Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 94 of 160
Found at i:17778867 original size:22 final size:24
Alignment explanation
Indices: 17778824--17778871 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
17778814 TTAAAAAGGA
17778824 TTTTTTTTTATTGAAATGATTTTT
1 TTTTTTTTTATTGAAATGATTTTT
17778848 TTTTGTTTTTA-T-AAAT-ATTTTT
1 TTTT-TTTTTATTGAAATGATTTTT
17778870 TT
1 TT
17778872 GAAAACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
23 4 0.17
24 5 0.22
25 6 0.26
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTTTTTTTATTGAAATGATTTTT
Found at i:17779063 original size:11 final size:11
Alignment explanation
Indices: 17779049--17779084 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
17779039 AAGAAAAATT
17779049 AAAAAATTAAA
1 AAAAAATTAAA
*
17779060 AAAAAAATAAA
1 AAAAAATTAAA
*
17779071 AAAAAATGAAA
1 AAAAAATTAAA
17779082 AAA
1 AAA
17779085 GGAAACCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:17779953 original size:3 final size:3
Alignment explanation
Indices: 17779938--17779995 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
17779928 TAAAAACAAA
* * *
17779938 AAT AAT GAT AAT AAT AAT AA- ACT ATGT ACA- AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT
17779983 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
17779996 TAACCATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17780628 original size:60 final size:60
Alignment explanation
Indices: 17780484--17780628 Score: 173
Period size: 60 Copynumber: 2.4 Consensus size: 60
17780474 GTTGAGATCG
* * * * * *
17780484 AATGACTGGGATGATGTCGTGAGTTTGAGAATGACCAAGACTAAGTCGAAGTTGTAAATG
1 AATGACTGGGATGATGCCGTGAGTCTAAGAATGACCAAGACCAAGTCAAAGTTGTAAATA
* *** * *
17780544 AATGACTGGGACGATGCTAAGAGTCTAAGAGTGACCAAGACCGAGTCAAAGTTGTAAATA
1 AATGACTGGGATGATGCCGTGAGTCTAAGAATGACCAAGACCAAGTCAAAGTTGTAAATA
*
17780604 AATGACTGGGATGATACCGTGAGTC
1 AATGACTGGGATGATGCCGTGAGTC
17780629 ATAAAAAAGT
Statistics
Matches: 68, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.23
Consensus pattern (60 bp):
AATGACTGGGATGATGCCGTGAGTCTAAGAATGACCAAGACCAAGTCAAAGTTGTAAATA
Found at i:17780901 original size:85 final size:86
Alignment explanation
Indices: 17780770--17780988 Score: 210
Period size: 86 Copynumber: 2.6 Consensus size: 86
17780760 TCAGATTTGT
* * * * * * * *
17780770 AAGAATGAAATATTTGCAAGATTCCAAACTTT-GCAGAGGTTCTAGATTCACAAAGGTTTC-AGG
1 AAGAAAGAAAAATTCGCAAGATTCC-AAGTTTCGCAAAGGTTTTAGATTCACAAA-GATGCAAGG
*
17780833 TTCGCAAAGA-TTTCAGATTCAC
64 TTCACAAAGATTTTCAGATTCAC
* * ** *
17780855 AAGAAAGAAAGATTGGCAAGATTCCAAGTTTCGCAAAGGTTTTAGATTTGCAAAGATGCAATGTT
1 AAGAAAGAAAAATTCGCAAGATTCCAAGTTTCGCAAAGGTTTTAGATTCACAAAGATGCAAGGTT
* * * **
17780920 CATAAGGATTTTTAGATTTGC
66 CACAAAGATTTTCAGATTCAC
* *
17780941 AAGAAAAAAAAATTCGTAAGATTCCAAGTTTCGCAAAGGTTTTAGATT
1 AAGAAAGAAAAATTCGCAAGATTCCAAGTTTCGCAAAGGTTTTAGATT
17780989 TGTAAAAATG
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
84 8 0.07
85 49 0.45
86 53 0.48
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (86 bp):
AAGAAAGAAAAATTCGCAAGATTCCAAGTTTCGCAAAGGTTTTAGATTCACAAAGATGCAAGGTT
CACAAAGATTTTCAGATTCAC
Found at i:17781127 original size:27 final size:27
Alignment explanation
Indices: 17781096--17781154 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
17781086 GATTAAATCG
* *
17781096 CGAGTTAGAAAATGAGGAGACCAAGAT
1 CGAGTTAAAAAATAAGGAGACCAAGAT
* *
17781123 TGAGTTAAAAAATAAGGCGACCAAGAT
1 CGAGTTAAAAAATAAGGAGACCAAGAT
17781150 CGAGT
1 CGAGT
17781155 CGAAGTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.27, T:0.17
Consensus pattern (27 bp):
CGAGTTAAAAAATAAGGAGACCAAGAT
Found at i:17781980 original size:13 final size:13
Alignment explanation
Indices: 17781936--17781981 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
17781926 AGTTTAAGTA
* *
17781936 TTTTTTTTCCCTT
1 TTTTTTTTGCTTT
*
17781949 TTTTTCTTGCTTT
1 TTTTTTTTGCTTT
17781962 TTTTTTTTGCTTT
1 TTTTTTTTGCTTT
17781975 TTTTTTT
1 TTTTTTT
17781982 ACACACCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (13 bp):
TTTTTTTTGCTTT
Found at i:17781981 original size:12 final size:12
Alignment explanation
Indices: 17781936--17781981 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
17781926 AGTTTAAGTA
**
17781936 TTTTTTTTCCCT
1 TTTTTTTTTGCT
*
17781948 TTTTTTCTTGCTT
1 TTTTTTTTTGC-T
17781961 TTTTTTTTTGCT
1 TTTTTTTTTGCT
17781973 TTTTTTTTT
1 TTTTTTTTT
17781982 ACACACCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTGCT
Found at i:17782361 original size:16 final size:15
Alignment explanation
Indices: 17782338--17782367 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17782328 GCCATATCAA
17782338 TTTTTTTTCTTTTTC
1 TTTTTTTTCTTTTTC
17782353 TTTTCTTTTCTTTTT
1 TTTT-TTTTCTTTTT
17782368 GGCGGAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:17782387 original size:61 final size:59
Alignment explanation
Indices: 17782284--17782416 Score: 176
Period size: 61 Copynumber: 2.2 Consensus size: 59
17782274 TTTTTTCTTC
* * * *
17782284 TTTCTTTTTTTTGCTTTTTTTTTTGTGGAGCACATTGGCATTTTGCCATATCAATTTTT
1 TTTCTTTTTTTTGCTTTTTTTTTGGCGGAGCACATTAGCATTTTGCCACATCAATTTTT
* *
17782343 TTTCTTTTTCTTTTCTTTTCTTTTTGGCGGAGCACATTAGCATTTTGCCCCATCAATTTTT
1 TTTCTTTTT-TTTGCTTTT-TTTTTGGCGGAGCACATTAGCATTTTGCCACATCAATTTTT
*
17782404 TTTTTTATTTTTT
1 TTTCTT-TTTTTT
17782417 CATTTGTTAG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
59 9 0.14
60 8 0.12
61 44 0.69
62 3 0.05
ACGTcount: A:0.13, C:0.16, G:0.11, T:0.60
Consensus pattern (59 bp):
TTTCTTTTTTTTGCTTTTTTTTTGGCGGAGCACATTAGCATTTTGCCACATCAATTTTT
Found at i:17786013 original size:23 final size:21
Alignment explanation
Indices: 17785987--17786028 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
17785977 CAAAAATATT
17785987 TTTTTATTGAAAGATTTTTTTTG
1 TTTTTA-T-AAAGATTTTTTTTG
*
17786010 TTTTTATAAATATTTTTTT
1 TTTTTATAAAGATTTTTTT
17786029 GAAAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (21 bp):
TTTTTATAAAGATTTTTTTTG
Found at i:17786649 original size:19 final size:20
Alignment explanation
Indices: 17786617--17786672 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
17786607 ACATTCATCA
*
17786617 AAAAATT-CATATTTTCCAG
1 AAAAATTCCAAATTTTCCAG
* * *
17786636 CAAAA-TCCAAATTTTTCAT
1 AAAAATTCCAAATTTTCCAG
17786655 AAAAATTCCAAATTTTCC
1 AAAAATTCCAAATTTTCC
17786673 CCAAATTTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.59
20 11 0.38
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAATTCCAAATTTTCCAG
Found at i:17787115 original size:3 final size:3
Alignment explanation
Indices: 17787094--17787162 Score: 104
Period size: 3 Copynumber: 23.3 Consensus size: 3
17787084 AAATAAAAAC
* *
17787094 AAT AAT GAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
17787142 AAT AAT AAT -AT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
17787163 CTATAATATA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17788296 original size:21 final size:21
Alignment explanation
Indices: 17788272--17788317 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
17788262 AAAATAGGCC
*
17788272 TAAAATGTATTTGAAAGGTTA
1 TAAAATATATTTGAAAGGTTA
*
17788293 TAAAATATATTTGAATGGTTA
1 TAAAATATATTTGAAAGGTTA
17788314 TAAA
1 TAAA
17788318 CCAAATGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (21 bp):
TAAAATATATTTGAAAGGTTA
Found at i:17788413 original size:12 final size:11
Alignment explanation
Indices: 17788371--17788414 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
17788361 TCCTATTAGT
*
17788371 TTTTTTTCTTAA
1 TTTTTTTCAT-A
*
17788383 TTTTTTTAATA
1 TTTTTTTCATA
17788394 TTTTTTTCATA
1 TTTTTTTCATA
17788405 TTTTCTTTCA
1 TTTT-TTTCA
17788415 CTTTTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 15 0.54
12 13 0.46
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTTTCATA
Found at i:17793322 original size:16 final size:16
Alignment explanation
Indices: 17793271--17793321 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
17793261 ACAAGGTTTT
*
17793271 TTTTATTTGCTTGATA
1 TTTTATTTGCATGATA
*
17793287 TTTTATTTGTATGATA
1 TTTTATTTGCATGATA
17793303 TTTTATTTGCATGAT-
1 TTTTATTTGCATGATA
17793318 TTTT
1 TTTT
17793322 TTAATATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 4 0.12
16 28 0.88
ACGTcount: A:0.20, C:0.04, G:0.12, T:0.65
Consensus pattern (16 bp):
TTTTATTTGCATGATA
Found at i:17794292 original size:3 final size:3
Alignment explanation
Indices: 17794279--17794340 Score: 106
Period size: 3 Copynumber: 20.3 Consensus size: 3
17794269 TTTATTCAGA
*
17794279 TAT TAAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17794325 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
17794341 TATTGTTTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17795854 original size:34 final size:34
Alignment explanation
Indices: 17795815--17795881 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
17795805 GCATGATATT
* *
17795815 TTGGCATGATTTTGGTGTGATTTT-ATTATTTTTA
1 TTGGCATGATTTTGGTATAATTTTCA-TATTTTTA
17795849 TTGGCATGATTTTGGTATAATTTTCATATTTTT
1 TTGGCATGATTTTGGTATAATTTTCATATTTTT
17795882 GCATCATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.19, C:0.04, G:0.18, T:0.58
Consensus pattern (34 bp):
TTGGCATGATTTTGGTATAATTTTCATATTTTTA
Found at i:17804926 original size:76 final size:79
Alignment explanation
Indices: 17804837--17804999 Score: 174
Period size: 76 Copynumber: 2.1 Consensus size: 79
