667 CAATCCTATCTCACTGAAGTTGCAGTGGAGTGGATTAAATTG-ATGGA-TATTATCTCTTTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--GAAACAAGTCTTATCTCCCTGAAG
* * ** *** *
16989730 TTGTAGTAGAATAGATCGCA--T-C
64 TTGCAGTGGAGCAGATTAAAGTTAA
* * * * * * * ** * * * * *
16989752 AGATCTTATCCCCCGGAAGTTACAGTGGGGCAAATTGAAGTTATAAATCCTATCTCCCTAAAGCT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAACAAGTCTTATCTCCCTGAAGTT
* * * * * *
16989817 GCAATAGAGCGGATTAAAATGAT
66 GCAGTGGAGCAGATTAAAGTTAA
*** * * * * * * *
16989840 GGGTCTTATCTCCCTAAAGTTACAGTGGAGTAGACTGAATAAACCAA-CCTTATCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAA-CAAGTCTTATCTCCCTGAAGT
* *
16989904 TGCAGTGAAGCTGATTAAAGTTAA
65 TGCAGTGGAGCAGATTAAAGTTAA
* * * **
16989928 AAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGTTACAAGTCTTAT-TCCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAACAAGTCTTATCT-CCCTGAAGT
* * *
16989992 CGCAGTGGGGCAGATTGAA--TAA
65 TGCAGTGGAGCAGATTAAAGTTAA
* * ** * *
16990014 ATCAATCTTATCTCCCTAAAGTTGCAGTGGAGCATATTAAAGCCGATAA-TCCTATCTCCCTGAA
1 A--AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-AAACAAGTCTTATCTCCCTGAA
* * *
16990078 GTTGCAGTGGAGCGGATTAGAGTTAC
63 GTTGCAGTGGAGCAGATTAAAGTTAA
* ** * *
16990104 AAGTCTTATCTCATTGAAGTTGCAGTGGAGCAGACTGAAA-AAAGCAAGTCTTATCCCCCTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGAAA-CAAGTCTTATCTCCCTGAAG
* *
16990168 TTGTAGTGGGGCAGA
64 TTGCAGTGGAGCAGA
16990183 CTGAAGATAG
Statistics
Matches: 712, Mismatches: 205, Indels: 82
0.71 0.21 0.08
Matches are distributed among these distances:
83 1 0.00
84 1 0.00
85 50 0.07
86 10 0.01
87 10 0.01
88 429 0.60
89 197 0.28
90 9 0.01
91 5 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (88 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAACAAGTCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGTTAA
Found at i:16990339 original size:89 final size:89
Alignment explanation
Indices: 16990184--16990472 Score: 312
Period size: 89 Copynumber: 3.3 Consensus size: 89
16990174 TGGGGCAGAC
* * * * * *
16990184 TGAAGATAGCAGATCTTATCTTCTTGTATTGACAGCGAAGTAGATCGAAGACACCAACCTTCCCT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAAATCGAAGACACCAGCCTTACCT
* *
16990249 CCCAGAGTTTGCTGTGGAGTAGAT
66 CCCTGAGTTTGCAGTGGAGTAGAT
* * * *
16990273 TGAAGGTAACAGATCTTGTCTTCCTATATTGGCAGCAAAGTAAATCGAAGACACCAGCCTTACCT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAAATCGAAGACACCAGCCTTACCT
* * *
16990338 CCCTGAG-TTGCAGCGGAGCAGAC
66 CCCTGAGTTTGCAGTGGAGTAGAT
* * * ** * * *
16990361 TAAAAATAGCAGATCTTGTCTTCCTGTACTGGCAATGAAGCAAATCGAAAACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAAATCGAAGACACCAGCCTTACCT
* * *
16990426 CTCTCAGTTTGCAGTGGAGTAGGT
66 CCCTGAGTTTGCAGTGGAGTAGAT
* *
16990450 TGAAGATTGTAGATCTTGT-TTCC
1 TGAAGATAGCAGATCTTGTCTTCC
16990473 CTAAGCAGTA
Statistics
Matches: 162, Mismatches: 37, Indels: 3
0.80 0.18 0.01
Matches are distributed among these distances:
88 74 0.46
89 88 0.54
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAAATCGAAGACACCAGCCTTACCT
CCCTGAGTTTGCAGTGGAGTAGAT
Found at i:16990606 original size:132 final size:131
Alignment explanation
Indices: 16990436--16990843 Score: 508
Period size: 132 Copynumber: 3.1 Consensus size: 131
16990426 CTCTCAGTTT
* *
16990436 GCAGTGGAGTAGGTTGAAGATTGTAGATCTTGTTTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * * *
16990501 GATGAATCTTATCTTTCCAAGGTAGTAGGGAAGTAGATTTAAGCCACTAGTCCTATCTCCCTAAG
66 GACGAATCTTATC-TTCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCACTAAG
16990566 TA
130 TA
*
16990568 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * *
16990633 GACGAATCTTATCCTCCCGAGATAGTA-GGAAGCAGATTTAAGCCACCAGTCCTATCTCTCTGAG
66 GACGAATCTTAT-CTTCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCACTAAG
*
16990697 CA
130 TA
** * *
16990699 GTTGTGGAGTAGGTT---GA----AGATCCTGTCTCCCTAAGCAGTAGTGAAGCAGATCAAAGGC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * *
16990757 GACGAGTCTTATCTTCCTGAGGTAGTAGGGAAACAGATTTAAGCCACCAGTCTTTATCTCATTGA
66 GACGAATCTTATCTTCC-GAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTC-CTATCTCACT-A
*
16990822 AGTT
128 AGTA
*
16990826 GCAGTGGAGCAGGTTGAA
1 GCAGTGGAGTAGGTTGAA
16990844 ATTACCAATT
Statistics
Matches: 238, Mismatches: 30, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
123 4 0.02
124 57 0.24
125 23 0.10
126 7 0.03
127 14 0.06
128 2 0.01
131 47 0.20
132 83 0.35
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (131 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
GACGAATCTTATCTTCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCACTAAGT
A
Found at i:16990826 original size:124 final size:123
Alignment explanation
Indices: 16990459--16990826 Score: 411
Period size: 124 Copynumber: 2.9 Consensus size: 123
16990449 TTGAAGATTG
* * * *
16990459 TAGATCTTGTTTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGATGAATCTTATCTTTCCAAGGT
1 TAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATC-TTCCGAGGT
* * * *
16990524 AGTAGGGAAGTAGATTTAAGCCACTAGTCCTATCTCCCT-AAGTAGCAGTGGAGTAGGTTGAAGA
65 AGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCT-CTTGAAGT---TGTGGAGTAGGTT--AGA
* *
16990588 TTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCCTCCCGA
1 ---TAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTAT-CTTCCGA
*
16990653 GATAGTA-GGAAGCAGATTTAAGCCACCAGTCCTATCTCTCTGAGCAGTTGTGGAGTAGGTT-GA
62 GGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCT-TGA--AGTTGTGGAGTAGGTTAGA
* * *
16990716 -AGATCCTGTCTCCCTAAGCAGTAGTGAAGCAGATCAAAGGCGACGAGTCTTATCTTCCTGAGGT
1 TAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCC-GAGGT
* *
16990780 AGTAGGGAAACAGATTTAAGCCACCAGTCTTTATCTCATTGAAGTTG
65 AGTAGGGAAGCAGATTTAAGCCACCAGTC-CTATCTC-TTGAAGTTG
16990827 CAGTGGAGCA
Statistics
Matches: 208, Mismatches: 19, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
