Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 84 of 141
Found at i:24117117 original size:12 final size:12
Alignment explanation
Indices: 24117096--24117124 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24117086 ATAATTAAAG
24117096 AATA-TTATTTT
1 AATATTTATTTT
24117107 AATATTTATTTT
1 AATATTTATTTT
24117119 AATATT
1 AATATT
24117125 AATTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AATATTTATTTT
Found at i:24118952 original size:42 final size:41
Alignment explanation
Indices: 24118833--24118957 Score: 160
Period size: 41 Copynumber: 3.0 Consensus size: 41
24118823 GAGCGATAGT
* * *
24118833 GGCGTTTATGATAAAAATGCCGCAAAAGGTCAAGCAGTAGC
1 GGCGTTTATGATAAAAACGCTGCAAAAGGTCAAGTAGTAGC
*
24118874 GGCGTTTATGATAAAAATGCTGCAAAAGGTCAAGTAGTAGC
1 GGCGTTTATGATAAAAACGCTGCAAAAGGTCAAGTAGTAGC
* * * * *
24118915 GGCGTTTTTTATCATAAACGCTGCAAAAGATCTAGTAGTAGC
1 GGCGTTTATGAT-AAAAACGCTGCAAAAGGTCAAGTAGTAGC
24118957 G
1 G
24118958 AAAACGCCGC
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 49 0.65
42 26 0.35
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (41 bp):
GGCGTTTATGATAAAAACGCTGCAAAAGGTCAAGTAGTAGC
Found at i:24119021 original size:7 final size:7
Alignment explanation
Indices: 24118983--24119153 Score: 85
Period size: 7 Copynumber: 24.0 Consensus size: 7
24118973 ATCATTTTAT
24118983 TTTAGGG
1 TTTAGGG
* *
24118990 TTTATGA
1 TTTAGGG
* *
24118997 TTTAAGA
1 TTTAGGG
* *
24119004 TTTAAGA
1 TTTAGGG
24119011 TTTAGGG
1 TTTAGGG
24119018 TTTAGGG
1 TTTAGGG
*
24119025 TTTATGGT
1 TTTA-GGG
24119033 TTTAGGG
1 TTTAGGG
*
24119040 TTTATGGT
1 TTTA-GGG
24119048 TTTAGGG
1 TTTAGGG
* *
24119055 TTTATGT
1 TTTAGGG
*
24119062 TTTGGGG
1 TTTAGGG
*
24119069 TTTGGGG
1 TTTAGGG
24119076 TTT-GGG
1 TTTAGGG
**
24119082 TTTAGTTT
1 TTTAG-GG
**
24119090 TTTATAG
1 TTTAGGG
24119097 TTTAGGG
1 TTTAGGG
* *
24119104 TTTAAAGA
1 TTT-AGGG
24119112 TTTAGGG
1 TTTAGGG
*
24119119 TTTTAGGA
1 -TTTAGGG
*
24119127 TTTAGTG
1 TTTAGGG
* *
24119134 TTTATGT
1 TTTAGGG
24119141 TTTAGGG
1 TTTAGGG
24119148 -TTAGGG
1 TTTAGGG
24119154 ATTTTGATAA
Statistics
Matches: 125, Mismatches: 33, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
6 12 0.10
7 86 0.69
8 27 0.22
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (7 bp):
TTTAGGG
Found at i:24119038 original size:15 final size:15
Alignment explanation
Indices: 24119018--24119071 Score: 92
Period size: 15 Copynumber: 3.7 Consensus size: 15
24119008 AGATTTAGGG
24119018 TTTAGGGTTTATGGT
1 TTTAGGGTTTATGGT
24119033 TTTAGGGTTTATGGT
1 TTTAGGGTTTATGGT
24119048 TTTAGGGTTTAT-GT
1 TTTAGGGTTTATGGT
*
24119062 TTTGGGGTTT
1 TTTAGGGTTT
24119072 GGGGTTTGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
14 11 0.29
15 27 0.71
ACGTcount: A:0.11, C:0.00, G:0.33, T:0.56
Consensus pattern (15 bp):
TTTAGGGTTTATGGT
Found at i:24119115 original size:15 final size:15
Alignment explanation
Indices: 24119097--24119137 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
24119087 TTTTTTATAG
24119097 TTTAGGGTTTAAAGA
1 TTTAGGGTTTAAAGA
* *
24119112 TTTAGGGTTTTAGGA
1 TTTAGGGTTTAAAGA
*
24119127 TTTAGTGTTTA
1 TTTAGGGTTTA
24119138 TGTTTTAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (15 bp):
TTTAGGGTTTAAAGA
Found at i:24120164 original size:125 final size:124
Alignment explanation
Indices: 24120013--24120770 Score: 882
Period size: 121 Copynumber: 6.1 Consensus size: 124
24120003 TAGCGTTACT
*
24120013 GGCGCTAGGTAAAAAACG-TCGCAAAAAAACATTTTACTTTAAACAAAATGGCATCATTTTAAGT
1 GGCGCTAGGTAAAAAACGCT-GCAAAAAAACATTTTACTTTAAACAAAATGGC-GCATTTTAAGT
*** * *
24120077 GGCGTCTTTAGTGGCATTAGCGATGCTAGGTGAAAGACGCTGCAATAGATCAAGCATTAGC
64 GGCGTCTTTAGTGGCATTAGCGGCACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGC
* * * * * **
24120138 GGCGCTAGGTTAAAAACGTTGCAAAAAAATAGTTTACTTTAAACAAAAAGGCGTTGTTTTAAGTG
1 GGCGCTAGGTAAAAAACGCTGCAAAAAAACATTTTACTTTAAACAAAATGGCG-CATTTTAAGTG
* * * *
24120203 GTGTCTTTAGTGGCATTAGCGGCGCTAGGTGAAAAACTCCGCAATAGATCGAGCATTAGC
65 GCGTCTTTAGTGGCATTAGCGGCACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGC
* * *
24120263 GACGCTAGGTAAAAAACGCTG--TAAAAA-A-TTTACTTTAAACAAAACAGTGC-CATTTTAAGT
1 GGCGCTAGGTAAAAAACGCTGCAAAAAAACATTTTACTTTAAACAAAA-TG-GCGCATTTTAAGT
* * ** * * *
24120323 GGCGTCTTTAGTGGCATTAGCGGTATTAGGTGAAAAAAACCACAATAGATCGAGCGTTAGC
64 GGCGTCTTTAGTGGCATTAGCGGCACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGC
* * *
24120384 GGCGCTAGGTAAAAAACAC--CACAAAAAACATTTTACTTTAAA-AAAATGACGCCGTTTTAAGT
1 GGCGCTAGGTAAAAAACGCTGCA-AAAAAACATTTTACTTTAAACAAAATGGCG-CATTTTAAGT
*
24120446 GGCGTCTTTAATGGCATTAGCGGCACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGC
64 GGCGTCTTTAGTGGCATTAGCGGCACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGC
* * * *
24120507 GGCACTAAGTAAAAAACGCCGCAAAAAAAAACATTTTACTTTAAACAAAACGGCGCCATTTTAAG
1 GGCGCTAGGTAAAAAACGCTGC--AAAAAAACATTTTACTTTAAACAAAATGGCG-CATTTTAAG
* * * **
24120572 TAGCGTCTTTAGTGGCATTGGCGGCGCTAGGTGAAAAACGCTACAATAGAT-AGAGCATTAGC
63 TGGCGTCTTTAGTGGCATTAGCGGCACTAGGTGAAAAACGCCGCAATAGATCA-AGCATTAGC
* *
24120634 GACGCTAGGTAAAAAACGCTG--TAAAAA-A-TTTACTTTAAACAAAATAGTGC-CATTTTAAGT
1 GGCGCTAGGTAAAAAACGCTGCAAAAAAACATTTTACTTTAAACAAAAT-G-GCGCATTTTAAGT
* * *
24120694 GGCGTCTTTAGTGGCATTAGCGGTACTAGGTG-AAAACGCCGCAATAGATCGAGCATTAGT
64 GGCGTCTTTAGTGGCATTAGCGGCACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGC
24120754 GGCGCTAGGTAAAAAAC
1 GGCGCTAGGTAAAAAAC
24120771 ACTACAAACG
Statistics
Matches: 544, Mismatches: 69, Indels: 45
0.83 0.10 0.07
Matches are distributed among these distances:
120 39 0.07
121 149 0.27
122 11 0.02
123 97 0.18
124 11 0.02
125 127 0.23
126 22 0.04
127 88 0.16
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (124 bp):
GGCGCTAGGTAAAAAACGCTGCAAAAAAACATTTTACTTTAAACAAAATGGCGCATTTTAAGTGG
CGTCTTTAGTGGCATTAGCGGCACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGC
Found at i:24120789 original size:371 final size:370
Alignment explanation
Indices: 24120013--24120778 Score: 1142
Period size: 371 Copynumber: 2.1 Consensus size: 370
24120003 TAGCGTTACT
* * *
24120013 GGCGCTAGGTAAAAAACGTCGCA-AAAAAACATTTTACTTTAAACAAAATGGCATCATTTTAAGT
1 GGCGCTAGGTAAAAAAC-AC-CACAAAAAACATTTTACTTTAAACAAAATGACACCATTTTAAGT
* ** * * *
24120077 GGCGTCTTTAGTGGCATTAGCGATGCTAGGTGAAAGACGCTGCAATAGATCAAGCATTAGCGGCG
64 GGCGTCTTTAATGGCATTAGCGACACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGCGGCA
* * ** * *** * *
24120142 CTAGGTTAAAAACGTTGCAAAAAAATAGTTTACTTTAAACAAAAAGGCGTTGTTTTAAGTGGTGT
129 CTAAGTAAAAAACGCCGCAAAAAAACAGTTTACTTTAAACAAAAAGGCGCCATTTTAAGTAGCGT
* * *
24120207 CTTTAGTGGCATTAGCGGCGCTAGGTGAAAAACTCCGCAATAGATCGAGCATTAGCGACGCTAGG
194 CTTTAGTGGCATTAGCGGCGCTAGGTGAAAAACGCCACAATAGATAGAGCATTAGCGACGCTAGG
24120272 TAAAAAACGCTGTAAAAAATTTACTTTAAACAAAACAGTGCCATTTTAAGTGGCGTCTTTAGTGG
259 TAAAAAACGCTGTAAAAAATTTACTTTAAACAAAACAGTGCCATTTTAAGTGGCGTCTTTAGTGG
* *
24120337 CATTAGCGGTATTAGGTGAAAAAAACCACAATAGATCGAGCGTTAGC
324 CATTAGCGGTACTAGGTGAAAAAAACCACAATAGATCGAGCATTAGC
* *
24120384 GGCGCTAGGTAAAAAACACCACAAAAAACATTTTACTTTAAA-AAAATGACGCCGTTTTAAGTGG
1 GGCGCTAGGTAAAAAACACCACAAAAAACATTTTACTTTAAACAAAATGACACCATTTTAAGTGG
*
24120448 CGTCTTTAATGGCATTAGCGGCACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGCGGCACT
66 CGTCTTTAATGGCATTAGCGACACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGCGGCACT
* *
24120513 AAGTAAAAAACGCCGCAAAAAAAAACATTTTACTTTAAACAAAACGGCGCCATTTTAAGTAGCGT
131 AAGTAAAAAACGCCGC--AAAAAAACAGTTTACTTTAAACAAAAAGGCGCCATTTTAAGTAGCGT
* *
24120578 CTTTAGTGGCATTGGCGGCGCTAGGTGAAAAACGCTACAATAGATAGAGCATTAGCGACGCTAGG
194 CTTTAGTGGCATTAGCGGCGCTAGGTGAAAAACGCCACAATAGATAGAGCATTAGCGACGCTAGG
*
24120643 TAAAAAACGCTGTAAAAAATTTACTTTAAACAAAATAGTGCCATTTTAAGTGGCGTCTTTAGTGG
259 TAAAAAACGCTGTAAAAAATTTACTTTAAACAAAACAGTGCCATTTTAAGTGGCGTCTTTAGTGG
** * *
24120708 CATTAGCGGTACTAGGTG-AAAACGCCGCAATAGATCGAGCATTAGT
324 CATTAGCGGTACTAGGTGAAAAAAACCACAATAGATCGAGCATTAGC
*
24120754 GGCGCTAGGTAAAAAACACTACAAA
1 GGCGCTAGGTAAAAAACACCACAAA
24120779 CGATCATTTT
Statistics
Matches: 355, Mismatches: 37, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
369 90 0.25
370 68 0.19
371 197 0.55
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (370 bp):
GGCGCTAGGTAAAAAACACCACAAAAAACATTTTACTTTAAACAAAATGACACCATTTTAAGTGG
CGTCTTTAATGGCATTAGCGACACTAGGTGAAAAACGCCGCAATAGATCAAGCATTAGCGGCACT
AAGTAAAAAACGCCGCAAAAAAACAGTTTACTTTAAACAAAAAGGCGCCATTTTAAGTAGCGTCT
TTAGTGGCATTAGCGGCGCTAGGTGAAAAACGCCACAATAGATAGAGCATTAGCGACGCTAGGTA
AAAAACGCTGTAAAAAATTTACTTTAAACAAAACAGTGCCATTTTAAGTGGCGTCTTTAGTGGCA
TTAGCGGTACTAGGTGAAAAAAACCACAATAGATCGAGCATTAGC
Found at i:24122605 original size:22 final size:21
Alignment explanation
Indices: 24122580--24122629 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
24122570 GAATTACTAT
* *
24122580 TTTAAGGTTTAGGGAGTATGGG
1 TTTAAGGATTAGAGAGTAT-GG
* *
24122602 TTTAAGAATTAGAGATTATGG
1 TTTAAGGATTAGAGAGTATGG
24122623 TTTAAGG
1 TTTAAGG
24122630 GTTGGGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.30, C:0.00, G:0.32, T:0.38
Consensus pattern (21 bp):
TTTAAGGATTAGAGAGTATGG
Found at i:24122642 original size:57 final size:59
Alignment explanation
Indices: 24122580--24122706 Score: 154
Period size: 57 Copynumber: 2.2 Consensus size: 59
24122570 GAATTACTAT
* * * *
24122580 TTTAAGGTTTAGGGAG-TATGGGTTTAAGAATTAGA-GATTATG-GTTTAAGGGTT-GGGA
1 TTTAAGGTTTAGGG-GTTAGGGGTTTAAGAATTAGACG-TTATGAGGTTAAGAGTTAAGGA
*
24122637 TTTAAGGTTTAGGGGTTAGGGGTTTAAGAGTTAGACGTTATGAGGTTAAGAGTTAAGGA
1 TTTAAGGTTTAGGGGTTAGGGGTTTAAGAATTAGACGTTATGAGGTTAAGAGTTAAGGA
*
24122696 TTTAGGGTTTA
1 TTTAAGGTTTA
24122707 AGGATTCAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
56 1 0.02
57 36 0.60
58 10 0.17
59 13 0.22
ACGTcount: A:0.28, C:0.01, G:0.35, T:0.37
Consensus pattern (59 bp):
TTTAAGGTTTAGGGGTTAGGGGTTTAAGAATTAGACGTTATGAGGTTAAGAGTTAAGGA
Found at i:24122645 original size:21 final size:22
Alignment explanation
Indices: 24122621--24122664 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
24122611 TAGAGATTAT
24122621 GGTTTAAGGGTT-GGGATTTAA
1 GGTTTAAGGGTTAGGGATTTAA
* *
24122642 GGTTTAGGGGTTAGGGGTTTAA
1 GGTTTAAGGGTTAGGGATTTAA
24122664 G
1 G
24122665 AGTTAGACGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.36
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGATTTAA
Found at i:24122913 original size:15 final size:15
Alignment explanation
Indices: 24122895--24122932 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
24122885 GTTTAAGGAG
24122895 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
*
24122910 TATGGA-TCAGGGAT
1 TATGGATTTAGGGAT
24122924 TATGG-TTTA
1 TATGGATTTA
24122933 AGGGTTGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.26, C:0.03, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:24122958 original size:21 final size:22
Alignment explanation
Indices: 24122928--24122968 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24122918 AGGGATTATG
24122928 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
* *
24122949 GTTTAGGGGTTAGGGGTTTA
1 GTTTAAGGGTTAGGGATTTA
24122969 GGGGTTAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:24122982 original size:15 final size:15
Alignment explanation
Indices: 24122949--24122987 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
24122939 GGGATTTAAA
*
24122949 GTTTAGGGGTTAGGG
1 GTTTAGGGGTTAGAG
24122964 GTTTAGGGGTTAGATG
1 GTTTAGGGGTTAGA-G
*
24122980 TTTTAGGG
1 GTTTAGGG
24122988 TTAAAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (15 bp):
GTTTAGGGGTTAGAG
Found at i:24123012 original size:306 final size:299
Alignment explanation
Indices: 24122514--24123118 Score: 926
Period size: 306 Copynumber: 2.0 Consensus size: 299
24122504 TATCACTATA
*
24122514 GTTTAGGGTTTTTGGTTCAGGGCATACGATTAACTTAAGATTTAAGGCCGGTTTAGGAATTACTA
1 GTTTAGGGTTTTTAGTTCAGGGCATACGATTAACTTAAGATTTAAGGCCGGTTTAGGAATTACTA
* * *
24122579 TTTTAAGGTTTAGGGAGTATGGGTTTAAGAATTAGAGATTATGGTTTAAGGGTTGGGATTTAAGG
66 TTTTAAGGTTTAAGGAGTATGGATTTAAGAATTAGAGATTATGGTTTAAGGGTTGGGATTTAAAG
*
24122644 TTTAGGGGTTAGGGGTTTAAGAGTTAGACGTTATGAGGTTAAGAGTTAAGGATTTAGGGTTTAAG
131 TTTAGGGGTTAGGGGTTTAAGAGTTAGACGTTATGAGGTTAAAAGTTAAGGATTTAGGGTTTAAG
*
24122709 GATTCAGGGGTCAGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTTAATTTATATTTTAAAT
196 GATTCAAGGGTCAGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTTAATTTATATTTTAAAT
24122774 ATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
261 ATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
* * * * * *
24122813 GTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGTCGGTTTAGGAGTTACTA
1 GTTTAGGGTTTTTAGTTCAGGGCATACGATTAACTTAAGATTTAAGGCCGGTTTAGGAATTACTA
* *
24122878 TTTTAAGGTTTAAGGAGTATGGATTTAGGGATTATGGATCAGGGATTATGGTTTAAGGGTTGGGA
66 TTTTAAGGTTTAAGGAGTATGGATTTA-AGA--AT---T-AGAGATTATGGTTTAAGGGTTGGGA
* * * *
24122943 TTTAAAGTTTAGGGGTTAGGGGTTTAGGGGTTAGATGTT-TTAGGGTTAAAAGTTAAAGG-TTTA