17804827 TTATATTAAG
** * *
17804837 AAAAA-TATATTTAATGGA-AGTCATTAAATGTAATTAGAATTTTTA-TT-ATTGGATAAATGTT
1 AAAAATTATATTTAAT-GATAGTCATTAAATACAATTAGAATTTGTATTTAATTGGATAAATCTT
*
17804898 ATTAATATTTATAAT
65 ATCAATATTTATAAT
* **
17804913 AAAAATTAT-TTTAATGATATTCATTTGATACAATTAGAATTTGTATTTACAGATTGGATAAATC
1 AAAAATTATATTTAATGATAGTCATTAAATACAATTAGAATTTGTATTT--A-ATTGGATAAATC
*
17804977 TTATCAATATTTATTAT
63 TTATCAATATTTATAAT
17804994 AAAAAT
1 AAAAAT
17805000 ATTGAAAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
75 2 0.03
76 32 0.45
77 5 0.07
81 32 0.45
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (79 bp):
AAAAATTATATTTAATGATAGTCATTAAATACAATTAGAATTTGTATTTAATTGGATAAATCTTA
TCAATATTTATAAT
Found at i:17805127 original size:7 final size:7
Alignment explanation
Indices: 17805081--17805113 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
17805071 ATCTATACTT
*
17805081 TTATTTA
1 TTATATA
17805088 TTATATA
1 TTATATA
17805095 TTATATA
1 TTATATA
17805102 TTATATA
1 TTATATA
17805109 TTATA
1 TTATA
17805114 AATAGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTATATA
Found at i:17811717 original size:20 final size:20
Alignment explanation
Indices: 17811690--17811733 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17811680 GTAACTTTAG
*
17811690 AATG-CTTTTGATTAATAAA
1 AATGCCTTTCGATTAATAAA
*
17811709 AATGCCTTTCGATTAATTAA
1 AATGCCTTTCGATTAATAAA
17811729 AATGC
1 AATGC
17811734 TAAGTTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGCCTTTCGATTAATAAA
Found at i:17813361 original size:14 final size:14
Alignment explanation
Indices: 17813342--17813370 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17813332 CTTGAATACT
17813342 GTATATCGAAAGCG
1 GTATATCGAAAGCG
17813356 GTATATCGAAAGCG
1 GTATATCGAAAGCG
17813370 G
1 G
17813371 CCGTGTTTTG
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:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (14 bp):
GTATATCGAAAGCG
Found at i:17813566 original size:16 final size:17
Alignment explanation
Indices: 17813545--17813586 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
17813535 TGTGATATAT
17813545 ATTTTAAAT-ATAACTA
1 ATTTTAAATGATAACTA
17813561 ATTTTAAATGATAACTA
1 ATTTTAAATGATAACTA
*
17813578 GTTTTAAAT
1 ATTTTAAAT
17813587 TCGTGTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (17 bp):
ATTTTAAATGATAACTA
Found at i:17815262 original size:31 final size:32
Alignment explanation
Indices: 17815224--17815300 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
17815214 TACAAATGAA
*
17815224 ATCAAATGAAATCCAA-GTGCATTAATATTTT
1 ATCAAATGAAATCAAACGTGCATTAATATTTT
*
17815255 ATCAAATGAAATCAAACGTGTATTAATATTTT
1 ATCAAATGAAATCAAACGTGCATTAATATTTT
*
17815287 A-CAAAATAAAATCA
1 ATC-AAATGAAATCA
17815301 TATTTAATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
31 16 0.39
32 25 0.61
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (32 bp):
ATCAAATGAAATCAAACGTGCATTAATATTTT
Found at i:17817264 original size:20 final size:18
Alignment explanation
Indices: 17817224--17817275 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 18
17817214 GATAAAAATT
*
17817224 ATTTTTGTTTATTTGAAAAG
1 ATTTTT-TTTA-TTAAAAAG
17817244 ACCTTTTTTTTATTAAAAAG
1 A--TTTTTTTTATTAAAAAG
17817264 A-TTTTTTTATTA
1 ATTTTTTTTATTA
17817276 TTTTGAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 11 0.38
20 9 0.31
21 4 0.14
22 5 0.17
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.58
Consensus pattern (18 bp):
ATTTTTTTTATTAAAAAG
Found at i:17817424 original size:16 final size:15
Alignment explanation
Indices: 17817405--17817451 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
17817395 TAAAAGCCAG
*
17817405 AAAAATAATATATAAA
1 AAAAATAAAATA-AAA
17817421 AAAAATAAAATAAAA
1 AAAAATAAAATAAAA
17817436 ATAAAATGAAAA-AAAA
1 A-AAAAT-AAAATAAAA
17817452 CCTACGATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 4 0.14
16 20 0.71
17 4 0.14
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAAATAAAATAAAA
Found at i:17817802 original size:31 final size:31
Alignment explanation
Indices: 17817765--17817838 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
17817755 AAAACCCCAC
* *
17817765 TGAAAAATTCAATCTTGCCA-GAAAATTTCAT
1 TGAAAAATTCAACCTT-ACAGGAAAATTTCAT
*
17817796 TGAAAAATTCAACCTTACAGGAAAATTTCGT
1 TGAAAAATTCAACCTTACAGGAAAATTTCAT
*
17817827 CGAAAAATTCAA
1 TGAAAAATTCAA
17817839 AGTTCTTCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 2 0.05
31 36 0.95
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (31 bp):
TGAAAAATTCAACCTTACAGGAAAATTTCAT
Found at i:17818323 original size:3 final size:3
Alignment explanation
Indices: 17818311--17818386 Score: 95
Period size: 3 Copynumber: 26.3 Consensus size: 3
17818301 AAAAAATGAA
* *
17818311 AAT AAC AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
17818358 AAT AAT AA- CAT AAT AAT -AT AAT AAG AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17818387 TAAATATATA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
2 5 0.08
3 57 0.92
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17818334 original size:11 final size:11
Alignment explanation
Indices: 17818318--17818389 Score: 101
Period size: 11 Copynumber: 6.4 Consensus size: 11
17818308 GAAAATAACA
17818318 ATAATAATAAT
1 ATAATAATAAT
17818329 ATAATAATAAT
1 ATAATAATAAT
17818340 AATAATAATAAT
1 -ATAATAATAAT
17818352 AGTAATAATAAT
1 A-TAATAATAAT
17818364 A-ACATAATAAT
1 ATA-ATAATAAT
*
17818375 ATAATAAGAAT
1 ATAATAATAAT
17818386 ATAA
1 ATAA
17818390 ATATATACAC
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
10 1 0.02
11 32 0.57
12 23 0.41
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:17818473 original size:15 final size:15
Alignment explanation
Indices: 17818455--17818501 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
17818445 GTATAACAAC
17818455 AACAACAATAATAAT
1 AACAACAATAATAAT
*
17818470 AACAACAACAATAAT
1 AACAACAATAATAAT
* **
17818485 AATATTAATAATAAT
1 AACAACAATAATAAT
17818500 AA
1 AA
17818502 TAATAGTGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AACAACAATAATAAT
Found at i:17818473 original size:18 final size:18
Alignment explanation
Indices: 17818447--17818488 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
17818437 AAATAAAAGT
*
17818447 ATAACAACAACAACAATA
1 ATAATAACAACAACAATA
17818465 ATAATAACAACAACAATA
1 ATAATAACAACAACAATA
17818483 ATAATA
1 ATAATA
17818489 TTAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAATAACAACAACAATA
Found at i:17818485 original size:3 final size:3
Alignment explanation
Indices: 17818461--17818506 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
17818451 CAACAACAAC
* * * *
17818461 AAT AAT AAT AAC AAC AAC AAT AAT AAT ATT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17818507 GTGACATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:17818579 original size:26 final size:26
Alignment explanation
Indices: 17818545--17818607 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
17818535 TTAGACCCGG
*
17818545 ACACAAATGGGCCTAGTTGGGCCCAA
1 ACACCAATGGGCCTAGTTGGGCCCAA
* * * *
17818571 ACATCAATGGACCTATTTGGGCTCAA
1 ACACCAATGGGCCTAGTTGGGCCCAA
17818597 ACACCAATGGG
1 ACACCAATGGG
17818608 TCTAATTTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (26 bp):
ACACCAATGGGCCTAGTTGGGCCCAA
Found at i:17819215 original size:237 final size:236
Alignment explanation
Indices: 17818936--17819560 Score: 695
Period size: 237 Copynumber: 2.6 Consensus size: 236
17818926 GATTGAGTCG
* * *
17818936 AGGTCGAAAATAAATGATCGGGATAAAACCATGAATCATAAGAAATGATCTGGA-TGAGCCAAGA
1 AGGTCGAAAATAAATGATCGAGATGAAACCATGAATCATAAGAAATGATCTAGACTGAGCCAAGA
* * * * * *
17819000 TTAAGTGATCGAAACGAAACCATGAGTCAAAATAAAGCGACCAGAACCTAGTCAAGGTAAAAAAT
66 TCAAGTGA-CCAAACGAAATCATGAGTCAAAATAAAGAGACCAGAACCTAGTCGAGGTAGAAAAT
* *
17819065 AAATGATCGAGATGAAATCACAAATCATAAGAAATAATCTAGACTGAGCCAAAATCAATTAACCA
130 AAATGATCGAGATGAAACCACAAATCATAAGAAATAATCTAGACTGAGCCAAAATCAAGTAA-CA
* * * *
17819130 AGATGAAATCA-CGAGTCAAAATAAAGTGACCAGGA-CAAAATCA
194 AGACGAAA-CAGCGAATCAAAATAAAGCGACCAAGATC-AAATCA
* * *
17819173 AGGTCAAAAATAAATAATCGAGATGAAACCATGAATCATAAGAAATAATCTAGACTGAGCCAAGA
1 AGGTCGAAAATAAATGATCGAGATGAAACCATGAATCATAAGAAATGATCTAGACTGAGCCAAGA
* * * * * *
17819238 TCAATTGACCAGGACGAAATCACGAGTCAAAATAAAGAGACCA-AAACTGAGTCGAGATCGAAAA
66 TCAAGTGACCA-AACGAAATCATGAGTCAAAATAAAGAGACCAGAACCT-AGTCGAGGTAGAAAA
* ** * * * * * *
17819302 TAAATGATC-AGGACGAAACCATGAATCATAAGAAATGATTTGGACTGAGCTAAGATTAAGTAAC
129 TAAATGATCGA-GATGAAACCACAAATCATAAGAAATAATCTAGACTGAGCCAAAATCAAGTAAC
** * * * *
17819366 GGGACGAAACAGCGAATCAAAATAAAGCGACTAAGATCGAGTCG
193 AAGACGAAACAGCGAATCAAAATAAAGCGACCAAGATCAAATCA
* *
17819410 AGGTCGAAAATAAATGATCGAGATGAAACCACGAATTATAAGAAATGATCTAGACTGAGCCAAGA
1 AGGTCGAAAATAAATGATCGAGATGAAACCATGAATCATAAGAAATGATCTAGACTGAGCCAAGA
* ** * * *
17819475 CCAAGTGACCAAGATAAAATCATGAGTCAAAATAAA-ATGACCAGGACCGAGTCGAGGTTGAAAA
66 TCAAGTGACCAA-ACGAAATCATGAGTCAAAATAAAGA-GACCAGAACCTAGTCGAGGTAGAAAA
*
17819539 TAAATGATCGGGATGAAACCAC
129 TAAATGATCGAGATGAAACCAC
17819561 GTTTCATAAA
Statistics
Matches: 320, Mismatches: 58, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
236 3 0.01
237 210 0.66
238 107 0.33
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (236 bp):
AGGTCGAAAATAAATGATCGAGATGAAACCATGAATCATAAGAAATGATCTAGACTGAGCCAAGA