123 4 0.02
124 62 0.30
125 23 0.11
126 9 0.04
127 1 0.00
128 2 0.01
130 1 0.00
131 41 0.20
132 61 0.29
133 1 0.00
134 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (123 bp):
TAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCGAGGTA
GTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTCTTGAAGTTGTGGAGTAGGTTAGA
Found at i:16997487 original size:22 final size:22
Alignment explanation
Indices: 16997459--16997554 Score: 102
Period size: 22 Copynumber: 4.4 Consensus size: 22
16997449 ACACCACACT
*
16997459 AGAGAGCACTGTAGTGCTAAAA
1 AGAGAGCACTGAAGTGCTAAAA
*
16997481 AGAGAGCACTGAAGTGCTAAAT
1 AGAGAGCACTGAAGTGCTAAAA
* * * *
16997503 AGAGAGTACCGAAGTGCTGAAC
1 AGAGAGCACTGAAGTGCTAAAA
** * *
16997525 AGAGAGCACAAAAGTGCTGAAT
1 AGAGAGCACTGAAGTGCTAAAA
16997547 AGAGAGCA
1 AGAGAGCA
16997555 TAAAAGTTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.42, C:0.15, G:0.29, T:0.15
Consensus pattern (22 bp):
AGAGAGCACTGAAGTGCTAAAA
Found at i:17020411 original size:41 final size:40
Alignment explanation
Indices: 17020324--17020430 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 40
17020314 TTAATATGAA
* * * * **
17020324 ACACCAGCAATAAGCCTACTAGGCGTAAAGCCTGTTATGGT
1 ACACCGGC-ATAAGCCTGCTAGGCATAAAGCCTGATATAAT
17020365 ACACCGGCATTAAGCCTGCTAGGCATAAAGCCTGATATAAT
1 ACACCGGCA-TAAGCCTGCTAGGCATAAAGCCTGATATAAT
* *
17020406 TCACCGGCATAAGGCCTGCCAGGCA
1 ACACCGGCATAA-GCCTGCTAGGCA
17020431 GAATGCCCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 4 0.07
41 52 0.93
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (40 bp):
ACACCGGCATAAGCCTGCTAGGCATAAAGCCTGATATAAT
Found at i:17028341 original size:41 final size:40
Alignment explanation
Indices: 17028251--17028362 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 40
17028241 TTAATATGAA
* **
17028251 ACACCGGCAATAAGCCTGCTAGGCGGAAAGCCTGTTATGGT
1 ACACCGGC-ATAAGCCTGCTAGGCGGAAAGCCTGATATAAT
* * *
17028292 ACATCGGCATTAAGCTTGCTAGGCGTAAAGCCTGATATAAT
1 ACACCGGCA-TAAGCCTGCTAGGCGGAAAGCCTGATATAAT
* *
17028333 TCACCGGCATAATGCCTGCTAGGCAGAAAG
1 ACACCGGCATAA-GCCTGCTAGGCGGAAAG
17028363 TGCGATTATC
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
40 4 0.07
41 54 0.93
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.21
Consensus pattern (40 bp):
ACACCGGCATAAGCCTGCTAGGCGGAAAGCCTGATATAAT
Found at i:17037282 original size:31 final size:32
Alignment explanation
Indices: 17037237--17037299 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 32
17037227 AGATAATTTT
17037237 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
*
17037269 AAAGAG-TTTTATTAGGGTTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
17037300 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (32 bp):
AAAGAGTTTTTATTAGGATTCAATTACTCTTG
Found at i:17040394 original size:24 final size:24
Alignment explanation
Indices: 17040357--17040402 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17040347 ATTTGGTAAC
* *
17040357 AAATTTTGACTAAAATTAAATATT
1 AAATTTTAACTAAAATAAAATATT
*
17040381 AAATTTTAATTAAAATAAAATA
1 AAATTTTAACTAAAATAAAATA
17040403 ATAATAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
AAATTTTAACTAAAATAAAATATT
Found at i:17052470 original size:9 final size:9
Alignment explanation
Indices: 17052452--17052488 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
17052442 TGTTTATTTG
*
17052452 ACCAAGTTA
1 ACCAAATTA
17052461 ACCAAATTA
1 ACCAAATTA
*
17052470 ACTAAATTA
1 ACCAAATTA
17052479 ACCAAATTA
1 ACCAAATTA
17052488 A
1 A
17052489 AACTACATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.54, C:0.19, G:0.03, T:0.24
Consensus pattern (9 bp):
ACCAAATTA
Found at i:17059808 original size:18 final size:17
Alignment explanation
Indices: 17059785--17059888 Score: 73
Period size: 18 Copynumber: 5.6 Consensus size: 17
17059775 CCAAACTCAC
17059785 TTTCTTTTTCAATTTTCT
1 TTTCTTTTTCAATTTT-T
* *
17059803 TTTCTTTCTCACATTCTT
1 TTTCTTTTTCA-ATTTTT
** *
17059821 TTTCGCTCTCAATCTCTTT
1 TTTCTTTTTCAAT-T-TTT
**
17059840 TTTCTTTCTTTCGTTCTTTT
1 TTTC-TT-TTTCAAT-TTTT
17059860 TTTCTTTTTCAATTTCTT
1 TTTCTTTTTCAATTT-TT
17059878 TTTCTTTTTCA
1 TTTCTTTTTCA
17059889 CATGCTTTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
17 4 0.06
18 39 0.57
19 12 0.18
20 7 0.10
21 6 0.09
ACGTcount: A:0.09, C:0.22, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTCTTTTTCAATTTTT
Found at i:17059896 original size:18 final size:18
Alignment explanation
Indices: 17059858--17059899 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
17059848 TTTCGTTCTT
*
17059858 TTTTTCTTTTTCAATTTC
1 TTTTTCTTTTTCAATTGC
17059876 TTTTTCTTTTTCACA-TGC
1 TTTTTCTTTTTCA-ATTGC
17059894 TTTTTC
1 TTTTTC
17059900 GATTTCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.10, C:0.19, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTCTTTTTCAATTGC
Found at i:17073270 original size:15 final size:15
Alignment explanation
Indices: 17073250--17073281 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17073240 TTTGTGAATT
17073250 ATTAGTACTTTTACA
1 ATTAGTACTTTTACA
17073265 ATTAGTACTTTTACA
1 ATTAGTACTTTTACA
17073280 AT
1 AT
17073282 ATTTACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (15 bp):
ATTAGTACTTTTACA
Found at i:17078944 original size:26 final size:26
Alignment explanation
Indices: 17078915--17078966 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17078905 TTTCTCATCC
17078915 CAATTTTAACCA-AGTAAAACTTTTGA
1 CAATTTTAACCACAGTAAAA-TTTTGA
* *
17078941 CAATTTTACCCACGGTAAAATTTTGA
1 CAATTTTAACCACAGTAAAATTTTGA
17078967 GAAAATTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (26 bp):
CAATTTTAACCACAGTAAAATTTTGA
Found at i:17082442 original size:50 final size:50
Alignment explanation
Indices: 17082213--17082442 Score: 289
Period size: 50 Copynumber: 4.6 Consensus size: 50