124 TTTAAAGTTTAGGGGTTAGGGGTTTAAGAGTTAGACGTTATGA-GGTTAAAAGTT-AAGGATTTA
* * *
24123006 GGGTTTAGGGATTTAAGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTTAATTTAT
187 GGGTTTAAGGATTCAAGGGTCAGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTTAATTTAT
24123071 ATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
252 ATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
24123119 AATATATTGA
Statistics
Matches: 276, Mismatches: 21, Indels: 11
0.90 0.07 0.04
Matches are distributed among these distances:
299 83 0.30
300 2 0.01
302 2 0.01
305 3 0.01
306 182 0.66
307 4 0.01
ACGTcount: A:0.29, C:0.03, G:0.27, T:0.41
Consensus pattern (299 bp):
GTTTAGGGTTTTTAGTTCAGGGCATACGATTAACTTAAGATTTAAGGCCGGTTTAGGAATTACTA
TTTTAAGGTTTAAGGAGTATGGATTTAAGAATTAGAGATTATGGTTTAAGGGTTGGGATTTAAAG
TTTAGGGGTTAGGGGTTTAAGAGTTAGACGTTATGAGGTTAAAAGTTAAGGATTTAGGGTTTAAG
GATTCAAGGGTCAGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTTAATTTATATTTTAAAT
ATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
Found at i:24124380 original size:43 final size:43
Alignment explanation
Indices: 24124299--24124383 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
24124289 GTTCATTACA
* * * *
24124299 AGATTTCCTTGATTAAGCAAATGTATTATATCTTTTATTACCC
1 AGATTTACTTGATTAAGAAAATGCATTATATCTGTTATTACCC
*
24124342 AGATTTACTTGATTAAGAAAATGCATTGTAT-TCGTTATTACC
1 AGATTTACTTGATTAAGAAAATGCATTATATCT-GTTATTACC
24124384 TTGCAATGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (43 bp):
AGATTTACTTGATTAAGAAAATGCATTATATCTGTTATTACCC
Found at i:24124793 original size:42 final size:42
Alignment explanation
Indices: 24124726--24124918 Score: 221
Period size: 43 Copynumber: 4.5 Consensus size: 42
24124716 ATAATTTTTT
* * * *
24124726 TAAATGTTATGTTTTTAGCGGCGTTTTTG-TGAGAAGCGTCGC
1 TAAAGGTTATGTCTTTAGCGGCGTTTGTGAT-AAAAGCGTCGC
* *
24124768 TAAAGGTT-TGTTTTATAGCGGCGTTTGTGATAGAAGCG-CTGC
1 TAAAGGTTATGTCTT-TAGCGGCGTTTGTGATAAAAGCGTC-GC
*
24124810 TAAAGGTTATGGTCTTTAGCGGCATTTGTGATAAAAGCGTCGC
1 TAAAGGTTAT-GTCTTTAGCGGCGTTTGTGATAAAAGCGTCGC
* *
24124853 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
1 TAAAGGTTAT-GTCTTTAGCGGCGTTTGTGATAAAAGCGTCGC
*
24124896 TAAAGGTCATGGTCTTTAGCGGC
1 TAAAGGTTAT-GTCTTTAGCGGC
24124919 ATTTTTCTTT
Statistics
Matches: 137, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
41 7 0.05
42 37 0.27
43 88 0.64
44 5 0.04
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.34
Consensus pattern (42 bp):
TAAAGGTTATGTCTTTAGCGGCGTTTGTGATAAAAGCGTCGC
Found at i:24124898 original size:86 final size:85
Alignment explanation
Indices: 24124759--24124922 Score: 258
Period size: 86 Copynumber: 1.9 Consensus size: 85
24124749 TTTTTGTGAG
* * * * *
24124759 AAGCGTCGCTAAAGGTTTGTTTTATAGCGGCGTTTGTGATAGAAGCGCTGCTAAAGGTTATGGTC
1 AAGCGTCGCTAAAGGTTGGTCTTATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
24124824 TTTAGCGGCATTTGTGATAA
66 TTTAGCGGCATTTGTGATAA
24124844 AAGCGTCGCTAAAGGTCATGGTCTT-TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGG
1 AAGCGTCGCTAAAGGT--TGGTCTTATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGG
24124908 TCTTTAGCGGCATTT
64 TCTTTAGCGGCATTT
24124923 TTCTTTGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
85 16 0.22
86 51 0.71
87 5 0.07
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (85 bp):
AAGCGTCGCTAAAGGTTGGTCTTATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
TTTAGCGGCATTTGTGATAA
Found at i:24125709 original size:9 final size:9
Alignment explanation
Indices: 24125695--24125753 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
24125685 AGATGATAAT
24125695 CATAACTTA
1 CATAACTTA
24125704 CATAACTTA
1 CATAACTTA
*
24125713 CATAA-ATA
1 CATAACTTA
* * *
24125721 TATATCATA
1 CATAACTTA
24125730 TCATAACTTA
1 -CATAACTTA
24125740 CATAACTTA
1 CATAACTTA
24125749 CATAA
1 CATAA
24125754 TACATAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
8 5 0.12
9 31 0.74
10 6 0.14
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:24125986 original size:20 final size:20
Alignment explanation
Indices: 24125961--24126001 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24125951 CAAGGTAAGC
24125961 AATGACTATCGAAATGGAGT
1 AATGACTATCGAAATGGAGT
24125981 AATGACTATCGAAATGGAGT
1 AATGACTATCGAAATGGAGT
24126001 A
1 A
24126002 CAAACTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (20 bp):
AATGACTATCGAAATGGAGT
Found at i:24126522 original size:15 final size:15
Alignment explanation
Indices: 24126502--24126531 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24126492 TTTTTCACTT
*
24126502 AAAATGTTTGGGAGG
1 AAAATGTTTAGGAGG
24126517 AAAATGTTTAGGAGG
1 AAAATGTTTAGGAGG
24126532 GTGGACCAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (15 bp):
AAAATGTTTAGGAGG
Found at i:24126763 original size:40 final size:40
Alignment explanation
Indices: 24126719--24126798 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
24126709 CCAACAGCCT
*
24126719 TGTCATGTTTGCGGTAAATCTCATTGGATGAATATGAATA
1 TGTCATGTTTGCGATAAATCTCATTGGATGAATATGAATA
*
24126759 TGTCATGTTTGCGATAAATCTCGTTGGATGAATATGAATA
1 TGTCATGTTTGCGATAAATCTCATTGGATGAATATGAATA
24126799 CAGAATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (40 bp):
TGTCATGTTTGCGATAAATCTCATTGGATGAATATGAATA
Found at i:24131464 original size:21 final size:21
Alignment explanation
Indices: 24131440--24131484 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
24131430 ACTTAAAGCG
*
24131440 GAGGCAGCAGCGAGGGAAACA
1 GAGGCAGCAGCAAGGGAAACA
*
24131461 GAGGCAGCAGCAAGGGAAGCA
1 GAGGCAGCAGCAAGGGAAACA
24131482 GAG
1 GAG
24131485 CAAAGCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.18, G:0.44, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCAAGGGAAACA
Found at i:24131971 original size:43 final size:43
Alignment explanation
Indices: 24131882--24132093 Score: 202
Period size: 42 Copynumber: 5.1 Consensus size: 43
24131872 TTTAACAGCA
* * * * * *
24131882 TTTGTGGGGAAAGCACCGCT-ATGATCATGTTTTATAGCGGCA
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCG
* *
24131924 TTTGTGGGAAAAGCGCCACTAAAGGTCATGTTCTATAGCGCCG
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCG
* * * *
24131967 TTTGTGGGAAAAGTGCCGTTAAAGGTCAT-TTCTTTAGTGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCG
* * *
24132009 TTTGTGGAAAAAGCACCGCTAAAGGTCATGTCCTATAGCGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCG
** * * *
24132052 -TCAT---AAAAACGCAGCAAAAGGTCATGTTCTATAGCGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCG
24132091 TTT
1 TTT
24132094 TTCCACATAA
Statistics
Matches: 138, Mismatches: 29, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
39 30 0.22
40 1 0.01
42 54 0.39
43 53 0.38
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCG
Found at i:24136520 original size:23 final size:23
Alignment explanation
Indices: 24136494--24136573 Score: 58
Period size: 27 Copynumber: 3.4 Consensus size: 23
24136484 AGCTTAATAT
24136494 ATATATATATATTAAAAAAATGC
1 ATATATATATATTAAAAAAATGC
* *
24136517 ATATATGTATGTTATATAAAAATATGC
1 ATATA--TAT-ATAT-TAAAAAAATGC
*
24136544 GTATATACTATA-T--AAAAATGC
1 ATATATA-TATATTAAAAAAATGC
*
24136565 ATGTATATA
1 ATATATATA
24136574 AGTATAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
20 2 0.04
21 12 0.27
23 6 0.13
25 7 0.16
26 4 0.09
27 14 0.31
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.38
Consensus pattern (23 bp):
ATATATATATATTAAAAAAATGC
Found at i:24136520 original size:27 final size:28
Alignment explanation
Indices: 24136490--24136557 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
24136480 TAAGAGCTTA
24136490 ATATATATATATATAT-TAAAAAAATGC
1 ATATATATATATATATATAAAAAAATGC
* * *
24136517 ATATATGTATGT-TATATAAAAATATGC
1 ATATATATATATATATATAAAAAAATGC
*
24136544 GTATATACTATATA
1 ATATATA-TATATA
24136558 AAAATGCATG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.09
27 25 0.78
28 4 0.12
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (28 bp):
ATATATATATATATATATAAAAAAATGC
Found at i:24136571 original size:21 final size:23
Alignment explanation
Indices: 24136494--24136562 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 23
24136484 AGCTTAATAT
*
24136494 ATATATA-TATATTAAAAAAATGC
1 ATATATACTATA-TAAAAATATGC
*
24136517 ATATATGTATGTTATATAAAAATATGC
1 ATATA--TA--CTATATAAAAATATGC
*
24136544 GTATATACTATATAAAAAT
1 ATATATACTATATAAAAAT
24136563 GCATGTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
23 16 0.42
25 4 0.11
27 14 0.37
28 4 0.11
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATATACTATATAAAAATATGC
Found at i:24141931 original size:17 final size:17
Alignment explanation
Indices: 24141909--24141953 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
24141899 GGAAAATCTT
*
24141909 AATATATTACATTCACA
1 AATATAATACATTCACA
24141926 AATATAATACATTCACA
1 AATATAATACATTCACA
24141943 AATATAATACA
1 AATATAATACA
24141954 AGTATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (17 bp):
AATATAATACATTCACA
Found at i:24147434 original size:35 final size:35
Alignment explanation
Indices: 24147388--24147458 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
24147378 GACTATGACC
*
24147388 ACTTAACCTACATAATCCACAACGTTTACCGTCGG
1 ACTTAACCTACATAATCCACAACGCTTACCGTCGG
24147423 ACTTAACCTACATAATCCACAACGCTTACCGTCGG
1 ACTTAACCTACATAATCCACAACGCTTACCGTCGG
24147458 A
1 A
24147459 TTTCTCCCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.24
Consensus pattern (35 bp):
ACTTAACCTACATAATCCACAACGCTTACCGTCGG
Found at i:24151212 original size:115 final size:115
Alignment explanation
Indices: 24150920--24151271 Score: 462
Period size: 113 Copynumber: 3.1 Consensus size: 115
24150910 CCAATATAAG
* * * *
24150920 AAAAAAGTTAAAAAAAAATTTTTGTGGTGGCCTGCCAATGGCCAGCACCACCTTTATGAGAATTT
1 AAAAAAG-TAAAAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATG-GAAATT
*
24150985 TTTTTTACTTTTTT-GTGTCAATGGCAGGCACCATTATACGAAAAAAGTT--
64 TTTTTTACTTTTTTCGTGTCAATGGCAGGCACCAGTATACGAAAAAAGTTAA
* * * * *
24151034 -AAAAAGAAAAAAAAAAATTTGGGGGGTGCCCTGCCAATGGTCGGCACCACCTTTATGGGAATTT
1 AAAAAAGTAAAAAAAAAATTT-GGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGGAAATTT
*
24151098 TTTTTACTTTTTTCGTGTCAATGGCAAGCACCAGTATACGAAAAAAGTTAA
65 TTTTTACTTTTTTCGTGTCAATGGCAGGCACCAGTATACGAAAAAAGTTAA
* *
24151149 AAAAAAGTAAAAAAAAAATTTGGTGGTGGCCTGCTAATGGCCGGCACCACCTTTCTGGAAATTTT
1 AAAAAAGTAAAAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGGAAA--TT
* * * *
24151214 TTTTTTACTTTTTTCATGTCAATGGTC-GGCACTAGTGTTCGAAAAAAGTTAA
64 TTTTTTACTTTTTTCGTGTCAATGG-CAGGCACCAGTATACGAAAAAAGTTAA
24151266 AAAAAA
1 AAAAAA
24151272 ATTCAAAAAG
Statistics
Matches: 207, Mismatches: 23, Indels: 13
0.85 0.09 0.05
Matches are distributed among these distances:
112 30 0.14
113 70 0.34
115 34 0.16
116 19 0.09
117 53 0.26
118 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (115 bp):
AAAAAAGTAAAAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGGAAATTTT
TTTTACTTTTTTCGTGTCAATGGCAGGCACCAGTATACGAAAAAAGTTAA
Found at i:24153716 original size:60 final size:60
Alignment explanation
Indices: 24153590--24153943 Score: 441
Period size: 60 Copynumber: 6.0 Consensus size: 60
24153580 CAAGTATATG
* * * * *
24153590 TTATTACATGTGAACCATTGTTCATGCAAGTCAATGATATG-----ACATGTGAGTCACA
1 TTATTACATGCGAACCACTGTTTATGCGAGTCAATGATATGTTATTACATGCGAGTCACA
* *
24153645 TTATTACATGTGAACCACTGTTTATGCGAGTCAATGATATGTTATTACATGCAAGTCACA
1 TTATTACATGCGAACCACTGTTTATGCGAGTCAATGATATGTTATTACATGCGAGTCACA
* * * * *
24153705 TTATTACATGTGAATCATTGCTTATGCGAGTCAATAATATGTTATTACATGCGAGTCACA
1 TTATTACATGCGAACCACTGTTTATGCGAGTCAATGATATGTTATTACATGCGAGTCACA
* * * *
24153765 TTATTACATGCGAAACCACTATTTATGTGAGGT-AATGATATGTTATTACATACGAATCACA
1 TTATTACATGCG-AACCACTGTTTATGCGA-GTCAATGATATGTTATTACATGCGAGTCACA
* * * * *
24153826 TTATTACATGCGAACCATTGTTTATGCTAGTAAATGATATGCTATTACATGCGAGTCAGA
1 TTATTACATGCGAACCACTGTTTATGCGAGTCAATGATATGTTATTACATGCGAGTCACA
* *
24153886 TTATTACATGCGAACCACTGTTTATGTGAGTCAATGATATGTTACTACATGCGAGTCA
1 TTATTACATGCGAACCACTGTTTATGCGAGTCAATGATATGTTATTACATGCGAGTCA
24153944 AATATATGTT
Statistics
Matches: 258, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
55 38 0.15
59 2 0.01
60 167 0.65
61 49 0.19
62 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (60 bp):
TTATTACATGCGAACCACTGTTTATGCGAGTCAATGATATGTTATTACATGCGAGTCACA
Found at i:24153810 original size:121 final size:118
Alignment explanation
Indices: 24153590--24153943 Score: 468
Period size: 121 Copynumber: 3.0 Consensus size: 118
24153580 CAAGTATATG
*
24153590 TTATTACATGTGAACCATTGTTCATGCAAGTCAATGATATG----ACATGTGAGTCACATTATTA
1 TTATTACATGTGAACCATTGTT-ATGCAAGTCAATGATATGTATTACATGCGAGTCACATTATTA
* *
24153651 CATGTGAACCACTGTTTATGCGAGTCAATGATATGTTATTACATGCAAGTCACA
65 CATGCGAACCACTGTTTATGTGAGTCAATGATATGTTATTACATGCAAGTCACA
* * *
24153705 TTATTACATGTGAATCATTGCTTATGCGAGTCAATAATATGTTATTACATGCGAGTCACATTATT
1 TTATTACATGTGAACCATTG-TTATGCAAGTCAATGATATG-TATTACATGCGAGTCACATTATT