TCAAGTGACCAAACGAAATCATGAGTCAAAATAAAGAGACCAGAACCTAGTCGAGGTAGAAAATA
AATGATCGAGATGAAACCACAAATCATAAGAAATAATCTAGACTGAGCCAAAATCAAGTAACAAG
ACGAAACAGCGAATCAAAATAAAGCGACCAAGATCAAATCA
Found at i:17819453 original size:356 final size:356
Alignment explanation
Indices: 17818817--17819596 Score: 894
Period size: 356 Copynumber: 2.2 Consensus size: 356
17818807 GACTGAGTCG
* * * * *
17818817 AGGTCAAAAATAAATAATCAAAATGAAACCACAAATCATAAAAAA-ACGATGTG-GATTGAA-CC
1 AGGTCAAAAATAAATAATCGAGATGAAACCACGAATCATAAAAAATA--ATATGAG-CT-AAGCC
* * * * * * ** * * * *
17818879 AAGATTAAGTGATCGGGATGAAACCATAAGTCAAAATGAAA-CGA-CAAGATTGAGTCGAGGTCG
62 AAGATCAATTGACCAGGACGAAATCACGAGTCAAAAT-AAAGAGACCAAAACTGAGTCGAGATCG
* *
17818942 AAAATAAATGATCGGGATAAAACCATGAATCATAAGAAATGATCTGGATGAGCCAAGATTAAGTG
126 AAAATAAATGATCAGGACAAAACCATGAATCATAAGAAATGATCTGGATGAGCCAAGATTAAGTG
* * * * *
17819007 ATCGAAACGAAACCATGAGTCAAAATAAAGCGACCAGAACCTAGTCAAGGTAAAAAATAAATGAT
191 AACGAAACGAAACCACGAATCAAAATAAAGCGACAAGAACCGAGTCAAGGTAAAAAATAAATGAT
* * * *
17819072 CGAGATGAAATCACAAATCATAAGAAATAATCTAGACTGAGCCAAAATCAATTAACCAAGATGAA
256 CGAGATGAAACCACAAATCATAAGAAATAATCTAGACTGAGCCAAAACCAAGTAACCAAGATAAA
*
17819137 ATCACGAGTCAAAATAAAGTGACCAGGACAAAATCA
321 ATCACGAGTCAAAATAAAATGACCAGGACAAAATCA
* * * *
17819173 AGGTCAAAAATAAATAATCGAGATGAAACCATGAATCATAAGAAATAATCT-AGACTGAGCCAAG
1 AGGTCAAAAATAAATAATCGAGATGAAACCACGAATCATAAAAAATAATATGAG-CTAAGCCAAG
17819237 ATCAATTGACCAGGACGAAATCACGAGTCAAAATAAAGAGACCAAAACTGAGTCGAGATCGAAAA
65 ATCAATTGACCAGGACGAAATCACGAGTCAAAATAAAGAGACCAAAACTGAGTCGAGATCGAAAA
* * *
17819302 TAAATGATCAGGACGAAACCATGAATCATAAGAAATGATTTGGACTGAGCTAAGATTAAGT-AAC
130 TAAATGATCAGGACAAAACCATGAATCATAAGAAATGATCTGGA-TGAGCCAAGATTAAGTGAAC
** * * **
17819366 GGGACGAAA-CAGCGAATCAAAATAAAGCGACTAAG-ATCGAGTCGAGGTCGAAAATAAATGATC
194 GAAACGAAACCA-CGAATCAAAATAAAGCGAC-AAGAACCGAGTCAAGGTAAAAAATAAATGATC
* * * * *
17819429 GAGATGAAACCACGAATTATAAGAAATGATCTAGACTGAGCCAAGACCAAGTGACCAAGATAAAA
257 GAGATGAAACCACAAATCATAAGAAATAATCTAGACTGAGCCAAAACCAAGTAACCAAGATAAAA
* ** * *
17819494 TCATGAGTCAAAATAAAATGACCAGGACCGAGTCG
322 TCACGAGTCAAAATAAAATGACCAGGACAAAATCA
** * * **
17819529 AGGTTGAAAATAAATGATCGGGATGAAACCACGTTTCATAAAAAATAATATGAGCTAAGCCAAGA
1 AGGTCAAAAATAAATAATCGAGATGAAACCACGAATCATAAAAAATAATATGAGCTAAGCCAAGA
17819594 TCA
66 TCA
17819597 GATGAGTAGA
Statistics
Matches: 354, Mismatches: 61, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
354 4 0.01
355 41 0.12
356 289 0.82
357 20 0.06
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.18
Consensus pattern (356 bp):
AGGTCAAAAATAAATAATCGAGATGAAACCACGAATCATAAAAAATAATATGAGCTAAGCCAAGA
TCAATTGACCAGGACGAAATCACGAGTCAAAATAAAGAGACCAAAACTGAGTCGAGATCGAAAAT
AAATGATCAGGACAAAACCATGAATCATAAGAAATGATCTGGATGAGCCAAGATTAAGTGAACGA
AACGAAACCACGAATCAAAATAAAGCGACAAGAACCGAGTCAAGGTAAAAAATAAATGATCGAGA
TGAAACCACAAATCATAAGAAATAATCTAGACTGAGCCAAAACCAAGTAACCAAGATAAAATCAC
GAGTCAAAATAAAATGACCAGGACAAAATCA
Found at i:17819560 original size:119 final size:119
Alignment explanation
Indices: 17818750--17819596 Score: 711
Period size: 119 Copynumber: 7.1 Consensus size: 119
17818740 CAATGACCAG
* * * * ** * * * * *
17818750 GACTGAACCAAGATCGAGTGACCAGGACTAAATCATAAGTCAAGATGAAGTGACCAAGACTGAGT
1 GACTGAGCCAAGATCAAGTGACCAAGACGAAATCACGAGTCAAAATAAAGCGACCAGGACCGAGT
* * * * * * * * *
17818815 CGAGGTCAAAAATAAATAATCAAAATGAAACCACAAATCATAAAAAAACGATGTG
66 CGAGGTCGAAAATAAATGATCGAGATGAAACCACGAATCAT-AAGAAATGATCTA
* * * * ** * * ** * **
17818870 GATTGAACCAAGATTAAGTGATCGGGATGAAACCATAAGTCAAAATGAAA-CGA-CAAGATTGAG
1 GACTGAGCCAAGATCAAGTGACCAAGACGAAATCACGAGTCAAAAT-AAAGCGACCAGGACCGAG
* * * *
17818933 TCGAGGTCGAAAATAAATGATCGGGATAAAACCATGAATCATAAGAAATGATCTG
65 TCGAGGTCGAAAATAAATGATCGAGATGAAACCACGAATCATAAGAAATGATCTA
* * * * * *
17818988 GA-TGAGCCAAGATTAAGTGATCGAA-ACGAAACCATGAGTCAAAATAAAGCGACCAGAACCTAG
1 GACTGAGCCAAGATCAAGTGA-CCAAGACGAAATCACGAGTCAAAATAAAGCGACCAGGACCGAG
* ** * * *
17819051 TCAAGGTAAAAAATAAATGATCGAGATGAAATCACAAATCATAAGAAATAATCTA
65 TCGAGGTCGAAAATAAATGATCGAGATGAAACCACGAATCATAAGAAATGATCTA
* * * * * ** *
17819106 GACTGAGCCAAAATCAATTAACCAAGATGAAATCACGAGTCAAAATAAAGTGACCAGGACAAAAT
1 GACTGAGCCAAGATCAAGTGACCAAGACGAAATCACGAGTCAAAATAAAGCGACCAGGACCGAGT
* * * * *
17819171 CAAGGTCAAAAATAAATAATCGAGATGAAACCATGAATCATAAGAAATAATCTA
66 CGAGGTCGAAAATAAATGATCGAGATGAAACCACGAATCATAAGAAATGATCTA
* * * ** *
17819225 GACTGAGCCAAGATCAATTGACCAGGACGAAATCACGAGTCAAAATAAAGAGACCAAAACTGAGT
1 GACTGAGCCAAGATCAAGTGACCAAGACGAAATCACGAGTCAAAATAAAGCGACCAGGACCGAGT
* * * * *
17819290 CGAGATCGAAAATAAATGATC-AGGACGAAACCATGAATCATAAGAAATGATTTG
66 CGAGGTCGAAAATAAATGATCGA-GATGAAACCACGAATCATAAGAAATGATCTA
* * * ** * * * *
17819344 GACTGAGCTAAGATTAAGT-AACGGGACGAAA-CAGCGAATCAAAATAAAGCGACTAAGATCGAG
1 GACTGAGCCAAGATCAAGTGACCAAGACGAAATCA-CGAGTCAAAATAAAGCGACCAGGACCGAG
*
17819407 TCGAGGTCGAAAATAAATGATCGAGATGAAACCACGAATTATAAGAAATGATCTA
65 TCGAGGTCGAAAATAAATGATCGAGATGAAACCACGAATCATAAGAAATGATCTA
* ** * **
17819462 GACTGAGCCAAGACCAAGTGACCAAGATAAAATCATGAGTCAAAATAAAATGACCAGGACCGAGT
1 GACTGAGCCAAGATCAAGTGACCAAGACGAAATCACGAGTCAAAATAAAGCGACCAGGACCGAGT
* * ** * * *
17819527 CGAGGTTGAAAATAAATGATCGGGATGAAACCACGTTTCATAAAAAATAATAT-
66 CGAGGTCGAAAATAAATGATCGAGATGAAACCACGAATCATAAGAAATGATCTA
*
17819580 GAGCTAAGCCAAGATCA
1 GA-CTGAGCCAAGATCA
17819597 GATGAGTAGA
Statistics
Matches: 592, Mismatches: 123, Indels: 25
0.80 0.17 0.03
Matches are distributed among these distances:
116 3 0.01
117 40 0.07
118 166 0.28
119 340 0.57
120 41 0.07
121 2 0.00
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (119 bp):
GACTGAGCCAAGATCAAGTGACCAAGACGAAATCACGAGTCAAAATAAAGCGACCAGGACCGAGT
CGAGGTCGAAAATAAATGATCGAGATGAAACCACGAATCATAAGAAATGATCTA
Found at i:17822187 original size:62 final size:61
Alignment explanation
Indices: 17822020--17822187 Score: 212
Period size: 62 Copynumber: 2.7 Consensus size: 61
17822010 GCTTTTATAT
*
17822020 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATATATTTTTTTTAGAAATTTATTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATAT-T-TTTTTTTTAGAAATTTATTTTC
* * * ** ** *
17822083 AAGAAAAATTGGTCCTTCCAACTTCTTCC-CCAAAATGCTTTTTTTTTGGAAACTTTATTTTC
1 AAGAAAAATTGATACTTTCAACTT-TTCCTTAAAAATATTTTTTTTTTAGAAA-TTTATTTTC
17822145 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
17822188 AAAAATTGAA
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
61 16 0.19
62 40 0.47
63 26 0.30
64 4 0.05
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.45
Consensus pattern (61 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTAGAAATTTATTTTC
Found at i:17822281 original size:77 final size:74
Alignment explanation
Indices: 17822121--17822282 Score: 182
Period size: 77 Copynumber: 2.1 Consensus size: 74
17822111 CCCAAAATGC
* *
17822121 TTTT-TTTTTGGAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTT
1 TTTTATTTTTAGAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAATATTT
17822185 TTTAAAAAT
66 TTTAAAAAT
** * * *
17822194 TGAAAATATTTTTAGAAATTTTATTTTCAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAAAA
1 T---TTTATTTTTAGAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCT---AAAAA
* *
17822259 ATTTTTTTTGAAAAT
60 ATATTTTTTAAAAAT
17822274 TTTTATTTT
1 TTTTATTTT
17822283 ATTTTTATTA
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
73 1 0.01
76 1 0.01
77 51 0.72
80 18 0.25
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.49
Consensus pattern (74 bp):
TTTTATTTTTAGAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAAATATTT
TTTAAAAAT
Found at i:17822349 original size:12 final size:12
Alignment explanation
Indices: 17822321--17822354 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
17822311 ATTCTCCTAA
17822321 AAATAAAT-AAC
1 AAATAAATAAAC
*
17822332 ACATAAATAAAC
1 AAATAAATAAAC
17822344 AAATAAATAAA
1 AAATAAATAAA
17822355 ATACCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATAAATAAAC
Found at i:17822579 original size:8 final size:8
Alignment explanation
Indices: 17822563--17822604 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
17822553 AGATTCCCTT
*
17822563 TCTTCCTC
1 TCTTTCTC
17822571 TCTTTCTC
1 TCTTTCTC
*
17822579 T-TTTTTC
1 TCTTTCTC
*
17822586 TCTTTTTC
1 TCTTTCTC
17822594 TCTTTCTC
1 TCTTTCTC
17822602 TCT
1 TCT
17822605 CTAAAGTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (8 bp):
TCTTTCTC
Found at i:17822985 original size:13 final size:13
Alignment explanation
Indices: 17822967--17822996 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17822957 TTACGGCAAC
17822967 TTTTTTCTCTTTT
1 TTTTTTCTCTTTT
*
17822980 TTTTTTTTCTTTT
1 TTTTTTCTCTTTT
17822993 TTTT
1 TTTT
17822997 AATCATTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTCTCTTTT
Found at i:17822987 original size:15 final size:14
Alignment explanation
Indices: 17822967--17822996 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
17822957 TTACGGCAAC
17822967 TTTTTTCTCTTTTTT
1 TTTTTTCT-TTTTTT
17822982 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
17822996 T
1 T
17822997 AATCATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:17823726 original size:26 final size:30
Alignment explanation
Indices: 17823661--17823728 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 30
17823651 TTGAAACCAA
17823661 ATTAATATAATATTTAAATTTAAAAAATTT
1 ATTAATATAATATTTAAATTTAAAAAATTT
* * *
17823691 -TTAGTCTAATATTT-AA-TT-ATAAATTT