17082203 CAATTTCATA
* * ** * * * *
17082213 TCCCAGAAACGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
* ** * *
17082263 TCCCTGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
* * *
17082313 CCCCAAACATGGTCTTACATGGGGCCTCTTATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
* * *
17082363 TCCCAGACACGGTCTTACATGGGACCTCTTATCTCGATGCCAACACCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
17082413 TCCCAGACATGGTCTTACATGGGACCTCTT
1 TCCCAGACATGGTCTTACATGGGACCTCTT
17082443 TACCCAAATG
Statistics
Matches: 156, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 156 1.00
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
Found at i:17082813 original size:30 final size:30
Alignment explanation
Indices: 17082779--17082835 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17082769 CCTCGACTCT
17082779 AACTTTGACAAAATTACAATTTTTCCCTTA
1 AACTTTGACAAAATTACAATTTTTCCCTTA
* * *
17082809 AACTTTTACATAATTACACTTTTTCCC
1 AACTTTGACAAAATTACAATTTTTCCC
17082836 CAAAGCTTGG
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:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTTCCCTTA
Found at i:17082898 original size:19 final size:19
Alignment explanation
Indices: 17082874--17082915 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
17082864 TATTCATATG
*
17082874 TTTTATGACATGTTGAACA
1 TTTTATGACATGCTGAACA
17082893 TTTTATGACATGCTGAACA
1 TTTTATGACATGCTGAACA
17082912 TTTT
1 TTTT
17082916 TCCCTTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (19 bp):
TTTTATGACATGCTGAACA
Found at i:17097773 original size:64 final size:64
Alignment explanation
Indices: 17097672--17097864 Score: 386
Period size: 64 Copynumber: 3.0 Consensus size: 64
17097662 TCAAAATATG
17097672 ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTATAGTTATCTT
1 ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTATAGTTATCTT
17097736 ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTATAGTTATCTT
1 ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTATAGTTATCTT
17097800 ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTATAGTTATCTT
1 ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTATAGTTATCTT
17097864 A
1 A
17097865 AAATGTAAAA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 129 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (64 bp):
ATTGAAATAGCTCAATATGTAACTTGAACATTTAAATAGATATTAAAGAAATTATAGTTATCTT
Found at i:17100426 original size:20 final size:21
Alignment explanation
Indices: 17100392--17100435 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
17100382 NNNNNACAAT
* *
17100392 TTTTTATATATATTTTTACTA
1 TTTTTATATAAATTTTTAATA
17100413 TTTTTA-ATAAATTTTTAATA
1 TTTTTATATAAATTTTTAATA
17100433 TTT
1 TTT
17100436 GAATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTATATAAATTTTTAATA
Found at i:17100650 original size:88 final size:89
Alignment explanation
Indices: 17100514--17100694 Score: 249
Period size: 88 Copynumber: 2.0 Consensus size: 89
17100504 AATTTTTAAT
* * *
17100514 AAAAGCAGGGGCTTAATTGCTTTTTTTTTTAAAGTTTGAAGGTCTTTTTGATGCATTTTGAAAGT
1 AAAAGCAGGGGCTTAATTGCTTTTTTTTTTAAAGTTTGAAGGTCTTTTTGATACATTTTAAAAGC
* *
17100579 TCAAGTACCCAATTGAGTATAAAA
66 TCAAGTACCCAAATGAGTACAAAA
* * * *
17100603 AAAAGTAGGTGCTTAATTG-TTTTTTTTTTAAGGTTTG-AGGGCTTTTTTGATACATTTTAAAAG
1 AAAAGCAGGGGCTTAATTGCTTTTTTTTTTAAAGTTTGAAGGTC-TTTTTGATACATTTTAAAAG
*
17100666 CTCAAGTACCCAAATGAGTGCAAAA
65 CTCAAGTACCCAAATGAGTACAAAA
17100691 AAAA
1 AAAA
17100695 AAGAACTTAA
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
87 4 0.05
88 60 0.74
89 17 0.21
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (89 bp):
AAAAGCAGGGGCTTAATTGCTTTTTTTTTTAAAGTTTGAAGGTCTTTTTGATACATTTTAAAAGC
TCAAGTACCCAAATGAGTACAAAA
Found at i:17100715 original size:88 final size:87
Alignment explanation
Indices: 17100525--17100722 Score: 238
Period size: 88 Copynumber: 2.2 Consensus size: 87
17100515 AAAGCAGGGG
* * * *
17100525 CTTAATTGCTTTTTTTTTTAAAGTTTGAAGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
1 CTTAATTG-TTTTTTTTTTAAGGTTTGAAGGTCTTTTTGATACATTTTAAAAGCTCAAGTACCCA
* * * **
17100590 ATTGAGTATAAAAAAAAGTAGGTG
65 AATGAGTACAAAAAAAAG-AAGAA
*
17100614 CTTAATTGTTTTTTTTTTAAGGTTTG-AGGGCTTTTTTGATACATTTTAAAAGCTCAAGTACCCA
1 CTTAATTGTTTTTTTTTTAAGGTTTGAAGGTC-TTTTTGATACATTTTAAAAGCTCAAGTACCCA
*
17100678 AATGAGTGCAAAAAAAA-AAGAA
65 AATGAGTACAAAAAAAAGAAGAA
17100700 CTTAATTAGTGTTTTTTTTTAAG
1 CTTAATT-GT-TTTTTTTTTAAG
17100723 TTTAAGAGTT
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
86 9 0.09
87 6 0.06
88 72 0.76
89 8 0.08
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (87 bp):
CTTAATTGTTTTTTTTTTAAGGTTTGAAGGTCTTTTTGATACATTTTAAAAGCTCAAGTACCCAA
ATGAGTACAAAAAAAAGAAGAA
Found at i:17105845 original size:17 final size:18
Alignment explanation
Indices: 17105805--17105863 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 18
17105795 AATTATGAAA
* *
17105805 ATTATTATATTTGTAATT
1 ATTATTTTAATTGTAATT
17105823 ATTA-TTTAATTGT-ATT
1 ATTATTTTAATTGTAATT
17105839 ATATATTTTAA-T-TAA-T
1 AT-TATTTTAATTGTAATT
17105855 ATTATTTTA
1 ATTATTTTA
17105864 TTATTAAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 7 0.19
16 9 0.25
17 11 0.31
18 9 0.25
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTTAATTGTAATT
Found at i:17110695 original size:50 final size:50
Alignment explanation
Indices: 17110636--17110917 Score: 351
Period size: 50 Copynumber: 5.7 Consensus size: 50
17110626 GGCAATGAGT
* * *
17110636 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
* **
17110686 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATGGACAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
* * * *
17110736 GAG-TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCTC-G--AGATGA
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
* * * *