* *
24153770 ACATGCGAAACCACTATTTATGTGAGGT-AATGATATGTTATTACATACGAA-TCACA
64 ACATGCG-AACCACTGTTTATGTGA-GTCAATGATATGTTATTACATGC-AAGTCACA
* * * *
24153826 TTATTACATGCGAACCATTGTTTATGCTAGTAAATGATATGCTATTACATGCGAGTCAGATTATT
1 TTATTACATGTGAACCATTG-TTATGCAAGTCAATGATATG-TATTACATGCGAGTCACATTATT
* *
24153891 ACATGCGAACCACTGTTTATGTGAGTCAATGATATGTTACTACATGCGAGTCA
64 ACATGCGAACCACTGTTTATGTGAGTCAATGATATGTTATTACATGCAAGTCA
24153944 AATATATGTT
Statistics
Matches: 208, Mismatches: 20, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
115 35 0.17
116 2 0.01
119 3 0.01
120 61 0.29
121 103 0.50
122 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (118 bp):
TTATTACATGTGAACCATTGTTATGCAAGTCAATGATATGTATTACATGCGAGTCACATTATTAC
ATGCGAACCACTGTTTATGTGAGTCAATGATATGTTATTACATGCAAGTCACA
Found at i:24153950 original size:25 final size:26
Alignment explanation
Indices: 24153913--24153968 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
24153903 CTGTTTATGT
24153913 GAGTC-AATGATATGTTACTACATGC
1 GAGTCAAATGATATGTTACTACATGC
*
24153938 GAGTCAAAT-ATATGTTATTACATGC
1 GAGTCAAATGATATGTTACTACATGC
*
24153963 AAGTCA
1 GAGTCA
24153969 CTTATCTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 25 0.89
26 3 0.11
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (26 bp):
GAGTCAAATGATATGTTACTACATGC
Found at i:24154001 original size:24 final size:24
Alignment explanation
Indices: 24153952--24154035 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 24
24153942 CAAATATATG
*
24153952 TTATTACATGCAAGTCACTTATCTA
1 TTATTACATGCAAG-CCCTTATCTA
*
24153977 TTATTACATGCGAGCCCTTATCTA
1 TTATTACATGCAAGCCCTTATCTA
* * *
24154001 TTATTTCATGCAAACCCCTTAT-TG
1 TTATTACATGC-AAGCCCTTATCTA
24154025 TTATTACATGC
1 TTATTACATGC
24154036 GGATCACATG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 30 0.59
25 21 0.41
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (24 bp):
TTATTACATGCAAGCCCTTATCTA
Found at i:24156611 original size:16 final size:16
Alignment explanation
Indices: 24156590--24156622 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24156580 TTGAGATAGT
24156590 AGAAAT-AAACAATTAA
1 AGAAATCAAA-AATTAA
24156606 AGAAATCAAAAATTAA
1 AGAAATCAAAAATTAA
24156622 A
1 A
24156623 TTAAATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (16 bp):
AGAAATCAAAAATTAA
Found at i:24158892 original size:10 final size:10
Alignment explanation
Indices: 24158877--24159006 Score: 80
Period size: 10 Copynumber: 13.2 Consensus size: 10
24158867 GAAGGAGAGG
24158877 GAAAGAAGAA
1 GAAAGAAGAA
24158887 GAAAG-A-AA
1 GAAAGAAGAA
*
24158895 GAAAGAAAAA
1 GAAAGAAGAA
24158905 GAAAGAA-AA
1 GAAAGAAGAA
* *
24158914 GGAAAGGAGAG
1 -GAAAGAAGAA
24158925 GAAAGAAAGACA
1 GAAAG-AAGA-A
24158937 GAAAG-A-AA
1 GAAAGAAGAA
*
24158945 GAAA-AGGAA
1 GAAAGAAGAA
24158954 -AGAAGAAGAA
1 GA-AAGAAGAA
*
24158964 GAAAAAAGAAA
1 GAAAGAAG-AA
24158975 GAAA-AAGAA
1 GAAAGAAGAA
24158984 GGAAAGAA-AA
1 -GAAAGAAGAA
*
24158994 GGAAAGGAGAA
1 -GAAAGAAGAA
24159005 GA
1 GA
24159007 GGGAAAGAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 30
0.72 0.06 0.22
Matches are distributed among these distances:
8 13 0.13
9 11 0.11
10 53 0.55
11 15 0.15
12 5 0.05
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:24158894 original size:4 final size:4
Alignment explanation
Indices: 24158877--24158992 Score: 81
Period size: 4 Copynumber: 30.0 Consensus size: 4
24158867 GAAGGAGAGG
*
24158877 GAAA G-AA G-AA GAAA GAAA GAAA G-AA -AAA GAAA GAAAA GGAAA GGAGAG
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA
*
24158925 GAAA GAAA GACA GAAA GAAA GAAAA GGAAA G-AA G-AA G-AA GAAA -AAA
1 GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA GAAA GAAA GAAA GAAA GAAA
*
24158971 GAAA G-AA -AAA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA
24158993 AGGAAAGGAG
Statistics
Matches: 94, Mismatches: 6, Indels: 24
0.76 0.05 0.19
Matches are distributed among these distances:
3 26 0.28
4 48 0.51
5 17 0.18
6 3 0.03
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:24158928 original size:20 final size:20
Alignment explanation
Indices: 24158876--24159006 Score: 96
Period size: 20 Copynumber: 6.7 Consensus size: 20
24158866 AGAAGGAGAG
*
24158876 GGAAAGAAGAAGAAAG-AAA
1 GGAAAGGAGAAGAAAGAAAA
* *
24158895 -GAAAGAAAAAGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAA
*
24158914 GGAAAGGAGAGGAAAG-AAA
1 GGAAAGGAGAAGAAAGAAAA
*
24158933 -GACA-GA-AAGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAA
*
24158950 GGAAAGAAGAAG-AAGAAAAA
1 GGAAAGGAGAAGAAAG-AAAA
* *
24158970 AGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAAG---GAGAA-GAAAGAAAA
24158994 GGAAAGGAGAAGA
1 GGAAAGGAGAAGA
24159007 GGGAAAGAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
16 6 0.07
17 5 0.06
18 20 0.22
19 10 0.11
20 26 0.29
21 4 0.04
23 5 0.06
24 10 0.11
25 3 0.03
ACGTcount: A:0.69, C:0.01, G:0.31, T:0.00
Consensus pattern (20 bp):
GGAAAGGAGAAGAAAGAAAA
Found at i:24158929 original size:38 final size:38
Alignment explanation
Indices: 24158876--24159020 Score: 154
Period size: 38 Copynumber: 3.7 Consensus size: 38
24158866 AGAAGGAGAG
*
24158876 GGAAAGAAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
* *
24158914 GGAAAGGAGAGGAAAGAAAGACAG--AAAGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
24158950 GGAAAGAAGAAGAAGAAA-AAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAAG--G-AGAAGAAAGAAAGAAAG--AAA-AA-GAAAGAAAA
**
24158994 GGAAAGGAGAAGAGGGAAAGAAA-AAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAA
24159021 GTATTTTTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
36 18 0.20
38 30 0.33
39 10 0.11
41 6 0.07
42 9 0.10
43 2 0.02
44 15 0.17
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (38 bp):
GGAAAGGAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
Found at i:24159697 original size:60 final size:60
Alignment explanation
Indices: 24159633--24159820 Score: 143
Period size: 60 Copynumber: 3.1 Consensus size: 60
24159623 AAAATGCCGA
24159633 GAAAAAATACGAACAAATGGCCGAAGTAAAGAGTATTTTACTAAATTTTTTAAAAATTTG
1 GAAAAAATACGAACAAATGGCCGAAGTAAAGAGTATTTTACTAAATTTTTTAAAAATTTG
** * ** ** * ** * * ** **
24159693 GAAAAAATTAATACAAAAAT-TTC-AAACAAA-ATGTACTGAAAT-AATGTAAT-AAAATGCCG
1 GAAAAAA-TACGA-ACAAATGGCCGAAGTAAAGA-GTATTTTACTAAATTTTTTAAAAAT-TTG
*
24159752 AGAAAAAATACGAACAAATGGCCGAAGTAAAGAGTATCTTACTAAATTTTTTAAAAATTTG
1 -GAAAAAATACGAACAAATGGCCGAAGTAAAGAGTATTTTACTAAATTTTTTAAAAATTTG
24159813 GAAAAAAT
1 GAAAAAAT
24159821 TAATACAAAA
Statistics
Matches: 85, Mismatches: 33, Indels: 20
0.62 0.24 0.14
Matches are distributed among these distances:
58 10 0.12
59 11 0.13
60 43 0.51
61 11 0.13
62 10 0.12
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (60 bp):
GAAAAAATACGAACAAATGGCCGAAGTAAAGAGTATTTTACTAAATTTTTTAAAAATTTG
Found at i:24159726 original size:120 final size:120
Alignment explanation
Indices: 24159602--24159857 Score: 503
Period size: 120 Copynumber: 2.1 Consensus size: 120
24159592 AGGCCGAAGT
24159602 AATGTACTGAAATAATGTAATAAAATGCCGAGAAAAAATACGAACAAATGGCCGAAGTAAAGAGT
1 AATGTACTGAAATAATGTAATAAAATGCCGAGAAAAAATACGAACAAATGGCCGAAGTAAAGAGT
*
24159667 ATTTTACTAAATTTTTTAAAAATTTGGAAAAAATTAATACAAAAATTTCAAACAA
66 ATCTTACTAAATTTTTTAAAAATTTGGAAAAAATTAATACAAAAATTTCAAACAA
24159722 AATGTACTGAAATAATGTAATAAAATGCCGAGAAAAAATACGAACAAATGGCCGAAGTAAAGAGT
1 AATGTACTGAAATAATGTAATAAAATGCCGAGAAAAAATACGAACAAATGGCCGAAGTAAAGAGT
24159787 ATCTTACTAAATTTTTTAAAAATTTGGAAAAAATTAATACAAAAATTTCAAACAA
66 ATCTTACTAAATTTTTTAAAAATTTGGAAAAAATTAATACAAAAATTTCAAACAA
24159842 AATGTACTGAAATAAT
1 AATGTACTGAAATAAT
24159858 ATAAAATAAT
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 135 1.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (120 bp):
AATGTACTGAAATAATGTAATAAAATGCCGAGAAAAAATACGAACAAATGGCCGAAGTAAAGAGT
ATCTTACTAAATTTTTTAAAAATTTGGAAAAAATTAATACAAAAATTTCAAACAA
Found at i:24160528 original size:16 final size:15
Alignment explanation
Indices: 24160502--24160531 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24160492 GTAATTAAAT
24160502 AATATAAAATAATAA
1 AATATAAAATAATAA
24160517 AATATGAAAATAATA
1 AATAT-AAAATAATA
24160532 TATTTTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:24160528 original size:323 final size:322
Alignment explanation
Indices: 24159344--24160773 Score: 1836
Period size: 323 Copynumber: 4.4 Consensus size: 322
24159334 CTAAATTTCA
* *
24159344 AACATAATGCACTGAAATAACGTAAAATTATAAAATTAGAATTTATGATA-TTTTTAAAGTAATA
1 AACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAATA
*
24159408 AAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGT-AAGAGTGTTTTACTAACTTTTTTAAAA
66 AAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAAA
* * * * *
24159472 ATTCAG-AAATAATTAATACAAATATTTCTAA-AAAATGTACT-AAATAATATAAAATAAGAAAA
131 ATT-AGAAAAAAATTAATACAAAAATTTCAAACAAAATGTAATGAAATAATATAAAATAATAAAA
* * * *
24159534 TAAGAAAATAATATATTTTTATTGAAAGTAATAAAATTTGGGAAAATAATACGAGCAAA-GGC-C
195 TACGAAAATAATATA-TTTT-TTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGGGCAA
* ** ** * ****** * *
24159597 GAAGTAA-TGTACTG-AAATAATGTA-A-TAAAATGCCGAGAAAAAATACGAAC-AAATGGCCGA
258 GAA-TAAGGGT--TGTATTTTTTTTACACT-AAATTAATTTAAAAAACAC--ACTAAAT----TA
*
24159657 AGTAAAGAGTATTT
313 A-TAAAGA--A-AT
* *** * * ** *
24159671 TAC-TAAAT-TTTTTAAA-AATTTGGAAAAAATTAATACAAAAATTTCA-AACAAAATG-TACTG
1 AACAT-AATGCACTGAAATAA--T-G-TAAAATT-AT---AAAA-TT-AGAA-ATTATGATA-TT
*** * * *
24159731 AAATAATGTAATAAAATGCCGAG-AAAAAATACGAACAAATGGCCGAAGTAAAGAGTATCTTACT
53 TTTTAAAGTAATAAAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACT
* * * *
24159795 AAATTTTTTAAAAATTTGGAAAAAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATAT
118 AACTTTTTTAAAAATTAGAAAAAAATTAATACAAAAATTTCAAACAAAATGTAATGAAATAATAT
24159860 AAAATAATAAAATACGAAAATAATATATTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAG
183 AAAATAATAAAATACGAAAATAATATATTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAG
** *
24159925 CAAAGGGCGGGAATAAGGGTTGGGT-TTTTTTTTACACTAAATTAATTTAAAAAACGCACTAAAT
248 CAAAGGGCAAGAATAAGGGTT--GTATTTTTTTTACACTAAATTAATTTAAAAAACACACTAAAT
24159989 TAATAAAGAAAT
311 TAATAAAGAAAT
24160001 AACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTCTTAAAGTAAT
1 AACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTT-TTAAAGTAAT
24160066 AAAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAA
65 AAAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAA
* * *
24160131 AATTCGAAAAAAATTAATACAAAAATTTTAAACAAAATGTAATGAAATAATATAAAATAACAAAA
130 AATTAGAAAAAAATTAATACAAAAATTTCAAACAAAATGTAATGAAATAATATAAAATAATAAAA
*
24160196 TACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCTGGAAAATAATACGAGCAAAGGGCAAG
195 TACGAAAATAATATA-TTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGGGCAAG
*
24160261 AATAAGGGTTGTATTTTTTTTACACTAAATTAATTTAAAACACACACTAAATTAATAAAGAAAT
259 AATAAGGGTTGTATTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAAGAAAT
* * *
24160325 AACATAATTCACTGAAATAATATAAAATTACAAAATTAGAAATTATGATATTTTTTAAAGTAATA
1 AACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAATA
* *
24160390 AAATGACGAGAAAAAAATATGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAAA
66 AAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAAA
*
24160455 ATTAGAAAAAAATTAATACAAAAATTTCAAACAAAATGTAATTAAATAATATAAAATAATAAAAT
131 ATTAGAAAAAAATTAATACAAAAATTTCAAACAAAATGTAATGAAATAATATAAAATAATAAAAT
* *
24160520 ATGAAAATAATATATTTTTTGGAAGTAATAAAATTCGGGAAAATAATACAAGCAAAGGGCAAGAA
196 ACGAAAATAATATATTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGGGCAAGAA
* *
24160585 TAAGGGTTGGATTTTTTTTACACTAAATTAATTTAAAAAACACACTGAATTAATAAAGAAAT
261 TAAGGGTTGTATTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAAGAAAT
24160647 AACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAAT
1 AACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATA-TTTTTTAAAGTAAT
24160712 AAAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTT
65 AAAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTT
24160774 TTCAACTTGC
Statistics
Matches: 976, Mismatches: 90, Indels: 78
0.85 0.08 0.07
Matches are distributed among these distances:
322 161 0.16
323 249 0.26
324 229 0.23
325 58 0.06
326 5 0.01
327 7 0.01
328 7 0.01
329 7 0.01
330 9 0.01
331 6 0.01
332 2 0.00
333 10 0.01
334 8 0.01
335 31 0.03
336 104 0.11
337 22 0.02
338 48 0.05
339 12 0.01
340 1 0.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.29
Consensus pattern (322 bp):
AACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAATA
AAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAAA
ATTAGAAAAAAATTAATACAAAAATTTCAAACAAAATGTAATGAAATAATATAAAATAATAAAAT
ACGAAAATAATATATTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGGGCAAGAA
TAAGGGTTGTATTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAAGAAAT
Found at i:24162216 original size:16 final size:16