1 ATTAATATAATATTTAAATTTAAAAAATTT
17823717 ATTAAT-TAATAT
1 ATTAATATAATAT
17823729 AATACTTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 2 0.06
29 12 0.36
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTAATATAATATTTAAATTTAAAAAATTT
Found at i:17823835 original size:16 final size:17
Alignment explanation
Indices: 17823795--17823836 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
17823785 ATTTTATTTA
*
17823795 TTAATAATTATAGTTTT
1 TTAAAAATTATAGTTTT
**
17823812 TTTCAAATTATAG-TTT
1 TTAAAAATTATAGTTTT
17823828 TTAAAAATT
1 TTAAAAATT
17823837 TTTATTAGAG
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (17 bp):
TTAAAAATTATAGTTTT
Found at i:17826661 original size:138 final size:138
Alignment explanation
Indices: 17826418--17826743 Score: 350
Period size: 138 Copynumber: 2.3 Consensus size: 138
17826408 AATATATACA
* * * *
17826418 AATACCATAATGAAAAACAAGAATTCATATTCAAAACT-TAAGTGCCTAAAACTGAAAAAACAAG
1 AATA-CATAAT-AAAAACAAGAATTCATATTCAAAACTAT-A-T-AC--AAATTGAAAAGACAAA
** * * * ** * *
17826482 GGTTG-ACCCAAACAAATGAAATAATGTACATACAATTATGTTCACATGGATAAAAATGTATATG
59 CATTGCCCCCAAACAAATAAAATAATATACATACAAAAATGTTCACATGAATAAAAATGTACATG
** *
17826546 CAAATACATGTATGT
124 CAAATACACATATGC
* * * *
17826561 AATGCATAGTAAAAACATGAATTCATATTCAAAACTATTTACAAATTGAAAAGACAAACATTGCC
1 AATACATAATAAAAACAAGAATTCATATTCAAAACTATATACAAATTGAAAAGACAAACATTGCC
* *
17826626 CCCAAACAAATAAAATAATATATATACAAAAATGTTTACATGAATAAAAATGTACATGCAAATAC
66 CCCAAACAAATAAAATAATATACATACAAAAATGTTCACATGAATAAAAATGTACATGCAAATAC
17826691 ACATATGC
131 ACATATGC
* * *
17826699 AATACATAATAACAATAAGAATTCATATTCACAACTATATACAAA
1 AATACATAATAAAAACAAGAATTCATATTCAAAACTATATACAAA
17826744 ATTCAAAAAT
Statistics
Matches: 152, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
137 16 0.11
138 100 0.66
139 1 0.01
140 1 0.01
141 25 0.16
142 6 0.04
143 3 0.02
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.25
Consensus pattern (138 bp):
AATACATAATAAAAACAAGAATTCATATTCAAAACTATATACAAATTGAAAAGACAAACATTGCC
CCCAAACAAATAAAATAATATACATACAAAAATGTTCACATGAATAAAAATGTACATGCAAATAC
ACATATGC
Found at i:17827894 original size:25 final size:25
Alignment explanation
Indices: 17827832--17827881 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
17827822 GCAAATATTT
*
17827832 TAATAAAAATCATGCCAAAATATCA
1 TAATAAAAATCATACCAAAATATCA
17827857 TAATAAAAATCATACCAAAA-ATCA
1 TAATAAAAATCATACCAAAATATCA
17827881 T
1 T
17827882 GTAAAGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.24
Consensus pattern (25 bp):
TAATAAAAATCATACCAAAATATCA
Found at i:17828200 original size:8 final size:7
Alignment explanation
Indices: 17828179--17828265 Score: 52
Period size: 7 Copynumber: 11.6 Consensus size: 7
17828169 CAAGCACATA
17828179 AAAAAAT
1 AAAAAAT
*
17828186 AATAAAT
1 AAAAAAT
17828193 AAGAAAAT
1 AA-AAAAT
*
17828201 ATAAAAAC
1 A-AAAAAT
17828209 AAAATAAT
1 AAAA-AAT
17828217 AGAAAATAT
1 A-AAAA-AT
17828226 AAAAAA-
1 AAAAAAT
*
17828232 AATAAAACC
1 AA-AAAA-T
17828241 AAAAAAT
1 AAAAAAT
17828248 AAAACAA-
1 AAAA-AAT
*
17828255 AACAAAT
1 AAAAAAT
17828262 AAAA
1 AAAA
17828266 TCAAAATTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
6 4 0.06
7 26 0.41
8 24 0.38
9 9 0.14
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:17828220 original size:23 final size:25
Alignment explanation
Indices: 17828176--17828232 Score: 84
Period size: 23 Copynumber: 2.4 Consensus size: 25
17828166 ATTCAAGCAC
17828176 ATAAAAAAATAATAAATAAGAAAAT
1 ATAAAAAAATAATAAATAAGAAAAT
17828201 ATAAAAACAA-AAT-AAT-AGAAAAT
1 ATAAAAA-AATAATAAATAAGAAAAT
17828224 ATAAAAAAA
1 ATAAAAAAA
17828233 ATAAAACCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 2 0.06
23 14 0.45
24 3 0.10
25 10 0.32
26 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (25 bp):
ATAAAAAAATAATAAATAAGAAAAT
Found at i:17828244 original size:22 final size:22
Alignment explanation
Indices: 17828196--17828256 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
17828186 AATAAATAAG
* *
17828196 AAAATATAAAAACAAAATAATAG
1 AAAATAT-AAAACAAAATAAAAC
17828219 AAAATATAAAA-AAAATAAAACC
1 AAAATATAAAACAAAATAAAA-C
*
17828241 AAAAAATAAAACAAAA
1 AAAATATAAAACAAAA
17828257 CAAATAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 8 0.24
22 14 0.42
23 11 0.33
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.13
Consensus pattern (22 bp):
AAAATATAAAACAAAATAAAAC
Found at i:17828246 original size:14 final size:13
Alignment explanation
Indices: 17828227--17828271 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
17828217 AGAAAATATA
17828227 AAAAAAATAAAAC
1 AAAAAAATAAAAC
*
17828240 CAAAAAATAAAAC
1 AAAAAAATAAAAC
17828253 AAAACAAATAAAATC
1 AAAA-AAATAAAA-C
17828268 AAAA
1 AAAA
17828272 TTGAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 15 0.54
14 8 0.29
15 5 0.18
ACGTcount: A:0.80, C:0.11, G:0.00, T:0.09
Consensus pattern (13 bp):
AAAAAAATAAAAC
Found at i:17828283 original size:27 final size:26
Alignment explanation
Indices: 17828224--17828291 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
17828214 AATAGAAAAT
17828224 ATAAAAAAAATAAAACCAAAAAATAA
1 ATAAAAAAAATAAAACCAAAAAATAA
* *
17828250 A-ACAAAACAAATAAAATC-AAAATTGAA
1 ATA-AAAA-AAATAAAACCAAAAAAT-AA
*
17828277 ATAAAAATAATAAAA
1 ATAAAAAAAATAAAA
17828292 AAAATGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.03
26 17 0.49
27 16 0.46
28 1 0.03
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.15
Consensus pattern (26 bp):
ATAAAAAAAATAAAACCAAAAAATAA
Found at i:17833100 original size:21 final size:21
Alignment explanation
Indices: 17833074--17833119 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
17833064 ATAAGTCAAA
* * *
17833074 ATATATTAATATTATATTTAT
1 ATATATAAATATAATATTAAT
17833095 ATATATAAATATAATATTAAT
1 ATATATAAATATAATATTAAT
17833116 ATAT
1 ATAT
17833120 TTTGAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATATAAATATAATATTAAT
Found at i:17833118 original size:11 final size:11
Alignment explanation
Indices: 17833076--17833118 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
17833066 AAGTCAAAAT
*
17833076 ATATTAATATT
1 ATATTAATATA
*
17833087 ATATTTATAT-
1 ATATTAATATA
*
17833097 ATATAAATATA
1 ATATTAATATA
17833108 ATATTAATATA
1 ATATTAATATA
17833119 TTTTGAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
ATATTAATATA
Found at i:17834287 original size:29 final size:29
Alignment explanation
Indices: 17834237--17834295 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
17834227 TAATTAATTG
* *
17834237 TATAAAGTTTGAATTTCTTTTTGCTTTTT
1 TATAAAGTTTGAATCTCCTTTTGCTTTTT
*
17834266 TATAAAGTTTGAA-CTCGCTTTTGTTTTTT
1 TATAAAGTTTGAATCTC-CTTTTGCTTTTT
17834295 T
1 T
17834296 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.20, C:0.08, G:0.12, T:0.59
Consensus pattern (29 bp):
TATAAAGTTTGAATCTCCTTTTGCTTTTT
Found at i:17837588 original size:29 final size:30
Alignment explanation
Indices: 17837528--17837586 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
17837518 TATGATTTAA
**
17837528 AAAAAAAAAAATTTAGAATTTATGGTACCC
1 AAAAAAAAAAATCCAGAATTTATGGTACCC
*
17837558 AAAAAAAAAAATCCA-AAGTTTATGTTACC
1 AAAAAAAAAAATCCAGAA-TTTATGGTACC
17837587 AACCTATACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.25
Consensus pattern (30 bp):
AAAAAAAAAAATCCAGAATTTATGGTACCC
Found at i:17858319 original size:21 final size:21
Alignment explanation
Indices: 17858293--17858340 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
17858283 TTCAATTCAA
*
17858293 TTCAATTTCTTTCAAG-TTAAT
1 TTCAATTT-TTACAAGTTTAAT
17858314 TTCAATTTTTACAAGTTTAAT
1 TTCAATTTTTACAAGTTTAAT
17858335 TTCAAT
1 TTCAAT
17858341 CTTCAAGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.52
Consensus pattern (21 bp):
TTCAATTTTTACAAGTTTAAT
Found at i:17860561 original size:107 final size:107
Alignment explanation
Indices: 17860425--17860626 Score: 395
Period size: 107 Copynumber: 1.9 Consensus size: 107
17860415 CATATTCAAA
17860425 CTTAATTGAACTTCAATTCAAGTCTTATTCTTTATATTTTTCATGATTATTTTTCCTTTCTTAGC
1 CTTAATTGAACTTCAATTCAAGTCTTATTCTTTATATTTTTCATGATTATTTTTCCTTTCTTAGC
17860490 TCATTAAAGCTTTTGTCACCTTTGTAGTAAAATGCATGAGCT
66 TCATTAAAGCTTTTGTCACCTTTGTAGTAAAATGCATGAGCT
17860532 CTTAATTGAACTTCAATTCAAGTCTTATTCTTTATATTTTTCATGATTATTTTTCCTTTCTTAGC
1 CTTAATTGAACTTCAATTCAAGTCTTATTCTTTATATTTTTCATGATTATTTTTCCTTTCTTAGC
*
17860597 TCATTAAAGCTTTTGTCATCTTTGTAGTAA
66 TCATTAAAGCTTTTGTCACCTTTGTAGTAA
17860627 TGATTTCAAG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 94 1.00
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (107 bp):
CTTAATTGAACTTCAATTCAAGTCTTATTCTTTATATTTTTCATGATTATTTTTCCTTTCTTAGC
TCATTAAAGCTTTTGTCACCTTTGTAGTAAAATGCATGAGCT
Found at i:17865531 original size:23 final size:24
Alignment explanation
Indices: 17865481--17865541 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 24
17865471 AAAACTTATA
*
17865481 CTTGAAAACTAAAACCTAATTTGC
1 CTTGAAAACTGAAACCTAATTTGC
* *
17865505 CTTGAAATCTGAAACTTAA-TTGC
1 CTTGAAAACTGAAACCTAATTTGC
17865528 CTTGAAAACTGAAA
1 CTTGAAAACTGAAA
17865542 ATAAACTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (24 bp):
CTTGAAAACTGAAACCTAATTTGC
Found at i:17865610 original size:18 final size:18
Alignment explanation
Indices: 17865595--17865630 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17865585 CAATAAAATC
17865595 TTAAAAAATAAGAAAAAA
1 TTAAAAAATAAGAAAAAA
*