17110783 GTGCCATTGTAAGACCATGTCTGGGACATGACATCGGCACAGACCGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
*
17110833 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGACAGAGGAAA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGG--A
*
17110885 GT-C-AGTGTAAAACCATGTCTGGGACATGGCATC
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATC
17110918 TGTAACACCC
Statistics
Matches: 198, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
47 38 0.19
48 1 0.01
49 2 0.01
50 153 0.77
51 1 0.01
52 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (50 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACAGAGGA
Found at i:17110832 original size:97 final size:98
Alignment explanation
Indices: 17110640--17110917 Score: 353
Period size: 97 Copynumber: 2.8 Consensus size: 98
17110630 ATGAGTGTGC
*
17110640 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGATGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-CGATGAGTGCCAGTGTAAGACCATG
* **
17110705 TCTGGGACATGGCATCGACATGGACAGAGGAGAG
65 TCTGGGACATGACATCGACACAGACAGAGGAGAG
* * *
17110739 TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCTC-GA-GATGAGTGCCATTGTAAGACCATG
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGATGAGTGCCAGTGTAAGACCATG
* * *
17110802 TCTGGGACATGACATCGGCACAGACCGAGGAGTG
65 TCTGGGACATGACATCGACACAGACAGAGGAGAG
* * ** * *
17110836 CTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACAGACAGAGGAAAGTCAGTGTAAAACCAT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC-GATGAGTGCCAGTGTAAGACCAT
*
17110901 GTCTGGGACATGGCATC
64 GTCTGGGACATGACATC
17110918 TGTAACACCC
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
96 1 0.01
97 82 0.53
98 2 0.01
99 2 0.01
100 67 0.44
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (98 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACGATGAGTGCCAGTGTAAGACCATGT
CTGGGACATGACATCGACACAGACAGAGGAGAG
Found at i:17110908 original size:147 final size:147
Alignment explanation
Indices: 17110636--17110917 Score: 474
Period size: 147 Copynumber: 1.9 Consensus size: 147
17110626 GGCAATGAGT
* *
17110636 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACCGATGAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCACAGACCGAGGAGTGCTAGTGTAAGAC
** * * *
17110701 CATGTCTGGGACATGGCATCGACATGGACAGAGGAGAGTCAGTGTAAGACCATGTTTGGGACATG
66 CATGTCTGGGACATGGCATCGACACAGACAGAGGAAAGTCAGTGTAAAACCATGTCTGGGACATG
17110766 GCATCGGCTCGAGATGA
131 GCATCGGCTCGAGATGA
*
17110783 GTGCCATTGTAAGACCATGTCTGGGACATGACATCGGCACAGACCGAGGAGTGCTAGTGTAAGAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCACAGACCGAGGAGTGCTAGTGTAAGAC
* *
17110848 CATGTCTGGGACATGGCATTGGCACAGACAGAGGAAAGTCAGTGTAAAACCATGTCTGGGACATG
66 CATGTCTGGGACATGGCATCGACACAGACAGAGGAAAGTCAGTGTAAAACCATGTCTGGGACATG
17110913 GCATC
131 GCATC
17110918 TGTAACACCC
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 125 1.00
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (147 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCACAGACCGAGGAGTGCTAGTGTAAGAC
CATGTCTGGGACATGGCATCGACACAGACAGAGGAAAGTCAGTGTAAAACCATGTCTGGGACATG
GCATCGGCTCGAGATGA
Found at i:17111620 original size:46 final size:46
Alignment explanation
Indices: 17111516--17112660 Score: 1965
Period size: 46 Copynumber: 25.6 Consensus size: 46
17111506 ACGTATGATT
* * * * *
17111516 ACTTATCAC-TTGTC-CCTAATCAGATAAGTATAGCT-AGGCTATC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17111559 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17111605 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17111651 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17111697 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17111743 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17111789 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17111835 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17111881 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17111927 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17111973 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112019 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112065 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112111 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112157 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112203 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112249 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112295 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112341 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112387 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112433 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
17112479 AC-T-T-A-----TCACTTGATCAGATAAGTGTAG-T---------
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
*
17112507 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
*
17112553 ACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----C
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
* * *
17112589 ACTTATCACTTTGTCACTTAATCAGATAACTGTAGCTAAAGCTACC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
* *
17112635 ACTTATCACTTTATCTCTTGATCAGA
1 ACTTATCACTTTGTCACTTGATCAGA
17112661 AGTACTCAAA
Statistics
Matches: 1060, Mismatches: 11, Indels: 59
0.94 0.01 0.05
Matches are distributed among these distances:
28 2 0.00
29 1 0.00
30 1 0.00
31 1 0.00
36 50 0.05
37 2 0.00
38 24 0.02
39 1 0.00
40 3 0.00
42 3 0.00
43 11 0.01
44 8 0.01
45 19 0.02
46 934 0.88
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (46 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAAC
Found at i:17112584 original size:82 final size:81
Alignment explanation
Indices: 17112432--17112660 Score: 355
Period size: 82 Copynumber: 2.9 Consensus size: 81
17112422 CTAAAGCTAA
*
17112432 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCA-------CTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTTCTCTT
17112490 GATCAGATAAGTGTAG
66 GATCAGATAAGTGTAG
*
17112506 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT-TCTCT
17112571 TGATCAGATAAGTGTAG
65 TGATCAGATAAGTGTAG
* *
17112588 CACTTATCACTTTGTCACTTAATCAGATAACTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT-TCTCT
17112653 TGATCAGA
65 TGATCAGA
17112661 AGTACTCAAA
Statistics
Matches: 141, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
74 53 0.38
82 88 0.62
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (81 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTTCTCTT
GATCAGATAAGTGTAG
Found at i:17114328 original size:50 final size:50
Alignment explanation
Indices: 17114272--17114413 Score: 198
Period size: 50 Copynumber: 2.8 Consensus size: 50
17114262 CATCAGCTCG
17114272 AGATGAGTTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGACC
1 AGATGAGTTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGA-C
* * * *
17114323 A-ATGAGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCTGCACGGAC
1 AGATGAGTTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC
* *
17114372 AGAGGAGAGTC-AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGATGAG-TTCTAGTGTAAGACCATGTCTGGGACATGGCATCG
17114414 ACACCTATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
49 2 0.03
50 76 0.95
51 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (50 bp):
AGATGAGTTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAC
Found at i:17119703 original size:35 final size:35
Alignment explanation
Indices: 17119644--17119760 Score: 155
Period size: 35 Copynumber: 3.3 Consensus size: 35
17119634 AATCCCTCCA
* *
17119644 AAACACACCAAATGCTCACAAGAGCTAGTCCAACAG
1 AAACACGCC-AATGCTCATAAGAGCTAGTCCAACAG
* * *
17119680 AAACACGCCAATACTCATAAGAGCTAGTACAACTG
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACAG
*
17119715 AAACACGCCAGTGCTCATAAGAGCTAGTCCAACCA-
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAA-CAG
17119750 AAACACGCCAA
1 AAACACGCCAA
17119761 ACAGAGAGTA
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
35 61 0.87
36 9 0.13
ACGTcount: A:0.43, C:0.30, G:0.15, T:0.13
Consensus pattern (35 bp):
AAACACGCCAATGCTCATAAGAGCTAGTCCAACAG
Found at i:17122427 original size:24 final size:23
Alignment explanation
Indices: 17122396--17122442 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
17122386 TATTCACACA
17122396 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTACCTTAATTT-AAATGT
*
17122419 TATTACTTACCTTACTTTAAATGT
1 TATT-CTTACCTTAATTTAAATGT
17122443 CCCATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGT
Found at i:17122716 original size:22 final size:24
Alignment explanation
Indices: 17122674--17122717 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
17122664 TAACTAAGCT
17122674 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
17122698 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
17122718 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:17123111 original size:17 final size:18
Alignment explanation
Indices: 17123089--17123123 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17123079 NNNNTAATTA
*
17123089 ATATAATATAAT-ATATT
1 ATATAATAAAATAATATT
17123106 ATATAATAAAATAATATT
1 ATATAATAAAATAATATT
17123124 TGTAAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATAAAATAATATT
Found at i:17128869 original size:45 final size:44
Alignment explanation
Indices: 17128769--17128878 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
17128759 TTTTCCATTA
17128769 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
17128808 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
17128853 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
17128879 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:17128878 original size:16 final size:16
Alignment explanation
Indices: 17128859--17128910 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
17128849 GATTTGCTAT
* *
17128859 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
17128875 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17128891 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
17128907 TACA
1 TACA
17128911 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:17128983 original size:20 final size:20
Alignment explanation
Indices: 17128958--17128997 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17128948 CATTGTACTT
17128958 CGTAGTCACTTCTATGTGTG
1 CGTAGTCACTTCTATGTGTG
17128978 CGTAGTCACTTCTATGTGTG
1 CGTAGTCACTTCTATGTGTG
17128998 GTATGGACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (20 bp):
CGTAGTCACTTCTATGTGTG
Found at i:17129476 original size:17 final size:17
Alignment explanation
Indices: 17129454--17129490 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
17129444 CCTAAAAGAC
17129454 ATAGTTTTTAGACATCA
1 ATAGTTTTTAGACATCA
17129471 ATAGTTTTTAGACATCA
1 ATAGTTTTTAGACATCA
17129488 ATA
1 ATA
17129491 AAATGTGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (17 bp):
ATAGTTTTTAGACATCA
Found at i:17129753 original size:170 final size:170
Alignment explanation
Indices: 17129471--17129813 Score: 670
Period size: 170 Copynumber: 2.0 Consensus size: 170
17129461 TTAGACATCA
17129471 ATAGTTTTTAGACATCAATAAAATGTGCTACGTCATTAAAATTTAAAGATAACAAAGTATTCTTA
1 ATAGTTTTTAGACATCAATAAAATGTGCTACGTCATTAAAATTTAAAGATAACAAAGTATTCTTA
17129536 TACACTCATCTATATCTAATATCTTCTCCAACTTAATTTAACTTTAATTAAATTACTT-AAAATA
66 TACACTCATCTATATCTAATATCTTCTCCAACTTAATTTAACTTTAATTAAATTACTTAAAAATA
17129600 ATTAATTTTTTAAATTATAAACAAACATATTTTCTTCTTTT
131 ATT-ATTTTTTAAATTATAAACAAACATATTTTCTTCTTTT
17129641 ATAGTTTTTAGACATCAATAAAATGTGCTACGTCATTAAAATTTAAAGATAACAAAGTATTCTTA
1 ATAGTTTTTAGACATCAATAAAATGTGCTACGTCATTAAAATTTAAAGATAACAAAGTATTCTTA
17129706 TACACTCATCTATATCTAATATCTTCTCCAACTTAATTTAACTTTAATTAAATTACTTAAAAATA