Alignment explanation
Indices: 24162183--24162243 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
24162173 AGAAATGTAT
*
24162183 AAATATATATAATATA
1 AAATATATAAAATATA
24162199 AAATATATAAAAGT-TA
1 AAATATATAAAA-TATA
* *
24162215 AAAGAGATAAAATAATA
1 AAATATATAAAAT-ATA
*
24162232 AAAAATATAAAA
1 AAATATATAAAA
24162244 CGTATGTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.03
16 23 0.62
17 13 0.35
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (16 bp):
AAATATATAAAATATA
Found at i:24164109 original size:44 final size:44
Alignment explanation
Indices: 24164046--24164949 Score: 776
Period size: 44 Copynumber: 20.3 Consensus size: 44
24164036 ACCAGTATGG
*
24164046 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
*
24164090 GAAGACAAGATCTGTTATCTTTGATCTACTTCACTGCCAGTACA-
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCAC-GCCAATACAT
**
24164134 GAAAGACAAGATCTGCTT-TCTTCAATCTACTTCACGCCAATACAT
1 G-AAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAATACAT
* *
24164179 GAAGACATGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAATACAT
* *
24164223 GAAGACATGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAATACAT
*
24164267 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAATACAT
* * * *
24164311 GAAGACAAGATCTGCTT-TTTTTAATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAATACAT
** * * * *
24164355 GAAGACAAGATCCATTATCTTCGATCAACTTCATGTCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
* * * * *
24164399 GAAGATAAGATCTGCTATCTCTGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
* ** * * * ***
24164443 GAAGATAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCA-CGCCAATACAT
* * * * * *
24164488 GAAGACAAGATCTGCCATCTCTATTCGATCTTCTTCGCTGTCAATACAG
1 GAAGACAAGATCTG--TTATCT-TT-GATCTACTTCAC-GCCAATACAT
* * * *
24164537 GAAAACAAGATCTGTTATCTTTGATCTACTTTACTGCCAGTACAG
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCAC-GCCAATACAT
* * * * *
24164582 GAAGACAAGATCTGCTATCTCTGATCTATTTCATGTCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
** * * * ***
24164626 GAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCA-CGCCAATACAT
** * * *
24164671 GAAGACAAGATCTGTTATCCCTGATCTATTTCATGTCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
** * * * ***
24164715 GAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCA-CGCCAATACAT
* * * * * * *
24164760 GAAGATAAGATTTGCTATCCTTGATCTATTTCATGTCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
** * * *
24164804 GAAGACAAGATCCATTATCTTCGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
* ** * * *
24164848 GAAGATAAGATCTACTATCTCTGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
** * * *
24164892 GAAGACAAGATCCATTATTTTTGATCTACTTCATGTCAATACAT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
* *
24164936 GAAGATAAAATCTG
1 GAAGACAAGATCTG
24164950 CTGCTTTTCA
Statistics
Matches: 703, Mismatches: 144, Indels: 26
0.81 0.16 0.03
Matches are distributed among these distances:
43 2 0.00
44 502 0.71
45 158 0.22
46 4 0.01
47 8 0.01
48 2 0.00
49 27 0.04
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACAT
Found at i:24164164 original size:89 final size:89
Alignment explanation
Indices: 24164015--24164924 Score: 948
Period size: 89 Copynumber: 10.2 Consensus size: 89
24164005 TTAAGACTTG
* * ** * * *
24164015 TTATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCAC
1 TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAT
* **
24164080 GCCAATACATGAAGACAAGATCTG
66 GTCAATACATGAAGACAAGATCCA
* * * * *
24164104 TTATCTTTGATCTACTTCACTGCCAGTACAGAAAGACAAGATCTGCTTTCTTCAATCTACTTCAC
1 TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAT
* *
24164169 GCCAATACATGAAGACATGATCTGC-
66 GTCAATACATGAAGACAAGATC--CA
* * * *
24164194 TT-TCTTCGATCTACTTCA-CGCCAATACATGAAGACATGATCTGCTTTCTTCGATCTACTTCAC
1 TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAT
*
24164257 GCCAATACATGAAGACAAGATCTGC-
66 GTCAATACATGAAGACAAGATC--CA
* * * **
24164282 TT-TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTTTTTAATCTACTTCAT
1 TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAT
24164345 GTCAATACATGAAGACAAGATCCA
66 GTCAATACATGAAGACAAGATCCA
* * * * * * *
24164369 TTATCTTCGATCAACTTCA-TGTCAATACATGAAGATAAGATCTGCTATC-TCTGATCTACTTCA
1 TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTGCTTTCTTC-GATCTACTTCA
*
24164432 TGTCAATACATGAAGATAAGATCCA
65 TGTCAATACATGAAGACAAGATCCA
* ** * *
24164457 TTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCCATCTCTATTCGATCTTCT
1 TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTG-C-T-T-TCTTCGATCTACT
* * * **
24164522 TCGCTGTCAATACAGGAAAACAAGATCTG
62 TC-ATGTCAATACATGAAGACAAGATCCA
* * * * *
24164551 TTATCTTTGATCTACTTTACTGCCAGTACAGGAAGACAAGATCTGCTATC-TCTGATCTATTTCA
1 TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTGCTTTCTTC-GATCTACTTCA
24164615 TGTCAATACATGAAGACAAGATCCA
65 TGTCAATACATGAAGACAAGATCCA
* ** * *
24164640 TTATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TTATC-CCTGATCTATTTC
1 TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTGCTT-TCTTC-GATCTACTTC
24164703 ATGTCAATACATGAAGACAAGATCCA
64 ATGTCAATACATGAAGACAAGATCCA
* ** * * * *
24164729 TTATCTTCGATCTACTTCACCACCAGTATGGGAAGATAAGATTTGCTATCCTT-GATCTATTTCA
1 TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTGCT-TTCTTCGATCTACTTCA
24164793 TGTCAATACATGAAGACAAGATCCA
65 TGTCAATACATGAAGACAAGATCCA
* * * * * * *
24164818 TTATCTTCGATCTACTTCA-TGTCAATACATGAAGATAAGATCTACTATC-TCTGATCTACTTCA
1 TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTGCTTTCTTC-GATCTACTTCA
24164881 TGTCAATACATGAAGACAAGATCCA
65 TGTCAATACATGAAGACAAGATCCA
* *
24164906 TTATTTTTGATCTACTTCA
1 TTATCTTCGATCTACTTCA
24164925 TGTCAATACA
Statistics
Matches: 708, Mismatches: 94, Indels: 39
0.84 0.11 0.05
Matches are distributed among these distances:
86 2 0.00
87 4 0.01
88 305 0.43
89 308 0.44
90 14 0.02
91 2 0.00
92 1 0.00
93 11 0.02
94 61 0.09
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (89 bp):
TTATCTTCGATCTACTTCACCGCCAGTACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCAT
GTCAATACATGAAGACAAGATCCA
Found at i:24164271 original size:88 final size:88
Alignment explanation
Indices: 24164046--24164951 Score: 925
Period size: 88 Copynumber: 10.2 Consensus size: 88
24164036 ACCAGTATGG
* * * * **
24164046 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
* *
24164111 TGATCTACTTCACTGCCAGTACA-
66 CGATCTACTTCAC-GCCAATACAT
* * * *
24164134 GAAAGACAAGATCTGCTTTCTTCAATCTACTTCACGCCAATACATGAAGACATGATCTGC-TT-T
1 G-AAGACAAGATCTGCTTTCTTCGATCTACTTCATGTCAATACATGAAGACAAGATC--CATTAT
24164197 CTTCGATCTACTTCACGCCAATACAT
63 CTTCGATCTACTTCACGCCAATACAT
* * *
24164223 GAAGACATGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-TT-TC
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGTCAATACATGAAGACAAGATC--CATTATC
24164286 TTCGATCTACTTCACGCCAATACAT
64 TTCGATCTACTTCACGCCAATACAT
* **
24164311 GAAGACAAGATCTGCTTTTTTTAATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
* * *
24164376 CGATCAACTTCATGTCAATACAT
66 CGATCTACTTCACGCCAATACAT
* * *
24164399 GAAGATAAGATCTGCTATC-TCTGATCTACTTCATGTCAATACATGAAGATAAGATCCATTATCT
1 GAAGACAAGATCTGCTTTCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCT
* * ***
24164463 TCGATCTACTTCACCACCAGTATGG
65 TCGATCTACTTCA-CGCCAATACAT
* * * * * **
24164488 GAAGACAAGATCTGCCATCTCTATTCGATCTTCTTCGCTGTCAATACAGGAAAACAAGATCTGTT
1 GAAGACAAGATCTG-C-T-T-TCTTCGATCTACTTC-ATGTCAATACATGAAGACAAGATCCATT
* * * *
24164553 ATCTTTGATCTACTTTACTGCCAGTACAG
61 ATCTTCGATCTACTTCAC-GCCAATACAT
* *
24164582 GAAGACAAGATCTGCTATC-TCTGATCTATTTCATGTCAATACATGAAGACAAGATCCATTATCT
1 GAAGACAAGATCTGCTTTCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCT
* * ***
24164646 TCGATCTACTTCACCACCAGTATGG
65 TCGATCTACTTCA-CGCCAATACAT
* *
24164671 GAAGACAAGATCTG-TTATC-CCTGATCTATTTCATGTCAATACATGAAGACAAGATCCATTATC
1 GAAGACAAGATCTGCTT-TCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCATTATC
* * ***
24164734 TTCGATCTACTTCACCACCAGTATGG
64 TTCGATCTACTTCA-CGCCAATACAT
* * * *
24164760 GAAGATAAGATTTGCTATCCTT-GATCTATTTCATGTCAATACATGAAGACAAGATCCATTATCT
1 GAAGACAAGATCTGCT-TTCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCT
* *
24164824 TCGATCTACTTCATGTCAATACAT
65 TCGATCTACTTCACGCCAATACAT
* * * *
24164848 GAAGATAAGATCTACTATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATTT
1 GAAGACAAGATCTGCTTTCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCT
* * *
24164912 TTGATCTACTTCATGTCAATACAT
65 TCGATCTACTTCACGCCAATACAT
* *
24164936 GAAGATAAAATCTGCT
1 GAAGACAAGATCTGCT
24164952 GCTTTTCAAC
Statistics
Matches: 711, Mismatches: 84, Indels: 46
0.85 0.10 0.05
Matches are distributed among these distances:
86 2 0.00
87 4 0.01
88 331 0.47
89 284 0.40
90 15 0.02
91 2 0.00
92 1 0.00
93 12 0.02
94 60 0.08
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (88 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTT
CGATCTACTTCACGCCAATACAT
Found at i:24166285 original size:8 final size:7
Alignment explanation
Indices: 24166241--24166282 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
24166231 TTAGCCTCTC
24166241 CATTTTT
1 CATTTTT
24166248 -ACTTTTT
1 CA-TTTTT
24166255 CATTTTT
1 CATTTTT
24166262 CA-TTTT
1 CATTTTT
24166268 CATCTTTT
1 CAT-TTTT
24166276 CATTTTT
1 CATTTTT
24166283 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 16 0.52
8 8 0.26
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:24167237 original size:20 final size:20
Alignment explanation
Indices: 24167212--24167252 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
24167202 GGTTTGGCAG
24167212 AAAAAATC-TGAAAGAATGAA
1 AAAAAATCGT-AAAGAATGAA
24167232 AAAAAATCGTAAAGAATGAA
1 AAAAAATCGTAAAGAATGAA
24167252 A
1 A
24167253 GAACATTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.66, C:0.05, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAAAATCGTAAAGAATGAA
Found at i:24168963 original size:24 final size:24
Alignment explanation
Indices: 24168918--24168964 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
24168908 TTGGGATTCC
*
24168918 TGCATCTTCTCTGACATATCCTGT
1 TGCATCTTCTCTAACATATCCTGT
*
24168942 TGCATCTTGTCTAAC-TACTCCTG
1 TGCATCTTCTCTAACATA-TCCTG
24168965 CACTTGTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.30, G:0.13, T:0.40
Consensus pattern (24 bp):
TGCATCTTCTCTAACATATCCTGT
Found at i:24169180 original size:19 final size:19
Alignment explanation
Indices: 24169140--24169181 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
24169130 GAGGTGTTTG
* *
24169140 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
24169159 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
24169178 ATGC
1 ATGC
24169182 GAAAAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:24169662 original size:17 final size:17
Alignment explanation
Indices: 24169627--24169662 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24169617 TTCTATGATG
**
24169627 AAATGTCATGCAGTTAA
1 AAATGTCATGCAGCCAA
24169644 AAATGTCATGCAGCCAA
1 AAATGTCATGCAGCCAA
24169661 AA
1 AA
24169663 CAAAACACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (17 bp):
AAATGTCATGCAGCCAA
Found at i:24172818 original size:13 final size:13
Alignment explanation
Indices: 24172796--24172829 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24172786 ATTTTAGGAA
24172796 TTTTAGGAAATTT
1 TTTTAGGAAATTT
*
24172809 TTTTATGAAATTT
1 TTTTAGGAAATTT
*
24172822 ATTTAGGA
1 TTTTAGGA
24172830 TGTTGTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (13 bp):
TTTTAGGAAATTT
Found at i:24173252 original size:98 final size:98
Alignment explanation
Indices: 24173147--24173344 Score: 240
Period size: 98 Copynumber: 2.0 Consensus size: 98
24173137 TTTCTCACAA
24173147 AATGTACTAAAATAATATAAAATAATAAAA-TACGAAAATAACATATTTCTATTGAAAGTAATAA
1 AATGTACTAAAATAATATAAAATAATAAAATTA-GAAAATAACATATTT-T-TTGAAAGTAATAA
** * * *
24173211 AAT-TTGGGAAAATAATACGAGCAAA-GGCCGAAGT
63 AATGCCGAGAAAAAAATACGAACAAATGGCCGAAGT
* * * * ** *
24173245 AATGTACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAATAAAAT
1 AATGTACTAAAATAATATAAAATAATAAAATTAGAAAATAACATATTTTTTGAAAGTAATAAAAT
24173310 GCCGAGAAAAAAATACGAACAAATGGCCGAAGT
66 GCCGAGAAAAAAATACGAACAAATGGCCGAAGT
24173343 AA
1 AA
24173345 AAAGTGTTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
96 15 0.18
97 18 0.21
98 50 0.59
99 2 0.02
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.27
Consensus pattern (98 bp):
AATGTACTAAAATAATATAAAATAATAAAATTAGAAAATAACATATTTTTTGAAAGTAATAAAAT
GCCGAGAAAAAAATACGAACAAATGGCCGAAGT
Found at i:24173333 original size:257 final size:257
Alignment explanation
Indices: 24172988--24173485 Score: 766
Period size: 258 Copynumber: 1.9 Consensus size: 257
24172978 ATTTCAAACA
*
24172988 TAATGCACTGAAATAACGTAAAATTATAAAATTAGAATTTAGGATATTTTTTAAAGTAATAAAAT
1 TAATGCACTGAAATAACGTAAAATTATAAAATTAGAAATTAGGATATTTTTTAAAGTAATAAAAT
* *