17865613 TTAGAAAATAAGAAAAAA
1 TTAAAAAATAAGAAAAAA
17865631 GCTCATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (18 bp):
TTAAAAAATAAGAAAAAA
Found at i:17867421 original size:3 final size:3
Alignment explanation
Indices: 17867410--17867444 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
17867400 AGAAGAAAAA
*
17867410 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17867445 ATCCAAATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17869028 original size:146 final size:145
Alignment explanation
Indices: 17868816--17869221 Score: 334
Period size: 146 Copynumber: 2.8 Consensus size: 145
17868806 TTAAAGCACC
* * * * * * *
17868816 AAAAATCATGAAATACTATAGAATTAAGATCTAAAAAGTTTCAGGAAATTTCGAGCTTGAGAAAG
1 AAAAATAATGAAATATTATAAAATTAAGATCTGAAAACTTTCAGGAAATTTCAAACTTGAGAAAG
** * *
17868881 CCAAATTATGAAAATACCCCTACAAGAGTATTTTTGTAATTTCA-CACTTTTT-GAGGTACTGCT
66 CCAAATTACAAAAATACCCCTACAAGAGTATTTTGGTAATTTCATC-CTTTTTAG-GGTACTACT
*
17868944 ATAATTTCATATGCAAAA
129 ATAATTTCAAAT-CAAAA
* ***
17868962 AAAAATAATGAAATATTATAAAATTAAAATCTGAAAACTTTTTTGAAATTTCAAACTT-AGAAAA
1 AAAAATAATGAAATATTATAAAATTAAGATCTGAAAACTTTCAGGAAATTTCAAACTTGAG-AAA
*** * * * *
17869026 GCCAAATTACAAAAATACTTTTATAAGGGTATTTTGGTAATTTTATCCTTTTTAGGGTACTATTA
65 GCCAAATTACAAAAATACCCCTACAAGAGTATTTTGGTAATTTCATCCTTTTTAGGGTACTACTA
* * * **
17869091 TGATTTTAAATCCACC
130 TAATTTCAAATCAAAA
* * ** * * * *
17869107 AAAAATTATGAAATATTATAAAATTAAGATCTGGAATA-TTTCACAAAAGTCCAAGCTTGAAAAA
1 AAAAATAATGAAATATTATAAAATTAAGATCT-GAAAACTTTCAGGAAATTTCAAACTTGAGAAA
* * *** * * *
17869171 GTCAATTTACAAAAATATCTTTTATAAGGGTATTTTGGTAATTTTATCCTT
65 GCCAAATTACAAAAATA-CCCCTACAAGAGTATTTTGGTAATTTCATCCTT
17869222 CTCAGGGCAC
Statistics
Matches: 213, Mismatches: 41, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
145 65 0.31
146 146 0.69
147 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (145 bp):
AAAAATAATGAAATATTATAAAATTAAGATCTGAAAACTTTCAGGAAATTTCAAACTTGAGAAAG
CCAAATTACAAAAATACCCCTACAAGAGTATTTTGGTAATTTCATCCTTTTTAGGGTACTACTAT
AATTTCAAATCAAAA
Found at i:17871443 original size:211 final size:211
Alignment explanation
Indices: 17871079--17871504 Score: 656
Period size: 211 Copynumber: 2.0 Consensus size: 211
17871069 GTGAATAAGG
** * *
17871079 ATAAAGATATAAAGGTTAGCTTGAAAGGCTCAAACAATCCAAAAATGGCCTAAATTATCTCTATA
1 ATAAAGATATAAAGGTTAGCTCAAAAGGCTCAAACAATCCAAAAATGGCCTAAATCATCTCGATA
* * *
17871144 GTTAAGTGTAATTTATGATTTCACATCAAAAGATGCGCAAACAAATTCTAAAATAAGTATATAAC
66 GTTAAGTGTAATTTATGATTTCACATCAAAAGATACGCAAACAAATTCAAAAATAAGTATAGAAC
* * * * *
17871209 TTTAAAGATCAATGTAACTCCACATCTACATAAACTTTAACTAAACATTCATGTATCTTAATAAT
131 TTTAAAAATCAATGTAACTCCACATCGACATAAACTTTAACTAAACATGCATGCATCTCAATAAT
* *
17871274 TAAGACTAGATGCTCA
196 CAAGACTAGATACTCA
*
17871290 ATAAAGATATAAAGGTTAGCTCAAAAGGCTCAAACAATCCAAAGATGGCCTAAATCATCTCGATA
1 ATAAAGATATAAAGGTTAGCTCAAAAGGCTCAAACAATCCAAAAATGGCCTAAATCATCTCGATA
* *
17871355 GTTAAGTGTAGTTTATGATTTCACATCAAAAGATATGCAAACAAATT-AAAAAGTAAGTATAGAA
66 GTTAAGTGTAATTTATGATTTCACATCAAAAGATACGCAAACAAATTCAAAAA-TAAGTATAGAA
* *
17871419 CTTTAAAAATCAATGTAACTCCACATCGATATAAACTTTAACTAAACATGCATGCATCTCAATGA
130 CTTTAAAAATCAATGTAACTCCACATCGACATAAACTTTAACTAAACATGCATGCATCTCAATAA
*
17871484 TCAAGACTAGGTACTCA
195 TCAAGACTAGATACTCA
17871501 ATAA
1 ATAA
17871505 TGTGGAAATA
Statistics
Matches: 194, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
210 4 0.02
211 190 0.98
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (211 bp):
ATAAAGATATAAAGGTTAGCTCAAAAGGCTCAAACAATCCAAAAATGGCCTAAATCATCTCGATA
GTTAAGTGTAATTTATGATTTCACATCAAAAGATACGCAAACAAATTCAAAAATAAGTATAGAAC
TTTAAAAATCAATGTAACTCCACATCGACATAAACTTTAACTAAACATGCATGCATCTCAATAAT
CAAGACTAGATACTCA
Found at i:17874628 original size:13 final size:13
Alignment explanation
Indices: 17874610--17874638 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17874600 CAAAAGTTGC
17874610 TTTTTTTT-TCTT
1 TTTTTTTTATCTT
17874622 TTTTTTTTATCTT
1 TTTTTTTTATCTT
17874635 TTTT
1 TTTT
17874639 AAGTGTCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTTATCTT
Found at i:17875009 original size:19 final size:20
Alignment explanation
Indices: 17874985--17875022 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
17874975 GCTAATAAAA
*
17874985 AAACTTAAATA-ATGCAATT
1 AAACTTAAAAATATGCAATT
17875004 AAACTTAAAAATATGCAAT
1 AAACTTAAAAATATGCAAT
17875023 AATAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (20 bp):
AAACTTAAAAATATGCAATT
Found at i:17877982 original size:21 final size:21
Alignment explanation
Indices: 17877956--17877995 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17877946 CTAACAAGTA
*
17877956 GTAACCAAAATTAACTAACAT
1 GTAACCAAAAATAACTAACAT
17877977 GTAACCAAAAATAACTAAC
1 GTAACCAAAAATAACTAAC
17877996 TACTAACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (21 bp):
GTAACCAAAAATAACTAACAT
Found at i:17878821 original size:16 final size:16
Alignment explanation
Indices: 17878796--17878837 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
17878786 TTGCATTGTT
*
17878796 TGAAACTTAAAATGCA
1 TGAAAATTAAAATGCA
17878812 TGAAAATT-AAATGCA
1 TGAAAATTAAAATGCA
* *
17878827 AGAAAAGTAAA
1 TGAAAATTAAA
17878838 TTTTGCTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (16 bp):
TGAAAATTAAAATGCA
Found at i:17880456 original size:12 final size:11
Alignment explanation
Indices: 17880439--17880474 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
17880429 CTTTATTACC
*
17880439 TTTTTTTTCAT
1 TTTTTTTTCTT
17880450 TTTTTTTTCTT
1 TTTTTTTTCTT
17880461 CTTTTTTTTCTT
1 -TTTTTTTTCTT
17880473 TT
1 TT
17880475 AAAAGCTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:17886358 original size:20 final size:21
Alignment explanation
Indices: 17886314--17886367 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
17886304 TAAAATGTAT
*
17886314 AAATATATTAATATTTTTAAGA
1 AAATA-ATTAATATTTTGAAGA
*
17886336 AAATAATTACTATTTTGAA-A
1 AAATAATTAATATTTTGAAGA
17886356 AAATAA-TAATAT
1 AAATAATTAATAT
17886368 AAAGAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.17
20 7 0.24
21 12 0.41
22 5 0.17
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (21 bp):
AAATAATTAATATTTTGAAGA
Found at i:17886603 original size:19 final size:18
Alignment explanation
Indices: 17886576--17886615 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17886566 TTTTATATAA
*
17886576 ATATAATTTTATTAATTTT
1 ATATAA-TTTATTAAATTT
*
17886595 ATATTATTTATTAAATTT
1 ATATAATTTATTAAATTT
17886613 ATA
1 ATA
17886616 AAATATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATAATTTATTAAATTT
Found at i:17901012 original size:25 final size:25
Alignment explanation
Indices: 17900983--17901034 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
17900973 TTTGAACTTG
17900983 TCTATAAATCCATTTACTTTCATTT
1 TCTATAAATCCATTTACTTTCATTT
* *
17901008 TCTATAATTTCATTTACTTTCATTT
1 TCTATAAATCCATTTACTTTCATTT
17901033 TC
1 TC
17901035 CTTTTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (25 bp):
TCTATAAATCCATTTACTTTCATTT
Found at i:17903075 original size:21 final size:20
Alignment explanation
Indices: 17903053--17903108 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
17903043 AAATTTTATA
*
17903053 AAAATGAATCGATCCCCTAT
1 AAAATGAATCGATCCACTAT
* * *
17903073 AAAATAAATTGATCCATTAT
1 AAAATGAATCGATCCACTAT
*
17903093 GAAAATGGATCGATCC
1 -AAAATGAATCGATCC
17903109 TTTATGAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (20 bp):
AAAATGAATCGATCCACTAT
Found at i:17903113 original size:21 final size:21
Alignment explanation
Indices: 17903047--17903120 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
17903037 TTAAACAAAT
*
17903047 TTTATAAAAATGAATCGATCC
1 TTTATGAAAATGAATCGATCC
** * *
17903068 CCTAT-AAAATAAATTGATCC
1 TTTATGAAAATGAATCGATCC
* *
17903088 ATTATGAAAATGGATCGATCC
1 TTTATGAAAATGAATCGATCC
17903109 TTTATGAAAATG
1 TTTATGAAAATG
17903121 CATTGAACCA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 16 0.38
21 26 0.62
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (21 bp):
TTTATGAAAATGAATCGATCC
Found at i:17903132 original size:42 final size:41
Alignment explanation
Indices: 17903048--17903153 Score: 113
Period size: 42 Copynumber: 2.6 Consensus size: 41
17903038 TAAACAAATT
* *
17903048 TTATAAAAATGAATCGATCCCCTATAAAATAAATTGATCCA
1 TTATAAAAATGGATCGATCCCCTATAAAATAAATTGAACCA
* ** **
17903089 TTATGAAAATGGATCGATCCTTTATGAAAATGCATTGAACCA
1 TTATAAAAATGGATCGATCCCCTAT-AAAATAAATTGAACCA
* * *
17903131 TTCTAAAAATAGTTCGATCCCCT
1 TTATAAAAATGGATCGATCCCCT
17903154 TGCAAAATAG
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
41 21 0.41
42 30 0.59
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (41 bp):
TTATAAAAATGGATCGATCCCCTATAAAATAAATTGAACCA
Found at i:17904723 original size:21 final size:20
Alignment explanation
Indices: 17904690--17904732 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
17904680 AGAAAGGGAG
*
17904690 AATTTAGATTTGA-GAATGA
1 AATTTAGATTTGATAAATGA
17904709 AATTTAAGAATTTGATAAATGA
1 AATTT-AG-ATTTGATAAATGA
17904731 AA
1 AA
17904733 AGCATGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 2 0.10
21 6 0.30
22 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (20 bp):
AATTTAGATTTGATAAATGA
Found at i:17906906 original size:15 final size:15
Alignment explanation
Indices: 17906886--17906926 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