66 TACACTCATCTATATCTAATATCTTCTCCAACTTAATTTAACTTTAATTAAATTACTTAAAAATA
17129771 ATTATTTTTTAAATTATAAACAAACATATTTTCTTCTTTT
131 ATTATTTTTTAAATTATAAACAAACATATTTTCTTCTTTT
17129811 ATA
1 ATA
17129814 AATTTTAATC
Statistics
Matches: 172, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
170 163 0.95
171 9 0.05
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (170 bp):
ATAGTTTTTAGACATCAATAAAATGTGCTACGTCATTAAAATTTAAAGATAACAAAGTATTCTTA
TACACTCATCTATATCTAATATCTTCTCCAACTTAATTTAACTTTAATTAAATTACTTAAAAATA
ATTATTTTTTAAATTATAAACAAACATATTTTCTTCTTTT
Found at i:17143881 original size:30 final size:30
Alignment explanation
Indices: 17143845--17143902 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17143835 CTGGGCATTT
* *
17143845 CCACACGGGCTGGCCACAAGCCCGTGTGAG
1 CCACACGAGCTGGCCACAAGCCCATGTGAG
* *
17143875 CCACACGAGTTGGCCACATGCCCATGTG
1 CCACACGAGCTGGCCACAAGCCCATGTG
17143903 CCAACCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.14
Consensus pattern (30 bp):
CCACACGAGCTGGCCACAAGCCCATGTGAG
Found at i:17148860 original size:45 final size:47
Alignment explanation
Indices: 17148763--17148866 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 47
17148753 GTTTGCCTAG
* *
17148763 TTTA-TTTTATTTATTTATTTATTTCTTATCTATTATTATTAGTTAT
1 TTTATTTTTCTTTATTTATTTATTTCTTATCTATTATTATTAGTCAT
* * *
17148809 ATTATTTTTCTTTATTT-TTTATTTTTTAT-TATTGTTATTAGTCAT
1 TTTATTTTTCTTTATTTATTTATTTCTTATCTATTATTATTAGTCAT
17148854 TTTATTTTTCTTT
1 TTTATTTTTCTTT
17148867 TCTGGTTATA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
45 26 0.51
46 14 0.27
47 11 0.22
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (47 bp):
TTTATTTTTCTTTATTTATTTATTTCTTATCTATTATTATTAGTCAT
Found at i:17150611 original size:6 final size:6
Alignment explanation
Indices: 17150590--17150632 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
17150580 AGTCTATTTG
* *
17150590 TTTTA- TTTTA- TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
17150633 CTTAGACTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
5 10 0.30
6 23 0.70
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:17150624 original size:18 final size:17
Alignment explanation
Indices: 17150590--17150632 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
17150580 AGTCTATTTG
17150590 TTTTA-TTTTATTTTAT
1 TTTTATTTTTATTTTAT
17150606 TTTTATTTTTATGTTTAT
1 TTTTATTTTTAT-TTTAT
*
17150624 TGTTATTTT
1 TTTTATTTT
17150633 CTTAGACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.21
17 6 0.25
18 13 0.54
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTATTTTAT
Found at i:17172160 original size:20 final size:19
Alignment explanation
Indices: 17172131--17172171 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
17172121 GTGTCTTGAT
17172131 GGTGTGGTGCGA-TAGGCAA
1 GGTGTGGTGCGAGTA-GCAA
17172150 GGTGTTGGTGCGAGTAGCAA
1 GGTG-TGGTGCGAGTAGCAA
17172170 GG
1 GG
17172172 GACAGTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.20, C:0.10, G:0.49, T:0.22
Consensus pattern (19 bp):
GGTGTGGTGCGAGTAGCAA
Found at i:17173210 original size:48 final size:48
Alignment explanation
Indices: 17173139--17173235 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
17173129 GTTTGACATC
*
17173139 TCCATTTGGGTAAACTTGGTGAATTGTAAATGGACTAAACCAACGTGA
1 TCCATATGGGTAAACTTGGTGAATTGTAAATGGACTAAACCAACGTGA
*
17173187 TCCATATGGGTAAACTTGGTGAATTGTAAATGGACTGAACCAACGTGA
1 TCCATATGGGTAAACTTGGTGAATTGTAAATGGACTAAACCAACGTGA
17173235 T
1 T
17173236 TTTAACTTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (48 bp):
TCCATATGGGTAAACTTGGTGAATTGTAAATGGACTAAACCAACGTGA
Found at i:17180189 original size:21 final size:22
Alignment explanation
Indices: 17180165--17180210 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
17180155 TTATTCAACA
* *
17180165 TAAATTAAATTGGATTA-AAAT
1 TAAAATAAATTAGATTATAAAT
*
17180186 TAAAATAAATTATATTATAAAT
1 TAAAATAAATTAGATTATAAAT
17180208 TAA
1 TAA
17180211 TACACATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAAATAAATTAGATTATAAAT
Found at i:17185551 original size:22 final size:20
Alignment explanation
Indices: 17185521--17185560 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17185511 AATGATATCA
17185521 CGACCTTGGAAGCTCAATGTTG
1 CGACCTTGG--GCTCAATGTTG
*
17185543 CGACTTTGGGCTCAATGT
1 CGACCTTGGGCTCAATGT
17185561 CGTGACATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.30
Consensus pattern (20 bp):
CGACCTTGGGCTCAATGTTG
Found at i:17189762 original size:14 final size:14
Alignment explanation
Indices: 17189745--17189773 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17189735 AAATTTGAGT
17189745 AAAAAAATGATGTA
1 AAAAAAATGATGTA
17189759 AAAAAAATGATGTA
1 AAAAAAATGATGTA
17189773 A
1 A
17189774 TGTGATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.21
Consensus pattern (14 bp):
AAAAAAATGATGTA
Found at i:17190085 original size:22 final size:22
Alignment explanation
Indices: 17190059--17190115 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
17190049 GAAAATAAAG
17190059 AAAAATAATAATTATACATACAT
1 AAAAA-AATAATTATACATACAT
17190082 AAAAAAATAATTATACATACAT
1 AAAAAAATAATTATACATACAT
*
17190104 ATATAAAATAAT
1 A-AAAAAATAAT
17190116 AAAAAATAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAAAATAATTATACATACAT
Found at i:17190101 original size:26 final size:25
Alignment explanation
Indices: 17190059--17190117 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
17190049 GAAAATAAAG
*
17190059 AAAAATAATAATTATACATACATAA
1 AAAAATAATAATCATACATACATAA
* *
17190084 AAAAATAATTATACATACATATATAA
1 AAAAATAATAAT-CATACATACATAA
*
17190110 AATAATAA
1 AAAAATAA
17190118 AAAATAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 11 0.38
26 18 0.62
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (25 bp):
AAAAATAATAATCATACATACATAA