24173053 AAGGAGAAAAAAATACGAACAAATGGCCGAAGT-AAGAGTGTTTTACTAACTTTTTTAAAAATTC
66 AACGAGAAAAAAATACGAACAAATGGCCGAAGTAAAAAGTGTTTTACTAACTTTTTTAAAAATTC
* * ** *
24173117 AGAAATAATTAATACAAATATTTC-TCACAAAATGTACTAAAATAATATAAAATAATAAAATACG
131 AGAAAAAATTAATACAAAAATTTCAAAAAAAAATGTACTAAAATAATATAAAATAATAAAATACG
*
24173181 AAAATAACATATTTCTATTGAAAGTAATAAAATTTGGGAAAATAATACGAGCAAAGGCCGAAG
196 AAAATAACATATTT-TATTGAAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGGCCGAAG
* * *
24173244 TAATGTACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAATAAAA
1 TAATGCACTGAAATAACGTAAAATTATAAAATTAGAAATTAGGATA-TTTTTTAAAGTAATAAAA
**
24173309 TGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAAAGTGTTTTACTAACTTTTTTAAAAATT
65 TAACGAGAAAAAAATACGAACAAATGGCCGAAGTAAAAAGTGTTTTACTAACTTTTTTAAAAATT
** * * *
24173374 TGGAAAAAATTAATACAAAAATTTCAAAAAAAAATGTACTGAAATAATTTAAAATAATAAAATAT
130 CAGAAAAAATTAATACAAAAATTTCAAAAAAAAATGTACTAAAATAATATAAAATAATAAAATAC
* * *
24173439 GAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAATA
195 GAAAATAACATATTTTATTGAAAGTAATAAAATTCGGGAAAATAATA
24173486 TAAGGGTTGG
Statistics
Matches: 217, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
256 42 0.19
257 49 0.23
258 79 0.36
259 47 0.22
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (257 bp):
TAATGCACTGAAATAACGTAAAATTATAAAATTAGAAATTAGGATATTTTTTAAAGTAATAAAAT
AACGAGAAAAAAATACGAACAAATGGCCGAAGTAAAAAGTGTTTTACTAACTTTTTTAAAAATTC
AGAAAAAATTAATACAAAAATTTCAAAAAAAAATGTACTAAAATAATATAAAATAATAAAATACG
AAAATAACATATTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAGCAAAGGCCGAAG
Found at i:24173874 original size:325 final size:325
Alignment explanation
Indices: 24173485--24174324 Score: 1495
Period size: 325 Copynumber: 2.6 Consensus size: 325
24173475 GGAAAATAAT
** *
24173485 ATAAGGGTTGGGTTTTTTTTACACTAAATTAATTTTAAAAACACACTAAATTAATAAAGAAATAA
1 ATAAGGGTTGAATTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAAGAAATAA
24173550 CATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAATAA
66 CATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAATAA
*
24173615 AATGCCGAGAAAAAAATGCGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAAAA
131 AATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAAAA
* *
24173680 TTCG-GAAAAAATTAATACAAAAATTTTAAACAAAATGTAATGAAATAATATAAAATAATAAAAT
196 TTCGAAAAAAAATTAATACAAAAATTTCAAACAAAATGTAATGAAATAATATAAAATAATAAAAT
24173744 ACGAAAATAATATATTTTTTTAGAAGTAATAAAATTCGGAAAAATAATACGAGCAAAGGGCAAAA
261 ACGAAAATAATATATTTTTTTAGAAGTAATAAAATTCGGAAAAATAATACGAGCAAAGGGCAAAA
* *
24173809 ATAAGGGTTGTATTTCTTTTACACTAAATTAATTTAAAAAAACACACTAAATTAATAAAGAAATA
1 ATAAGGGTTGAATTTTTTTTACACTAAATTAATTT-AAAAAACACACTAAATTAATAAAGAAATA
* *
24173874 ACATAATGCACTGAAATAATGTAAAATTACAAAACTAGAAATTATGATATTTTTTTAAAGTAATA
65 ACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAATA
24173939 AAATGCCGA-AAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAAA
130 AAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAAA
24174003 ATTCGAAAAAAAATTAATACAAAAATTTCAAACAAAATGTAATGAAATAATATAAAATAATAAAA
195 ATTCGAAAAAAAATTAATACAAAAATTTCAAACAAAATGTAATGAAATAATATAAAATAATAAAA
* * * *
24174068 TACGAAAATAATATATTTTTTTGGAAGTAATAAAATTTGGGAAAATAATACGAGCAAAGGGCAAG
260 TACGAAAATAATATATTTTTTTAGAAGTAATAAAATTCGGAAAAATAATACGAGCAAAGGGCAAA
24174133 A
325 A
24174134 ATAAGGGTTGAAATTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAAGAAATA
1 ATAAGGGTTG-AATTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAAGAAATA
* *
24174199 ACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGAGAATTTTTTAAAGTAATA
65 ACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAATA
*
24174264 AAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTATTTTACTAACTTTTTT
130 AAATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTT
24174325 TTCAACTTGC
Statistics
Matches: 492, Mismatches: 20, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
324 91 0.18
325 328 0.67
326 73 0.15
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (325 bp):
ATAAGGGTTGAATTTTTTTTACACTAAATTAATTTAAAAAACACACTAAATTAATAAAGAAATAA
CATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAAGTAATAA
AATGCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTAAAAA
TTCGAAAAAAAATTAATACAAAAATTTCAAACAAAATGTAATGAAATAATATAAAATAATAAAAT
ACGAAAATAATATATTTTTTTAGAAGTAATAAAATTCGGAAAAATAATACGAGCAAAGGGCAAAA
Found at i:24174015 original size:165 final size:164
Alignment explanation
Indices: 24173720--24174324 Score: 484
Period size: 165 Copynumber: 3.7 Consensus size: 164
24173710 CAAAATGTAA
* * * * *
24173720 TGAAATAATATAAAATAATAAAATACGAAAATAAT-ATATTTTTTTAGAAGTAATAAAATTCGGA
1 TGAAATAATGTAAAATTATAAAATA-G-AAATTATGATATTTTTTTA-AAGTAATAAAATGCCGA
* * * ** * *
24173784 AAAATAATACGAGCAAAGGGCAAAAAT-AAG-G-GTTGTA-T---TTCTTTTACACTAAATTAAT
63 AAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTT-TTTTACAC-AAATT-A-
24173842 TTAAAAAAACACACTAAATTAATAAAGAAATAACATAATGCAC
124 --AAAAAAACACACTAAATTAATAAAGAAATAACATAATGCAC
*
24173885 TGAAATAATGTAAAATTACAAAACTAGAAATTATGATATTTTTTTAAAGTAATAAAATGCCGAAA
1 TGAAATAATGTAAAATTATAAAA-TAGAAATTATGATATTTTTTTAAAGTAATAAAATGCCGAAA
**
24173950 AAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTA-A-AAATTCGAAAAA
65 AAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTACACAAATTAAAAAAA
* ** * * *
24174013 A-A-A-TTAA-TACA-AAA-ATTTCAAACAAAATGTAA
130 ACACACTAAATTA-ATAAAGAAAT--AACATAATGCAC
* * * * *** *
24174045 TGAAATAATATAAAATAATAAAATACGAAAATAAT-ATATTTTTTTGGAAGTAATAAAATTTGGG
1 TGAAATAATGTAAAATTATAAAATA-G-AAATTATGATATTTTTTT-AAAGTAATAAAATGCCGA
* * * * * *
24174109 AAAATAATACGAGCAAA-GGGC-AAG-AATA-AG-GGTTGA--AATTTTTTTTACACTAAATTAA
63 AAAAAAATACGAACAAATGGCCGAAGTAA-AGAGTGTTTTACTAA-CTTTTTTACAC-AAATTAA
24174167 TTTAAAAAACACACTAAATTAATAAAGAAATAACATAATGCAC
125 ---AAAAAACACACTAAATTAATAAAGAAATAACATAATGCAC
* *
24174210 TGAAATAATGTAAAATTATAAAATTAGAAATTATGAGAATTTTTTAAAGTAATAAAATGCCGAGA
1 TGAAATAATGTAAAATTATAAAA-TAGAAATTATGATATTTTTTTAAAGTAATAAAATGCCGA-A
*
24174275 AAAAAATACGAACAAATGGCCGAAGTAAAGAGTATTTTACTAACTTTTTT
64 AAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTT
24174325 TTCAACTTGC
Statistics
Matches: 340, Mismatches: 61, Indels: 73
0.72 0.13 0.15
Matches are distributed among these distances:
155 2 0.01
156 7 0.02
157 5 0.01
158 6 0.02
159 16 0.05
160 47 0.14
161 35 0.10
162 7 0.02
163 7 0.02
164 62 0.18
165 93 0.27
166 13 0.04
167 16 0.05
168 5 0.01
169 4 0.01
170 11 0.03
171 4 0.01
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (164 bp):
TGAAATAATGTAAAATTATAAAATAGAAATTATGATATTTTTTTAAAGTAATAAAATGCCGAAAA
AAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTTTTACACAAATTAAAAAAAA
CACACTAAATTAATAAAGAAATAACATAATGCAC
Found at i:24174039 original size:24 final size:25
Alignment explanation
Indices: 24173999--24174045 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
24173989 TAACTTTTTT
24173999 AAAAATTCGAAAAAAAAT-TAATAC
1 AAAAATTCGAAAAAAAATGTAATAC
*
24174023 AAAAATTTC-AAACAAAATGTAAT
1 AAAAA-TTCGAAAAAAAATGTAAT
24174046 GAAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAAATTCGAAAAAAAATGTAATAC
Found at i:24177412 original size:3 final size:3
Alignment explanation
Indices: 24177404--24177433 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
24177394 ATAGTGGCAG
*
24177404 TAA TAA TAA TAA TAC TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24177434 AAATCATAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24179065 original size:132 final size:132
Alignment explanation
Indices: 24178921--24179289 Score: 612
Period size: 132 Copynumber: 2.8 Consensus size: 132
24178911 GAGATAGGAA
* * *
24178921 TACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCCCC
* * * * *
24178986 ACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGA
24179051 AT
131 AT
*
24179053 TACTGACTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCCCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCCCC
24179118 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGA
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGA
24179183 AT
131 AT
* * * *
24179185 TATTGGCTTCAATATACACCACTGTAACCACAGGGAGGTAAAATTCTCCATCTTTGATCTGCCCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCCCC
*
24179250 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCGATCTA
66 ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTA
24179290 CTTCACGCCA
Statistics
Matches: 222, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 222 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (132 bp):
TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCCCC
ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAAGGAAGTAGA
AT
Found at i:24179414 original size:89 final size:89
Alignment explanation
Indices: 24179264--24179817 Score: 819
Period size: 89 Copynumber: 6.2 Consensus size: 89
24179254 CTGCTTAGGG
** * *
24179264 AGACAAGATCTGAAATCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCG
1 AGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCG
24179329 ATCTACTCCACCACCAGTAT-GGA
66 ATCTACTCCACCACCAGTATGGGA
* *
24179352 GAGACAAGATATGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTC
1 -AGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
24179417 GATCTACTCCACCACCAGTAT-GGA
65 GATCTACTCCACCACCAGTATGGGA
*
24179441 GAGACAAGATATGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
1 -AGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* *
24179506 GATCTGCTTCACCACCAGTATGGGA
65 GATCTACTCCACCACCAGTATGGGA
* *
24179531 AGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCG
1 AGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCG
* *
24179596 ATCTGCTTCACCACCAGTATGGGA
66 ATCTACTCCACCACCAGTATGGGA
* * * *
24179620 AGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTTG
1 AGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCG
* * *
24179685 ATCTGCTTCGCCACCAGTATGGGA
66 ATCTACTCCACCACCAGTATGGGA
* * * *
24179709 AGGCAAGATCTGGTATCTCTGATCTAGTTCACGCCAGTACATGAAGACAAGATCCGCTTTCTTCG
1 AGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCG
24179774 ATCTAC-CTCACCACCAGTATGGGA
66 ATCTACTC-CACCACCAGTATGGGA
*
24179798 AGGA-AAGATCTGTTATCTTT
1 A-GACAAGATCTGGTATCTTT
24179818 CAACCTACTC
Statistics
Matches: 437, Mismatches: 25, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
89 433 0.99
90 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (89 bp):
AGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCG
ATCTACTCCACCACCAGTATGGGA
Found at i:24180992 original size:7 final size:7
Alignment explanation
Indices: 24180982--24181016 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
24180972 CGATTTTTAC
24180982 TTTTTCA
1 TTTTTCA
24180989 TTTTTCA
1 TTTTTCA
24180996 -TTTTCA
1 TTTTTCA
24181002 TCTTTTCA
1 T-TTTTCA
24181010 TTTTTCA
1 TTTTTCA
24181017 CATCACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:24180993 original size:14 final size:13
Alignment explanation
Indices: 24180974--24181016 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
24180964 TAGCCTCTCG
24180974 ATTTTTACTTTTTC
1 ATTTTT-CTTTTTC
*
24180988 ATTTTTCATTTTC
1 ATTTTTCTTTTTC
24181001 ATCTTTTCATTTTTC
1 AT-TTTTC-TTTTTC
24181016 A
1 A
24181017 CATCACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.32
14 11 0.44
15 6 0.24
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTTCTTTTTC
Found at i:24181028 original size:21 final size:21
Alignment explanation
Indices: 24180982--24181028 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
24180972 CGATTTTTAC
**
24180982 TTTTTCATTTTTCATTTTCAT
1 TTTTTCATTTTTCATCATCAT
*
24181003 CTTTTCATTTTTCA-CATCACT
1 TTTTTCATTTTTCATCATCA-T
24181024 TTTTT
1 TTTTT
24181029 TTGGACTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTCATTTTTCATCATCAT
Found at i:24185959 original size:3 final size:3
Alignment explanation
Indices: 24185951--24186001 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
24185941 ATAGTGGTAG
*
24185951 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24185999 TAA
1 TAA
24186002 AAATCATAGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24190617 original size:24 final size:24
Alignment explanation
Indices: 24190589--24190641 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
24190579 TTTCTAAAAA
* *
24190589 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
24190613 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
24190637 ATTTA
1 ATTTA
24190642 ACTTGCGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:24194200 original size:20 final size:20
Alignment explanation
Indices: 24194167--24194204 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24194157 TGCTTTATGT
24194167 TATGTATGACTATATATAAG
1 TATGTATGACTATATATAAG
24194187 TATGTCATGA-TATATATA
1 TATGT-ATGACTATATATA
24194205 TGTTACATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (20 bp):
TATGTATGACTATATATAAG
Found at i:24212407 original size:64 final size:64