17906876 ATGATACAAA
17906886 TAATTTTATTAAAAT
1 TAATTTTATTAAAAT
* *
17906901 TAATTTTTTTTAAAT
1 TAATTTTATTAAAAT
*
17906916 TGATTTTATTA
1 TAATTTTATTA
17906927 TTTTTCATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TAATTTTATTAAAAT
Found at i:17912813 original size:13 final size:14
Alignment explanation
Indices: 17912789--17912823 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
17912779 ATTTATTCAA
17912789 AATTGATACAAAAT
1 AATTGATACAAAAT
17912803 AATTG-TACAAAAT
1 AATTGATACAAAAT
17912816 AATT-ATAC
1 AATTGATAC
17912824 GAACATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (14 bp):
AATTGATACAAAAT
Found at i:17913010 original size:22 final size:22
Alignment explanation
Indices: 17912955--17913014 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
17912945 CAGCATAATT
* *
17912955 AAAAAT-AAAAAGAGAATTTTA
1 AAAAATAAAAAATAAAATTTTA
17912976 AAAAATAAAAAATAAAATTTTA
1 AAAAATAAAAAATAAAATTTTA
**
17912998 AAAAATAGGAAATAAAA
1 AAAAATAAAAAATAAAA
17913015 ACAGAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 6 0.18
22 28 0.82
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (22 bp):
AAAAATAAAAAATAAAATTTTA
Found at i:17917330 original size:26 final size:26
Alignment explanation
Indices: 17917301--17917389 Score: 99
Period size: 26 Copynumber: 3.4 Consensus size: 26
17917291 TGTGTAAACA
*
17917301 CCCATTTGTGTTTGAGCCCAATTAGG
1 CCCATTTGTGTTTGAGCCTAATTAGG
* ** *
17917327 CCCATTGGTGTCCGGGCCTAATTAGG
1 CCCATTTGTGTTTGAGCCTAATTAGG
* *
17917353 CCCA-TTGATGTTTAAGCCTAACTAGG
1 CCCATTTG-TGTTTGAGCCTAATTAGG
17917379 CCCATTTGTGT
1 CCCATTTGTGT
17917390 CCCGACCTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
25 2 0.04
26 45 0.90
27 3 0.06
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.33
Consensus pattern (26 bp):
CCCATTTGTGTTTGAGCCTAATTAGG
Found at i:17917379 original size:52 final size:52
Alignment explanation
Indices: 17917301--17917406 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 52
17917291 TGTGTAAACA
* * * *
17917301 CCCATTTGTGTTTGAGCCCAATTAGGCCCATTGGTGTCCGGGCCTAATTAGG
1 CCCATTTGTGTTTAAGCCCAACTAGGCCCATTGGTGTCCCGACCTAATTAGG
* * *
17917353 CCCA-TTGATGTTTAAGCCTAACTAGGCCCATTTGTGTCCCGACCTAATTGGG
1 CCCATTTG-TGTTTAAGCCCAACTAGGCCCATTGGTGTCCCGACCTAATTAGG
17917405 CC
1 CC
17917407 GACTCTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
51 3 0.07
52 43 0.93
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (52 bp):
CCCATTTGTGTTTAAGCCCAACTAGGCCCATTGGTGTCCCGACCTAATTAGG
Found at i:17917449 original size:3 final size:3
Alignment explanation
Indices: 17917428--17917528 Score: 55
Period size: 3 Copynumber: 34.3 Consensus size: 3
17917418 TTAATGTCAC
* * * * * * * *
17917428 TAT TAT T-T GAT TAT CAT TAT TAT TAT TAT TGT TGT TGT TGT TGT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
17917475 TAT TGT TGT TAT TGT TAT TAT TAT TAT TAT TA- TACT T-T TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
*
17917519 TAT TTT TAT T
1 TAT TAT TAT T
17917529 TTTACTTTTC
Statistics
Matches: 80, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
2 5 0.06
3 74 0.93
4 1 0.01
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17917595 original size:3 final size:3
Alignment explanation
Indices: 17917580--17917649 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
17917570 TTCTTATTAA
*
17917580 ATT ATT A-T GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17917627 ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
17917650 ATTTCTGTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 1 0.02
3 63 0.98
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17917687 original size:22 final size:23
Alignment explanation
Indices: 17917655--17917697 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
17917645 ATTATATTTC
17917655 TGTTTCTTTCTTTCCTTTTCTTT
1 TGTTTCTTTCTTTCCTTTTCTTT
17917678 TGTTT-TTTCTTTCCTTTTCT
1 TGTTTCTTTCTTTCCTTTTCT
17917698 ATTCTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (23 bp):
TGTTTCTTTCTTTCCTTTTCTTT
Found at i:17918093 original size:21 final size:20
Alignment explanation
Indices: 17918054--17918094 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17918044 AGAAGGTTTG
*
17918054 GGGAAGATTTGGAGTTTTCT
1 GGGAAGATTTGGAGATTTCT
*
17918074 GGGAAGGTTTGGAGAATTTCT
1 GGGAAGATTTGGAG-ATTTCT
17918095 TGACTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.22, C:0.05, G:0.37, T:0.37
Consensus pattern (20 bp):
GGGAAGATTTGGAGATTTCT
Found at i:17918173 original size:31 final size:31
Alignment explanation
Indices: 17918138--17918206 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
17918128 AAGAACTTTA
17918138 AATTTTTTGACGAAATTTTCTGACAAGGTCG
1 AATTTTTTGACGAAATTTTCTGACAAGGTCG
** * ** *
17918169 AATTTTTTGGTGAAATTTTTTGGTAAGGTTG
1 AATTTTTTGACGAAATTTTCTGACAAGGTCG
17918200 AATTTTT
1 AATTTTT
17918207 CAATAAGGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (31 bp):
AATTTTTTGACGAAATTTTCTGACAAGGTCG
Found at i:17918679 original size:17 final size:17
Alignment explanation
Indices: 17918659--17918695 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17918649 ACAATTCTAA
17918659 AAAAAATCTTT-TCAAAT
1 AAAAAATCTTTGT-AAAT
17918676 AAAAAATCTTTGTAAAT
1 AAAAAATCTTTGTAAAT
17918693 AAA
1 AAA
17918696 GTTTTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAAAATCTTTGTAAAT
Found at i:17918734 original size:20 final size:21
Alignment explanation
Indices: 17918697--17918764 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
17918687 GTAAATAAAG
**
17918697 TTTTCAAAATAATTAAAAAATC
1 TTTTC-AAATAAAAAAAAAATC
**
17918719 TTTTC-AATAAAAAAAAGGTC
1 TTTTCAAATAAAAAAAAAATC
17918739 TTTTCAAATAAACAAAAATAAT-
1 TTTTCAAATAAA-AAAAA-AATC
17918761 TTTT
1 TTTT
17918765 ATCCTTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.43
21 6 0.16
22 14 0.38
23 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (21 bp):
TTTTCAAATAAAAAAAAAATC
Found at i:17918750 original size:21 final size:21
Alignment explanation
Indices: 17918717--17918756 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
17918707 AATTAAAAAA
17918717 TCTTTTCAATAAA-AAAAAGG
1 TCTTTTCAATAAACAAAAAGG
17918737 TCTTTTCAAATAAACAAAAA
1 TCTTTTC-AATAAACAAAAA
17918757 TAATTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (21 bp):
TCTTTTCAATAAACAAAAAGG
Found at i:17931567 original size:16 final size:16
Alignment explanation
Indices: 17931543--17931614 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
17931533 AATAATGGGT
*
17931543 GAAAGAATGAAAGAAA
1 GAAAAAATGAAAGAAA
*
17931559 GAAAAAATGAAAAAAA
1 GAAAAAATGAAAGAAA
*
17931575 TGAAAAAA-AAAAGAAA
1 -GAAAAAATGAAAGAAA
* * *
17931591 AATAAAAAAGAGAGAAAA
1 GA-AAAAATGAAAG-AAA
17931609 GAAAAA
1 GAAAAA
17931615 CTCAAATTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
15 1 0.02
16 25 0.57
17 14 0.32
18 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (16 bp):
GAAAAAATGAAAGAAA
Found at i:17931614 original size:17 final size:16
Alignment explanation
Indices: 17931556--17931614 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
17931546 AGAATGAAAG
* *
17931556 AAAGAAAAAATGAAAA
1 AAAGAAAAAAAGAAGA
*
17931572 AAATGAAAAAAAAAAGA
1 AAA-GAAAAAAAGAAGA
17931589 AAA-ATAAAAAAGAGAGA
1 AAAGA-AAAAAAGA-AGA
17931606 AAAGAAAAA
1 AAAGAAAAA
17931615 CTCAAATTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.03
16 10 0.29
17 23 0.66
18 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (16 bp):
AAAGAAAAAAAGAAGA
Found at i:17932283 original size:49 final size:48
Alignment explanation
Indices: 17932202--17932303 Score: 143
Period size: 49 Copynumber: 2.1 Consensus size: 48
17932192 CCTATGAGTT
17932202 GTGCTTAAATGATATAGGCAATGAACGAAACTTGTACTAGAATTGTTA
1 GTGCTTAAATGATATAGGCAATGAACGAAACTTGTACTAGAATTGTTA
* ** *
17932250 GTGCTTAAATGATATGGGGCAAT-AGACGAAACTTGTTTTGGAATTGTTA
1 GTGCTTAAATGATAT-AGGCAATGA-ACGAAACTTGTACTAGAATTGTTA
17932299 GTGCT
1 GTGCT
17932304 GAGAAGCCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
48 16 0.33
49 32 0.67
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (48 bp):
GTGCTTAAATGATATAGGCAATGAACGAAACTTGTACTAGAATTGTTA
Found at i:17932342 original size:23 final size:23
Alignment explanation
Indices: 17932316--17932359 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17932306 GAAGCCTATG
*
17932316 AATGGTGATCAAGTGATGAAAAT
1 AATGATGATCAAGTGATGAAAAT
* *
17932339 AATGATGATCGATTGATGAAA
1 AATGATGATCAAGTGATGAAA
17932360 CTTGTTCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (23 bp):
AATGATGATCAAGTGATGAAAAT
Found at i:17932709 original size:21 final size:19
Alignment explanation
Indices: 17932685--17932742 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 19
17932675 TTGAGTTCTG
*
17932685 AAATATGAATTTTTGAATTT
1 AAATA-GAATCTTTGAATTT
17932705 CAAATGAGAATCTTTGAATTT
1 -AAAT-AGAATCTTTGAATTT
17932726 AGAATAAGAATCTTTGA
1 A-AAT-AGAATCTTTGA
17932743 GATATGAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (19 bp):
AAATAGAATCTTTGAATTT
Found at i:17933151 original size:43 final size:42
Alignment explanation
Indices: 17933089--17933524 Score: 509
Period size: 42 Copynumber: 10.3 Consensus size: 42
17933079 ATTGTCAAGA
*
17933089 AGCATTTTATTTTCCAAAGTTGTGGTTGCCTCTCTTTAGAGG
1 AGCATTTTATTTTCCAAAGTTGTGGTTGCCTCTATTTAGAGG
* * * * * *
17933131 AACATTTTAATTTTCCAAAGTTATGATTACCTTTCTTTAGA-G
1 AGCATTTT-ATTTTCCAAAGTTGTGGTTGCCTCTATTTAGAGG
* * *