Found at i:17190433 original size:19 final size:19
Alignment explanation
Indices: 17190411--17190448 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17190401 ACTAATTAAA
*
17190411 ATATCTAGGATTGCATATC
1 ATATCTAAGATTGCATATC
17190430 ATATCTAAGATTGCATATC
1 ATATCTAAGATTGCATATC
17190449 CTCAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (19 bp):
ATATCTAAGATTGCATATC
Found at i:17190838 original size:44 final size:44
Alignment explanation
Indices: 17190783--17190977 Score: 114
Period size: 44 Copynumber: 4.4 Consensus size: 44
17190773 AAAATCCACC
* *
17190783 ATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTACTCAGGGAGATAAGATCTGAA
* ** *
17190827 ATCTTCAATCTATTCCACTGTTACCCAGGGA-AGT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTACTCAGGGAGA-TAAG-A-T-CTGAA
* * * * * * **
17190871 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT-A-CTCAGGGAGATAAGATCTGAA
* * * * *
17190915 ATCTCCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTACTCAGGGAGATAAGATCTGAA
*
17190959 ATCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
17190978 GTTATCCAGG
Statistics
Matches: 108, Mismatches: 31, Indels: 24
0.66 0.19 0.15
Matches are distributed among these distances:
42 3 0.03
43 20 0.19
44 65 0.60
45 16 0.15
46 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTACTCAGGGAGATAAGATCTGAA
Found at i:17190917 original size:132 final size:132
Alignment explanation
Indices: 17190657--17191182 Score: 761
Period size: 132 Copynumber: 4.0 Consensus size: 132
17190647 TAGTTCTTCA
* * * * * *
17190657 ATCTATTCCACTACAACTGCAGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGA-C
1 ATCTACTCCACTACTACT-TAGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTG-TTATC
* * * * * * *
17190720 TAGGG-AGATAGGATTACTGACTTTAATGTACTCCACTGTAACCACAGTGAGGTAAAATCCACCA
63 CAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCA
*
17190784 TCTTCG
127 TCTCCG
*
17190790 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTACCCAG
1 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTATCCAG
17190855 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTC
66 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTC
17190920 CG
131 CG
* *
17190922 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTATCCAG
1 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTATCCAG
*
17190987 GAAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTC
66 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTC
17191052 CG
131 CG
* * * * *
17191054 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCGATCTATTCCACTGTTGTCCAA
1 ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTATCCAG
* * *
17191119 GGAAGTAGAACTACTGGCTACAATGTACTCCACTATAACCATAGGGAGGTAAAATCCGCCATCT
66 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCT
17191183 NNNNNNNNNN
Statistics
Matches: 365, Mismatches: 25, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
131 2 0.01
132 342 0.94
133 21 0.06
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (132 bp):
ATCTACTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTATCCAG
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTC
CG
Found at i:17199748 original size:23 final size:22
Alignment explanation
Indices: 17199705--17199762 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
17199695 AAAGGGTATC
* *
17199705 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
17199726 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
17199749 TACATATCATATCT
1 TACAAATCATATCT
17199763 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:17199765 original size:19 final size:19
Alignment explanation
Indices: 17199718--17199834 Score: 126
Period size: 19 Copynumber: 5.8 Consensus size: 19
17199708 AAATTAAATC
*
17199718 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
17199738 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
17199760 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
17199781 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
17199800 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
17199819 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
17199835 CTCAAAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
19 50 0.58
21 18 0.21
22 7 0.08
23 11 0.13
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:17199778 original size:21 final size:19
Alignment explanation
Indices: 17199741--17199834 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
17199731 AATCATATCT
*
17199741 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
17199760 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
17199781 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
17199800 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
17199819 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
17199835 CTCAAAAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:17206556 original size:32 final size:32
Alignment explanation
Indices: 17206520--17206606 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
17206510 AACTTTTCCG
17206520 GAAAATATTTTCAGAAAATC-TGCCAAACAACA
1 GAAAATATTTTCAGAAAATCAT-CCAAACAACA
* * * *
17206552 GAAAATATTTTACACAGATTCATCCAAACACCA
1 GAAAATATTTT-CAGAAAATCATCCAAACAACA
* *
17206585 GAGAATATTTTCAGTAAATCAT
1 GAAAATATTTTCAGAAAATCAT
17206607 TTTCCAGAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
32 18 0.41
33 25 0.57
34 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAGAAAATCATCCAAACAACA
Found at i:17206622 original size:20 final size:20
Alignment explanation
Indices: 17206597--17206636 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17206587 GAATATTTTC
17206597 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
17206617 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
17206637 TTATTTTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:17213140 original size:25 final size:26