Alignment explanation
Indices: 24212301--24212457 Score: 197
Period size: 64 Copynumber: 2.5 Consensus size: 64
24212291 AGGTGCAAGG
* * ** *
24212301 GTCACACGGGCAAGACACACAGGCGTTTTTCTAGGCTGTGTAACTCCCTGAGTTAAGACTTGGA
1 GTCACACGGGCAAGACACACAGGCGTGTGTCTAGGCCATGTAACTCCCTGAGTTAAGACTTAGA
* * * **
24212365 GTCACATGGGCAAGACACACTGGCGTGTGTCTAGGCCATGTAACTCCTTGAGTTAAGTTTTAGA
1 GTCACACGGGCAAGACACACAGGCGTGTGTCTAGGCCATGTAACTCCCTGAGTTAAGACTTAGA
* * *
24212429 GTCACACGGGCAGGAGACACGGGCGTGTG
1 GTCACACGGGCAAGACACACAGGCGTGTG
24212458 CCGAGTCGCG
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 79 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (64 bp):
GTCACACGGGCAAGACACACAGGCGTGTGTCTAGGCCATGTAACTCCCTGAGTTAAGACTTAGA
Found at i:24215195 original size:50 final size:50
Alignment explanation
Indices: 24215141--24215247 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
24215131 ACATGAGGGT
** * *
24215141 TCTCATATCGGTGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACA
1 TCTCATATCGGCACCAACGCCATGTCCCAAACATGGTCTTACGGGGGACA
* * * * *
24215191 TCTCATCTCGGCACCAACGCCATGTCCTAGACATGGTCTTACGTGGGACC
1 TCTCATATCGGCACCAACGCCATGTCCCAAACATGGTCTTACGGGGGACA
24215241 TCTCATA
1 TCTCATA
24215248 ACCTTAATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.25
Consensus pattern (50 bp):
TCTCATATCGGCACCAACGCCATGTCCCAAACATGGTCTTACGGGGGACA
Found at i:24224317 original size:13 final size:13
Alignment explanation
Indices: 24224299--24224338 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
24224289 TTAAAACTAA
24224299 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
24224312 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
24224325 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
24224338 A
1 A
24224339 ATGAAGAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:24228109 original size:33 final size:30
Alignment explanation
Indices: 24228067--24228147 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 30
24228057 CATTTAATTA
24228067 ATTTTTAAAATTTAAAAATTCAAAAAGAAAACT
1 ATTTTTAAAATTTAAAAATT-AAAAA-AAAA-T
**
24228100 ATTTTTAAAAATTT-AAAATTATTAAAAAAT
1 ATTTTT-AAAATTTAAAAATTAAAAAAAAAT
*
24228130 ATTTTTTAAATTTAAAAA
1 ATTTTTAAAATTTAAAAA
24228148 AATTAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 6 0.14
30 11 0.26
31 4 0.09
32 3 0.07
33 12 0.28
34 7 0.16
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (30 bp):
ATTTTTAAAATTTAAAAATTAAAAAAAAAT
Found at i:24228152 original size:29 final size:30
Alignment explanation
Indices: 24228094--24228153 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
24228084 ATTCAAAAAG
* **
24228094 AAAACTATTTTTAAAAATTTAAAATTATTA
1 AAAAATATTTTTAAAAATTTAAAAAAATTA
*
24228124 AAAAATATTTTT-TAAATTTAAAAAAATTA
1 AAAAATATTTTTAAAAATTTAAAAAAATTA
24228153 A
1 A
24228154 TTAAATGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAAATATTTTTAAAAATTTAAAAAAATTA
Found at i:24228157 original size:19 final size:20
Alignment explanation
Indices: 24228121--24228159 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
24228111 TTTAAAATTA
**
24228121 TTAAAAAATATTTTTTAAAT
1 TTAAAAAATATTAATTAAAT
24228141 TTAAAAAA-ATTAATTAAAT
1 TTAAAAAATATTAATTAAAT
24228160 GTTGATGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAAAAATATTAATTAAAT
Found at i:24231008 original size:12 final size:13
Alignment explanation
Indices: 24230984--24231013 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
24230974 CACCCATAAA
24230984 AAGAAAAAGGAAG
1 AAGAAAAAGGAAG
24230997 AAGAAAAA-GAAG
1 AAGAAAAAGGAAG
24231009 AAGAA
1 AAGAA
24231014 TTTTTTAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGGAAG
Found at i:24231525 original size:22 final size:22
Alignment explanation
Indices: 24231500--24231542 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24231490 AAACAATAAT
24231500 ATTATTATA-TAATAAATTAAAA
1 ATTATTATATTAA-AAATTAAAA
*
24231522 ATTATTCTATTAAAAATTAAA
1 ATTATTATATTAAAAATTAAA
24231543 TTAAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTATTATATTAAAAATTAAAA
Found at i:24239898 original size:73 final size:73
Alignment explanation
Indices: 24239772--24239907 Score: 204
Period size: 73 Copynumber: 1.9 Consensus size: 73
24239762 TCGGGTTTAG
* * *
24239772 AAAAGGGATCATGCCTAGTAAGTTAAGACACGATCTTTTCTTAATTTCCGAGATTGTTTAAAAAA
1 AAAAGGGATCATGCCTAGTAAGTTAAGACACGATCTCTTCTTAACTTCCGAGATCGTTTAAAAAA
24239837 TTGAGGAA
66 TTGAGGAA
*
24239845 AAAAGGGATCATGCGC-AGTAAGTTAGGACACGATCTCTTCTT-ACTTCCTGAGATCGTTTAAAA
1 AAAAGGGATCATGC-CTAGTAAGTTAAGACACGATCTCTTCTTAACTTCC-GAGATCGTTTAAAA
24239908 CTTGAGTTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
72 5 0.09
73 51 0.89
74 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (73 bp):
AAAAGGGATCATGCCTAGTAAGTTAAGACACGATCTCTTCTTAACTTCCGAGATCGTTTAAAAAA
TTGAGGAA
Found at i:24239922 original size:73 final size:74
Alignment explanation
Indices: 24239766--24239922 Score: 187
Period size: 73 Copynumber: 2.1 Consensus size: 74
24239756 ATTATCTCGG
* * *
24239766 GTTTAGAAAAGGGATCATGCCTAGTAAGTTAAGACACGATCTTTTCTTAATTTCCGAGATTGTTT
1 GTTT-GAAAAGGGATCATGCCTAGTAAGTTAAGACACGATCTCTTCTTAACTTCCGAGATCGTTT
24239831 AAAAAATTGA
65 AAAAAATTGA
*** *
24239841 G-GAAAAAAGGGATCATGCGC-AGTAAGTTAGGACACGATCTCTTCTT-ACTTCCTGAGATCGTT
1 GTTTGAAAAGGGATCATGC-CTAGTAAGTTAAGACACGATCTCTTCTTAACTTCC-GAGATCGTT
*
24239903 T-AAAACTTGA
64 TAAAAAATTGA
24239913 GTTTGAAAAG
1 GTTTGAAAAG
24239923 ATTCGTGTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
72 14 0.21
73 52 0.76
74 1 0.01
75 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (74 bp):
GTTTGAAAAGGGATCATGCCTAGTAAGTTAAGACACGATCTCTTCTTAACTTCCGAGATCGTTTA
AAAAATTGA
Found at i:24240546 original size:20 final size:21
Alignment explanation
Indices: 24240523--24240564 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
24240513 TATGTACAAT
*
24240523 ATATATAAGTATGTAT-TAAA
1 ATATATAAGTAGGTATATAAA
*
24240543 ATATATATGTAGGTATATAAA
1 ATATATAAGTAGGTATATAAA
24240564 A
1 A
24240565 ATTATGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATATAAGTAGGTATATAAA
Found at i:24242093 original size:14 final size:14
Alignment explanation
Indices: 24242074--24242101 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24242064 AGGCTGAATA
24242074 CCGGAGTCTTGCTG
1 CCGGAGTCTTGCTG
24242088 CCGGAGTCTTGCTG
1 CCGGAGTCTTGCTG
24242102 TCGCTATCAG
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:0.07, C:0.29, G:0.36, T:0.29
Consensus pattern (14 bp):
CCGGAGTCTTGCTG
Found at i:24244414 original size:104 final size:104
Alignment explanation
Indices: 24244175--24244399 Score: 450
Period size: 104 Copynumber: 2.2 Consensus size: 104
24244165 AGCATTATAT
24244175 CCAGTAAGTTAGGACACAATGTCTCAAATTCCTGATACGCGAATGAATGTCAAAATTTACTTATT
1 CCAGTAAGTTAGGACACAATGTCTCAAATTCCTGATACGCGAATGAATGTCAAAATTTACTTATT
24244240 TAAAAGATATTTAGCTATCTCGGAAAAAAGGGATCACGA
66 TAAAAGATATTTAGCTATCTCGGAAAAAAGGGATCACGA
24244279 CCAGTAAGTTAGGACACAATGTCTCAAATTCCTGATACGCGAATGAATGTCAAAATTTACTTATT
1 CCAGTAAGTTAGGACACAATGTCTCAAATTCCTGATACGCGAATGAATGTCAAAATTTACTTATT
24244344 TAAAAGATATTTAGCTATCTCGGAAAAAAGGGATCACGA
66 TAAAAGATATTTAGCTATCTCGGAAAAAAGGGATCACGA
24244383 CCAGTAAGTTAGGACAC
1 CCAGTAAGTTAGGACAC
24244400 GATTTTTTTA
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 121 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (104 bp):
CCAGTAAGTTAGGACACAATGTCTCAAATTCCTGATACGCGAATGAATGTCAAAATTTACTTATT
TAAAAGATATTTAGCTATCTCGGAAAAAAGGGATCACGA
Found at i:24244973 original size:38 final size:37
Alignment explanation
Indices: 24244931--24245008 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
24244921 ACAAAGAAGT
*
24244931 ATAAAATCATAAAAACATAAAAAAATATGTGTATATAC
1 ATAAAATCATAAAAACAT-AAAAAATATATGTATATAC
* * * * *
24244969 ATAAAATTATAGAAATATGAAAAATATATGTATGTAC
1 ATAAAATCATAAAAACATAAAAAATATATGTATATAC
24245006 ATA
1 ATA
24245009 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 19 0.56
38 15 0.44
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (37 bp):
ATAAAATCATAAAAACATAAAAAATATATGTATATAC
Found at i:24245157 original size:15 final size:13
Alignment explanation
Indices: 24245129--24245153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24245119 AATATAAAGA
24245129 ACATATCTAAAAT
1 ACATATCTAAAAT
24245142 ACATATCTAAAA
1 ACATATCTAAAA
24245154 AATATGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATATCTAAAAT
Found at i:24246195 original size:11 final size:11
Alignment explanation
Indices: 24246179--24246203 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24246169 CGATTTCCCC
24246179 TTTACAATCGG
1 TTTACAATCGG
24246190 TTTACAATCGG
1 TTTACAATCGG
24246201 TTT
1 TTT
24246204 TTATACCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (11 bp):
TTTACAATCGG
Found at i:24247045 original size:44 final size:42
Alignment explanation
Indices: 24246986--24247273 Score: 158
Period size: 44 Copynumber: 6.7 Consensus size: 42
24246976 TGGTGTGATC
* * *
24246986 CGCTCTACTGCAACTTTAGAGAGATAAGATCTGTCATTTTAATT
1 CGCTCCACTGCAACTTCAGAGAGATAAGAT-TG-GATTTTAATT
* * *
24247030 CGCTTCACTGCAACTTTAG-GAAGATAGGATT-GATTTCTTCAATT
1 CGCTCCACTGCAACTTCAGAG-AGATAAGATTGGA-TT-TT-AATT
* * * *
24247074 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGA-TGTGA-T
1 CGCTCCACTGCAACTTCAGAGAGATAAGATTGGATTTTAATT
* * *
24247114 CTGCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATC
1 C-GCTCCACTGCAACTTCAGAGAGATAAGAT-TG-GATTTTAATT
* * * * * * *
24247159 CACTCCACTGCAACTTCAGGGAGATAGGACTAGTAGCTTCAA-T
1 CGCTCCACTGCAACTTCAGAGAGATAAGA-TTGGA-TTTTAATT
* * * ***
24247202 CTACTCCACTGCAACTTTAGGGAGATAAGATTGGA-TGCGA-T
1 C-GCTCCACTGCAACTTCAGAGAGATAAGATTGGATTTTAATT
**
24247243 CTGCTTTACTGCAACTTCAGAGAGATAAGAT
1 C-GCTCCACTGCAACTTCAGAGAGATAAGAT
24247274 CTATCATCTT
Statistics
Matches: 192, Mismatches: 38, Indels: 31
0.74 0.15 0.12
Matches are distributed among these distances:
40 1 0.01
41 59 0.31
42 5 0.03
43 10 0.05
44 112 0.58
45 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (42 bp):
CGCTCCACTGCAACTTCAGAGAGATAAGATTGGATTTTAATT
Found at i:24247131 original size:41 final size:41
Alignment explanation
Indices: 24247074--24247273 Score: 177
Period size: 44 Copynumber: 4.7 Consensus size: 41
24247064 TTCTTCAATT
*
24247074 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGTGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGTAATC
* * * *
24247115 TGCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAG--AT-TGGATGTAATC
** * * *
24247159 CACTCCACTGCAACTTCAGGGAGATAGGACTAG-TAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGAT-G--T-AATC
* * **
24247203 TACTCCACTGCAACTTTAGGGAGATAAGATTGGATGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGTAATC
** *
24247244 TGCTTTACTGCAACTTCAGAGAGATAAGAT
1 TGCTCCACTGCAACTTCAGGGAGATAAGAT
24247274 CTATCATCTT
Statistics
Matches: 126, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.01
41 56 0.44
42 1 0.01
43 3 0.02
44 64 0.51
45 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (41 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGTAATC
Found at i:24247136 original size:129 final size:128
Alignment explanation
Indices: 24246938--24247280 Score: 420
Period size: 129 Copynumber: 2.6 Consensus size: 128
24246928 TTATCTCCAG
*
24246938 TCTGCTCCACTGCAACCTTAGGGAGATAAGACTTATCATGG-TGTGATCCGCTCTACTGCAACTT
1 TCTGCTCCACTGCAA-CTTAGGGAGATAAG----AT--TGGATGTGATCTGCTCTACTGCAACTT
* * * * * * **
24247002 TAGAGAGATAAGATCTGTCATTTTAATTCGCTTCACTGCAACTTTAGGAAGATAGGA-TTGATTT
59 CAGAGAGATAAGATCTGTCATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGACTAG-TAG
24247066 CTTCAA
123 CTTCAA
*
24247072 TTTGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTT-AGGGAGATAAGATTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
* ** *
24247137 GATAAGATATGTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGACTAGTAGCTTCAA
65 GATAAGATCTGTCATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGACTAGTAGCTTCAA
* * *
24247201 TCTACTCCACTGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTTTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAAC-TTAGGGAGATAAGATTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
*
24247266 GATAAGATCTATCAT
65 GATAAGATCTGTCAT
24247281 CTTCGATCTA
Statistics
Matches: 183, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
128 3 0.02
129 146 0.80
130 6 0.03
133 3 0.02
134 25 0.14
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (128 bp):
TCTGCTCCACTGCAACTTAGGGAGATAAGATTGGATGTGATCTGCTCTACTGCAACTTCAGAGAG
ATAAGATCTGTCATTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGACTAGTAGCTTCAA
Found at i:24247552 original size:44 final size:44
Alignment explanation
Indices: 24247432--24247737 Score: 203
Period size: 44 Copynumber: 7.0 Consensus size: 44
24247422 CTGCAAATTA
* * * * *
24247432 TGGTGTCTTCGATCTGCTTCACTGTCAGTACAGAAATGCAAGATC
1 TGGTATCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAG-GC