17933173 AGTATTTTATTTTTCAAAGTTGTGGTTGCCTTTATTTAGAGG
1 AGCATTTTATTTTCCAAAGTTGTGGTTGCCTCTATTTAGAGG
* * *
17933215 AGCATTTTATTTTTCCAAATTTTTGGTTGCCTCTGTTTAGAGG
1 AGCATTTTA-TTTTCCAAAGTTGTGGTTGCCTCTATTTAGAGG
* *
17933258 AGAATTTTATTTTCCAAAGTTGTGGTTACCTCTATTTAGA-G
1 AGCATTTTATTTTCCAAAGTTGTGGTTGCCTCTATTTAGAGG
* *
17933299 AGTATTTTATTTTCCAAAGTTGTGGTTGCCTCTGTTTAGAGG
1 AGCATTTTATTTTCCAAAGTTGTGGTTGCCTCTATTTAGAGG
* * *
17933341 AGCATTATATTTATCCAAAGTTATTGTTGCCTCTATTTAGAGG
1 AGCATTTTATTT-TCCAAAGTTGTGGTTGCCTCTATTTAGAGG
* *
17933384 AGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAG
1 AGCATTTTATTTTCCAAAGTTGTGGTTGCCTCTATTTAGAGG
* * * * *
17933426 AGCATTTTATTTTTTTCAAAGTTGTGGTTGTCTTTATATAGATG
1 AGCATTTTA--TTTTCCAAAGTTGTGGTTGCCTCTATTTAGAGG
* * * *
17933470 AGCATTTTATTTTTCAAAGTTATTG-AGCCTCTATTTAGAGG
1 AGCATTTTATTTTCCAAAGTTGTGGTTGCCTCTATTTAGAGG
*
17933511 AGCTTTATTATTTT
1 AGCATT-TTATTTT
17933525 TTCCAAAAAA
Statistics
Matches: 338, Mismatches: 48, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
41 81 0.24
42 117 0.35
43 102 0.30
44 38 0.11
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (42 bp):
AGCATTTTATTTTCCAAAGTTGTGGTTGCCTCTATTTAGAGG
Found at i:17933795 original size:14 final size:15
Alignment explanation
Indices: 17933766--17933798 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17933756 TTCTTATTGG
17933766 TTTATTATTCTGAAT
1 TTTATTATTCTGAAT
*
17933781 TTTATT-TTTTGAAT
1 TTTATTATTCTGAAT
17933795 TTTA
1 TTTA
17933799 GGAGATAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTATTATTCTGAAT
Found at i:17934486 original size:16 final size:18
Alignment explanation
Indices: 17934465--17934510 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
17934455 TTTTGGGTAT
17934465 TTTATTTATTTGTTT-A-
1 TTTATTTATTTGTTTAAG
*
17934481 TTTATTTATTTTTTTAAG
1 TTTATTTATTTGTTTAAG
17934499 TGTTATTTATTT
1 T-TTATTTATTT
17934511 TTATGAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 14 0.54
17 1 0.04
18 1 0.04
19 10 0.38
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTATTTATTTGTTTAAG
Found at i:17934632 original size:67 final size:65
Alignment explanation
Indices: 17934549--17934761 Score: 205
Period size: 67 Copynumber: 3.1 Consensus size: 65
17934539 TAATAAAAAT
*
17934549 AAAAT-AAAAATAAAAAATTACAAAATATATATATTTTTAGGAAAAGTTAAAAGTA-CAATTTTC
1 AAAATAAAAAAT-AAAAATTTCAAAA-A-ATAT-TTTTTAGGAAAAGTTAAAAGTATCAATTTTC
17934612 CTTA
62 CTTA
* *
17934616 AAAATAAAAAATAAAAATTTTCAAAGAAAAATTTTTTTTAAGGAAAAGTTGAAAGTATCAATTTT
1 AAAATAAAAAATAAAAA-TTTC--A-AAAAATATTTTTT-AGGAAAAGTTAAAAGTATCAATTTT
*
17934681 CTTTA
61 CCTTA
* ** * * * *
17934686 AAAATACAAAATTTCTAATTTTTAAAAAATATTTTTAAGAAAAAGTTAAAAGTATCAATTTTCCT
1 AAAATA-AAAA-ATAAAAATTTCAAAAAATATTTTTTAGGAAAAGTTAAAAGTATCAATTTTCCT
*
17934751 TG
64 TA
17934753 AAAATAAAA
1 AAAATAAAA
17934762 TTTTTGAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
66 3 0.02
67 42 0.34
68 25 0.20
69 20 0.16
70 19 0.16
71 10 0.08
72 3 0.02
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.35
Consensus pattern (65 bp):
AAAATAAAAAATAAAAATTTCAAAAAATATTTTTTAGGAAAAGTTAAAAGTATCAATTTTCCTTA
Found at i:17934859 original size:28 final size:28
Alignment explanation
Indices: 17934827--17934884 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
17934817 TTAAAAAGAA
17934827 AACCTTAAAATGCTTTAAGGAAAAGTTT
1 AACCTTAAAATGCTTTAAGGAAAAGTTT
*
17934855 AACCTTAAAATGTTTTAAGGAAAAGTTT
1 AACCTTAAAATGCTTTAAGGAAAAGTTT
17934883 AA
1 AA
17934885 AGTATCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.33
Consensus pattern (28 bp):
AACCTTAAAATGCTTTAAGGAAAAGTTT
Found at i:17937674 original size:20 final size:20
Alignment explanation
Indices: 17937627--17937675 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
17937617 CGTAACAATA
* *
17937627 AATCTATACAAGTATAAAGTC
1 AATC-ATACAAGCATAAAGAC
17937648 -ATGCATACAAGCATAAAGAC
1 AAT-CATACAAGCATAAAGAC
17937668 AATCATAC
1 AATCATAC
17937676 GTGATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.49, C:0.18, G:0.10, T:0.22
Consensus pattern (20 bp):
AATCATACAAGCATAAAGAC
Found at i:17946382 original size:68 final size:68
Alignment explanation
Indices: 17946235--17946361 Score: 202
Period size: 68 Copynumber: 1.9 Consensus size: 68
17946225 GCATTACACT
* *
17946235 AATGAATAGGATGTCTATAAAATTATTTTAGCTGGTATATAAATGGATGATTACCTTCTGTATAT
1 AATGAATAAGATGTCTATAAAATTATTTTAGCTGGTATATAAATGGACGATTACCTTCTGTATAT
17946300 ATG
66 ATG
* *
17946303 AATGAATAAGATGTTTATAAAATTATTTCTA-CTGGTATATGAATGGACGATTACCTTCT
1 AATGAATAAGATGTCTATAAAATTATTT-TAGCTGGTATATAAATGGACGATTACCTTCT
17946362 TACCTTTTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
68 52 0.96
69 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (68 bp):
AATGAATAAGATGTCTATAAAATTATTTTAGCTGGTATATAAATGGACGATTACCTTCTGTATAT
ATG
Found at i:17947138 original size:24 final size:24
Alignment explanation
Indices: 17947098--17947144 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17947088 AAAACATATT
17947098 ATATTATAATTATAAATA-AATTA
1 ATATTATAATTATAAATATAATTA
17947121 ATATTAATAATTGA-AAATATAATT
1 ATATT-ATAATT-ATAAATATAATT
17947145 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.24
24 11 0.52
25 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTATAAATATAATTA
Found at i:17947324 original size:55 final size:54
Alignment explanation
Indices: 17947265--17947440 Score: 132
Period size: 49 Copynumber: 3.3 Consensus size: 54
17947255 TAAAACTTAT
17947265 AAGTCTATACTGACAATCTCTAACCGTCGGTATAGGTAAGAAAATAAAAAAATAA
1 AAGTCTATACTGACAATCTCTAACCGTCGGTATAGGTAAGAAAAT-AAAAAATAA
* * * * * * * *
17947320 AAGTCTATATTGACGGAT-GCTAAGCGTCAGTATAAGTAAG-----AAAAATTAC
1 AAGTCTATACTGAC-AATCTCTAACCGTCGGTATAGGTAAGAAAATAAAAAATAA
* * * * * *
17947369 AAGTCTATACTGACAAGCGT-TAACCATAGGTATAGGTTAAAAAAATTAAAACATAT
1 AAGTCTATACTGACAATC-TCTAACCGTCGGTATAGG-TAAGAAAA-TAAAAAATAA
17947425 AAGTCTATACTGACAA
1 AAGTCTATACTGACAA
17947441 GTGCTAGCCG
Statistics
Matches: 90, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
48 1 0.01
49 31 0.34
50 3 0.03
55 31 0.34
56 24 0.27
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.26
Consensus pattern (54 bp):
AAGTCTATACTGACAATCTCTAACCGTCGGTATAGGTAAGAAAATAAAAAATAA
Found at i:17947420 original size:160 final size:159
Alignment explanation
Indices: 17947241--17947582 Score: 392
Period size: 160 Copynumber: 2.1 Consensus size: 159
17947231 GTCAATAAAA
* * *
17947241 TATA-ATAAAAAAATTAAAACTTATAAGTCTATACTGACAA-TCTCTAACCGTCGGTATAGGT-A
1 TATAGATAAAAAAATTAAAACATATAAGTCTATACTGACAAGT-GCTAACCGTCGATATAGGTGA
* * * *
17947303 AGAAAA-TA-AAAAAATAAAAGTCTATATTGACGGATGC-TAAGCGTCAGTATAAGTAAGAAA-A
65 A-AAAATTAGAAAAAAT-AAA-TCTATACTAACGG--GCTTAAGCGTCAATATAAGTAAAAAACA
*
17947364 ATTACAAGTCTATACTGACAAGCGTTAACCATAGG
125 ATTACAAGTCTATACTGACAAGCATTAACCATAGG
* *
17947399 TATAGGTTAAAAAAATTAAAACATATAAGTCTATACTGACAAGTGCTAGCCGTCGATATAGGTGA
1 TATA-GATAAAAAAATTAAAACATATAAGTCTATACTGACAAGTGCTAACCGTCGATATAGGTGA
* * *
17947464 AAAAATTAGAACAGATAAATCTATACTAACGGGCTTTAAGCGTCAATATAGGTAAAAAACAATTA
65 AAAAATTAGAAAAAATAAATCTATACTAACGGGC-TTAAGCGTCAATATAAGTAAAAAACAATTA
* * **
17947529 CAAGTCTATATTGACGAGCATTAACTGTAGG
129 CAAGTCTATACTGACAAGCATTAACCATAGG
*
17947560 TATAGACAAGAAAAATTAAAACA
1 TATAGATAA-AAAAATTAAAACA
17947583 AACAAATTTT
Statistics
Matches: 155, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
158 6 0.04
160 88 0.57
161 56 0.36
162 5 0.03
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.26
Consensus pattern (159 bp):
TATAGATAAAAAAATTAAAACATATAAGTCTATACTGACAAGTGCTAACCGTCGATATAGGTGAA
AAAATTAGAAAAAATAAATCTATACTAACGGGCTTAAGCGTCAATATAAGTAAAAAACAATTACA
AGTCTATACTGACAAGCATTAACCATAGG
Found at i:17947459 original size:56 final size:55
Alignment explanation
Indices: 17947369--17947490 Score: 145
Period size: 56 Copynumber: 2.2 Consensus size: 55
17947359 GAAAAATTAC
* * *
17947369 AAGTCTATACTGACAAGCGTTAACCATAGGTATAGGTTAAAAAAATTAAAACATAT
1 AAGTCTATACTGACAAGCGCTAACCATAGATATAGG-TAAAAAAATTAAAACAGAT
* * * * * *
17947425 AAGTCTATACTGACAAGTGCTAGCCGTCGATATAGGTGAAAAAATTAGAACAGAT
1 AAGTCTATACTGACAAGCGCTAACCATAGATATAGGTAAAAAAATTAAAACAGAT
*
17947480 AAATCTATACT
1 AAGTCTATACT
17947491 AACGGGCTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
55 26 0.46
56 30 0.54
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (55 bp):
AAGTCTATACTGACAAGCGCTAACCATAGATATAGGTAAAAAAATTAAAACAGAT
Found at i:17948014 original size:50 final size:48
Alignment explanation
Indices: 17947935--17948055 Score: 154
Period size: 50 Copynumber: 2.5 Consensus size: 48
17947925 AGTTGCTTGA
*
17947935 ATCATGTATTTGCATCATTTAAGGGATTTATA-AGTTGTATAATTGTTTAG
1 ATCATGTATTTGCATCATTT-GGGGATTTATACA-TTGTATAATTG-TTAG
* *
17947985 ATCATGTGTTTGCATCATTTGGGGAATTTATACATTGTATAATTGTTGG
1 ATCATGTATTTGCATCATTTGGGG-ATTTATACATTGTATAATTGTTAG
* *
17948034 ACCATGTATTTGCACCATTTGG
1 ATCATGTATTTGCATCATTTGG
17948056 TCATTGTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
49 25 0.40
50 37 0.59
51 1 0.02
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (48 bp):
ATCATGTATTTGCATCATTTGGGGATTTATACATTGTATAATTGTTAG
Found at i:17948137 original size:71 final size:71
Alignment explanation
Indices: 17948056--17948195 Score: 183
Period size: 71 Copynumber: 2.0 Consensus size: 71
17948046 CACCATTTGG
* * ** * * * *
17948056 TCATTGTTTTGAATATTACATTTGCATTATTATTTGTAA-CATGCATTTGCATCATTTGGTTAGT