Alignment explanation
Indices: 17213109--17213159 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
17213099 CTTGTATCAT
*
17213109 TCACATTTGCA-TATCATATCCTGTA
1 TCACATTTGCATTATCATACCCTGTA
*
17213134 TCACATTTGCATTTTCATACCCTGTA
1 TCACATTTGCATTATCATACCCTGTA
17213160 ATTATTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.41
Consensus pattern (26 bp):
TCACATTTGCATTATCATACCCTGTA
Found at i:17244721 original size:27 final size:27
Alignment explanation
Indices: 17244691--17244791 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
17244681 GGCCCAGTCT
*
17244691 GACTATCCCGTGTTTAATGTCCCATCG
1 GACTATCCCGTGTTTAATGTCCCATCA
* * *
17244718 GACTATCCCGTGTTTTATATCCTATCA
1 GACTATCCCGTGTTTAATGTCCCATCA
* * * * *
17244745 AATTATCACGTGTTTCATGTCCCGTCA
1 GACTATCCCGTGTTTAATGTCCCATCA
*
17244772 GACTATCCCATGTTTAATGT
1 GACTATCCCGTGTTTAATGT
17244792 ATCGTCGAGC
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (27 bp):
GACTATCCCGTGTTTAATGTCCCATCA
Found at i:17244942 original size:45 final size:45
Alignment explanation
Indices: 17244863--17245024 Score: 150
Period size: 45 Copynumber: 3.6 Consensus size: 45
17244853 TGTCAAAACG
* * * **
17244863 TCTTTCAGCTATGGTCTTAATCTTATTTAC--CATGATACCATAGTG
1 TCTTTCAACTATGGTCTT-A-CTCATTTTCGTCATGATACCATAGCA
* *
17244908 TTTTTCAAGC-ATGGTCTTACTCATTTTCGTCATGATGCCATAGCA
1 TCTTTCAA-CTATGGTCTTACTCATTTTCGTCATGATACCATAGCA
** * * *
17244953 TCTTTCAACTATGGTCTTACTCATTTTTATCTTGATGCCATAACA
1 TCTTTCAACTATGGTCTTACTCATTTTCGTCATGATACCATAGCA
* *
17244998 TCTTTCAGCTATGGTCATACTCATTTT
1 TCTTTCAACTATGGTCTTACTCATTTT
17245025 AGGTGTATAG
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
43 7 0.07
44 2 0.02
45 89 0.90
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTCATTTTCGTCATGATACCATAGCA
Found at i:17246253 original size:26 final size:26
Alignment explanation
Indices: 17246216--17246273 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17246206 ATAACTTGTG
* *
17246216 TGAGCAGACTCATTTCACAGCTTCTA
1 TGAGCAGACTCATTCCAAAGCTTCTA
* * *
17246242 TGAGCAGGCTCATTCCAAAGCTTGTG
1 TGAGCAGACTCATTCCAAAGCTTCTA
17246268 TGAGCA
1 TGAGCA
17246274 CTATTGAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (26 bp):
TGAGCAGACTCATTCCAAAGCTTCTA
Found at i:17246806 original size:14 final size:14
Alignment explanation
Indices: 17246787--17246814 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
17246777 GAATGTGTTA
17246787 ATGGTCAATTTGGT
1 ATGGTCAATTTGGT
17246801 ATGGTCAATTTGGT
1 ATGGTCAATTTGGT
17246815 GTGTGTGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
ATGGTCAATTTGGT
Found at i:17262646 original size:15 final size:16
Alignment explanation
Indices: 17262626--17262655 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17262616 AATATTGTCT
17262626 TGTTTTGGT-TAATGA
1 TGTTTTGGTATAATGA
17262641 TGTTTTGGTATAATG
1 TGTTTTGGTATAATG
17262656 TTGTGCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (16 bp):
TGTTTTGGTATAATGA
Found at i:17264389 original size:103 final size:103
Alignment explanation
Indices: 17264210--17264416 Score: 396
Period size: 103 Copynumber: 2.0 Consensus size: 103
17264200 TTCTAAAACA
*
17264210 GTTTTGGGGATTCCTTCCGTTCATTGTCAACTGGGTGGATTACGTAGAGGCCAGAGTCACGATAG
1 GTTTTGGGGATTCCTTCCGTTCATTGTCAACTGGGTGGATTACGTAGAGGCCAGAGACACGATAG
17264275 ATTGCGGCTTGGTTCGATAGTAGATCAGATTACTCGTT
66 ATTGCGGCTTGGTTCGATAGTAGATCAGATTACTCGTT
*
17264313 GTTTTGGGGATTCCTTCCGTTCATTGTCAACTGGGTGGATTACGTAGAGGCCGGAGACACGATAG
1 GTTTTGGGGATTCCTTCCGTTCATTGTCAACTGGGTGGATTACGTAGAGGCCAGAGACACGATAG
17264378 ATTGCGGCTTGGTTCGATAGTAGATCAGATTACTCGTT
66 ATTGCGGCTTGGTTCGATAGTAGATCAGATTACTCGTT
17264416 G
1 G
17264417 CTGAGCCCGT
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.32
Consensus pattern (103 bp):
GTTTTGGGGATTCCTTCCGTTCATTGTCAACTGGGTGGATTACGTAGAGGCCAGAGACACGATAG
ATTGCGGCTTGGTTCGATAGTAGATCAGATTACTCGTT
Found at i:17274454 original size:27 final size:27
Alignment explanation
Indices: 17274416--17274470 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
17274406 AGACTCAATT
17274416 TGCACATTTTATTGAATTTAATTAAAC
1 TGCACATTTTATTGAATTTAATTAAAC
17274443 TGCACATTTTATTGAATTTAATTAAAC
1 TGCACATTTTATTGAATTTAATTAAAC
17274470 T
1 T
17274471 TACTAAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.45
Consensus pattern (27 bp):
TGCACATTTTATTGAATTTAATTAAAC
Found at i:17284791 original size:28 final size:28
Alignment explanation
Indices: 17284709--17284799 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
17284699 ATAATATATG
*
17284709 TAAATTAAAAAGTTAAAATAAATTTG-AA
1 TAAATTAAAATGTTAAAAT-AATTTGAAA
* * *
17284737 TGAATTAACAATGTTGAAATAAGTTGAAA
1 TAAATTAA-AATGTTAAAATAATTTGAAA
17284766 TAAATTAAAGATGTTAAAAT-ATTTGAAA
1 TAAATTAAA-ATGTTAAAATAATTTGAAA
*
17284794 GAAATT
1 TAAATT
17284800 GTAATAACCC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
28 25 0.48
29 27 0.52
ACGTcount: A:0.54, C:0.01, G:0.12, T:0.33
Consensus pattern (28 bp):
TAAATTAAAATGTTAAAATAATTTGAAA
Found at i:17284857 original size:16 final size:16
Alignment explanation
Indices: 17284832--17284870 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17284822 CCCAAATCAG
*
17284832 AAATAAATAAACACAA
1 AAATAAATAAAAACAA
* *
17284848 AAATATATAAAAATAA
1 AAATAAATAAAAACAA
17284864 AAATAAA
1 AAATAAA
17284871 AACAAAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (16 bp):
AAATAAATAAAAACAA
Found at i:17284870 original size:28 final size:27
Alignment explanation
Indices: 17284836--17284888 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
17284826 AATCAGAAAT
*
17284836 AAATAAACACAAAAATATATAAAAATAA
1 AAATAAAAACAAAAAT-TATAAAAATAA
*
17284864 AAATAAAAACAAAAATTATTAAAAT
1 AAATAAAAACAAAAATTATAAAAAT
17284889 TCCATTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (27 bp):
AAATAAAAACAAAAATTATAAAAATAA
Done.