* * * *
24247477 TGCTATCTTCCG-TCTGCTAT-TCTGTCAGTACAAGAAGGCAAGGC
1 TGGTATCTT-CGATCTGCT-TCACTGCCAGTACAGGAAGGCAAGGC
* * * * * *
24247521 TGGTCTCTTCGATCTGCTTTACTGCCGGTACAGGAAGCCATGATC
1 TGGTATCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAG-GC
* * * * * *
24247566 TGCTATCTTC-AGTCGGCTCCGCTGTCAGTACAGGAAGGTAAGGC
1 TGGTATCTTCGA-TCTGCTTCACTGCCAGTACAGGAAGGCAAGGC
* * *
24247610 TAGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATC
1 TGGTATCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAG-GC
* * * *
24247655 TGCTATCTTC-AGTCTGC-TC-C-GTCAGTACAGGAAGGTAAGGA
1 TGGTATCTTCGA-TCTGCTTCACTGCCAGTACAGGAAGGCAAGGC
* * ** *
24247696 TGGTGTCTTCGATTTGCTTCGTTGTCAGTACAGGAAGGCAAG
1 TGGTATCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAG
24247738 ATCTGCTATC
Statistics
Matches: 199, Mismatches: 49, Indels: 27
0.72 0.18 0.10
Matches are distributed among these distances:
41 12 0.06
42 20 0.10
43 4 0.02
44 85 0.43
45 75 0.38
46 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (44 bp):
TGGTATCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGGC
Found at i:24247553 original size:89 final size:87
Alignment explanation
Indices: 24247432--24247998 Score: 453
Period size: 89 Copynumber: 6.6 Consensus size: 87
24247422 CTGCAAATTA
* * * *
24247432 TGGTGTCTTCGATCTGCTTCACTGTCAGTACAGAAATGCAAGATCTGCTATCTTCCGTCTGCTAT
1 TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC--T
* *
24247497 TCTGTCAGTACAAGAAGGCAAGGC
64 TCTGTCAGTACAGGAAGGTAAGGC
* * * * * *
24247521 TGGTCTCTTCGATCTGCTTTACTGCCGGTACAGGAAGCCATGATCTGCTATCTTCAGTCGGCTCC
1 TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT--
*
24247586 GCTGTCAGTACAGGAAGGTAAGGC
64 TCTGTCAGTACAGGAAGGTAAGGC
*
24247610 TAGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC-TC
1 TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTTC
* *
24247674 CGTCAGTACAGGAAGGTAAGGA
66 TGTCAGTACAGGAAGGTAAGGC
* ** * *
24247696 TGGTGTCTTCGATTTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTAC-T-
1 TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTTC
* * *
24247759 T-T-ACTGCA--AA-CT-A---
66 TGTCAGTACAGGAAGGTAAGGC
* * * * * *
24247772 TGGTATCTTCGATCTGCTTCACTGTCAGTATAAGAAGGCAAGATCTGCTATATTC-GATCTACTT
1 TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAG-TCTGCTT
* * **
24247836 CGCTGCCAATATTGGAA-G-ACAGGATC
65 --CTGTCAGTACAGGAAGGTA-AGG--C
* * * * * * * * * * * *
24247862 TGCTATCTTTGATCTACTTCGCTGCAAATACAAGAAGACAAGATCTGTTATCTTCAATCTACTCC
1 TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT--
* * *
24247927 GCTGTCAGTATAGGAAGGCAAGGC
64 TCTGTCAGTACAGGAAGGTAAGGC
* * *
24247951 TGGTGTCTTCGATCTGCTTCGCTGCCAGTATAGGAAGGCAATATCTGC
1 TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGC
24247999 AACTTCATTG
Statistics
Matches: 382, Mismatches: 73, Indels: 46
0.76 0.15 0.09
Matches are distributed among these distances:
75 1 0.00
76 53 0.14
77 1 0.00
79 1 0.00
80 2 0.01
81 2 0.01
82 2 0.01
83 4 0.01
84 3 0.01
85 1 0.00
86 78 0.20
87 1 0.00
89 166 0.43
90 62 0.16
91 4 0.01
92 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (87 bp):
TGGTGTCTTCGATCTGCTTCACTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTTC
TGTCAGTACAGGAAGGTAAGGC
Found at i:24247790 original size:76 final size:76
Alignment explanation
Indices: 24247695--24247835 Score: 203
Period size: 76 Copynumber: 1.9 Consensus size: 76
24247685 GAAGGTAAGG
* * ** * *
24247695 ATGGTGTCTTCGATTTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATCTTC-AGTCTACT
1 ATGGTATCTTCGATCTGCTTCACTGTCAGTACAAGAAGGCAAGATCTGCTATATTCGA-TCTACT
24247759 TTACTGCAAACT
65 TTACTGCAAACT
*
24247771 ATGGTATCTTCGATCTGCTTCACTGTCAGTATAAGAAGGCAAGATCTGCTATATTCGATCTACTT
1 ATGGTATCTTCGATCTGCTTCACTGTCAGTACAAGAAGGCAAGATCTGCTATATTCGATCTACTT
24247836 CGCTGCCAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
76 56 0.98
77 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (76 bp):
ATGGTATCTTCGATCTGCTTCACTGTCAGTACAAGAAGGCAAGATCTGCTATATTCGATCTACTT
TACTGCAAACT
Found at i:24247828 original size:45 final size:45
Alignment explanation
Indices: 24247775--24247998 Score: 225
Period size: 45 Copynumber: 5.0 Consensus size: 45
24247765 CAAACTATGG
* * * *
24247775 TATCTTCGATCTGCTTCACTGTCAGTATAAGAAGGCAAGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAGTATAGGAAGGCAAGATCTGC
* * * * *
24247820 TATATTCGATCTACTTCGCTGCCAATATTGGAAGACAGGATCTGC
1 TATCTTCGATCTACTTCGCTGCCAGTATAGGAAGGCAAGATCTGC
* * * * * * *
24247865 TATCTTTGATCTACTTCGCTGCAAATACAAGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCGCTGCCAGTATAGGAAGGCAAGATCTGC
* * * * *
24247910 TATCTTCAATCTACTCCGCTGTCAGTATAGGAAGGCAAG-GCTGG
1 TATCTTCGATCTACTTCGCTGCCAGTATAGGAAGGCAAGATCTGC
* * *
24247954 TGTCTTCGATCTGCTTCGCTGCCAGTATAGGAAGGCAATATCTGC
1 TATCTTCGATCTACTTCGCTGCCAGTATAGGAAGGCAAGATCTGC
24247999 AACTTCATTG
Statistics
Matches: 142, Mismatches: 36, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
44 36 0.25
45 106 0.75
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (45 bp):
TATCTTCGATCTACTTCGCTGCCAGTATAGGAAGGCAAGATCTGC
Found at i:24248317 original size:24 final size:24
Alignment explanation
Indices: 24248267--24248324 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
24248257 CGGATTTCCC
24248267 CCACTGTAATCTTCAAACTTCAAT
1 CCACTGTAATCTTCAAACTTCAAT
* **
24248291 CCATTGTAATCTTCAAGGTT-AAGT
1 CCACTGTAATCTTCAAACTTCAA-T
24248315 CCACTGTAAT
1 CCACTGTAAT
24248325 TTTGGGACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAACTTCAAT
Found at i:24249282 original size:13 final size:12
Alignment explanation
Indices: 24249264--24249325 Score: 72
Period size: 12 Copynumber: 5.1 Consensus size: 12
24249254 TGGCCTCTCC
24249264 TTTTCTTTTTTT
1 TTTTCTTTTTTT
* *
24249276 ATTTTCTCTTCTT
1 -TTTTCTTTTTTT
*
24249289 CTTTCTTTTTTT
1 TTTTCTTTTTTT
24249301 TCTTT-TTTTTTT
1 T-TTTCTTTTTTT
24249313 TTTTCTTTTTTT
1 TTTTCTTTTTTT
24249325 T
1 T
24249326 ATATTTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
11 3 0.07
12 25 0.61
13 13 0.32
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:24249290 original size:21 final size:19
Alignment explanation
Indices: 24249266--24249316 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
24249256 GCCTCTCCTT
24249266 TTCTTTTTTTATTTTCTCTTC
1 TTCTTTTTTT-TTTTCT-TTC
24249287 TTCTTTCTTTTTTTTCTTT-
1 TTCTTT-TTTTTTTTCTTTC
24249306 TT-TTTTTTTTT
1 TTCTTTTTTTTT
24249317 CTTTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 6 0.21
18 3 0.10
19 2 0.07
20 2 0.07
21 12 0.41
22 4 0.14
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (19 bp):
TTCTTTTTTTTTTTCTTTC
Found at i:24249333 original size:34 final size:34
Alignment explanation
Indices: 24249264--24249334 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
24249254 TGGCCTCTCC
*
24249264 TTTTCTTTTTTTATTTTCTCTTCTTCTTTCTTTT
1 TTTTCTTTTTTTATTTTCTCTTCTTCTTTATTTT
* * * *
24249298 TTTTCTTTTTTTTTTTTTTCTT-TTTTTTATATT
1 TTTTCTTTTTTTATTTTCTCTTCTTCTTTATTTT
24249331 TTTT
1 TTTT
24249335 ATTGAATCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 12 0.38
34 20 0.62
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (34 bp):
TTTTCTTTTTTTATTTTCTCTTCTTCTTTATTTT
Found at i:24267105 original size:27 final size:28
Alignment explanation
Indices: 24267075--24267128 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
24267065 AATATATATA
24267075 TTTTTA-ATATTTTTAATTTT-AAAATAC
1 TTTTTATAT-TTTTTAATTTTGAAAATAC
* *
24267102 TTTTTTTATTTTTTTATTTTGAAAATA
1 TTTTTATATTTTTTAATTTTGAAAATA
24267129 AATTTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTATATTTTTTAATTTTGAAAATAC
Found at i:24267106 original size:28 final size:28
Alignment explanation
Indices: 24267075--24267128 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
24267065 AATATATATA
24267075 TTTTTAATATTTTTAATTTT-AAAATACT
1 TTTTTAAT-TTTTTAATTTTGAAAATACT
* *
24267103 TTTTTTATTTTTTTATTTTGAAAATA
1 TTTTTAATTTTTTAATTTTGAAAATA
24267129 AATTTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTAATTTTTTAATTTTGAAAATACT
Found at i:24267134 original size:28 final size:28
Alignment explanation
Indices: 24267074--24267135 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
24267064 AAATATATAT
*
24267074 ATTTTTAATATTTTTAATTTTAAAATAC
1 ATTTTTAATATTTTTAATTTTAAAATAA
* * *
24267102 TTTTTTTAT-TTTTTTATTTTGAAAATAA
1 ATTTTTAATATTTTTAATTTT-AAAATAA
24267130 ATTTTT
1 ATTTTT
24267136 GGTGTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
ATTTTTAATATTTTTAATTTTAAAATAA
Found at i:24270172 original size:41 final size:41
Alignment explanation
Indices: 24270109--24270261 Score: 245
Period size: 41 Copynumber: 3.7 Consensus size: 41
24270099 TTTCGAGGGC
* *
24270109 TTTAGCGGCGTTTTTATGTAAGCGCTGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
24270150 TTTAGCGGCGTTTTGT-TTTAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTT-TATTTAAGCGCCGCTAATGTTCTGGGA
24270191 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
* * *
24270232 TTTAGTGGCGTTTTTATTGATGCGCCGCTA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTA
24270262 GTTCGCAGGC
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
40 1 0.01
41 103 0.98
42 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
Found at i:24270277 original size:82 final size:82
Alignment explanation
Indices: 24270100--24270288 Score: 242
Period size: 82 Copynumber: 2.3 Consensus size: 82
24270090 TTTCTGACTT
*
24270100 TTCGAGGGCTTTAGCGGCGTTTTTATGTAAGCGCTGCTAATGTTCTGGGATTTAGCGGCGTTTTG
1 TTCGA-GGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTG
*
24270165 TTTTAAGCGCCGCTAATG
65 TTTGAAGCGCCGCTAATG
* * *
24270183 TTCTG-GGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGATTTAGTGGCGTTTT-
1 TTC-GAGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTG
*
24270246 TATTGATGCGCCGCT-A-G
65 T-TTGAAGCGCCGCTAATG
24270263 TTCGCAGGCCTTTAGCGGCGCTTTTT
1 TTCG-AGG-CTTTAGCGGCG-TTTTT
24270289 TAAAAAACGC
Statistics
Matches: 93, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
79 1 0.01
80 4 0.04
81 4 0.04
82 75 0.81
83 8 0.09
84 1 0.01
ACGTcount: A:0.14, C:0.18, G:0.29, T:0.39
Consensus pattern (82 bp):
TTCGAGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTGT
TTGAAGCGCCGCTAATG
Found at i:24270720 original size:16 final size:16
Alignment explanation
Indices: 24270699--24270768 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
24270689 CTATAGTATG
24270699 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
*
24270715 TAGTTTAA-GGTTTAA
1 TAGTTTAAGGGTTTTA
** * *
24270730 T-GTTTACTATAG-TATG
1 TAGTTTA--AGGGTTTTA
24270746 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
24270762 TAGTTTA
1 TAGTTTA
24270769 TGGTTTAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
14 5 0.12
15 9 0.22
16 20 0.50
17 6 0.15
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.50
Consensus pattern (16 bp):
TAGTTTAAGGGTTTTA
Found at i:24270727 original size:23 final size:23
Alignment explanation
Indices: 24270701--24270781 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 23
24270691 ATAGTATGTA
24270701 GTTTAAGGGTTTTATAGTTTAAG
1 GTTTAAGGGTTTTATAGTTTAAG
*
24270724 GTTTAA-TGTTTACTATAGTATGT-A-
1 GTTTAAGGGTTT--TATAGT-T-TAAG
*
24270748 GTTTAAGGGTTTTATAGTTTATG
1 GTTTAAGGGTTTTATAGTTTAAG
24270771 GTTT-AGGGTTT
1 GTTTAAGGGTTT
24270782 GTTATATTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
21 1 0.02
22 12 0.25
23 16 0.33
24 12 0.25
25 6 0.12
26 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (23 bp):
GTTTAAGGGTTTTATAGTTTAAG
Found at i:24270817 original size:22 final size:21
Alignment explanation
Indices: 24270792--24270832 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
24270782 GTTATATTGG
24270792 GTTTGTGA-TTTAGTGTTTTAAA
1 GTTTG-GAGTTTAGT-TTTTAAA
24270814 GTTTGGAGTTTAGTTTTTA
1 GTTTGGAGTTTAGTTTTTA
24270833 TAGTCAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (21 bp):
GTTTGGAGTTTAGTTTTTAAA
Found at i:24274987 original size:29 final size:29
Alignment explanation
Indices: 24274945--24275002 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
24274935 TAAATCTTCT
24274945 TCCATTTGTCAACTATTTCATTTCCAAAA
1 TCCATTTGTCAACTATTTCATTTCCAAAA
24274974 TCCATTTGTCAACTATTTCATTTCCAAAA
1 TCCATTTGTCAACTATTTCATTTCCAAAA
24275003 ATATATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TCCATTTGTCAACTATTTCATTTCCAAAA
Found at i:24275163 original size:9 final size:9
Alignment explanation
Indices: 24275132--24275188 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
24275122 TTAAAGTTCA
24275132 AATTT-CAT
1 AATTTACAT
* *
24275140 AACTTACGT
1 AATTTACAT
*
24275149 ATTTTACAT
1 AATTTACAT
24275158 AATTTACAT
1 AATTTACAT
24275167 AA-TT-CAT
1 AATTTACAT
*
24275174 AATTTACAA
1 AATTTACAT
24275183 AATTTA
1 AATTTA
24275189 AATATATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
7 5 0.13
8 8 0.21
9 26 0.67
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (9 bp):