1 TCATTATTTTGAATATTACATTTGCATCACAATTAG-AACCATACATTTGCATAATTTGGTAAGT
17948120 ATTTAAA
65 ATTTAAA
*
17948127 TCATTATTTTGAATATTATATTTGCATCACAATTAGAACCATACATTTGCATAATTTGGTAAGTA
1 TCATTATTTTGAATATTACATTTGCATCACAATTAGAACCATACATTTGCATAATTTGGTAAGTA
17948192 TTTA
66 TTTA
17948196 GATTTGACAT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 2 0.03
71 57 0.97
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (71 bp):
TCATTATTTTGAATATTACATTTGCATCACAATTAGAACCATACATTTGCATAATTTGGTAAGTA
TTTAAA
Found at i:17949545 original size:42 final size:41
Alignment explanation
Indices: 17949395--17949552 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 41
17949385 GGGTCTTAGT
* *
17949395 CTCTGGTGAGAAAAGTTCTTTCATTTTTAAAGTTTCATAAC
1 CTCTGGTGAGAAAAGCTCTTTCATTTTTAAAGTTTCATAGC
* *
17949436 CTTTGGTGA-AAGAAGCTCTTTTATTTTTTTTTTAAAAGTTTCATAGC
1 CTCTGGTGAGAA-AAGCTCTTTCA-----TTTTT-AAAGTTTCATAGC
* ** *
17949483 CTCTAGTGAGAGGAGATCTTTCATTTATTAAAGTTTCATAGC
1 CTCTGGTGAGAAAAGCTCTTTCATTT-TTAAAGTTTCATAGC
*
17949525 CTCTGGTGAGAAAGGCTCTTTCATTTTT
1 CTCTGGTGAGAAAAGCTCTTTCATTTTT
17949553 TTTTTTTTAA
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
40 2 0.02
41 19 0.20
42 37 0.40
43 2 0.02
46 5 0.05
47 27 0.29
48 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (41 bp):
CTCTGGTGAGAAAAGCTCTTTCATTTTTAAAGTTTCATAGC
Found at i:17951046 original size:2 final size:2
Alignment explanation
Indices: 17951039--17951071 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17951029 TGTATAGTTT
17951039 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17951072 GTATTGTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17951320 original size:25 final size:23
Alignment explanation
Indices: 17951292--17951346 Score: 83
Period size: 25 Copynumber: 2.3 Consensus size: 23
17951282 GATTTTTGGT
17951292 ATGATTTTTATTATAATATTTTGAC
1 ATGATTTTTATTATAATA-TTTG-C
*
17951317 ATGATTTTTATTATGATATTTGC
1 ATGATTTTTATTATAATATTTGC
17951340 ATGATTT
1 ATGATTT
17951347 ATTTGTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 8 0.28
24 4 0.14
25 17 0.59
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (23 bp):
ATGATTTTTATTATAATATTTGC
Found at i:17952079 original size:7 final size:7
Alignment explanation
Indices: 17952067--17952093 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17952057 ACTCAAACTC
17952067 AAAATTA
1 AAAATTA
17952074 AAAATTA
1 AAAATTA
17952081 AAAATTA
1 AAAATTA
17952088 AAAATT
1 AAAATT
17952094 TTTAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAATTA
Found at i:17952177 original size:16 final size:16
Alignment explanation
Indices: 17952156--17952193 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
17952146 TGTACCCGAG
17952156 ATAATTC-AACTTAAAA
1 ATAATTCAAACTT-AAA
17952172 ATAATTCAAACTTAAA
1 ATAATTCAAACTTAAA
17952188 ATAATT
1 ATAATT
17952194 AAAATTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATTCAAACTTAAA
Found at i:17952383 original size:2 final size:2
Alignment explanation
Indices: 17952319--17952371 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
17952309 TGTGTTTATG
*
17952319 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17952361 TA TA TA TA TA T
1 TA TA TA TA TA T
17952372 TTTAGGATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17952945 original size:37 final size:37
Alignment explanation
Indices: 17952904--17952980 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
17952894 GATGACTAAA
* *
17952904 ATAGAAAGTTCCAAAAACCAAATGTCAATATATATAT
1 ATAGAAAGCTCCAAAAACCAAATGTCAATATAAATAT
17952941 ATAGAAAGCTCCAAAAACCAAATGTCAATATAAATAT
1 ATAGAAAGCTCCAAAAACCAAATGTCAATATAAATAT
17952978 ATA
1 ATA
17952981 TATAATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (37 bp):
ATAGAAAGCTCCAAAAACCAAATGTCAATATAAATAT
Found at i:17958596 original size:34 final size:34
Alignment explanation
Indices: 17958553--17958618 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
17958543 ATCATGAAAG
*
17958553 ATAATGCATCTATTTATTATGTTCATTGTTTTAC
1 ATAATGCATCTATTTATTACGTTCATTGTTTTAC
17958587 ATAATGCATCTATTTATTACGTTCATTGTTTT
1 ATAATGCATCTATTTATTACGTTCATTGTTTT
17958619 GCTTATCACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (34 bp):
ATAATGCATCTATTTATTACGTTCATTGTTTTAC
Found at i:17959918 original size:2 final size:2
Alignment explanation
Indices: 17959911--17959961 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
17959901 GCGTGCGCGA
17959911 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
17959953 AC AC AC AC A
1 AC AC AC AC A
17959962 TATATATATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17969344 original size:21 final size:21
Alignment explanation
Indices: 17969305--17969345 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17969295 TCGGCAGAAA
*
17969305 ATTTATTGATCAACTAAAAAT
1 ATTTATTGATCAACGAAAAAT
* *
17969326 ATTTATTGGTTAACGAAAAA
1 ATTTATTGATCAACGAAAAA
17969346 ATGATAACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (21 bp):
ATTTATTGATCAACGAAAAAT
Found at i:17969833 original size:16 final size:18
Alignment explanation
Indices: 17969794--17969831 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17969784 TTATTTTTAA
17969794 AAATAAATATTAATATATT
1 AAAT-AATATTAATATATT
*
17969813 AAATAATATTTATA-ATT
1 AAATAATATTAATATATT
17969830 AA
1 AA
17969832 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 9 0.50
19 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATAATATTAATATATT
Found at i:17970030 original size:22 final size:21
Alignment explanation
Indices: 17969984--17970050 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
17969974 ATAATATTTT
* * *
17969984 TATTATAAT-TTAATAATCAA
1 TATTTTAATATTAAAAATAAA
17970004 TATTTTCAATA-TAAAATATAAA
1 TATTTT-AATATTAAAA-ATAAA
*
17970026 TATTTTAATATTATAAATAAA
1 TATTTTAATATTAAAAATAAA
17970047 TATT
1 TATT
17970051 ACTATTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 5 0.13
21 20 0.51
22 14 0.36
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
TATTTTAATATTAAAAATAAA
Found at i:17971881 original size:22 final size:22
Alignment explanation
Indices: 17971854--17971898 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17971844 TCGCAATGCT
*
17971854 TGACACAATTTCGTTATCCATG
1 TGACACAATTTCATTATCCATG
17971876 TGACACAATTTCATTATCCATG
1 TGACACAATTTCATTATCCATG
17971898 T
1 T
17971899 ATCTTGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (22 bp):
TGACACAATTTCATTATCCATG
Found at i:17973856 original size:161 final size:161
Alignment explanation
Indices: 17973675--17973971 Score: 401
Period size: 162 Copynumber: 1.8 Consensus size: 161
17973665 AATCATTTGG
* **
17973675 ACAAGTTTAATACCATGTATTGAAGCCATCCAAACTGTT-AAA-AGCCATCCAA-AA-ATTTAA-
1 ACAAGTTTAATACCATGTATTGAAGCCATCCAAACTGTTAAAATAG-AAT--AATAACA-ACAAT
* *
17973735 TTTGTATTTTTACCT-TTAAGAGGCA-AAAATAGTCCTAAATAGATGTAAACGATAACTTTTTTC
62 TTTGTATTTTTACCTATTAA-AGGCACAAAA-AGTCCTAAATAGACGTAAACAATAACTTTTTT-
17973798 ACACATATCAACCATAGAAATCAAGTTTAATCATTCAA
124 ACACATATCAACCATAGAAATCAAGTTTAATCATTCAA
* *
17973836 ACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAATAGAATAATAACAACAATTTTG
1 ACAAGTTTAATACCATGTATTGAAGCCATCCAAACTGTTAAAATAGAATAATAACAACAATTTTG
* *
17973901 TATTTTTACCTATTAATGGCACAAAAAGTCCTAAATAGACGTAAACAATAACTTTTTTATACATA
66 TATTTTTACCTATTAAAGGCACAAAAAGTCCTAAATAGACGTAAACAATAACTTTTTTACACATA
17973966 TCAACC
131 TCAACC
17973972 GTGACGACTA
Statistics
Matches: 120, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
160 2 0.02
161 53 0.44
162 55 0.46
163 10 0.08
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.32
Consensus pattern (161 bp):
ACAAGTTTAATACCATGTATTGAAGCCATCCAAACTGTTAAAATAGAATAATAACAACAATTTTG
TATTTTTACCTATTAAAGGCACAAAAAGTCCTAAATAGACGTAAACAATAACTTTTTTACACATA
TCAACCATAGAAATCAAGTTTAATCATTCAA
Found at i:17974005 original size:161 final size:161
Alignment explanation
Indices: 17973675--17974051 Score: 396
Period size: 161 Copynumber: 2.3 Consensus size: 161
17973665 AATCATTTGG
* * * **
17973675 ACAAGTTTAATACCATGTATTGAAGCCATCCAAACTGTT-AAAAGCCATCCAA-AA-ATTTAATT
1 ACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAAAG-AAT--AATAACATACAATT
* *
17973737 TGTATTTTTACCTTTAAGAGGCAAAAATAGTCCTAAATAGATGTAAACGATAACTTTTTTCACAC
63 TGTATTTTTACCTTTAAGAGGCAAAAATAGTCCTAAATAGACGTAAACAATAACTTTTTTCACAC
*
17973802 ATATCAACCATAGAAATCAAGTTTAATCATTCAA
128 ATATCAACCATAGAAATCAAGTTCAATCATTCAA
17973836 ACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAATAGAATAATAACA-ACAATTTT
1 ACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAA-AGAATAATAACATACAA-TTT
* *
17973900 GTATTTTTACCTATTAA-TGGCACAAAA-AGTCCTAAATAGACGTAAACAATAACTTTTTT-ATA
64 GTATTTTTACCT-TTAAGAGGCA-AAAATAGTCCTAAATAGACGTAAACAATAACTTTTTTCACA
* * * *
17973962 CATATCAACCGT-GACGA-CTAAGTTCAAT-ACTTTAG
127 CATATCAACCATAGA-AATC-AAGTTCAATCA-TTCAA
* * * * * * *
17973997 ATAAGTTTAACATCATGTATTGAAACTATCAAAAATATTAAAACAGAACAATAAC
1 ACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAA-AGAATAATAAC
17974052 TGTTAATTTG
Statistics
Matches: 184, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
160 6 0.03
161 113 0.61
162 55 0.30
163 10 0.05
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (161 bp):
ACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAAAGAATAATAACATACAATTTGT
ATTTTTACCTTTAAGAGGCAAAAATAGTCCTAAATAGACGTAAACAATAACTTTTTTCACACATA
TCAACCATAGAAATCAAGTTCAATCATTCAA
Done.