AATTTACAT
Found at i:24275176 original size:16 final size:16
Alignment explanation
Indices: 24275155--24275186 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24275145 ACGTATTTTA
*
24275155 CATAATTTACATAATT
1 CATAATTTACAAAATT
24275171 CATAATTTACAAAATT
1 CATAATTTACAAAATT
24275187 TAAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
CATAATTTACAAAATT
Found at i:24275313 original size:12 final size:12
Alignment explanation
Indices: 24275281--24275350 Score: 81
Period size: 12 Copynumber: 6.0 Consensus size: 12
24275271 CATAATATCC
*
24275281 TAACTTACATAG
1 TAACTTACATAA
* *
24275293 TATCGTACATAA
1 TAACTTACATAA
24275305 TAACTTACA-AA
1 TAACTTACATAA
24275316 -AACTTACATAA
1 TAACTTACATAA
*
24275327 TAACCTACATAA
1 TAACTTACATAA
*
24275339 TAACTTATATAA
1 TAACTTACATAA
24275351 CAATACATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.17
11 4 0.08
12 36 0.75
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:24275326 original size:22 final size:24
Alignment explanation
Indices: 24275298--24275350 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
24275288 CATAGTATCG
*
24275298 TACATAATAACTTACA-AA-AACT
1 TACATAATAACCTACATAATAACT
24275320 TACATAATAACCTACATAATAACT
1 TACATAATAACCTACATAATAACT
*
24275344 TATATAA
1 TACATAA
24275351 CAATACATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 15 0.56
23 2 0.07
24 10 0.37
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (24 bp):
TACATAATAACCTACATAATAACT
Found at i:24275418 original size:9 final size:9
Alignment explanation
Indices: 24275404--24275930 Score: 542
Period size: 9 Copynumber: 58.0 Consensus size: 9
24275394 CACAAAAACA
24275404 ATAACTTAC
1 ATAACTTAC
24275413 ATAACTTAC
1 ATAACTTAC
* *
24275422 ATAAATTAA
1 ATAACTTAC
24275431 ATAACTTAC
1 ATAACTTAC
*
24275440 ATAAACTTGC
1 AT-AACTTAC
* *
24275450 ATAAATTAA
1 ATAACTTAC
*
24275459 ATAACTTGC
1 ATAACTTAC
* *
24275468 ATAAATTAA
1 ATAACTTAC
24275477 ATAACTTAC
1 ATAACTTAC
24275486 ATAACTTAC
1 ATAACTTAC
*
24275495 ATAACCTAC
1 ATAACTTAC
24275504 ATAACTTAC
1 ATAACTTAC
*
24275513 ATAAATTA-
1 ATAACTTAC
24275521 AGTAACTTTAC
1 A-TAAC-TTAC
**
24275532 GGAACTTAC
1 ATAACTTAC
24275541 ATAACTTAC
1 ATAACTTAC
*
24275550 ATAACCTAC
1 ATAACTTAC
24275559 ATAACTTAC
1 ATAACTTAC
* *
24275568 GTAAATTA-
1 ATAACTTAC
24275576 AGTAACTTAC
1 A-TAACTTAC
24275586 ATAACTTAC
1 ATAACTTAC
*
24275595 ATAACCTAC
1 ATAACTTAC
24275604 ATAACTTAC
1 ATAACTTAC
* *
24275613 GTAAATTA-
1 ATAACTTAC
24275621 AGTAACTTAC
1 A-TAACTTAC
24275631 ATAACTTAC
1 ATAACTTAC
*
24275640 ATAACCTAC
1 ATAACTTAC
* * *
24275649 ATAAGTAAA
1 ATAACTTAC
24275658 ATAACTTAC
1 ATAACTTAC
24275667 ATAACTTAC
1 ATAACTTAC
*
24275676 ATAACCTAC
1 ATAACTTAC
24275685 ATAACTTAC
1 ATAACTTAC
24275694 ATAACTTAC
1 ATAACTTAC
*
24275703 ATAAACTTGC
1 AT-AACTTAC
* *
24275713 ATAAATTAA
1 ATAACTTAC
24275722 ATAACTTAC
1 ATAACTTAC
24275731 ATAACTTAC
1 ATAACTTAC
*
24275740 ATAACGTAC
1 ATAACTTAC
* *
24275749 ATAAATTAA
1 ATAACTTAC
24275758 ATAACTTAC
1 ATAACTTAC
24275767 ATAACTTAC
1 ATAACTTAC
*
24275776 ATAAATTA-
1 ATAACTTAC
24275784 AGTAACTTAC
1 A-TAACTTAC
24275794 ATAACTTAC
1 ATAACTTAC
*
24275803 ATAAACTTGC
1 AT-AACTTAC
* *
24275813 ATAAATTAA
1 ATAACTTAC
24275822 ATAACTTAC
1 ATAACTTAC
24275831 ATAACTTAC
1 ATAACTTAC
*
24275840 ATAACCTAC
1 ATAACTTAC
*
24275849 ATAAATTAC
1 ATAACTTAC
***
24275858 AATGGGTTAC
1 -ATAACTTAC
24275868 ATAACTTAC
1 ATAACTTAC
* *
24275877 ATAACCTAT
1 ATAACTTAC
* *
24275886 ATAAATTAA
1 ATAACTTAC
24275895 ATAACTTAC
1 ATAACTTAC
24275904 ATAACTTAC
1 ATAACTTAC
*
24275913 ATAAATTA-
1 ATAACTTAC
24275921 AGTAACTTAC
1 A-TAACTTAC
24275931 CCGTGCAAAT
Statistics
Matches: 419, Mismatches: 84, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
8 3 0.01
9 377 0.90
10 39 0.09
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:24275921 original size:100 final size:100
Alignment explanation
Indices: 24275404--24275916 Score: 405
Period size: 100 Copynumber: 5.1 Consensus size: 100
24275394 CACAAAAACA
* * * * *
24275404 ATAACTTACATAACTTACATAAATTAAATAACTTACATAAACTTGCATAAATTAAATAACTTGCA
1 ATAACTTACATAACCTACATAAATTACATAACTTACAT-AACTTACATAAATTACATAACTTACA
* * * * *
24275469 TAAATTAAAT-AACTTACATAACTTACATAACCTAC
65 TAACTTACATAAACTTACATAAATTAAATAACTTAC
** * ** **
24275504 ATAACTTACATAAATTA-AGTAACTTTACGGAACTTACATAACTTACATAACCTACATAACTTAC
1 ATAACTTACATAACCTACA-TAA-ATTACATAACTTACATAACTTACATAAATTACATAACTTAC
* * * * *
24275568 GTAAATTA-AGT-AACTTACATAACTTACATAACCTAC
64 ATAACTTACA-TAAACTTACATAAATTAAATAACTTAC
* ** * * * * *
24275604 ATAACTTACGTAAATTA-AGTAACTTACATAACTTACATAACCTACATAAGTAAAATAACTTACA
1 ATAACTTACATAACCTACA-TAAATTACATAACTTACATAACTTACATAAATTACATAACTTACA
* * *
24275668 TAACTTACAT-AACCTACATAACTTACATAACTTAC
65 TAACTTACATAAACTTACATAAATTAAATAACTTAC
* ** * * * *
24275703 ATAAACTTGCATAAATTAAATAACTTACATAACTTACATAACGTACATAAATTAAATAACTTACA
1 AT-AACTTACATAACCTACATAAATTACATAACTTACATAACTTACATAAATTACATAACTTACA
* *
24275768 TAACTTACATAAA-TTA-AGTAACTTACATAACTTAC
65 TAACTTACATAAACTTACA-TAAATTAAATAACTTAC
* ** * * * ***
24275803 ATAAACTTGCATAAATTAAATAACTTACATAACTTACATAACCTACATAAATTACAATGGGTTAC
1 AT-AACTTACATAACCTACATAAATTACATAACTTACATAACTTACATAAATTAC-ATAACTTAC
* *
24275868 ATAACTTACAT-AACCTATATAAATTAAATAACTTAC
64 ATAACTTACATAAACTTACATAAATTAAATAACTTAC
24275904 ATAACTTACATAA
1 ATAACTTACATAA
24275917 ATTAAGTAAC
Statistics
Matches: 363, Mismatches: 39, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
99 68 0.19
100 243 0.67
101 51 0.14
102 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.31
Consensus pattern (100 bp):
ATAACTTACATAACCTACATAAATTACATAACTTACATAACTTACATAAATTACATAACTTACAT
AACTTACATAAACTTACATAAATTAAATAACTTAC
Found at i:24281364 original size:66 final size:66
Alignment explanation
Indices: 24281294--24281429 Score: 227
Period size: 66 Copynumber: 2.1 Consensus size: 66
24281284 GACCACAGTT
* * *
24281294 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAGAGCAGATGCGGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
24281359 A
66 A
* *
24281360 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
24281425 A
66 A
24281426 GAGG
1 GAGG
24281430 CTGCAGCGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.14
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
A
Found at i:24281830 original size:43 final size:43
Alignment explanation
Indices: 24281782--24282007 Score: 256
Period size: 43 Copynumber: 5.0 Consensus size: 43
24281772 AAAAAGTGGT
*
24281782 GTTTGTGAAAAAAGCGCCGCTAAAGAACAT-TAGCTTTAGCGGC
1 GTTTGTGTAAAAAGCGCCGCTAAAGAACATGT-GCTTTAGCGGC
* * *
24281825 GTTTGTGTTAGAAGCGCCGCTAAAGAACATGTTCTTTAGCGGC
1 GTTTGTGTAAAAAGCGCCGCTAAAGAACATGTGCTTTAGCGGC
* * *
24281868 GTTTATTTTTAAAAGCGCCGCTAAAGAACATGTGCTTTAGCGGC
1 GTTT-GTGTAAAAAGCGCCGCTAAAGAACATGTGCTTTAGCGGC
24281912 GTTTGTGTAAAAAGCGCCGCTAAAGCAGCTAAAGAACATGTGCTTTAGCGGC
1 GTTTGTGTAAAAA--G-CGC-----C-GCTAAAGAACATGTGCTTTAGCGGC
* * *
24281964 GTTTGTATAAAATGCGCCGCTAAAGAACATGTTCTTTAGCGGC
1 GTTTGTGTAAAAAGCGCCGCTAAAGAACATGTGCTTTAGCGGC
24282007 G
1 G
24282008 CTTTTAAAAA
Statistics
Matches: 158, Mismatches: 14, Indels: 22
0.81 0.07 0.11
Matches are distributed among these distances:
43 72 0.46
44 41 0.26
45 1 0.01
46 3 0.02
49 3 0.02
50 1 0.01
51 1 0.01
52 36 0.23
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
GTTTGTGTAAAAAGCGCCGCTAAAGAACATGTGCTTTAGCGGC
Found at i:24281959 original size:52 final size:52
Alignment explanation
Indices: 24281887--24281988 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 52
24281877 TAAAAGCGCC
*
24281887 GCTAAAGAACATGTGCTTTAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGCA
1 GCTAAAGAACATGTGCTTTAGCGGCGTTTGTATAAAAAGCGCCGCTAAAGCA
*
24281939 GCTAAAGAACATGTGCTTTAGCGGCGTTTGTATAAAATGCGCCGCTAAAG
1 GCTAAAGAACATGTGCTTTAGCGGCGTTTGTATAAAAAGCGCCGCTAAAG
24281989 AACATGTTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (52 bp):
GCTAAAGAACATGTGCTTTAGCGGCGTTTGTATAAAAAGCGCCGCTAAAGCA
Found at i:24282026 original size:96 final size:96
Alignment explanation
Indices: 24281843--24282027 Score: 259
Period size: 95 Copynumber: 1.9 Consensus size: 96
24281833 TAGAAGCGCC
* * *
24281843 GCTAAAGAACATGTTCTTTAGCGGCGTTTATTTTTAAAAGCGCCGCTAAAGAACATGTGCTTTAG
1 GCTAAAGAACATGTGCTTTAGCGGCGTTTATGTATAAAAGCGCCGCTAAAGAACATGTGCTTTAG
** *
24281908 CGGCGTTTGTGTAAAAAGCGCCGCTAAAGCA
66 CGGCGTTTGTAAAAAAAACGCCGCTAAAGCA
*
24281939 GCTAAAGAACATGTGCTTTAGCGGCG-TT-TGTATAAAATGCGCCGCTAAAGAACATGTTCTTTA
1 GCTAAAGAACATGTGCTTTAGCGGCGTTTATGTATAAAA-GCGCCGCTAAAGAACATGTGCTTTA
24282002 GCGGCGCTTT-TAAAAATAAACGCCGC
65 GCGGCG-TTTGTAAAAA-AAACGCCGC
24282028 AAATATTTGT
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
94 7 0.09
95 36 0.46
96 36 0.46
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (96 bp):
GCTAAAGAACATGTGCTTTAGCGGCGTTTATGTATAAAAGCGCCGCTAAAGAACATGTGCTTTAG
CGGCGTTTGTAAAAAAAACGCCGCTAAAGCA
Found at i:24282379 original size:67 final size:67
Alignment explanation
Indices: 24282300--24282444 Score: 263
Period size: 67 Copynumber: 2.2 Consensus size: 67
24282290 ACTTCTTTTT
*
24282300 CCGTTAAATTATGAAAAGTTTTAAAATAGTTAACTAACTATTTAATTTTATGTTTTTTAGTCACC
1 CCGTTAAATTATGAAAAGTTTTAAAATAGTTAACTAACTATTTAATTTTATGCTTTTTAGTCACC
24282365 AA
66 AA
* *
24282367 CCGTTAAATTATGAAAAGTTTTAAAATAGTTAACTAACTATTTGATTTTATGCTTTTTGGTCACC
1 CCGTTAAATTATGAAAAGTTTTAAAATAGTTAACTAACTATTTAATTTTATGCTTTTTAGTCACC
24282432 AA
66 AA
24282434 CCGTTAAATTA
1 CCGTTAAATTA
24282445 CTAAGTTAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 75 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (67 bp):
CCGTTAAATTATGAAAAGTTTTAAAATAGTTAACTAACTATTTAATTTTATGCTTTTTAGTCACC
AA
Found at i:24285933 original size:19 final size:18
Alignment explanation
Indices: 24285901--24285936 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
24285891 CAATTTAGAA
*
24285901 ACGAAAATATTAATAACG
1 ACGAAAATAATAATAACG
24285919 ACGATAAATAATAATAAC
1 ACGA-AAATAATAATAAC
24285937 CATAAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.22
Consensus pattern (18 bp):
ACGAAAATAATAATAACG
Found at i:24286149 original size:3 final size:3
Alignment explanation
Indices: 24286143--24286170 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24286133 AAAGGGGAAC
24286143 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24286171 CATCAAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:24286632 original size:14 final size:13
Alignment explanation
Indices: 24286597--24286639 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 13
24286587 TGTAAATGTC
*
24286597 TTAGC-AGCTGAG
1 TTAGCTAGCTAAG
24286609 TTAGCTAGCTAAG
1 TTAGCTAGCTAAG
24286622 TTAGACTAGCTAAG
1 TTAG-CTAGCTAAG
24286636 TTAG
1 TTAG
24286640 GTTCAGCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 13 0.46
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (13 bp):
TTAGCTAGCTAAG
Found at i:24288450 original size:17 final size:17
Alignment explanation
Indices: 24288428--24288500 Score: 71
Period size: 17 Copynumber: 4.2 Consensus size: 17
24288418 TTGCCCGCAC
24288428 TCTTTTTC-TTTCTCTTT
1 TCTTTTTCATTTCT-TTT
*
24288445 TC-TTTTAATTTCTTTT
1 TCTTTTTCATTTCTTTT
24288461 TCATTTTTCATTT-TTGTT
1 TC-TTTTTCATTTCTT-TT
*
24288479 TCTTTTTCATTTTTCTTT
1 TCTTTTTCATTTCT-TTT
24288497 TCTT
1 TCTT
24288501 GCTCATTCGA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
16 9 0.19
17 19 0.40
18 19 0.40
19 1 0.02
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.75
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:24288462 original size:6 final size:6
Alignment explanation
Indices: 24288428--24288497 Score: 52
Period size: 6 Copynumber: 11.0 Consensus size: 6
24288418 TTGCCCGCAC
* * * *
24288428 TCTTTT TCTTTC TCTTTT CTTTTAATT TCTTTT TCATTTT TCATTT T-TGTT
1 TCTTTT TCTTTT TCTTTT -TCTT--TT TCTTTT TC-TTTT TCTTTT TCTTTT
24288479 TCTTTT TCATTTT TCTTTT
1 TCTTTT TC-TTTT TCTTTT
24288498 CTTGCTCATT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
5 3 0.06
6 27 0.54
7 15 0.30
8 3 0.06
9 2 0.04
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:24288480 original size:24 final size:23
Alignment explanation
Indices: 24288442--24288497 Score: 85
Period size: 24 Copynumber: 2.4 Consensus size: 23
24288432 TTTCTTTCTC
**
24288442 TTTTCTTTTAATTTCTTTTTCAT
1 TTTTCTTTTTGTTTCTTTTTCAT
24288465 TTTTCATTTTTGTTTCTTTTTCAT
1 TTTTC-TTTTTGTTTCTTTTTCAT
24288489 TTTTCTTTT
1 TTTTCTTTT
24288498 CTTGCTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.09, C:0.12, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTCTTTTTGTTTCTTTTTCAT
Found at i:24292869 original size:13 final size:13
Alignment explanation
Indices: 24292851--24292875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24292841 ACAAACGATA
24292851 AAATTTTCACACG
1 AAATTTTCACACG
24292864 AAATTTTCACAC
1 AAATTTTCACAC
24292876 ATTAATTCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Done.